Science.gov

Sample records for protein sp-b strongly

  1. Environmental Pollutant Ozone Causes Damage to Lung Surfactant Protein B (SP-B)

    PubMed Central

    2015-01-01

    Lung surfactant protein B (SP-B) is an essential protein found in the surfactant fluid at the air–water interface of the lung. Exposure to the air pollutant ozone could potentially damage SP-B and lead to respiratory distress. We have studied two peptides, one consisting of the N-terminus of SP-B [SP-B(1–25)] and the other a construct of the N- and C-termini of SP-B [SP-B(1–25,63–78)], called SMB. Exposure to dilute levels of ozone (∼2 ppm) of monolayers of each peptide at the air–water interface leads to a rapid reaction, which is evident from an increase in the surface tension. Fluorescence experiments revealed that this increase in surface tension is accompanied by a loss of fluorescence from the tryptophan residue at the interface. Neutron and X-ray reflectivity experiments show that, in contrast to suggestions in the literature, the peptides are not solubilized upon oxidation but rather remain at the interface with little change in their hydration. Analysis of the product material reveals that no cleavage of the peptides occurs, but a more hydrophobic product is slowly formed together with an increased level of oligomerization. We attributed this to partial unfolding of the peptides. Experiments conducted in the presence of phospholipids reveal that the presence of the lipids does not prevent oxidation of the peptides. Our results strongly suggest that exposure to low levels of ozone gas will damage SP-B, leading to a change in its structure. The implication is that the oxidized protein will be impaired in its ability to interact at the air–water interface with negatively charged phosphoglycerol lipids, thus compromising what is thought to be its main biological function. PMID:26270023

  2. Environmental Pollutant Ozone Causes Damage to Lung Surfactant Protein B (SP-B).

    PubMed

    Hemming, Joanna M; Hughes, Brian R; Rennie, Adrian R; Tomas, Salvador; Campbell, Richard A; Hughes, Arwel V; Arnold, Thomas; Botchway, Stanley W; Thompson, Katherine C

    2015-08-25

    Lung surfactant protein B (SP-B) is an essential protein found in the surfactant fluid at the air-water interface of the lung. Exposure to the air pollutant ozone could potentially damage SP-B and lead to respiratory distress. We have studied two peptides, one consisting of the N-terminus of SP-B [SP-B(1-25)] and the other a construct of the N- and C-termini of SP-B [SP-B(1-25,63-78)], called SMB. Exposure to dilute levels of ozone (~2 ppm) of monolayers of each peptide at the air-water interface leads to a rapid reaction, which is evident from an increase in the surface tension. Fluorescence experiments revealed that this increase in surface tension is accompanied by a loss of fluorescence from the tryptophan residue at the interface. Neutron and X-ray reflectivity experiments show that, in contrast to suggestions in the literature, the peptides are not solubilized upon oxidation but rather remain at the interface with little change in their hydration. Analysis of the product material reveals that no cleavage of the peptides occurs, but a more hydrophobic product is slowly formed together with an increased level of oligomerization. We attributed this to partial unfolding of the peptides. Experiments conducted in the presence of phospholipids reveal that the presence of the lipids does not prevent oxidation of the peptides. Our results strongly suggest that exposure to low levels of ozone gas will damage SP-B, leading to a change in its structure. The implication is that the oxidized protein will be impaired in its ability to interact at the air-water interface with negatively charged phosphoglycerol lipids, thus compromising what is thought to be its main biological function. PMID:26270023

  3. Pulmonary surfactant proteins SP-B and SP-C in spread monolayers at the air-water interface: I. Monolayers of pulmonary surfactant protein SP-B and phospholipids.

    PubMed Central

    Taneva, S; Keough, K M

    1994-01-01

    The effects of pulmonary surfactant protein SP-B on the properties of monolayers of dipalmitoylphosphatidylcholine (DPPC) and dipalmitoylphosphatidylglycerol (DPPG), and a mixture of DPPC:DPPG (7:3, mol:mol) were studied using spread films at the air-water interface. The addition of SP-B to the phospholipid monolayers gave positive deviations from additivity of the mean areas in the films. At low protein concentrations (less than 45% amino acid residues which corresponds to 0.5 mol% or 10 weight% SP-B) monolayers of SP-B/DPPC, SP-B/DPPG and SP-B/(DPPC:DPPG) collapsed at surface pressures of about 70 mN.m-1, comparable to those of the lipids alone. At higher concentrations of SP-B in the protein-lipid monolayers, kink points appeared in the isotherms at about 40-45 mN.m-1, implying possible exclusion of material from the films, hence, changes in the original monolayer compositions. Calculated analyses of the monolayer compositions as a function of surface pressure indicated that nearly pure SP-B, associated with small amounts of phospholipid (2-3 lipid molecules per SP-B dimer), was lost from SP-B/DPPC, SP-B/DPPG, and SP-B/(DPPC:DPPG) films at surface pressures higher than 40-45 mN.m-1. The results are consistent with a low effectiveness of SP-B in removing saturated phospholipids, DPPC or DPPG, from the spread SP-B/phospholipid films. PMID:8038385

  4. Effects of lung surfactant proteins, SP-B and SP-C, and palmitic acid on monolayer stability.

    PubMed Central

    Ding, J; Takamoto, D Y; von Nahmen, A; Lipp, M M; Lee, K Y; Waring, A J; Zasadzinski, J A

    2001-01-01

    Langmuir isotherms and fluorescence and atomic force microscopy images of synthetic model lung surfactants were used to determine the influence of palmitic acid and synthetic peptides based on the surfactant-specific proteins SP-B and SP-C on the morphology and function of surfactant monolayers. Lung surfactant-specific protein SP-C and peptides based on SP-C eliminate the loss to the subphase of unsaturated lipids necessary for good adsorption and respreading by inducing a transition between monolayers and multilayers within the fluid phase domains of the monolayer. The morphology and thickness of the multilayer phase depends on the lipid composition of the monolayer and the concentration of SP-C or SP-C peptide. Lung surfactant protein SP-B and peptides based on SP-B induce a reversible folding transition at monolayer collapse that allows all components of surfactant to be retained at the interface during respreading. Supplementing Survanta, a clinically used replacement lung surfactant, with a peptide based on the first 25 amino acids of SP-B also induces a similar folding transition at monolayer collapse. Palmitic acid makes the monolayer rigid at low surface tension and fluid at high surface tension and modifies SP-C function. Identifying the function of lung surfactant proteins and lipids is essential to the rational design of replacement surfactants for treatment of respiratory distress syndrome. PMID:11325728

  5. Conformational Stability of the NH2-Terminal Propeptide of the Precursor of Pulmonary Surfactant Protein SP-B

    PubMed Central

    Bañares-Hidalgo, Ángeles; Estrada, Pilar

    2016-01-01

    Assembly of pulmonary surfactant lipid-protein complexes depends on conformational changes coupled with proteolytic maturation of proSP-B, the precursor of pulmonary surfactant protein B (SP-B), along the surfactant biogenesis pathway in pneumocytes. Conformational destabilization of the N-terminal propeptide of proSP-B (SP-BN) triggers exposure of the mature SP-B domain for insertion into surfactant lipids. We have studied the conformational stability during GdmCl- or urea-promoted unfolding of SP-BN with trp fluorescence and circular dichroism spectroscopies. Binding of the intermediate states to bis-ANS suggests their molten globule-like character. ΔG0H2O was ~ 12.7 kJ·mol-1 either with urea or GdmCl. None of the thermal transitions of SP-BN detected by CD correspond to protein unfolding. Differential scanning calorimetry of SP-BN evidenced two endothermic peaks involved in oligomer dissociation as confirmed with 2 M urea. Ionic strength was relevant since at 150 mM NaCl, the process originating the endotherm at the highest temperature was irreversible (Tm2 = 108.5°C) with an activation energy of 703.8 kJ·mol-1. At 500 mM NaCl the process became reversible (Tm2 = 114.4°C) and data were fitted to the Non-two States model with two subpeaks. No free thiols in the propeptide could be titrated by DTNB with or without 5.7 M GdmCl, indicating disulfide bonds establishment. PMID:27380171

  6. Lung surfactant protein A (SP-A) interactions with model lung surfactant lipids and an SP-B fragment.

    PubMed

    Sarker, Muzaddid; Jackman, Donna; Booth, Valerie

    2011-06-01

    Surfactant protein A (SP-A) is the most abundant protein component of lung surfactant, a complex mixture of proteins and lipids. SP-A performs host defense activities and modulates the biophysical properties of surfactant in concerted action with surfactant protein B (SP-B). Current models of lung surfactant mechanism generally assume SP-A functions in its octadecameric form. However, one of the findings of this study is that when SP-A is bound to detergent and lipid micelles that mimic lung surfactant phospholipids, it exists predominantly as smaller oligomers, in sharp contrast to the much larger forms observed when alone in water. These investigations were carried out in sodium dodecyl sulfate (SDS), dodecylphosphocholine (DPC), lysomyristoylphosphatidylcholine (LMPC), lysomyristoylphosphatidylglycerol (LMPG), and mixed LMPC + LMPG micelles, using solution and diffusion nuclear magnetic resonance (NMR) spectroscopy. We have also probed SP-A's interaction with Mini-B, a biologically active synthetic fragment of SP-B, in the presence of micelles. Despite variations in Mini-B's own interactions with micelles of different compositions, SP-A is found to interact with Mini-B in all micelle systems and perhaps to undergo a further structural rearrangement upon interacting with Mini-B. The degree of SP-A-Mini-B interaction appears to be dependent on the type of lipid headgroup and is likely mediated through the micelles, rather than direct binding.

  7. Experimental Study on How Human Lung Surfactant Protein SP-B1-25 is Oxidized by Ozone in the Presence of Fe(II) and Ascorbic Acid

    NASA Astrophysics Data System (ADS)

    Colussi, A. J.; Enami, S.; Hoffmann, M. R.

    2014-12-01

    We will report the results of experiments on the chemical fate of the human lung surfactant protein SP-B1-25 upon exposure to gaseous ozone in realistic aqueous media simulating the conditions prevalent in epithelial lining fluids in polluted ambient air. Our experiments consist of exposing aqueous microjets containing SP-B1-25, the natural antioxidant ascorbic acid, and the Fe2+ carried by most atmospheric fine particulates, under mild acidic conditions, such as those created by the innate lung host defense response. Reactants and the products of such interactions are detected via online electrospray ionization mass spectrometry. We will show that ascorbic acid largely inhibits the ozonation of SP-B1-25 in the absence of Fe2+, leading to the formation of an ascorbic acid ozonide (Enami et al., PNAS 2008). In the presence of Fe2+, however, the ozonide decomposes into reactive intermediates that result in the partial oxidation of SP-B1-25, presumable affecting its function as surfactant. We infer that these experimental results establish a plausible causal link for the observed synergic adverse health effects of ambient ozone and fine particulates

  8. Decreased lung compliance and air trapping in heterozygous SP-B-deficient mice.

    PubMed

    Clark, J C; Weaver, T E; Iwamoto, H S; Ikegami, M; Jobe, A H; Hull, W M; Whitsett, J A

    1997-01-01

    Genetic ablation of the murine SP-B gene in transgenic mice caused lethal perinatal respiratory distress in homozygous offspring, whereas heterozygous SP-B (+/-) mice survived postnatally. In adult SP-B(+/-) mice, surfactant protein B mRNA and the alveolar lavage SP-B protein were reduced by 50% compared with wild-type littermates, consistent with the inactivation of a single SP-B allele. Expression of SP-A, SP-C, and SP-D proteins was not affected in SP-B(+/-) mice. Heterozygous SP-B(+/-) mice reached maturity in numbers expected by Mendelian inheritance of a recessive gene. Lung morphology and both intracellular and extracellular phospholipid pool size and composition were unaltered in the SP-B(+/-) mice. Despite normal survival, pulmonary function studies demonstrated a consistent decrease in lung compliance in SP-B(+/-) mice. Abnormalities of inflation/deflation curves demonstrated airway collapse at low deflation pressures. Residual volumes were increased in the SP-B(+/-) mice. In summary, SP-B mRNA and SP-B protein were reduced by 50% in SP-B(+/-) mice, resulting in abnormalities of lung compliance and air trapping, suggesting a potential susceptibility to pulmonary dysfunction associated with SP-B deficiency.

  9. Interaction of the C-terminal peptide of pulmonary surfactant protein B (SP-B) with a bicellar lipid mixture containing anionic lipid.

    PubMed

    Sylvester, Alexander; MacEachern, Lauren; Booth, Valerie; Morrow, Michael R

    2013-01-01

    The hydrophobic lung surfactant SP-B is essential for respiration. SP-B promotes spreading and adsorption of surfactant at the alveolar air-water interface and may facilitate connections between the surface layer and underlying lamellar reservoirs of surfactant material. SP-B63-78 is a cationic and amphipathic helical peptide containing the C-terminal helix of SP-B. (2)H NMR has been used to examine the effect of SP-B63-78 on the phase behavior and dynamics of bicellar lipid dispersions containing the longer chain phospholipids DMPC-d 54 and DMPG and the shorter chain lipid DHPC mixed with a 3∶1∶1 molar ratio. Below the gel-to-liquid crystal phase transition temperature of the longer chain components, bicellar mixtures form small, rapidly reorienting disk-like particles with shorter chain lipid components predominantly found around the highly curved particle edges. With increasing temperature, the particles coalesce into larger magnetically-oriented structures and then into more extended lamellar phases. The susceptibility of bicellar particles to coalescence and large scale reorganization makes them an interesting platform in which to study peptide-induced interactions between lipid assemblies. SP-B63-78 is found to lower the temperature at which the orientable phase transforms to the more extended lamellar phase. The peptide also changes the spectrum of motions contributing to quadrupole echo decay in the lamellar phase. The way in which the peptide alters interactions between bilayered micelle structures may provide some insight into some aspects of the role of full-length SP-B in maintaining a functional surfactant layer in lungs.

  10. A small key unlocks a heavy door: The essential function of the small hydrophobic proteins SP-B and SP-C to trigger adsorption of pulmonary surfactant lamellar bodies.

    PubMed

    Hobi, Nina; Giolai, Michael; Olmeda, Bárbara; Miklavc, Pika; Felder, Edward; Walther, Paul; Dietl, Paul; Frick, Manfred; Pérez-Gil, Jesus; Haller, Thomas

    2016-08-01

    The molecular basis involving adsorption of pulmonary surfactant at the respiratory air-liquid interface and the specific roles of the surfactant proteins SP-B and SP-C in this process have not been completely resolved. The reasons might be found in the largely unknown structural assembly in which surfactant lipids and proteins are released from alveolar type II cells, and the difficulties to sample, manipulate and visualize the adsorption of these micron-sized particles at an air-liquid interface under appropriate physiological conditions. Here, we introduce several approaches to overcome these problems. First, by immunofluorescence we could demonstrate the presence of SP-B and SP-C on the surface of exocytosed surfactant particles. Second, by sampling the released particles and probing their adsorptive capacity we could demonstrate a remarkably high rate of interfacial adsorption, whose rate and extent was dramatically affected by treatment with antibodies against SP-B and SP-C. The effect of both antibodies was additive and specific. Third, direct microscopy of an inverted air-liquid interface revealed that the blocking effect is due to a stabilization of the released particles when contacting the air-liquid interface, precluding their transformation and the formation of surface films. We conclude that SP-B and SP-C are acting as essential, preformed molecular keys in the initial stages of surfactant unpacking and surface film formation. We further propose that surfactant activation might be transduced by a conformational change of the surfactant proteins upon contact with surface forces acting on the air-liquid interface. PMID:27155084

  11. Hydrophobic surfactant proteins strongly induce negative curvature.

    PubMed

    Chavarha, Mariya; Loney, Ryan W; Rananavare, Shankar B; Hall, Stephen B

    2015-07-01

    The hydrophobic surfactant proteins SP-B and SP-C greatly accelerate the adsorption of vesicles containing the surfactant lipids to form a film that lowers the surface tension of the air/water interface in the lungs. Pulmonary surfactant enters the interface by a process analogous to the fusion of two vesicles. As with fusion, several factors affect adsorption according to how they alter the curvature of lipid leaflets, suggesting that adsorption proceeds via a rate-limiting structure with negative curvature, in which the hydrophilic face of the phospholipid leaflets is concave. In the studies reported here, we tested whether the surfactant proteins might promote adsorption by inducing lipids to adopt a more negative curvature, closer to the configuration of the hypothetical intermediate. Our experiments used x-ray diffraction to determine how the proteins in their physiological ratio affect the radius of cylindrical monolayers in the negatively curved, inverse hexagonal phase. With binary mixtures of dioleoylphosphatidylethanolamine (DOPE) and dioleoylphosphatidylcholine (DOPC), the proteins produced a dose-related effect on curvature that depended on the phospholipid composition. With DOPE alone, the proteins produced no change. With an increasing mol fraction of DOPC, the response to the proteins increased, reaching a maximum 50% reduction in cylindrical radius at 5% (w/w) protein. This change represented a doubling of curvature at the outer cylindrical surface. The change in spontaneous curvature, defined at approximately the level of the glycerol group, would be greater. Analysis of the results in terms of a Langmuir model for binding to a surface suggests that the effect of the lipids is consistent with a change in the maximum binding capacity. Our findings show that surfactant proteins can promote negative curvature, and support the possibility that they facilitate adsorption by that mechanism. PMID:26153706

  12. Hydrophobic Surfactant Proteins Strongly Induce Negative Curvature

    PubMed Central

    Chavarha, Mariya; Loney, Ryan W.; Rananavare, Shankar B.; Hall, Stephen B.

    2015-01-01

    The hydrophobic surfactant proteins SP-B and SP-C greatly accelerate the adsorption of vesicles containing the surfactant lipids to form a film that lowers the surface tension of the air/water interface in the lungs. Pulmonary surfactant enters the interface by a process analogous to the fusion of two vesicles. As with fusion, several factors affect adsorption according to how they alter the curvature of lipid leaflets, suggesting that adsorption proceeds via a rate-limiting structure with negative curvature, in which the hydrophilic face of the phospholipid leaflets is concave. In the studies reported here, we tested whether the surfactant proteins might promote adsorption by inducing lipids to adopt a more negative curvature, closer to the configuration of the hypothetical intermediate. Our experiments used x-ray diffraction to determine how the proteins in their physiological ratio affect the radius of cylindrical monolayers in the negatively curved, inverse hexagonal phase. With binary mixtures of dioleoylphosphatidylethanolamine (DOPE) and dioleoylphosphatidylcholine (DOPC), the proteins produced a dose-related effect on curvature that depended on the phospholipid composition. With DOPE alone, the proteins produced no change. With an increasing mol fraction of DOPC, the response to the proteins increased, reaching a maximum 50% reduction in cylindrical radius at 5% (w/w) protein. This change represented a doubling of curvature at the outer cylindrical surface. The change in spontaneous curvature, defined at approximately the level of the glycerol group, would be greater. Analysis of the results in terms of a Langmuir model for binding to a surface suggests that the effect of the lipids is consistent with a change in the maximum binding capacity. Our findings show that surfactant proteins can promote negative curvature, and support the possibility that they facilitate adsorption by that mechanism. PMID:26153706

  13. Lipid polymorphism induced by surfactant peptide SP-B(1-25).

    PubMed

    Farver, R Suzanne; Mills, Frank D; Antharam, Vijay C; Chebukati, Janetricks N; Fanucci, Gail E; Long, Joanna R

    2010-09-22

    Pulmonary surfactant protein B (SP-B) is an essential protein for lowering surface tension in the alveoli. SP-B(1-25), a peptide comprised of the N-terminal 25 amino-acid residues of SP-B, is known to retain much of the biological activity of SP-B. Circular dichroism has shown that when SP-B(1-25) interacts with negatively charged lipid vesicles, it contains significant helical structure for the lipid compositions and peptide/lipid ratios studied here. The effect of SP-B(1-25) on lipid organization and polymorphisms was investigated via DSC, dynamic light scattering, transmission electron microscopy, and solid-state NMR spectroscopy. At 1-3 mol% peptide and physiologic temperature, SP-B(1-25) partitions at the interface of negatively charged PC/PG lipid bilayers. In lipid mixtures containing 1-5 mol% peptide, the structure of SP-B(1-25) remains constant, but (2)H and (31)P NMR spectra show the presence of an isotropic lipid phase in exchange with the lamellar phase below the T(m) of the lipids. This behavior is observed for both DPPC/POPG and POPC/POPG lipid mixtures as well as for both the PC and PG components of the mixtures. For 1-3 mol% SP-B(1-25), a return to a single lamellar phase above the lipid mixture T(m) is observed, but for 5 mol% SP-B(1-25) a significant isotropic component is observed at physiologic temperatures for DPPC and exchange broadening is observed in (2)H and (31)P NMR spectra of the other lipid components in the two mixtures. DLS and TEM rule out the formation of micellar structures and suggest that SP-B(1-25) promotes the formation of a fluid isotropic phase. The ability of SP-B(1-25) to fuse lipid lamellae via this mechanism, particularly those enriched in DPPC, suggests a specific role for the highly conserved N-terminus of SP-B in the packing of lipid lamellae into surfactant lamellar bodies or in stabilizing multilayer structures at the air-liquid interface. Importantly, this behavior has not been seen for the other SP-B fragments of

  14. Amplification of steroid-mediated SP-B expression by physiological levels of caffeine.

    PubMed

    Fehrholz, Markus; Hütten, Matthias; Kramer, Boris W; Speer, Christian P; Kunzmann, Steffen

    2014-01-01

    Factors positively influencing surfactant homeostasis in general and surfactant protein B (SP-B) expression in particular are considered of clinical importance regarding an improvement of lung function in preterm infants. The objective of this study was to identify effects of physiological levels of caffeine on glucocorticoid-mediated SP-B expression in vitro and in vivo. Levels of SP-B and pepsinogen C were quantified by quantitative real-time RT-PCR or immunoblotting in NCI-H441 cells daily exposed to caffeine and/or dexamethasone (DEX). In vivo, SP-B expression was analyzed in bronchoalveolar lavage (BAL) of preterm sheep exposed to antenatal DEX and/or postnatal caffeine. If DEX and caffeine were continuously present, SP-B mRNA and protein levels were increased for up to 6 days after induction (P < 0.05). Additionally, caffeine enhanced SP-B mRNA expression in DEX-pretreated cells (P < 0.05). Moreover, caffeine amplified DEX-induced pepsinogen C mRNA expression (P < 0.05). After short-term treatment with caffeine in vivo, only slightly higher SP-B levels could be detected in BAL of preterm sheep following antenatal DEX, combined with an increase of arterial oxygen partial pressure (P < 0.01). Our data demonstrated that the continuous presence of caffeine in vitro is able to amplify DEX-mediated SP-B expression. In contrast, short-term improvement of lung function in vivo is likely to be independent of altered SP-B transcription and translation. An impact of caffeine on release of surfactant reservoirs from lamellar bodies could, however, quickly affect SP-B content in BAL, which has to be further investigated. Our findings indicate that caffeine is able to amplify main effects of glucocorticoids that result from changes in surfactant production, maturation, and release.

  15. Kraft lignin biodegradation by Novosphingobium sp. B-7 and analysis of the degradation process.

    PubMed

    Chen, Yuehui; Chai, Liyuan; Tang, Chongjian; Yang, Zhihui; Zheng, Yu; Shi, Yan; Zhang, Huan

    2012-11-01

    This study focused on the biodegradation of kraft lignin (KL) by Novosphingobium sp. B-7 using KL as sole carbon source. Results revealed that Novosphingobium sp. B-7 reduced the chemical oxygen demand (COD) by 34.7% in KL mineral salt medium after 7days of incubation. Additionally, the maximum activities of manganese peroxidase (MnP) of 3229.8Ul(-1) and laccase (Lac) of 1275Ul(-1) were observed at 4th and 5th day, respectively. GC-MS analysis indicated that after incubated with Novosphingobium sp. B-7, low molecular weight alcohols and lignin-related monomer compounds such as ethanediol, p-hydroxy benzoic acid and vanillic acid were formed in the system, which strongly confirmed the degradation of KL by Novosphingobium sp. B-7. PMID:22921251

  16. Strong Keratin-like Nanofibers Made of Globular Protein

    NASA Astrophysics Data System (ADS)

    Dror, Yael; Makarov, Vadim; Admon, Arie; Zussman, Eyal

    2008-03-01

    Protein fibers as elementary structural and functional elements in nature inspire the engineering of protein-based products for versatile bio-medical applications. We have recently used the electrospinning process to fabricate strong sub-micron fibers made solely of serum albumin (SA). This raises the challenges of turning a globular non-viscous protein solution into a polymer--like spinnable solution and producing keratin-like fibers enriched in inter S-S bridges. A stable spinning process was achieved by using SA solution in a rich trifluoroethanol-water mixture with β-mercaptoethanol. The breakage of the intra disulfide bridges, as identified by mass spectrometry, together with the denaturing alcohol, enabled a pronounced expansion of the protein. This in turn, affects the rheological properties of the solution. X-ray diffraction pattern of the fibers revealed equatorial orientation, indicating the alignment of structures along the fiber axis. The mechanical properties reached remarkable average values (Young's modulus of 1.6GPa, and max stress of 36MPa) as compared to other fibrous protein nanofibers. These significant results are attributed to both the alignment and inter disulfide bonds (cross linking) that were formed by spontaneous post-spinning oxidation.

  17. Metabolic networks and bioenergetics of Aurantiochytrium sp. B-072 during storage lipid formation

    PubMed Central

    Chaisawang, Montri; Verduyn, Cornelis; Chauvatcharin, Somchai; Suphantharika, Manop

    2012-01-01

    Baffled shake flask cultivation of Aurantiochytrium sp. B-072 was carried out at in a glucose-monosodium glutamate mineral medium at different C/N-ratios (30–165) with glucose fixed at 90 g/L. With increasing C/N-ratio, a modest increase in lipid content (60 to 73 % w/w) was observed whereas fat-free biomass decreased but overall biomass showed little variation. FA-profiles were not affected to a large extent by C/N-ratio and absolute docosahexaenoic (DHA)-levels fell in narrow range (5–6 g/L). However at C/N > 64 a rapid decrease in lipid synthetic rate and/or incomplete glucose utilization occurred. Glucose and FA-fluxes based on fat-free biomass peaked at a C/N ratio of 56. This condition was chosen for calculation of the redox balance (NAD(P)H) and energy (ATP) requirement and to estimate the in vivo P/O ratio during the main period of fatty acid biosynthesis. Several models with different routes for NADPH, acetyl-CoA formation and re-oxidation of OAA formed via ATP-citrate lyase were considered as these influence the redox- and energy balance. As an example, using a commonly shown scheme whereby NADPH is supplied by a cytosolic “transhydrogenase cycle” (pyruvate-OAA-malate-pyruvate) and OAA formed by ATP-citrate lyase is recycled via import into the mitochondria as malate, the calculated NADPH-requirement amounted to 5.5 with an ATP-demand of 10.5 mmol/(g fat-free biomass x h) and an in vivo P/O-ratio (not including non-growth associated maintenance) of 1.6. The lowest ATP requirement is found when acetyl-CoA would be transported directly from the mitochondria to the cytosol by carnitine acetyltransferase. Assay of some enzymes critical for NADPH supply indicates that activity of glucose-6-phosphate dehydrogenase, the first enzyme in the HMP pathway, is far insufficient for the required NADPH-flux and malic enzyme must be a major source. Activity of the latter (ca. 300 mU/mg protein) far exceeds that in oleaginous fungi and yeast. PMID:24031944

  18. Conjugation Strategy Strongly Impacts the Conformational Stability of a PEG-Protein Conjugate.

    PubMed

    Lawrence, Paul B; Billings, Wendy M; Miller, McKenzie B; Pandey, Brijesh K; Stephens, Andrew R; Langlois, Minnie I; Price, Joshua L

    2016-07-15

    Site-specific PEGylation is an important strategy for enhancing the pharmacokinetic properties of protein drugs, and has been enabled by the recent development of many chemoselective reactions for protein side-chain modification. However, the impact of these different conjugation strategies on the properties of PEG-protein conjugates is poorly understood. Here we show that the ability of PEG to enhance protein conformational stability depends strongly on the identity of the PEG-protein linker, with the most stabilizing linkers involving conjugation of PEG to planar polar groups near the peptide backbone. We also find that branched PEGs provide superior stabilization relative to their linear counterparts, suggesting additional applications for branched PEGs in protein stabilization. PMID:27191252

  19. Isolation of two strong poly (U) binding proteins from moderate halophile Halomonas eurihalina and their identification as cold shock proteins.

    PubMed

    Garapati, Usha Kumari; Suryanarayana, Tangirala

    2012-01-01

    Cold shock proteins (Csp) are known to be expressed in response to sudden decrease in temperature. They are thought to be involved in a number of cellular processes viz., RNA chaperone activity, translation, transcription, nucleoid condensation. During our studies on ribosomal protein S1 in moderate halophile Halomonas eurihalina, we observed the presence of two strong poly (U) binding proteins in abundance in cell extracts from cells grown under normal growth conditions. The proteins can be isolated in a single step using Poly (U) cellulose chromatography. The proteins were identified as major cold shock proteins belonging to Csp A family by MALDI-TOF and bioinformatic analysis. Csp 12 kDa was found in both exponential and stationary phases whereas Csp 8 kDa is found only in exponential phase.

  20. Chitin and L(+)-lactic acid production from crab (Callinectes bellicosus) wastes by fermentation of Lactobacillus sp. B2 using sugar cane molasses as carbon source.

    PubMed

    Flores-Albino, Belem; Arias, Ladislao; Gómez, Jorge; Castillo, Alberto; Gimeno, Miquel; Shirai, Keiko

    2012-09-01

    Crab wastes are employed for simultaneous production of chitin and L(+)-lactic acid by submerged fermentation of Lactobacillus sp. B2 using sugar cane molasses as carbon source. Response surface methodology was applied to design the culture media considering demineralization. Fermentations in stirred tank reactor (2L) using selected conditions produced 88% demineralization and 56% deproteinization with 34% yield of chitin and 19.5 gL(-1) of lactic acid (77% yield). The chitin purified from fermentation displayed 95% degree of acetylation and 0.81 and 1 ± 0.125% of residual ash and protein contents, respectively.

  1. Synthetic surfactant containing SP-B and SP-C mimics is superior to single-peptide formulations in rabbits with chemical acute lung injury

    PubMed Central

    Hernández-Juviel, José M.; Gordon, Larry M.; Waring, Alan J.

    2014-01-01

    Background. Chemical spills are on the rise and inhalation of toxic chemicals may induce chemical acute lung injury (ALI)/acute respiratory distress syndrome (ARDS). Although the pathophysiology of ALI/ARDS is well understood, the absence of specific antidotes has limited the effectiveness of therapeutic interventions. Objectives. Surfactant inactivation and formation of free radicals are important pathways in (chemical) ALI. We tested the potential of lipid mixtures with advanced surfactant protein B and C (SP-B and C) mimics to improve oxygenation and lung compliance in rabbits with lavage- and chemical-induced ALI/ARDS. Methods. Ventilated young adult rabbits underwent repeated saline lung lavages or underwent intratracheal instillation of hydrochloric acid to induce ALI/ARDS. After establishment of respiratory failure rabbits were treated with a single intratracheal dose of 100 mg/kg of synthetic surfactant composed of 3% Super Mini-B (S-MB), a SP-B mimic, and/or SP-C33 UCLA, a SP-C mimic, in a lipid mixture (DPPC:POPC:POPG 5:3:2 by weight), the clinical surfactant Infasurf®, a bovine lung lavage extract with SP-B and C, or synthetic lipids alone. End-points consisted of arterial oxygenation, dynamic lung compliance, and protein and lipid content in bronchoalveolar lavage fluid. Potential mechanism of surfactant action for S-MB and SP-C33 UCLA were investigated with captive bubble surfactometry (CBS) assays. Results. All three surfactant peptide/lipid mixtures and Infasurf equally lowered the minimum surface tension on CBS, and also improved oxygenation and lung compliance. In both animal models, the two-peptide synthetic surfactant with S-MB and SP-C33 UCLA led to better arterial oxygenation and lung compliance than single peptide synthetic surfactants and Infasurf. Synthetic surfactants and Infasurf improved lung function further in lavage- than in chemical-induced respiratory failure, with the difference probably due to greater capillary-alveolar protein

  2. Strong Selection Significantly Increases Epistatic Interactions in the Long-Term Evolution of a Protein.

    PubMed

    Gupta, Aditi; Adami, Christoph

    2016-03-01

    Epistatic interactions between residues determine a protein's adaptability and shape its evolutionary trajectory. When a protein experiences a changed environment, it is under strong selection to find a peak in the new fitness landscape. It has been shown that strong selection increases epistatic interactions as well as the ruggedness of the fitness landscape, but little is known about how the epistatic interactions change under selection in the long-term evolution of a protein. Here we analyze the evolution of epistasis in the protease of the human immunodeficiency virus type 1 (HIV-1) using protease sequences collected for almost a decade from both treated and untreated patients, to understand how epistasis changes and how those changes impact the long-term evolvability of a protein. We use an information-theoretic proxy for epistasis that quantifies the co-variation between sites, and show that positive information is a necessary (but not sufficient) condition that detects epistasis in most cases. We analyze the "fossils" of the evolutionary trajectories of the protein contained in the sequence data, and show that epistasis continues to enrich under strong selection, but not for proteins whose environment is unchanged. The increase in epistasis compensates for the information loss due to sequence variability brought about by treatment, and facilitates adaptation in the increasingly rugged fitness landscape of treatment. While epistasis is thought to enhance evolvability via valley-crossing early-on in adaptation, it can hinder adaptation later when the landscape has turned rugged. However, we find no evidence that the HIV-1 protease has reached its potential for evolution after 9 years of adapting to a drug environment that itself is constantly changing. We suggest that the mechanism of encoding new information into pairwise interactions is central to protein evolution not just in HIV-1 protease, but for any protein adapting to a changing environment. PMID

  3. Strong Selection Significantly Increases Epistatic Interactions in the Long-Term Evolution of a Protein.

    PubMed

    Gupta, Aditi; Adami, Christoph

    2016-03-01

    Epistatic interactions between residues determine a protein's adaptability and shape its evolutionary trajectory. When a protein experiences a changed environment, it is under strong selection to find a peak in the new fitness landscape. It has been shown that strong selection increases epistatic interactions as well as the ruggedness of the fitness landscape, but little is known about how the epistatic interactions change under selection in the long-term evolution of a protein. Here we analyze the evolution of epistasis in the protease of the human immunodeficiency virus type 1 (HIV-1) using protease sequences collected for almost a decade from both treated and untreated patients, to understand how epistasis changes and how those changes impact the long-term evolvability of a protein. We use an information-theoretic proxy for epistasis that quantifies the co-variation between sites, and show that positive information is a necessary (but not sufficient) condition that detects epistasis in most cases. We analyze the "fossils" of the evolutionary trajectories of the protein contained in the sequence data, and show that epistasis continues to enrich under strong selection, but not for proteins whose environment is unchanged. The increase in epistasis compensates for the information loss due to sequence variability brought about by treatment, and facilitates adaptation in the increasingly rugged fitness landscape of treatment. While epistasis is thought to enhance evolvability via valley-crossing early-on in adaptation, it can hinder adaptation later when the landscape has turned rugged. However, we find no evidence that the HIV-1 protease has reached its potential for evolution after 9 years of adapting to a drug environment that itself is constantly changing. We suggest that the mechanism of encoding new information into pairwise interactions is central to protein evolution not just in HIV-1 protease, but for any protein adapting to a changing environment.

  4. Protein co-ingestion strongly increases postprandial insulin secretion in type 2 diabetes patients.

    PubMed

    Manders, Ralph J F; Hansen, Dominique; Zorenc, Antoine H G; Dendale, Paul; Kloek, Joris; Saris, Wim H M; van Loon, Luc J C

    2014-07-01

    The capacity of nutritional protein to induce endogenous insulin secretion has been well established. However, it is not known whether such a response is applicable in a diverse population of type 2 diabetes patients. The aim of the present study was to assess the impact of co-ingesting either intact or hydrolyzed protein with carbohydrate on postprandial plasma insulin and glucose responses in type 2 diabetes patients. Sixty longstanding, male, type 2 diabetes patients participated in a study in which we determined postprandial plasma insulin and glucose responses after ingesting a single bolus of carbohydrate (0.7 g/kg: CHO) with or without an intact protein (0.3 g/kg: PRO) or its hydrolysate (0.3 g/kg: PROh). Results showed that protein co-ingestion strongly increased postprandial insulin release, with the insulin response +99 ± 41 and +110 ± 10% greater in the CHO+PRO and CHO+PROh experiments when compared with the CHO experiment. The insulinotropic properties of protein co-ingestion were evident in nearly all patients, with 58 out of 60 patients responding >10% when compared with the insulin response following carbohydrate ingestion only (CHO). The concomitant plasma glucose responses were 22 ± 32 and 23 ± 36% lower in the CHO+PRO and CHO+PROh experiments, respectively. We conclude that protein co-ingestion represents an effective dietary strategy to strongly augment postprandial insulin release and attenuate the postprandial rise in glucose concentration in type 2 diabetes patients.

  5. Strong Selection Significantly Increases Epistatic Interactions in the Long-Term Evolution of a Protein

    PubMed Central

    Gupta, Aditi; Adami, Christoph

    2016-01-01

    Epistatic interactions between residues determine a protein’s adaptability and shape its evolutionary trajectory. When a protein experiences a changed environment, it is under strong selection to find a peak in the new fitness landscape. It has been shown that strong selection increases epistatic interactions as well as the ruggedness of the fitness landscape, but little is known about how the epistatic interactions change under selection in the long-term evolution of a protein. Here we analyze the evolution of epistasis in the protease of the human immunodeficiency virus type 1 (HIV-1) using protease sequences collected for almost a decade from both treated and untreated patients, to understand how epistasis changes and how those changes impact the long-term evolvability of a protein. We use an information-theoretic proxy for epistasis that quantifies the co-variation between sites, and show that positive information is a necessary (but not sufficient) condition that detects epistasis in most cases. We analyze the “fossils” of the evolutionary trajectories of the protein contained in the sequence data, and show that epistasis continues to enrich under strong selection, but not for proteins whose environment is unchanged. The increase in epistasis compensates for the information loss due to sequence variability brought about by treatment, and facilitates adaptation in the increasingly rugged fitness landscape of treatment. While epistasis is thought to enhance evolvability via valley-crossing early-on in adaptation, it can hinder adaptation later when the landscape has turned rugged. However, we find no evidence that the HIV-1 protease has reached its potential for evolution after 9 years of adapting to a drug environment that itself is constantly changing. We suggest that the mechanism of encoding new information into pairwise interactions is central to protein evolution not just in HIV-1 protease, but for any protein adapting to a changing environment. PMID

  6. Discovery of a super-strong promoter enables efficient production of heterologous proteins in cyanobacteria.

    PubMed

    Zhou, Jie; Zhang, Haifeng; Meng, Hengkai; Zhu, Yan; Bao, Guanhui; Zhang, Yanping; Li, Yin; Ma, Yanhe

    2014-03-28

    Cyanobacteria are oxygenic photosynthetic prokaryotes that play important roles in the global carbon cycle. Recently, engineered cyanobacteria capable of producing various small molecules from CO2 have been developed. However, cyanobacteria are seldom considered as factories for producing proteins, mainly because of the lack of efficient strong promoters. Here, we report the discovery and verification of a super-strong promoter P(cpc560), which contains two predicted promoters and 14 predicted transcription factor binding sites (TFBSs). Using P(cpc560), functional proteins were produced at a level of up to 15% of total soluble protein in the cyanobacterium Synechocystis sp. 6803, a level comparable to that produced in Escherichia coli. We demonstrated that the presence of multiple TFBSs in P(cpc560) is crucial for its promoter strength. Genetically transformable cyanobacteria neither have endotoxins nor form inclusion bodies; therefore, P(cpc560) opens the possibility to use cyanobacteria as alternative hosts for producing heterogeneous proteins from CO2 and inorganic nutrients.

  7. Embedded proteins and sacrificial bonds provide the strong adhesive properties of gastroliths

    NASA Astrophysics Data System (ADS)

    Thormann, Esben; MizunoPresent Address: Nihon L'Oreal, Research; Innovation Center, 3-2-1 Sakado, Takatsu, Kawasaki, Kanagawa, Japan., Hiroyasu; Jansson, Kjell; Hedin, Niklas; Fernández, M. Soledad; Arias, José Luis; Rutland, Mark W.; PaiPresent Address: CenterFunctional Nanomaterials, Brookhaven National Laboratory, 735 Brookhaven Avenue, Upton, New York 11973., Ranjith Krishna; Bergström, Lennart

    2012-06-01

    The adhesive properties of gastroliths from a freshwater crayfish (Cherax quadricarinatus) were quantified by colloidal probe atomic force microscopy (AFM) between heavily demineralized gastrolith microparticles and gastrolith substrates of different composition. Combined AFM and transmission electron microscopy studies demonstrated that the sequential detachment and large adhesion energies that characterise the adhesive behaviour of a native gastrolith substrate are dominated by sacrificial bonds between chitin fibres and between chitin fibres and CaCO3. The sacrificial bonds were shown to be strongly related to the gastrolith proteins and when the majority of these proteins were removed by ethylenediaminetetraacetic acid (EDTA), the sequential detachment disappeared and the adhesive energy was reduced by more than two orders of magnitude.The adhesive properties of gastroliths from a freshwater crayfish (Cherax quadricarinatus) were quantified by colloidal probe atomic force microscopy (AFM) between heavily demineralized gastrolith microparticles and gastrolith substrates of different composition. Combined AFM and transmission electron microscopy studies demonstrated that the sequential detachment and large adhesion energies that characterise the adhesive behaviour of a native gastrolith substrate are dominated by sacrificial bonds between chitin fibres and between chitin fibres and CaCO3. The sacrificial bonds were shown to be strongly related to the gastrolith proteins and when the majority of these proteins were removed by ethylenediaminetetraacetic acid (EDTA), the sequential detachment disappeared and the adhesive energy was reduced by more than two orders of magnitude. Electronic supplementary information (ESI) available. See DOI: 10.1039/c2nr30536d

  8. Differential susceptibility of transgenic mice expressing human surfactant protein B genetic variants to Pseudomonas aeruginosa induced pneumonia.

    PubMed

    Ge, Lin; Liu, Xinyu; Chen, Rimei; Xu, Yongan; Zuo, Yi Y; Cooney, Robert N; Wang, Guirong

    2016-01-01

    Surfactant protein B (SP-B) is essential for lung function. Previous studies have indicated that a SP-B 1580C/T polymorphism (SNP rs1130866) was associated with lung diseases including pneumonia. The SNP causes an altered N-linked glycosylation modification at Asn129 of proSP-B, e.g. the C allele with this glycosylation site but not in the T allele. This study aimed to generate humanized SP-B transgenic mice carrying either SP-B C or T allele without a mouse SP-B background and then examine functional susceptibility to bacterial pneumonia in vivo. A total of 18 transgenic mouse founders were generated by the DNA microinjection method. These founders were back-crossed with SP-B KO mice to eliminate mouse SP-B background. Four founder lines expressing similar SP-B levels to human lung were chosen for further investigation. After intratracheal infection with 50 μl of Pseudomonas aeruginosa solution (1 × 10(6) CFU/mouse) or saline in SP-B-C, SP-B-T mice the mice were sacrificed 24 h post-infection and tissues were harvested. Analysis of surfactant activity revealed differential susceptibility between SP-B-C and SP-B-T mice to bacterial infection, e.g. higher minimum surface tension in infected SP-B-C versus infected SP-B-T mice. These results demonstrate for the first time that human SP-B C allele is more susceptible to bacterial pneumonia than SP-B T allele in vivo.

  9. General Strategy for the Bioorthogonal Incorporation of Strongly Absorbing, Solvation-Sensitive Infrared Probes into Proteins

    PubMed Central

    2015-01-01

    A high-sensitivity metal-carbonyl-based IR probe is described that can be incorporated into proteins or other biomolecules in very high yield via Click chemistry. A two-step strategy is demonstrated. First, a methionine auxotroph is used to incorporate the unnatural amino acid azidohomoalanine at high levels. Second, a tricarbonyl (η5-cyclopentadienyl) rhenium(I) probe modified with an alkynyl linkage is coupled via the Click reaction. We demonstrate these steps using the C-terminal domain of the ribosomal protein L9 as a model system. An overall incorporation level of 92% was obtained at residue 109, which is a surface-exposed residue. Incorporation of the probe into a surface site is shown not to perturb the stability or structure of the target protein. Metal carbonyls are known to be sensitive to solvation and protein electrostatics through vibrational lifetimes and frequency shifts. We report that the frequencies and lifetimes of this probe also depend on the isotopic composition of the solvent. Comparison of the lifetimes measured in H2O versus D2O provides a probe of solvent accessibility. The metal carbonyl probe reported here provides an easy and robust method to label very large proteins with an amino-acid-specific tag that is both environmentally sensitive and a very strong absorber. PMID:24749542

  10. Cell and protein compatible 3D bioprinting of mechanically strong constructs for bone repair.

    PubMed

    Sawkins, M J; Mistry, P; Brown, B N; Shakesheff, K M; Bonassar, L J; Yang, J

    2015-09-01

    Rapid prototyping of bone tissue engineering constructs often utilizes elevated temperatures, organic solvents and/or UV light for materials processing. These harsh conditions may prevent the incorporation of cells and therapeutic proteins in the fabrication processes. Here we developed a method for using bioprinting to produce constructs from a thermoresponsive microparticulate material based on poly(lactic-co-glycolic acid) at ambient conditions. These constructs could be engineered with yield stresses of up to 1.22 MPa and Young's moduli of up to 57.3 MPa which are within the range of properties of human cancellous bone. Further study showed that protein-releasing microspheres could be incorporated into the bioprinted constructs. The release of the model protein lysozyme from bioprinted constructs was sustainted for a period of 15 days and a high degree of protein activity could be measured up to day 9. This work suggests that bioprinting is a viable route to the production of mechanically strong constructs for bone repair under mild conditions which allow the inclusion of viable cells and active proteins. PMID:26133398

  11. Cell and protein compatible 3D bioprinting of mechanically strong constructs for bone repair.

    PubMed

    Sawkins, M J; Mistry, P; Brown, B N; Shakesheff, K M; Bonassar, L J; Yang, J

    2015-07-02

    Rapid prototyping of bone tissue engineering constructs often utilizes elevated temperatures, organic solvents and/or UV light for materials processing. These harsh conditions may prevent the incorporation of cells and therapeutic proteins in the fabrication processes. Here we developed a method for using bioprinting to produce constructs from a thermoresponsive microparticulate material based on poly(lactic-co-glycolic acid) at ambient conditions. These constructs could be engineered with yield stresses of up to 1.22 MPa and Young's moduli of up to 57.3 MPa which are within the range of properties of human cancellous bone. Further study showed that protein-releasing microspheres could be incorporated into the bioprinted constructs. The release of the model protein lysozyme from bioprinted constructs was sustainted for a period of 15 days and a high degree of protein activity could be measured up to day 9. This work suggests that bioprinting is a viable route to the production of mechanically strong constructs for bone repair under mild conditions which allow the inclusion of viable cells and active proteins.

  12. Study of Fluid Flow Control In Protein Crystallization Using Strong Magnetic Fields

    NASA Technical Reports Server (NTRS)

    Ramachandran, N.; Leslie, F.; Ciszak, E.; Curreri, Peter A. (Technical Monitor)

    2002-01-01

    An important component in biotechnology, particularly in the area of protein engineering and rational drug design is the knowledge of the precise three-dimensional molecular structure of proteins. The quality of structural information obtained from X-ray diffraction methods is directly dependent on the degree of perfection of the protein crystals. As a consequence, the growth of high quality macromolecular crystals for diffraction analyses has been the central focus for biochemists, biologists, and bioengineers. Macromolecular crystals are obtained from solutions that contain the crystallizing species in equilibrium with higher aggregates, ions, precipitants, other possible phases of the protein, foreign particles, the walls of the container, and a likely host of other impurities. By changing transport modes in general, i.e., reduction of convection and sedimentation, as is achieved in 'microgravity', researchers have been able to dramatically affect the movement and distribution of macromolecules in the fluid, and thus their transport, formation of crystal nuclei, and adsorption to the crystal surface. While a limited number of high quality crystals from space flights have been obtained, as the recent National Research Council (NRC) review of the NASA microgravity crystallization program pointed out, the scientific approach and research in crystallization of proteins has been mainly empirical yielding inconclusive results. We postulate that we can reduce convection in ground-based experiments and we can understand the different aspects of convection control through the use of strong magnetic fields and field gradients. Whether this limited convection in a magnetic field will provide the environment for the growth of high quality crystals is still a matter of conjecture that our research will address. The approach exploits the variation of fluid magnetic susceptibility with concentration for this purpose and the convective damping is realized by appropriately

  13. Strong underwater adhesives made by self-assembling multi-protein nanofibres.

    PubMed

    Zhong, Chao; Gurry, Thomas; Cheng, Allen A; Downey, Jordan; Deng, Zhengtao; Stultz, Collin M; Lu, Timothy K

    2014-10-01

    Many natural underwater adhesives harness hierarchically assembled amyloid nanostructures to achieve strong and robust interfacial adhesion under dynamic and turbulent environments. Despite recent advances, our understanding of the molecular design, self-assembly and structure-function relationships of these natural amyloid fibres remains limited. Thus, designing biomimetic amyloid-based adhesives remains challenging. Here, we report strong and multi-functional underwater adhesives obtained from fusing mussel foot proteins (Mfps) of Mytilus galloprovincialis with CsgA proteins, the major subunit of Escherichia coli amyloid curli fibres. These hybrid molecular materials hierarchically self-assemble into higher-order structures, in which, according to molecular dynamics simulations, disordered adhesive Mfp domains are exposed on the exterior of amyloid cores formed by CsgA. Our fibres have an underwater adhesion energy approaching 20.9 mJ m(-2), which is 1.5 times greater than the maximum of bio-inspired and bio-derived protein-based underwater adhesives reported thus far. Moreover, they outperform Mfps or curli fibres taken on their own and exhibit better tolerance to auto-oxidation than Mfps at pH ≥ 7.0.

  14. Strong underwater adhesives made by self-assembling multi-protein nanofibres

    NASA Astrophysics Data System (ADS)

    Zhong, Chao; Gurry, Thomas; Cheng, Allen A.; Downey, Jordan; Deng, Zhengtao; Stultz, Collin M.; Lu, Timothy K.

    2014-10-01

    Many natural underwater adhesives harness hierarchically assembled amyloid nanostructures to achieve strong and robust interfacial adhesion under dynamic and turbulent environments. Despite recent advances, our understanding of the molecular design, self-assembly and structure-function relationships of these natural amyloid fibres remains limited. Thus, designing biomimetic amyloid-based adhesives remains challenging. Here, we report strong and multi-functional underwater adhesives obtained from fusing mussel foot proteins (Mfps) of Mytilus galloprovincialis with CsgA proteins, the major subunit of Escherichia coli amyloid curli fibres. These hybrid molecular materials hierarchically self-assemble into higher-order structures, in which, according to molecular dynamics simulations, disordered adhesive Mfp domains are exposed on the exterior of amyloid cores formed by CsgA. Our fibres have an underwater adhesion energy approaching 20.9 mJ m-2, which is 1.5 times greater than the maximum of bio-inspired and bio-derived protein-based underwater adhesives reported thus far. Moreover, they outperform Mfps or curli fibres taken on their own and exhibit better tolerance to auto-oxidation than Mfps at pH ≥ 7.0.

  15. L233P mutation of the Tax protein strongly correlated with leukemogenicity of bovine leukemia virus.

    PubMed

    Inoue, Emi; Matsumura, Keiko; Soma, Norihiko; Hirasawa, Shintaro; Wakimoto, Mayuko; Arakaki, Yoshihiro; Yoshida, Takashi; Osawa, Yoshiaki; Okazaki, Katsunori

    2013-12-27

    The bovine leukemia virus (BLV) Tax protein is believed to play a crucial role in leukemogenesis by the virus. BLV usually causes asymptomatic infections in cattle, but only one-third develop persistent lymphocytosis that rarely progress after a long incubation period to lymphoid tumors, namely enzootic bovine leucosis (EBL). In the present study, we demonstrated that the BLV tax genes could be divided into two alleles and developed multiplex PCR detecting an L233P mutation of the Tax protein. Then, in order to define the relationship between the Tax protein and leukemogenicity, we examined 360 tumor samples randomly collected from dairy or breeding cattle in Japan, of which Tax proteins were categorized, for age at the time of diagnosis of EBL. The ages of 288 animals (80.0%) associated with L233-Tax and those of 70 animals (19.4%) with P233-Tax individually followed log-normal distributions. Only the two earliest cases (0.6%) with L233-Tax disobeyed the log-normal distribution. These findings suggest that the animals affected by EBL were infected with the virus at a particular point in life, probably less than a few months after birth. Median age of those with P233-Tax was 22 months older than that with L233-Tax and geometric means exhibited a significant difference (P<0.01). It is also quite unlikely that viruses carrying the particular Tax protein infect older cattle. Here, we conclude that BLV could be divided into two categories on the basis of amino acid at position 233 of the Tax protein, which strongly correlated with leukemogenicity. PMID:24139177

  16. L233P mutation of the Tax protein strongly correlated with leukemogenicity of bovine leukemia virus.

    PubMed

    Inoue, Emi; Matsumura, Keiko; Soma, Norihiko; Hirasawa, Shintaro; Wakimoto, Mayuko; Arakaki, Yoshihiro; Yoshida, Takashi; Osawa, Yoshiaki; Okazaki, Katsunori

    2013-12-27

    The bovine leukemia virus (BLV) Tax protein is believed to play a crucial role in leukemogenesis by the virus. BLV usually causes asymptomatic infections in cattle, but only one-third develop persistent lymphocytosis that rarely progress after a long incubation period to lymphoid tumors, namely enzootic bovine leucosis (EBL). In the present study, we demonstrated that the BLV tax genes could be divided into two alleles and developed multiplex PCR detecting an L233P mutation of the Tax protein. Then, in order to define the relationship between the Tax protein and leukemogenicity, we examined 360 tumor samples randomly collected from dairy or breeding cattle in Japan, of which Tax proteins were categorized, for age at the time of diagnosis of EBL. The ages of 288 animals (80.0%) associated with L233-Tax and those of 70 animals (19.4%) with P233-Tax individually followed log-normal distributions. Only the two earliest cases (0.6%) with L233-Tax disobeyed the log-normal distribution. These findings suggest that the animals affected by EBL were infected with the virus at a particular point in life, probably less than a few months after birth. Median age of those with P233-Tax was 22 months older than that with L233-Tax and geometric means exhibited a significant difference (P<0.01). It is also quite unlikely that viruses carrying the particular Tax protein infect older cattle. Here, we conclude that BLV could be divided into two categories on the basis of amino acid at position 233 of the Tax protein, which strongly correlated with leukemogenicity.

  17. Analysis of heat kernel highlights the strongly modular and heat-preserving structure of proteins

    NASA Astrophysics Data System (ADS)

    Livi, Lorenzo; Maiorino, Enrico; Pinna, Andrea; Sadeghian, Alireza; Rizzi, Antonello; Giuliani, Alessandro

    2016-01-01

    In this paper, we study the structure and dynamical properties of protein contact networks with respect to other biological networks, together with simulated archetypal models acting as probes. We consider both classical topological descriptors, such as modularity and statistics of the shortest paths, and different interpretations in terms of diffusion provided by the discrete heat kernel, which is elaborated from the normalized graph Laplacians. A principal component analysis shows high discrimination among the network types, by considering both the topological and heat kernel based vector characterizations. Furthermore, a canonical correlation analysis demonstrates the strong agreement among those two characterizations, providing thus an important justification in terms of interpretability for the heat kernel. Finally, and most importantly, the focused analysis of the heat kernel provides a way to yield insights on the fact that proteins have to satisfy specific structural design constraints that the other considered networks do not need to obey. Notably, the heat trace decay of an ensemble of varying-size proteins denotes subdiffusion, a peculiar property of proteins.

  18. The General Phosphotransferase System Proteins Localize to Sites of Strong Negative Curvature in Bacterial Cells

    PubMed Central

    Govindarajan, Sutharsan; Elisha, Yair; Nevo-Dinur, Keren; Amster-Choder, Orna

    2013-01-01

    ABSTRACT The bacterial cell poles are emerging as subdomains where many cellular activities take place, but the mechanisms for polar localization are just beginning to unravel. The general phosphotransferase system (PTS) proteins, enzyme I (EI) and HPr, which control preferential use of carbon sources in bacteria, were recently shown to localize near the Escherichia coli cell poles. Here, we show that EI localization does not depend on known polar constituents, such as anionic lipids or the chemotaxis receptors, and on the cell division machinery, nor can it be explained by nucleoid occlusion or localized translation. Detection of the general PTS proteins at the budding sites of endocytotic-like membrane invaginations in spherical cells and their colocalization with the negative curvature sensor protein DivIVA suggest that geometric cues underlie localization of the PTS system. Notably, the kinetics of glucose uptake by spherical and rod-shaped E. coli cells are comparable, implying that negatively curved “pole-like” sites support not only the localization but also the proper functioning of the PTS system in cells with different shapes. Consistent with the curvature-mediated localization model, we observed the EI protein from Bacillus subtilis at strongly curved sites in both B. subtilis and E. coli. Taken together, we propose that changes in cell architecture correlate with dynamic survival strategies that localize central metabolic systems like the PTS to subcellular domains where they remain active, thus maintaining cell viability and metabolic alertness. PMID:24129255

  19. Study of Fluid Flow Control in Protein Crystallization using Strong Magnetic Fields

    NASA Technical Reports Server (NTRS)

    Ramachandran, Narayanan; Leslie, Fred; Ciszak, Ewa

    2002-01-01

    An important component in biotechnology, particularly in the area of protein engineering and rational drug design is the knowledge of the precise three-dimensional molecular structure of proteins. The quality of structural information obtained from X-ray diffraction methods is directly dependent on the degree of perfection of the protein crystals. As a consequence, the growth of high quality macromolecular crystals for diffraction analyses has been the central focus for biochemists, biologists, and bioengineers. Macromolecular crystals are obtained from solutions that contain the crystallizing species in equilibrium with higher aggregates, ions, precipitants, other possible phases of the protein, foreign particles, the walls of the container, and a likely host of other impurities. By changing transport modes in general, i.e., reduction of convection and sedimentation, as is achieved in "microgravity", researchers have been able to dramatically affect the movement and distribution of macromolecules in the fluid, and thus their transport, formation of crystal nuclei, and adsorption to the crystal surface. While a limited number of high quality crystals from space flights have been obtained, as the recent National Research Council (NRC) review of the NASA microgravity crystallization program pointed out, the scientific approach and research in crystallization of proteins has been mainly empirical yielding inconclusive results. We postulate that we can reduce convection in ground-based experiments and we can understand the different aspects of convection control through the use of strong magnetic fields and field gradients. Whether this limited convection in a magnetic field will provide the environment for the growth of high quality crystals is still a matter of conjecture that our research will address. The approach exploits the variation of fluid magnetic susceptibility with concentration for this purpose and the convective damping is realized by appropriately

  20. Molecular design of a highly selective and strong protein inhibitor against matrix metalloproteinase-2 (MMP-2).

    PubMed

    Higashi, Shouichi; Hirose, Tomokazu; Takeuchi, Tomoka; Miyazaki, Kaoru

    2013-03-29

    Synthetic inhibitors of matrix metalloproteinases (MMPs), designed previously, as well as tissue inhibitors of metalloproteinases (TIMPs) lack enzyme selectivity, which has been a major obstacle for developing inhibitors into safe and effective MMP-targeted drugs. Here we designed a fusion protein named APP-IP-TIMP-2, in which the ten amino acid residue sequence of APP-derived MMP-2 selective inhibitory peptide (APP-IP) is added to the N terminus of TIMP-2. The APP-IP and TIMP-2 regions of the fusion protein are designed to interact with the active site and the hemopexin-like domain of MMP-2, respectively. The reactive site of the TIMP-2 region, which has broad specificity against MMPs, is blocked by the APP-IP adduct. The recombinant APP-IP-TIMP-2 showed strong inhibitory activity toward MMP-2 (Ki(app) = 0.68 pm), whereas its inhibitory activity toward MMP-1, MMP-3, MMP-7, MMP-8, MMP-9, or MT1-MMP was six orders of magnitude or more weaker (IC50 > 1 μm). The fusion protein inhibited the activation of pro-MMP-2 in the concanavalin A-stimulated HT1080 cells, degradation of type IV collagen by the cells, and the migration of stimulated cells. Compared with the decapeptide APP-IP (t½ = 30 min), APP-IP-TIMP-2 (t½ ≫ 96 h) showed a much longer half-life in cultured tumor cells. Therefore, the fusion protein may be a useful tool to evaluate contributions of proteolytic activity of MMP-2 in various pathophysiological processes. It may also be developed as an effective anti-tumor drug with restricted side effects.

  1. Designing CXCL8-based decoy proteins with strong anti-inflammatory activity in vivo

    PubMed Central

    Falsone, Angelika; Wabitsch, Veronica; Geretti, Elena; Potzinger, Heide; Gerlza, Tanja; Robinson, James; Adage, Tiziana; Teixeira, Mauro M.; Kungl, Andreas J.

    2013-01-01

    IL (interleukin)-8 [CXCL8 (CXC chemokine ligand 8)] exerts its role in inflammation by triggering neutrophils via its specific GPCRs (G-protein-coupled receptors), CXCR1 (CXC chemokine receptor 1) and CXCR2, for which additional binding to endothelial HS-GAGs (heparan sulphate-glycosaminoglycans) is required. We present here a novel approach for blocking the CXCL8-related inflammatory cascade by generating dominant-negative CXCL8 mutants with improved GAG-binding affinity and knocked-out CXCR1/CXCR2 activity. These non-signalling CXCL8 decoy proteins are able to displace WT (wild-type) CXCL8 and to prevent CXCR1/CXCR2 signalling thereby interfering with the inflammatory response. We have designed 14 CXCL8 mutants that we subdivided into three classes according to number and site of mutations. The decoys were characterized by IFTs (isothermal fluorescence titrations) and SPR (surface plasmon resonance) to determine GAG affinity. Protein stability and structural changes were evaluated by far-UV CD spectroscopy and knocked-out GPCR response was shown by Boyden chamber and Ca2+ release assays. From these experiments, CXCL8(Δ6F17KF21KE70KN71K) emerged with the most promising in vitro characteristics. This mutant was therefore further investigated in a murine model of mBSA (methylated BSA)-induced arthritis in mice where it showed strong anti-inflammatory activity. Based on these results, we propose that dominant-negative CXCL8 decoy proteins are a promising class of novel biopharmaceuticals with high therapeutic potential in inflammatory diseases. PMID:23919527

  2. Utilization of modified surfactant-associated protein B for delivery of DNA to airway cells in culture.

    PubMed Central

    Baatz, J E; Bruno, M D; Ciraolo, P J; Glasser, S W; Stripp, B R; Smyth, K L; Korfhagen, T R

    1994-01-01

    Pulmonary surfactant lines the airway epithelium and creates a potential barrier to successful transfection of the epithelium in vivo. Based on the functional properties of pulmonary surfactant protein B (SP-B) and the fact that this protein is neither toxic nor immunogenic in the airway, we hypothesized that SP-B could be modified to deliver DNA to airway cells. We have modified native bovine SP-B by the covalent linkage of poly(lysine) (average molecular mass of 3.3 or 10 kDa) to the N terminus of SP-B and formed complexes between a test plasmid and the modified SP-B. Transfection efficiency was determined by transfection of pulmonary adenocarcinoma cells (H441) in culture with the test plasmid pCPA-RSV followed by measurement of activity of the reporter gene encoding chloramphenicol acetyltransferase (CAT). Transfections were performed with DNA.protein complexes using poly(lysine)10kDa-SP-B ([Lys]10kDa-SP-B) or poly(lysine)3.3kDa-SP-B ([Lys]3.3kDa-SP-B), and results were compared with transfections using unmodified poly(lysine).DNA, unmodified SP-B.DNA, or DNA only. For [Lys]10kDa-SP-B.pCPA-RSV preparations, CAT activity was readily detectable above the background of [Lys]3.3kDa-SP-B or unmodified SP-B. The SP-B-poly(lysine) conjugates were effective over a broad range of protein-to-DNA molar ratios, although they were optimal at approximately 500:1-1000:1. Transfection efficiency varied with the tested cell line but was not specific to airway cells. Addition of replication-defective adenovirus to the [Lys]10kDa-SP-B.pCPA-RSV complex enhanced CAT activity about 30-fold with respect to that produced by the [Lys]10kDa-SP-B.pCPA-RSV complex alone. This increase suggests routing of the adenoviral.[Lys]10kDa-SP-B.pCPA-RSV complex through an endosomal pathway. Effects of covalent modification on the secondary structure of SP-B were examined by Fourier transform infrared spectrometry (FTIR). Results of FTIR indicated that the conformation of [Lys]10kDa-SP-B was

  3. Thermoresponsive anionic copolymer brushes containing strong acid moieties for effective separation of basic biomolecules and proteins.

    PubMed

    Nagase, Kenichi; Kobayashi, Jun; Kikuchi, Akihiko; Akiyama, Yoshikatsu; Kanazawa, Hideko; Okano, Teruo

    2014-10-13

    A thermoresponsive copolymer brush possessing the sulfonic acid group, poly(N-isopropylacrylamide (IPAAm)-co-2-acrylamido-2-methylpropanesulfonic acid (AMPS)-co-tert-butylacrylamide (tBAAm)), was grafted onto the surface of silica beads through surface-initiated atom transfer radical polymerization. Prepared copolymer and copolymer brushes on silica beads were characterized by observing the phase transition profile, CHNS elemental analysis, X-ray photoelectron spectroscopy, and gel permeation chromatography. The phase transition profile indicated that an appropriate AMPS composition for enabling thermally modulated property changes is 5 mol %, while excessive amounts of sulfonic acid groups prevented copolymer phase transition. Chromatographic elutions of catecholamine derivatives and basic proteins were observed, using the prepared copolymer brush-modified beads as chromatographic matrices, and the results suggest that the beads interact with these analytes through relatively strong electrostatic interactions. Thus, poly(IPAAm-co-AMPS-co-tBAAm) brush-modified beads will be useful for effective thermoresponsive chromatography matrices that separate basic biomolecules through strong electrostatic interactions. PMID:25220634

  4. Study of Fluid Flow Control in Protein Crystallization using Strong Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Ramachandran, Narayanan; Leslie, Fred; Ciszak, Ewa

    2002-11-01

    An important component in biotechnology, particularly in the area of protein engineering and rational drug design is the knowledge of the precise three-dimensional molecular structure of proteins. The quality of structural information obtained from X-ray diffraction methods is directly dependent on the degree of perfection of the protein crystals. As a consequence, the growth of high quality macromolecular crystals for diffraction analyses has been the central focus for biochemists, biologists, and bioengineers. Macromolecular crystals are obtained from solutions that contain the crystallizing species in equilibrium with higher aggregates, ions, precipitants, other possible phases of the protein, foreign particles, the walls of the container, and a likely host of other impurities. By changing transport modes in general, i.e., reduction of convection and sedimentation, as is achieved in "microgravity", researchers have been able to dramatically affect the movement and distribution of macromolecules in the fluid, and thus their transport, formation of crystal nuclei, and adsorption to the crystal surface. While a limited number of high quality crystals from space flights have been obtained, as the recent National Research Council (NRC) review of the NASA microgravity crystallization program pointed out, the scientific approach and research in crystallization of proteins has been mainly empirical yielding inconclusive results. We postulate that we can reduce convection in ground-based experiments and we can understand the different aspects of convection control through the use of strong magnetic fields and field gradients. Whether this limited convection in a magnetic field will provide the environment for the growth of high quality crystals is still a matter of conjecture that our research will address. The approach exploits the variation of fluid magnetic susceptibility with concentration for this purpose and the convective damping is realized by appropriately

  5. Study of Fluid Flow Control in Protein Crystallization using Strong Magnetic Fields

    NASA Technical Reports Server (NTRS)

    Ramachandran, Narayanan; Leslie, Fred; Ciszak, Ewa

    2002-01-01

    An important component in biotechnology, particularly in the area of protein engineering and rational drug design is the knowledge of the precise three-dimensional molecular structure of proteins. The quality of structural information obtained from X-ray diffraction methods is directly dependent on the degree of perfection of the protein crystals. As a consequence, the growth of high quality macromolecular crystals for diffraction analyses has been the central focus for biochemists, biologists, and bioengineers. Macromolecular crystals are obtained from solutions that contain the crystallizing species in equilibrium with higher aggregates, ions, precipitants, other possible phases of the protein, foreign particles, the walls of the container, and a likely host of other impurities. By changing transport modes in general, i.e., reduction of convection and sedimentation, as is achieved in "microgravity", researchers have been able to dramatically affect the movement and distribution of macromolecules in the fluid, and thus their transport, formation of crystal nuclei, and adsorption to the crystal surface. While a limited number of high quality crystals from space flights have been obtained, as the recent National Research Council (NRC) review of the NASA microgravity crystallization program pointed out, the scientific approach and research in crystallization of proteins has been mainly empirical yielding inconclusive results. We postulate that we can reduce convection in ground-based experiments and we can understand the different aspects of convection control through the use of strong magnetic fields and field gradients. Whether this limited convection in a magnetic field will provide the environment for the growth of high quality crystals is still a matter of conjecture that our research will address. The approach exploits the variation of fluid magnetic susceptibility with concentration for this purpose and the convective damping is realized by appropriately

  6. Association of Strong Immune Responses to PPE Protein Rv1168c with Active Tuberculosis ▿

    PubMed Central

    Khan, Nooruddin; Alam, Kaiser; Nair, Shiny; Valluri, Vijaya Lakshmi; Murthy, Kolluri J. R.; Mukhopadhyay, Sangita

    2008-01-01

    Accurate diagnosis of tuberculosis (TB) infection is critical for the treatment, prevention, and control of TB. Conventional diagnostic tests based on purified protein derivative (PPD) do not achieve the required diagnostic sensitivity. Therefore, in this study, we have evaluated the immunogenic properties of Rv1168c, a member of the PPE family, in comparison with PPD, which is routinely used in the tuberculin test, and Hsp60 and ESAT-6, well-known immunodominant antigens of Mycobacterium tuberculosis. In a conventional enzyme immunoassay, the recombinant Rv1168c protein displayed stronger immunoreactivity against the sera obtained from patients with clinically active TB than did PPD, Hsp60, or ESAT-6 and could distinguish TB patients from Mycobacterium bovis BCG-vaccinated controls. Interestingly, Rv1168c antigen permits diagnosis of smear-negative pulmonary TB as well as extrapulmonary TB cases, which are often difficult to diagnose by conventional tests. The immunodominant nature of Rv1168c makes it a promising candidate to use in serodiagnosis of TB. In addition, our studies also show that Rv1168c is a potent T-cell antigen which elicits a strong gamma interferon response in sensitized peripheral blood mononuclear cells obtained from TB patients. PMID:18400969

  7. Two novel antioxidant nonapeptides from protein hydrolysate of skate (Raja porosa) muscle.

    PubMed

    Hu, Fa-Yuan; Chi, Chang-Feng; Wang, Bin; Deng, Shang-Gui

    2015-04-01

    In the current study, the preparation conditions of neutrase hydrolysate (SMH) from skate (Raja porosa) muscle protein were optimized using orthogonal L9(3)4 tests, and R values indicated that pH was the most important factor affecting HO· scavenging activity of SMH. Under the optimum conditions of pH 7.0, enzymolysis temperature 60 °C, enzyme/substrate ratio (E/S) 2%, and enzymolysis time 5 h, EC50 of SMH on HO· was 2.14 ± 0.17 mg/mL. Using ultrafiltration, gel filtration chromatography, and RP-HPLC, two novel antioxidant nonapeptides (SP-A and SP-B) were isolated from SMH and their amino acid sequences were found to be APPTAYAQS (SP-A) and NWDMEKIWD (SP-B) with calculated molecular masses of 904.98 Da and 1236.38 Da, respectively. Both showed strong antioxidant activities. SP-A and SP-B exhibited good scavenging activities on HO· (EC50 0.390 and 0.176 mg/mL), DPPH· (EC50 0.614 and 0.289 mg/mL), and O2-· (EC50 0.215 and 0.132 mg/mL) in a dose-dependent manner. SP-B was also effective against lipid peroxidation in the model system. The aromatic (2Trp), acidic (2Asp and Glu), and basic (Lys) amino acid residues within the sequences of SP-B might account for its pronounced antioxidant activity. The results of this study suggested that protein hydrolysate and peptides from skate muscle might be effective as food additives for retarding lipid peroxidation occurring in foodstuffs. PMID:25854645

  8. Two Novel Antioxidant Nonapeptides from Protein Hydrolysate of Skate (Raja porosa) Muscle

    PubMed Central

    Hu, Fa-Yuan; Chi, Chang-Feng; Wang, Bin; Deng, Shang-Gui

    2015-01-01

    In the current study, the preparation conditions of neutrase hydrolysate (SMH) from skate (Raja porosa) muscle protein were optimized using orthogonal L9(3)4 tests, and R values indicated that pH was the most important factor affecting HO· scavenging activity of SMH. Under the optimum conditions of pH 7.0, enzymolysis temperature 60 °C, enzyme/substrate ratio (E/S) 2%, and enzymolysis time 5 h, EC50 of SMH on HO· was 2.14 ± 0.17 mg/mL. Using ultrafiltration, gel filtration chromatography, and RP-HPLC, two novel antioxidant nonapeptides (SP-A and SP-B) were isolated from SMH and their amino acid sequences were found to be APPTAYAQS (SP-A) and NWDMEKIWD (SP-B) with calculated molecular masses of 904.98 Da and 1236.38 Da, respectively. Both showed strong antioxidant activities. SP-A and SP-B exhibited good scavenging activities on HO· (EC50 0.390 and 0.176 mg/mL), DPPH· (EC50 0.614 and 0.289 mg/mL), and O2−· (EC50 0.215 and 0.132 mg/mL) in a dose-dependent manner. SP-B was also effective against lipid peroxidation in the model system. The aromatic (2Trp), acidic (2Asp and Glu), and basic (Lys) amino acid residues within the sequences of SP-B might account for its pronounced antioxidant activity. The results of this study suggested that protein hydrolysate and peptides from skate muscle might be effective as food additives for retarding lipid peroxidation occurring in foodstuffs. PMID:25854645

  9. Degradation of aromatic compounds and degradative pathway of 4-nitrocatechol by Ochrobactrum sp. B2.

    PubMed

    Zhong, Qiuzan; Zhang, Haiyan; Bai, Wenqin; Li, Mei; Li, Baotong; Qiu, Xinghui

    2007-12-01

    The potential capacity of a soil methyl parathion-degrading bacterium strain, Ochrobactrum sp. B2, for degrading various aromatic compounds were investigated. The results showed B2 was capable of degrading diverse aromatic compounds, but amino-substituted benzene compounds, at a concentration up to 100 mg L(-1) in 4 days. B2 could use 4-nitrocatechol (4-NC) as a sole carbon and energy source with release of nitrite ion. The pathway for 4-NC degradation via 1,2,4-benzenetriol (BT) and hydroquinone (HQ) formation in B2 was proposed based on the identification and quantification of intermediates by gas chromatography-mass spectrometry (GC-MS), and high performance liquid chromatography (HPLC). Degradation studies carried out on a plasmid-cured derivative showed that the genes for 4-NC degradative pathway was plasmid-borne in B2, suggesting that B2 degrades both p-nitrophenol and 4-NC by enzymes encoded by genes on the same plasmid.

  10. Chromium (VI) detoxification by oxidation and flocculation of exopolysaccharides from Arthrobacter sp. B4.

    PubMed

    Li, Yumei; Li, Qiang; Fengying, Yang; Bao, Jie; Hu, Zhiheng; Zhu, Wenwen; Zhao, Yueyue; Lin, Zhaodang; Dong, Qingsheng

    2015-11-01

    The exopolysaccharides from Arthrobacter sp. B4 (B4-EPS) exhibited an excellent chromium (VI) (Cr(VI)) removal capability without any pH adjustment, whereby 50mgL(-1) of Cr(VI) could be completely removed by 4gL(-1) of B4-EPS. The kinetics tests revealed that the first-order rate constant was 8.3×10(-5)s(-1) and the optimal reaction time was 720min. However, a low initial concentration of Cr(VI) (5-30mgL(-1)) would accelerate the reaction rate of Cr(VI) removal and shorten reaction time to less than 360min. Meanwhile, the X-ray photoelectron spectroscopy (XPS) and ultraviolet-visible (UV-vis) spectra indicated that Cr(VI) was reduced to Cr(III) by B4-EPS in accordance with the emergence of the green reaction products. Furthermore, the Fourier transform-infrared spectra (FT-IR) and nuclear magnetic resonance (NMR) showed that carboxyl and hydroxyl groups of B4-EPS contributed to Cr(VI) reduction. Additionally, a feasible scheme for Cr(VI) detoxification by oxidation and flocculation of B4-EPS is presented.

  11. Characterization and flocculation mechanism of an alkali-activated polysaccharide flocculant from Arthrobacter sp. B4.

    PubMed

    Li, Yumei; Li, Qiang; Hao, Dakui; Hu, Zhiheng; Song, Dongxue; Yang, Min

    2014-10-01

    The characterization and flocculation mechanism of a bioflocculant produced by Arthrobacter sp. B4 were investigated. The bioflocculant's active ingredient was a polysaccharide (B4-PS) that consisted of three main fractions corresponding to the molecular weights of approximately 3.97×10(4)Da, 6.84×10(3)Da and 5.9×10(6)Da, respectively. These fractions were composed of galactose, glucose, mannose and glucuronic acid. Flocculation experiments showed that B4-PS could spontaneously flocculate in the presence of Ca(2+) ions at a high pH (>12.0), followed by the pH reduction to ∼6.0. The self-flocculation of B4-PS may be mediated by ionization and charge neutralization mechanism. Furthermore, B4-PS exhibited excellent capabilities for pollutant removal and pH reduction in alkaline wastewater. These data suggest B4-PS may be a promising tool for use in industrial alkaline wastewater pretreatment.

  12. Adaptation of Alcaligenes eutrophus B9 and Pseudomonas sp. B13 to 2-Fluorobenzoate as Growth Substrate

    PubMed Central

    Engesser, K.-H.; Schmidt, E.; Knackmuss, H.-J.

    1980-01-01

    Alcaligenes eutrophus B9 and Pseudomonas sp. B13 could be adapted to 2-fluorobenzoate as the sole source of carbon and energy. The ability of the A. eutrophus B9 to use this new substrate is clearly based on the defective dihydrodihydroxybenzoate dehydrogenase. Nontoxic 6-fluoro-3,5-cyclohexadiene-1,2-diol-1-carboxylic acid is accumulated instead of 3-fluorocatechol. About 84% of the substrate is dioxygenated to catechol and utilized via the 3-oxoadipate pathway. During continuous adaptation of Pseudomonas sp. B13 regioselectivity of dioxygenation of 2-fluorobenzoate is drastically changed in favor of a 1,2-attack. Consequently, approximately 97% of the substrate is utilized via catechol. A three- to fourfold overproduction of key enzymes of the 3-oxoadipate pathway compensates for the slower turnover rates of the fluorinated substrates. PMID:16345497

  13. [Characteristics study of extracellular active substance of Bacillus sp. B1 on Phaeocystis globosa].

    PubMed

    Li, Qiang; Zhao, Ling; Yin, Ping-He

    2012-03-01

    The algicidal bacterium named B1 which was identified as Bacillus sp. was isolated from red tide water in Xiangzhou shipside of Zhuhai. The algicidal mode of algae-lysis bacterium B1 and the microstructure of algal cells in the algae-lysing process were studied. In order to explore the properties of extracellular algicidal substances, the sterile condensed bacteria-free filtrate was dialysed, sedimentated by ethanol, extracted by organic solvents and exposed in different heat and pH variations. The results showed that the sterile condensed bacteria-free filtrate could effectively dissolve Phaeocystis globosa (P. globosa), the removal rate was 94.9%, B1 excreted algae-lysing substances to inhibit the growth of algae indirectly. Algicidal process under the visual field of microscope demonstrated that the alga cell rounded and the cell wall lost integrity after 16 h, the algae cell lysed and cellular substances released after 56 h. The molecular weight of the extracellular algae-lysing components of B1 are less than 3 500, the algicidal substances have strong polarity and heat-tolerant, which still had a strong algae-lysing effect after being treated at 121 degrees C, and the removal rate was 92.6%. The algae-lysing ability was stronger while the pH value was kept at 9.0, ethanol can separate extracellular algae-lysing components from other components efficiently. The algae-lysing components may be non-bioactive molecules which contain acidic or alkaline groups, and may not be protein, nuclear acid and polysaccharides.

  14. Metabolic effects of milk protein intake strongly depend on pre-existing metabolic and exercise status.

    PubMed

    Melnik, Bodo C; Schmitz, Gerd; John, Swen; Carrera-Bastos, Pedro; Lindeberg, Staffan; Cordain, Loren

    2013-01-01

    Milk protein intake has recently been suggested to improve metabolic health. This Perspective provides evidence that metabolic effects of milk protein intake have to be regarded in the context of the individual's pre-existing metabolic and exercise status. Milk proteins provide abundant branched-chain amino acids (BCAAs) and glutamine. Plasma BCAAs and glutamine are increased in obesity and insulin resistance, but decrease after gastric bypass surgery resulting in weight loss and improved insulin sensitivity. Milk protein consumption results in postprandial hyperinsulinemia in obese subjects, increases body weight of overweight adolescents and may thus deteriorate pre-existing metabolic disturbances of obese, insulin resistant individuals. PMID:24225036

  15. Metabolic effects of milk protein intake strongly depend on pre-existing metabolic and exercise status

    PubMed Central

    2013-01-01

    Milk protein intake has recently been suggested to improve metabolic health. This Perspective provides evidence that metabolic effects of milk protein intake have to be regarded in the context of the individual’s pre-existing metabolic and exercise status. Milk proteins provide abundant branched-chain amino acids (BCAAs) and glutamine. Plasma BCAAs and glutamine are increased in obesity and insulin resistance, but decrease after gastric bypass surgery resulting in weight loss and improved insulin sensitivity. Milk protein consumption results in postprandial hyperinsulinemia in obese subjects, increases body weight of overweight adolescents and may thus deteriorate pre-existing metabolic disturbances of obese, insulin resistant individuals. PMID:24225036

  16. Cooperative folding of intrinsically disordered domains drives assembly of a strong elongated protein

    NASA Astrophysics Data System (ADS)

    Gruszka, Dominika T.; Whelan, Fiona; Farrance, Oliver E.; Fung, Herman K. H.; Paci, Emanuele; Jeffries, Cy M.; Svergun, Dmitri I.; Baldock, Clair; Baumann, Christoph G.; Brockwell, David J.; Potts, Jennifer R.; Clarke, Jane

    2015-06-01

    Bacteria exploit surface proteins to adhere to other bacteria, surfaces and host cells. Such proteins need to project away from the bacterial surface and resist significant mechanical forces. SasG is a protein that forms extended fibrils on the surface of Staphylococcus aureus and promotes host adherence and biofilm formation. Here we show that although monomeric and lacking covalent cross-links, SasG maintains a highly extended conformation in solution. This extension is mediated through obligate folding cooperativity of the intrinsically disordered E domains that couple non-adjacent G5 domains thermodynamically, forming interfaces that are more stable than the domains themselves. Thus, counterintuitively, the elongation of the protein appears to be dependent on the inherent instability of its domains. The remarkable mechanical strength of SasG arises from tandemly arrayed `clamp' motifs within the folded domains. Our findings reveal an elegant minimal solution for the assembly of monomeric mechano-resistant tethers of variable length.

  17. Chemical shifts assignments of the archaeal MC1 protein and a strongly bent 15 base pairs DNA duplex in complex.

    PubMed

    Loth, Karine; Landon, Céline; Paquet, Françoise

    2015-04-01

    MC1 is the most abundant architectural protein present in Methanosarcina thermophila CHTI55 in laboratory growth conditions and is structurally unrelated to other DNA-binding proteins. MC1 functions are to shape and to protect DNA against thermal denaturation by binding to it. Therefore, MC1 has a strong affinity for any double-stranded DNA. However, it recognizes and preferentially binds to bent DNA, such as four-way junctions and negatively supercoiled DNA minicircles. Combining NMR data, electron microscopy data, biochemistry, molecular modelisation and docking approaches, we proposed recently a new type of DNA/protein complex, in which the monomeric protein MC1 binds on the concave side of a strongly bent 15 base pairs DNA. We present here the NMR chemical shifts assignments of each partner in the complex, (1)H (15)N MC1 protein and (1)H (13)C (15)N bent duplex DNA, as first step towards the first experimental 3D structure of this new type of DNA/protein complex.

  18. Strong Ligand-Protein Interactions Derived from Diffuse Ligand Interactions with Loose Binding Sites.

    PubMed

    Marsh, Lorraine

    2015-01-01

    Many systems in biology rely on binding of ligands to target proteins in a single high-affinity conformation with a favorable ΔG. Alternatively, interactions of ligands with protein regions that allow diffuse binding, distributed over multiple sites and conformations, can exhibit favorable ΔG because of their higher entropy. Diffuse binding may be biologically important for multidrug transporters and carrier proteins. A fine-grained computational method for numerical integration of total binding ΔG arising from diffuse regional interaction of a ligand in multiple conformations using a Markov Chain Monte Carlo (MCMC) approach is presented. This method yields a metric that quantifies the influence on overall ligand affinity of ligand binding to multiple, distinct sites within a protein binding region. This metric is essentially a measure of dispersion in equilibrium ligand binding and depends on both the number of potential sites of interaction and the distribution of their individual predicted affinities. Analysis of test cases indicates that, for some ligand/protein pairs involving transporters and carrier proteins, diffuse binding contributes greatly to total affinity, whereas in other cases the influence is modest. This approach may be useful for studying situations where "nonspecific" interactions contribute to biological function. PMID:26064949

  19. Coarsening of protein clusters on subcellular drops exhibits strong and sudden size selectivity

    NASA Astrophysics Data System (ADS)

    Brown, Aidan; Rutenberg, Andrew

    2015-03-01

    Autophagy is an important process for the degradation of cellular components, with receptor proteins targeting substrates to downstream autophagy machinery. An important question is how receptor protein interactions lead to their selective accumulation on autophagy substrates. Receptor proteins have recently been observed in clusters, raising the possibility that clustering could affect autophagy selectivity. We investigate the clustering dynamics of the autophagy receptor protein NBR1. In addition to standard receptor protein domains, NBR1 has a ``J'' domain that anchors it to membranes, and a coiled-coil domain that enhances self-interaction. We model coarsening clusters of NBR1 on the surfaces of a polydisperse collection of drops, representing organelles. Despite the disconnected nature of the drop surfaces, we recover dynamical scaling of cluster sizes. Significantly, we find that at a well-defined time after coarsening begins, clusters evaporate from smaller drops and grow on larger drops. Thus, coarsening-driven size selection will localize protein clusters to larger substrates, leaving smaller substrates without clusters. This provides a possible physical mechanism for autophagy selectivity, and can explain reports of size selection during peroxisome degradation.

  20. Strong Ligand-Protein Interactions Derived from Diffuse Ligand Interactions with Loose Binding Sites

    PubMed Central

    2015-01-01

    Many systems in biology rely on binding of ligands to target proteins in a single high-affinity conformation with a favorable ΔG. Alternatively, interactions of ligands with protein regions that allow diffuse binding, distributed over multiple sites and conformations, can exhibit favorable ΔG because of their higher entropy. Diffuse binding may be biologically important for multidrug transporters and carrier proteins. A fine-grained computational method for numerical integration of total binding ΔG arising from diffuse regional interaction of a ligand in multiple conformations using a Markov Chain Monte Carlo (MCMC) approach is presented. This method yields a metric that quantifies the influence on overall ligand affinity of ligand binding to multiple, distinct sites within a protein binding region. This metric is essentially a measure of dispersion in equilibrium ligand binding and depends on both the number of potential sites of interaction and the distribution of their individual predicted affinities. Analysis of test cases indicates that, for some ligand/protein pairs involving transporters and carrier proteins, diffuse binding contributes greatly to total affinity, whereas in other cases the influence is modest. This approach may be useful for studying situations where “nonspecific” interactions contribute to biological function. PMID:26064949

  1. Small structural differences of targeted anti-tumor toxins result in strong variation of protein expression.

    PubMed

    Gilabert-Oriol, Roger; Thakur, Mayank; Weise, Christoph; Dernedde, Jens; von Mallinckrodt, Benedicta; Fuchs, Hendrik; Weng, Alexander

    2013-09-01

    Targeted anti-tumor toxins consist of a toxic functional moiety that is chemically linked or recombinantly fused to a cell-directing ligand. Ribosome-inactivating proteins (RIPs), especially type I RIPs such as saporin or dianthin, are commonly used as toxin components. Although expression of type I RIP-based fusion proteins is well reported, the achievement of higher protein yields in heterologous expression systems through innovative strategies is of major interest. In the present study, the targeted toxins (his)saporin-EGF (SE) and (his)dianthin-EGF (DE) were expressed as fusion proteins under identical expression conditions. However, the total amount of DE was nearly two-times higher than SE. The identity of the heterologously expressed targeted toxins was confirmed by mass spectrometric studies. Their biological specific activity, monitored in real time, was almost equal. Sequence alignment shows 84% identity and a structural comparison revealed five major differences, two of which affect the secondary structure resulting in a loop (SE) to β-strand (DE) conversion and one introduces a gap in SE (after position 57). In conclusion, these structural variations resulted in different protein expression levels while codon usage and toxicity to bacteria were excluded as a cause. Minor structural differences identified in this study may be considered responsible for the protection of DE from bacterial proteases and therefore may serve as a lead to modify certain domains in type I RIP-based targeted toxins.

  2. High levels of gene expression explain the strong evolutionary constraint of mitochondrial protein-coding genes.

    PubMed

    Nabholz, Benoit; Ellegren, Hans; Wolf, Jochen B W

    2013-02-01

    The nearly neutral theory of molecular evolution has been widely accepted as the guiding principle for understanding how selection affects gene sequence evolution. One of its central predictions is that the rate at which proteins evolve should negatively scale with effective population size (N(e)). In contrast to the expectation of reduced selective constraint in the mitochondrial genome following from its lower N(e), we observe what can be interpreted as the opposite: for a taxonomically diverse set of organisms (birds, mammals, insects, and nematodes), mitochondrially encoded protein-coding genes from the oxidative phosphorylation pathway (mtOXPHOS; n = 12-13) show markedly stronger signatures of purifying selection (illustrated by low d(N)/d(S)) than their nuclear counterparts interacting in the same pathway (nuOXPHOS; n: ∼75). To understand these unexpected evolutionary dynamics, we consider a number of structural and functional parameters including gene expression, hydrophobicity, transmembrane position, gene ontology, GC content, substitution rate, proportion of amino acids in transmembrane helices, and protein-protein interaction. Across all taxa, unexpectedly large differences in gene expression levels (RNA-seq) between nuclear and mitochondrially encoded genes, and to a lower extent hydrophobicity, explained most of the variation in d(N)/d(S). Similarly, differences in d(N)/d(S) between functional OXPHOS protein complexes could largely be explained by gene expression differences. Overall, by including gene expression and other functional parameters, the unexpected mitochondrial evolutionary dynamics can be understood. Our results not only reaffirm the link between gene expression and protein evolution but also open new questions about the functional role of expression level variation between mitochondrial genes. PMID:23071102

  3. High levels of gene expression explain the strong evolutionary constraint of mitochondrial protein-coding genes.

    PubMed

    Nabholz, Benoit; Ellegren, Hans; Wolf, Jochen B W

    2013-02-01

    The nearly neutral theory of molecular evolution has been widely accepted as the guiding principle for understanding how selection affects gene sequence evolution. One of its central predictions is that the rate at which proteins evolve should negatively scale with effective population size (N(e)). In contrast to the expectation of reduced selective constraint in the mitochondrial genome following from its lower N(e), we observe what can be interpreted as the opposite: for a taxonomically diverse set of organisms (birds, mammals, insects, and nematodes), mitochondrially encoded protein-coding genes from the oxidative phosphorylation pathway (mtOXPHOS; n = 12-13) show markedly stronger signatures of purifying selection (illustrated by low d(N)/d(S)) than their nuclear counterparts interacting in the same pathway (nuOXPHOS; n: ∼75). To understand these unexpected evolutionary dynamics, we consider a number of structural and functional parameters including gene expression, hydrophobicity, transmembrane position, gene ontology, GC content, substitution rate, proportion of amino acids in transmembrane helices, and protein-protein interaction. Across all taxa, unexpectedly large differences in gene expression levels (RNA-seq) between nuclear and mitochondrially encoded genes, and to a lower extent hydrophobicity, explained most of the variation in d(N)/d(S). Similarly, differences in d(N)/d(S) between functional OXPHOS protein complexes could largely be explained by gene expression differences. Overall, by including gene expression and other functional parameters, the unexpected mitochondrial evolutionary dynamics can be understood. Our results not only reaffirm the link between gene expression and protein evolution but also open new questions about the functional role of expression level variation between mitochondrial genes.

  4. New ammunition for the proteomic reactor: strong anion exchange beads and multiple enzymes enhance protein identification and sequence coverage.

    PubMed

    Zhou, Hu; Hou, Weimin; Lambert, Jean-Philippe; Figeys, Daniel

    2010-08-01

    The enrichment and processing of proteomic samples prior to multi-dimensional chromatography remain a challenge in 'gel-free' proteomics. We previously reported the development of a microfluidic device called the "proteomic reactor" that relied on enriching proteins by using strong cation exchange (SCX) followed by trypsin digestion in an interstitial volume as little as 50 nL. Here, we report a novel proteomic reactor that is based on polymeric strong anion exchange (SAX) material to analyse proteomic samples. We also compare the performance of the SAX proteomic reactor to our previously reported SCX proteomic reactor for analysing complex yeast proteomes. Our results indicate that the SAX protein reactor preferentially identifies more acidic peptides and proteins compared to the SCX reactor. We show that the SAX and SCX reactors are complementary and that their combination increases the number of unique peptides and proteins identified by 50%. Furthermore, we show that the number of protein identified can be increased further by up to 40% using different proteolytic enzymes on the proteomic reactor.

  5. Structure and dynamics of an imidazoline nitroxide side chain with strongly hindered internal motion in proteins

    NASA Astrophysics Data System (ADS)

    Toledo Warshaviak, Dora; Khramtsov, Valery V.; Cascio, Duilio; Altenbach, Christian; Hubbell, Wayne L.

    2013-07-01

    A disulfide-linked imidazoline nitroxide side chain (V1) has a similar and highly constrained internal motion at diverse topological sites in a protein, unlike that for the disulfide-linked pyrroline nitroxide side chain (R1) widely used in site directed spin labeling EPR. Crystal structures of V1 at two positions in a helix of T4 Lysozyme and quantum mechanical calculations suggest the source of the constraints as intra-side chain interactions of the disulfide sulfur atoms with both the protein backbone and the 3-nitrogen in the imidazoline ring. These interactions apparently limit the conformation of the side chain to one of only three possible rotamers, two of which are observed in the crystal structure. An inter-spin distance measurement in frozen solution using double electron-electron resonance (DEER) gives a value essentially identical to that determined from the crystal structure of the protein containing two copies of V1, indicating that lattice forces do not dictate the rotamers observed. Collectively, the results suggest the possibility of predetermining a unique rotamer of V1 in helical structures. In general, the reduced rotameric space of V1 compared to R1 should simplify interpretation of inter-spin distance information in terms of protein structure, while the highly constrained internal motion is expected to extend the dynamic range for characterizing large amplitude nanosecond backbone fluctuations.

  6. Cooperative folding of intrinsically disordered domains drives assembly of a strong elongated protein

    PubMed Central

    Gruszka, Dominika T.; Whelan, Fiona; Farrance, Oliver E.; Fung, Herman K. H.; Paci, Emanuele; Jeffries, Cy M.; Svergun, Dmitri I.; Baldock, Clair; Baumann, Christoph G.; Brockwell, David J.; Potts, Jennifer R.; Clarke, Jane

    2015-01-01

    Bacteria exploit surface proteins to adhere to other bacteria, surfaces and host cells. Such proteins need to project away from the bacterial surface and resist significant mechanical forces. SasG is a protein that forms extended fibrils on the surface of Staphylococcus aureus and promotes host adherence and biofilm formation. Here we show that although monomeric and lacking covalent cross-links, SasG maintains a highly extended conformation in solution. This extension is mediated through obligate folding cooperativity of the intrinsically disordered E domains that couple non-adjacent G5 domains thermodynamically, forming interfaces that are more stable than the domains themselves. Thus, counterintuitively, the elongation of the protein appears to be dependent on the inherent instability of its domains. The remarkable mechanical strength of SasG arises from tandemly arrayed ‘clamp' motifs within the folded domains. Our findings reveal an elegant minimal solution for the assembly of monomeric mechano-resistant tethers of variable length. PMID:26027519

  7. Native-sized recombinant spider silk protein produced in metabolically engineered Escherichia coli results in a strong fiber

    PubMed Central

    Xia, Xiao-Xia; Qian, Zhi-Gang; Ki, Chang Seok; Park, Young Hwan; Kaplan, David L.; Lee, Sang Yup

    2010-01-01

    Spider dragline silk is a remarkably strong fiber that makes it attractive for numerous applications. Much has thus been done to make similar fibers by biomimic spinning of recombinant dragline silk proteins. However, success is limited in part due to the inability to successfully express native-sized recombinant silk proteins (250–320 kDa). Here we show that a 284.9 kDa recombinant protein of the spider Nephila clavipes is produced and spun into a fiber displaying mechanical properties comparable to those of the native silk. The native-sized protein, predominantly rich in glycine (44.9%), was favorably expressed in metabolically engineered Escherichia coli within which the glycyl-tRNA pool was elevated. We also found that the recombinant proteins of lower molecular weight versions yielded inferior fiber properties. The results provide insight into evolution of silk protein size related to mechanical performance, and also clarify why spinning lower molecular weight proteins does not recapitulate the properties of native fibers. Furthermore, the silk expression, purification, and spinning platform established here should be useful for sustainable production of natural quality dragline silk, potentially enabling broader applications. PMID:20660779

  8. Native-sized recombinant spider silk protein produced in metabolically engineered Escherichia coli results in a strong fiber.

    PubMed

    Xia, Xiao-Xia; Qian, Zhi-Gang; Ki, Chang Seok; Park, Young Hwan; Kaplan, David L; Lee, Sang Yup

    2010-08-10

    Spider dragline silk is a remarkably strong fiber that makes it attractive for numerous applications. Much has thus been done to make similar fibers by biomimic spinning of recombinant dragline silk proteins. However, success is limited in part due to the inability to successfully express native-sized recombinant silk proteins (250-320 kDa). Here we show that a 284.9 kDa recombinant protein of the spider Nephila clavipes is produced and spun into a fiber displaying mechanical properties comparable to those of the native silk. The native-sized protein, predominantly rich in glycine (44.9%), was favorably expressed in metabolically engineered Escherichia coli within which the glycyl-tRNA pool was elevated. We also found that the recombinant proteins of lower molecular weight versions yielded inferior fiber properties. The results provide insight into evolution of silk protein size related to mechanical performance, and also clarify why spinning lower molecular weight proteins does not recapitulate the properties of native fibers. Furthermore, the silk expression, purification, and spinning platform established here should be useful for sustainable production of natural quality dragline silk, potentially enabling broader applications. PMID:20660779

  9. Synthetic lung surfactants containing SP-B and SP-C peptides plus novel phospholipase-resistant lipids or glycerophospholipids

    PubMed Central

    Notter, Robert H.; Gupta, Rohun; Schwan, Adrian L.; Wang, Zhengdong; Shkoor, Mohanad Gh

    2016-01-01

    Background This study examines the biophysical and preclinical pulmonary activity of synthetic lung surfactants containing novel phospholipase-resistant phosphonolipids or synthetic glycerophospholipids combined with Super Mini-B (S-MB) DATK and/or SP-Css ion-lock 1 peptides that replicate the functional biophysics of surfactant proteins (SP)-B and SP-C. Phospholipase-resistant phosphonolipids used in synthetic surfactants are DEPN-8 and PG-1, molecular analogs of dipalmitoyl phosphatidylcholine (DPPC) and palmitoyl-oleoyl phosphatidylglycerol (POPG), while glycerophospholipids used are active lipid components of native surfactant (DPPC:POPC:POPG 5:3:2 by weight). The objective of the work is to test whether these novel lipid/peptide synthetic surfactants have favorable preclinical activity (biophysical, pulmonary) for therapeutic use in reversing surfactant deficiency or dysfunction in lung disease or injury. Methods Surface activity of synthetic lipid/peptide surfactants was assessed in vitro at 37 °C by measuring adsorption in a stirred subphase apparatus and dynamic surface tension lowering in pulsating and captive bubble surfactometers. Shear viscosity was measured as a function of shear rate on a Wells-Brookfield micro-viscometer. In vivo pulmonary activity was determined by measuring lung function (arterial oxygenation, dynamic lung compliance) in ventilated rats and rabbits with surfactant deficiency/dysfunction induced by saline lavage to lower arterial PO2 to <100 mmHg, consistent with clinical acute respiratory distress syndrome (ARDS). Results Synthetic surfactants containing 5:3:2 DPPC:POPC:POPG or 9:1 DEPN-8:PG-1 combined with 3% (by wt) of S-MB DATK, 3% SP-Css ion-lock 1, or 1.5% each of both peptides all adsorbed rapidly to low equilibrium surface tensions and also reduced surface tension to ≤1 mN/m under dynamic compression at 37 °C. However, dual-peptide surfactants containing 1.5% S-MB DATK + 1.5% SP-Css ion-lock 1 combined with 9:1 DEPN-8

  10. Individual protein balance strongly influences δ15N and δ13C values in Nile tilapia, Oreochromis niloticus

    NASA Astrophysics Data System (ADS)

    Gaye-Siessegger, Julia; Focken, Ulfert; Abel, Hansjörg; Becker, Klaus

    Although stable isotope ratios in animals have often been used as indicators of the trophic level and for the back-calculation of diets, few experiments have been done under standardized laboratory conditions to investigate factors influencing δ15N and δ13C values. An experiment using Nile tilapia [Oreochromis niloticus (L.)] was therefore carried out to test the effect of different dietary protein contents (35.4, 42.3, and 50.9%) on δ15N and δ13C values of the whole tilapia. The fish were fed the isoenergetic and isolipidic semi-synthetic diets at a relatively low level. δ15N and δ13C values of the lipid-free body did not differ between the fish fed the diets with different protein contents, but the trophic shift for N and C isotopes decreased with increasing protein accretion in the individual fish, for N from 6.5‰ to 4‰ and for C in the lipid-free body from 4‰ to 2.5‰. This is the first study showing the strong influence of the individual protein balance to the degree to which the isotopic signature of dietary protein was modified in tissue protein of fish. The extrapolation of the trophic level or the reconstruction of the diet of an animal from stable isotope ratios without knowledge of the individual physiological condition and the feeding rate may lead to erroneous results.

  11. Protein Helical Structure Determination Using CD Spectroscopy for Solutions with Strong Background Absorbance from 190-230 nm

    PubMed Central

    Wei, Yang; Thyparambil, Aby A.; Latour, Robert A.

    2014-01-01

    Conventional empirical methods for the quantification of the helical content of proteins in solution using circular dichroism (CD) primarily rely on spectral data acquired between wavelengths of 190 to 230 nm. The presence of chemical species in a protein solution with strong absorbance within this range can interfere with the ability to use these methods for the determination of the protein’s helical structure. The objective of this research was to overcome this problem by developing a method for CD spectral analysis that relies on spectral features above this wavelength range. In this study, we determined that the slopes of CD spectra acquired over the 230 to 240 nm region strongly correlate with the helix contents including α-helix and 310-helix of protein as determined using conventional CD algorithms that rely on wavelengths between 190-230 nm. This approach (i.e., the 230-240 nm slope method) is proposed as an effective method to determine the helix content within proteins in the presence of additives such as detergents or denaturants with high absorbance of wavelengths up to 230 nm. PMID:25308773

  12. Side chain packing below the fusion peptide strongly modulates triggering of the Hendra virus F protein.

    PubMed

    Smith, Everett Clinton; Dutch, Rebecca Ellis

    2010-10-01

    Triggering of the Hendra virus fusion (F) protein is required to initiate the conformational changes which drive membrane fusion, but the factors which control triggering remain poorly understood. Mutation of a histidine predicted to lie near the fusion peptide to alanine greatly reduced fusion despite wild-type cell surface expression levels, while asparagine substitution resulted in a moderate restoration in fusion levels. Slowed kinetics of six-helix bundle formation, as judged by sensitivity to heptad repeat B-derived peptides, was observed for all H372 mutants. These data suggest that side chain packing beneath the fusion peptide is an important regulator of Hendra virus F triggering.

  13. Phylogenetically older introns strongly correlate with module boundaries in ancient proteins.

    PubMed

    Fedorov, Alexei; Roy, Scott; Cao, Xiaohong; Gilbert, Walter

    2003-06-01

    The hypothesis that some (but not all) introns were used to construct ancient genes by exon shuffling of modules at the earliest stages of evolution is supported by the finding of an excess of phase-zero intron positions in the boundary regions of such modules in 276 ancient proteins (defined as common to eukaryotes and prokaryotes). Here we show further that as phase-zero intron positions are shared by distant taxa, and thus are truly phylogenetically ancient, their excess in the boundaries becomes greater, rising to an 80% excess if shared by four out of the five taxa: vertebrates, invertebrates, fungi, plants, and protists.

  14. Bone morphogenetic protein-4 strongly potentiates growth factor-induced proliferation of mammary epithelial cells

    SciTech Connect

    Montesano, Roberto Sarkoezi, Rita; Schramek, Herbert

    2008-09-12

    Bone morphogenetic proteins (BMPs) are multifunctional cytokines that elicit pleiotropic effects on biological processes such as cell proliferation, cell differentiation and tissue morphogenesis. With respect to cell proliferation, BMPs can exert either mitogenic or anti-mitogenic activities, depending on the target cells and their context. Here, we report that in low-density cultures of immortalized mammary epithelial cells, BMP-4 did not stimulate cell proliferation by itself. However, when added in combination with suboptimal concentrations of fibroblast growth factor (FGF)-2, FGF-7, FGF-10, epidermal growth factor (EGF) or hepatocyte growth factor (HGF), BMP-4 potently enhanced growth factor-induced cell proliferation. These results reveal a hitherto unsuspected interplay between BMP-4 and growth factors in the regulation of mammary epithelial cell proliferation. We suggest that the ability of BMP-4 to potentiate the mitogenic activity of multiple growth factors may contribute to mammary gland ductal morphogenesis as well as to breast cancer progression.

  15. Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein

    PubMed Central

    Perrot-Rechenmann, Catherine; Friml, Jiří

    2016-01-01

    The Auxin Binding Protein 1 (ABP1) is one of the most studied proteins in plants. Since decades ago, it has been the prime receptor candidate for the plant hormone auxin with a plethora of described functions in auxin signaling and development. The developmental importance of ABP1 has recently been questioned by identification of Arabidopsis thaliana abp1 knock-out alleles that show no obvious phenotypes under normal growth conditions. In this study, we examined the contradiction between the normal growth and development of the abp1 knock-outs and the strong morphological defects observed in three different ethanol-inducible abp1 knock-down mutants ( abp1-AS, SS12K, SS12S). By analyzing segregating populations of abp1 knock-out vs. abp1 knock-down crosses we show that the strong morphological defects that were believed to be the result of conditional down-regulation of ABP1 can be reproduced also in the absence of the functional ABP1 protein. This data suggests that the phenotypes in  abp1 knock-down lines are due to the off-target effects and asks for further reflections on the biological function of ABP1 or alternative explanations for the missing phenotypic defects in the abp1 loss-of-function alleles. PMID:26925228

  16. Mycobacterium tuberculosis PPE protein Rv0256c induces strong B cell response in tuberculosis patients.

    PubMed

    Abraham, Philip Raj; Latha, Gaddam Suman; Valluri, Vijaya Lakshmi; Mukhopadhyay, Sangita

    2014-03-01

    Tuberculosis (TB) is one of the most important diseases of humans and major public health problem worldwide. Early and accurate diagnosis of TB is necessary for the treatment, prevention, and control of TB. Therefore, it is important to identify suitable antigens that can differentiate active tuberculosis patients from BCG-vaccinated individuals. In the present study, we have used Rv0256c (PPE2) protein of Mycobacterium tuberculosis to screen the sera of infected patients belonging to different clinical TB presentations, and BCG-vaccinated clinically healthy individuals by enzyme immunoassay. Our results demonstrated that Rv0256c displayed stronger and specific immunoreactivity against the sera obtained from clinically active tuberculosis patients compared to PPD and ESAT-6 and could differentiate the TB-patients from the BCG-vaccinated controls. Importantly, Rv0256c was also found to detect even the extrapulmonary and smear-negative pulmonary cases which often are tedious and difficult to detect using conventional diagnostic methods. This study suggests that Rv0256c can be used as a potential marker for the serodiagnosis of tuberculosis patients. PMID:23827809

  17. Identification of biomarkers for ovarian cancer using strong anion-exchange ProteinChips: potential use in diagnosis and prognosis.

    PubMed

    Kozak, Katherine R; Amneus, Malaika W; Pusey, Suzanne M; Su, Feng; Luong, Mui N; Luong, Sam A; Reddy, Srinivasa T; Farias-Eisner, Robin

    2003-10-14

    One hundred eighty-four serum samples from patients with ovarian cancer (n = 109), patients with benign tumors (n = 19), and healthy donors (n = 56) were analyzed on strong anion-exchange surfaces using surface-enhanced laser desorption/ionization time-of-flight mass spectrometry technology. Univariate and multivariate statistical analyses applied to protein-profiling data obtained from 140 training serum samples identified three biomarker protein panels. The first panel of five candidate protein biomarkers, termed the screening biomarker panel, effectively diagnosed benign and malignant ovarian neoplasia [95.7% sensitivity, 82.6% specificity, 89.2% accuracy, and receiver operating characteristic (ROC) area under the curve of 0.94]. The other two panels, consisting of five and four candidate protein biomarkers each, effectively distinguished between benign and malignant ovarian neoplasia and were therefore referred to as validation biomarker panel I (81.5% sensitivity, 94.9% specificity, 88.2% accuracy, and ROC = 0.94) and validation biomarker panel II (72.8% sensitivity, 94.9% specificity, 83.9% accuracy, and ROC = 0.90). The three ovarian cancer biomarker protein panels correctly diagnosed 41 of the 44 blinded test samples: 21 of 22 malignant ovarian neoplasias [10 of 11 early-stage ovarian cancer (I/II) and 11 of 11 advanced-stage ovarian cancer (III/IV)], 6 of 6 low malignant potential, 5 of the 6 benign tumors, and 9 of 10 normal patient samples. In conclusion, we have discovered three ovarian cancer biomarker protein panels that, when used together, effectively distinguished serum samples from healthy controls and patients with either benign or malignant ovarian neoplasia.

  18. Natural Anti-Infective Pulmonary Proteins: In Vivo Cooperative Action of Surfactant Protein SP-A and the Lung Antimicrobial Peptide SP-BN.

    PubMed

    Coya, Juan Manuel; Akinbi, Henry T; Sáenz, Alejandra; Yang, Li; Weaver, Timothy E; Casals, Cristina

    2015-08-15

    The anionic antimicrobial peptide SP-B(N), derived from the N-terminal saposin-like domain of the surfactant protein (SP)-B proprotein, and SP-A are lung anti-infective proteins. SP-A-deficient mice are more susceptible than wild-type mice to lung infections, and bacterial killing is enhanced in transgenic mice overexpressing SP-B(N). Despite their potential anti-infective action, in vitro studies indicate that several microorganisms are resistant to SP-A and SP-B(N). In this study, we test the hypothesis that these proteins act synergistically or cooperatively to strengthen each other's microbicidal activity. The results indicate that the proteins acted synergistically in vitro against SP-A- and SP-B(N)-resistant capsulated Klebsiella pneumoniae (serotype K2) at neutral pH. SP-A and SP-B(N) were able to interact in solution (Kd = 0.4 μM), which enabled their binding to bacteria with which SP-A or SP-B(N) alone could not interact. In vivo, we found that treatment of K. pneumoniae-infected mice with SP-A and SP-B(N) conferred more protection against K. pneumoniae infection than each protein individually. SP-A/SP-B(N)-treated infected mice showed significant reduction of bacterial burden, enhanced neutrophil recruitment, and ameliorated lung histopathology with respect to untreated infected mice. In addition, the concentrations of inflammatory mediators in lung homogenates increased early in infection in contrast with the weak inflammatory response of untreated K. pneumoniae-infected mice. Finally, we found that therapeutic treatment with SP-A and SP-B(N) 6 or 24 h after bacterial challenge conferred significant protection against K. pneumoniae infection. These studies show novel anti-infective pathways that could drive development of new strategies against pulmonary infections.

  19. Functional importance of the NH2-terminal insertion sequence of lung surfactant protein B

    PubMed Central

    Frey, Shelli L.; Pocivavsek, Luka; Waring, Alan J.; Walther, Frans J.; Hernandez-Juviel, Jose M.; Ruchala, Piotr

    2010-01-01

    Lung surfactant protein B (SP-B) is required for proper surface activity of pulmonary surfactant. In model lung surfactant lipid systems composed of saturated and unsaturated lipids, the unsaturated lipids are removed from the film at high compression. It is thought that SP-B helps anchor these lipids closely to the monolayer in three-dimensional cylindrical structures termed “nanosilos” seen by atomic force microscopy imaging of deposited monolayers at high surface pressures. Here we explore the role of the SP-B NH2 terminus in the formation and stability of these cylindrical structures, specifically the distribution of lipid stack height, width, and density with four SP-B truncation peptides: SP-B 1–25, SP-B 9–25, SP-B 11–25, and SP-B 1–25Nflex (prolines 2 and 4 substituted with alanine). The first nine amino acids, termed the insertion sequence and the interface seeking tryptophan residue 9, are shown to stabilize the formation of nanosilos while an increase in the insertion sequence flexibility (SP-B 1–25Nflex) may improve peptide functionality. This provides a functional understanding of the insertion sequence beyond anchoring the protein to the two-dimensional membrane lining the lung, as it also stabilizes formation of nanosilos, creating reversible repositories for fluid lipids at high compression. In lavaged, surfactant-deficient rats, instillation of a mixture of SP-B 1–25 (as a monomer or dimer) and synthetic lung lavage lipids quickly improved oxygenation and dynamic compliance, whereas SP-B 11–25 surfactants showed oxygenation and dynamic compliance values similar to that of lipids alone, demonstrating a positive correlation between formation of stable, but reversible, nanosilos and in vivo efficacy. PMID:20023175

  20. Dengue E Protein Domain III-Based DNA Immunisation Induces Strong Antibody Responses to All Four Viral Serotypes.

    PubMed

    Poggianella, Monica; Slon Campos, José L; Chan, Kuan Rong; Tan, Hwee Cheng; Bestagno, Marco; Ooi, Eng Eong; Burrone, Oscar R

    2015-01-01

    Dengue virus (DENV) infection is a major emerging disease widely distributed throughout the tropical and subtropical regions of the world affecting several millions of people. Despite constants efforts, no specific treatment or effective vaccine is yet available. Here we show a novel design of a DNA immunisation strategy that resulted in the induction of strong antibody responses with high neutralisation titres in mice against all four viral serotypes. The immunogenic molecule is an engineered version of the domain III (DIII) of the virus E protein fused to the dimerising CH3 domain of the IgG immunoglobulin H chain. The DIII sequences were also codon-optimised for expression in mammalian cells. While DIII alone is very poorly secreted, the codon-optimised fusion protein is rightly expressed, folded and secreted at high levels, thus inducing strong antibody responses. Mice were immunised using gene-gun technology, an efficient way of intradermal delivery of the plasmid DNA, and the vaccine was able to induce neutralising titres against all serotypes. Additionally, all sera showed reactivity to a recombinant DIII version and the recombinant E protein produced and secreted from mammalian cells in a mono-biotinylated form when tested in a conformational ELISA. Sera were also highly reactive to infective viral particles in a virus-capture ELISA and specific for each serotype as revealed by the low cross-reactive and cross-neutralising activities. The serotype specific sera did not induce antibody dependent enhancement of infection (ADE) in non-homologous virus serotypes. A tetravalent immunisation protocol in mice showed induction of neutralising antibodies against all four dengue serotypes as well.

  1. Dengue E Protein Domain III-Based DNA Immunisation Induces Strong Antibody Responses to All Four Viral Serotypes

    PubMed Central

    Chan, Kuan Rong; Tan, Hwee Cheng; Bestagno, Marco; Ooi, Eng Eong; Burrone, Oscar R.

    2015-01-01

    Dengue virus (DENV) infection is a major emerging disease widely distributed throughout the tropical and subtropical regions of the world affecting several millions of people. Despite constants efforts, no specific treatment or effective vaccine is yet available. Here we show a novel design of a DNA immunisation strategy that resulted in the induction of strong antibody responses with high neutralisation titres in mice against all four viral serotypes. The immunogenic molecule is an engineered version of the domain III (DIII) of the virus E protein fused to the dimerising CH3 domain of the IgG immunoglobulin H chain. The DIII sequences were also codon-optimised for expression in mammalian cells. While DIII alone is very poorly secreted, the codon-optimised fusion protein is rightly expressed, folded and secreted at high levels, thus inducing strong antibody responses. Mice were immunised using gene-gun technology, an efficient way of intradermal delivery of the plasmid DNA, and the vaccine was able to induce neutralising titres against all serotypes. Additionally, all sera showed reactivity to a recombinant DIII version and the recombinant E protein produced and secreted from mammalian cells in a mono-biotinylated form when tested in a conformational ELISA. Sera were also highly reactive to infective viral particles in a virus-capture ELISA and specific for each serotype as revealed by the low cross-reactive and cross-neutralising activities. The serotype specific sera did not induce antibody dependent enhancement of infection (ADE) in non-homologous virus serotypes. A tetravalent immunisation protocol in mice showed induction of neutralising antibodies against all four dengue serotypes as well. PMID:26218926

  2. The C-terminal domain of the Arabidopsis AtMBD7 protein confers strong chromatin binding activity

    SciTech Connect

    Zemach, Assaf; Paul, Laju K.; Stambolsky, Perry; Efroni, Idan; Rotter, Varda; Grafi, Gideon

    2009-12-10

    The Arabidopsis MBD7 (AtMBD7) - a naturally occurring poly MBD protein - was previously found to be functional in binding methylated-CpG dinucleotides in vitro and localized to highly methylated chromocenters in vivo. Furthermore, AtMBD7 has significantly lower mobility within the nucleus conferred by cooperative activity of its three MBD motifs. Here we show that besides the MBD motifs, AtMBD7 possesses a strong chromatin binding domain located at its C-terminus designated sticky-C (StkC). Mutational analysis showed that a glutamic acid residue near the C-terminus is essential though not sufficient for the StkC function. Further analysis demonstrated that this motif can render nuclear proteins highly immobile both in plant and animal cells, without affecting their native subnuclear localization. Thus, the C-terminal, StkC motif plays an important role in fastening AtMBD7 to its chromosomal, CpG-methylated sites. It may be possible to utilize this motif for fastening nuclear proteins to their chromosomal sites both in plant and animal cells for research and gene therapy applications.

  3. Draft Genome Sequence of the Fungus Paraphoma sp. B47-9, a Producer of a Biodegradable Plastic–Degrading Enzyme

    PubMed Central

    Sameshima-Yamashita, Yuka; Koike, Hideaki; Koitabashi, Motoo; Saika, Azusa; Morita, Tomotake; Yarimizu, Tohru

    2016-01-01

    Paraphoma sp. B47-9 is a producer of a biodegradable plastic–degrading enzyme. Here, we report the draft genome sequence of this strain. The draft genome assembly has a size of 39.3 Mb with a GC content of 52.4% and consists of 185 scaffolds. PMID:27795277

  4. Prion protein gene (PRNP) variants and evidence for strong purifying selection in functionally important regions of bovine exon 3

    PubMed Central

    Seabury, Christopher M.; Honeycutt, Rodney L.; Rooney, Alejandro P.; Halbert, Natalie D.; Derr, James N.

    2004-01-01

    Amino acid replacements encoded by the prion protein gene (PRNP) have been associated with transmissible and hereditary spongiform encephalopathies in mammalian species. However, an association between bovine spongiform encephalopathy (BSE) and bovine PRNP exon 3 has not been detected. Moreover, little is currently known regarding the mechanisms of evolution influencing the bovine PRNP gene. Therefore, in this study we evaluated the patterns of nucleotide variation associated with PRNP exon 3 for 36 breeds of domestic cattle and representative samples for 10 additional species of Bovinae. The results of our study indicate that strong purifying selection has intensely constrained PRNP over the long-term evolutionary history of the subfamily Bovinae, especially in regions considered to be of functional, structural, and pathogenic importance in humans as well as other mammals. The driving force behind this intense level of purifying selection remains to be explained. PMID:15477588

  5. Elongation Factor Tu and Heat Shock Protein 70 Are Membrane-Associated Proteins from Mycoplasma ovipneumoniae Capable of Inducing Strong Immune Response in Mice.

    PubMed

    Jiang, Fei; He, Jinyan; Navarro-Alvarez, Nalu; Xu, Jian; Li, Xia; Li, Peng; Wu, Wenxue

    2016-01-01

    Chronic non-progressive pneumonia, a disease that has become a worldwide epidemic has caused considerable loss to sheep industry. Mycoplasma ovipneumoniae (M. ovipneumoniae) is the causative agent of interstitial pneumonia in sheep, goat and bighorn. We here have identified by immunogold and immunoblotting that elongation factor Tu (EF-Tu) and heat shock protein 70 (HSP 70) are membrane-associated proteins on M. ovipneumonaiea. We have evaluated the humoral and cellular immune responses in vivo by immunizing BALB/c mice with both purified recombinant proteins rEF-Tu and rHSP70. The sera of both rEF-Tu and rHSP70 treated BALB/c mice demonstrated increased levels of IgG, IFN-γ, TNF-α, IL-12(p70), IL-4, IL-5 and IL-6. In addition, ELISPOT assay showed significant increase in IFN-γ+ secreting lymphocytes in the rHSP70 group when compared to other groups. Collectively our study reveals that rHSP70 induces a significantly better cellular immune response in mice, and may act as a Th1 cytokine-like adjuvant in immune response induction. Finally, growth inhibition test (GIT) of M. ovipneumoniae strain Y98 showed that sera from rHSP70 or rEF-Tu-immunized mice inhibited in vitro growth of M. ovipneumoniae. Our data strongly suggest that EF-Tu and HSP70 of M. ovipneumoniae are membrane-associated proteins capable of inducing antibody production, and cytokine secretion. Therefore, these two proteins may be potential candidates for vaccine development against M. ovipneumoniae infection in sheep.

  6. Elongation Factor Tu and Heat Shock Protein 70 Are Membrane-Associated Proteins from Mycoplasma ovipneumoniae Capable of Inducing Strong Immune Response in Mice

    PubMed Central

    Jiang, Fei; He, Jinyan; Navarro-Alvarez, Nalu; Xu, Jian; Li, Xia; Li, Peng; Wu, Wenxue

    2016-01-01

    Chronic non-progressive pneumonia, a disease that has become a worldwide epidemic has caused considerable loss to sheep industry. Mycoplasma ovipneumoniae (M. ovipneumoniae) is the causative agent of interstitial pneumonia in sheep, goat and bighorn. We here have identified by immunogold and immunoblotting that elongation factor Tu (EF-Tu) and heat shock protein 70 (HSP 70) are membrane-associated proteins on M. ovipneumonaiea. We have evaluated the humoral and cellular immune responses in vivo by immunizing BALB/c mice with both purified recombinant proteins rEF-Tu and rHSP70. The sera of both rEF-Tu and rHSP70 treated BALB/c mice demonstrated increased levels of IgG, IFN-γ, TNF-α, IL-12(p70), IL-4, IL-5 and IL-6. In addition, ELISPOT assay showed significant increase in IFN-γ+ secreting lymphocytes in the rHSP70 group when compared to other groups. Collectively our study reveals that rHSP70 induces a significantly better cellular immune response in mice, and may act as a Th1 cytokine-like adjuvant in immune response induction. Finally, growth inhibition test (GIT) of M. ovipneumoniae strain Y98 showed that sera from rHSP70 or rEF-Tu-immunized mice inhibited in vitro growth of M. ovipneumoniae. Our data strongly suggest that EF-Tu and HSP70 of M. ovipneumoniae are membrane-associated proteins capable of inducing antibody production, and cytokine secretion. Therefore, these two proteins may be potential candidates for vaccine development against M. ovipneumoniae infection in sheep. PMID:27537186

  7. Elongation Factor Tu and Heat Shock Protein 70 Are Membrane-Associated Proteins from Mycoplasma ovipneumoniae Capable of Inducing Strong Immune Response in Mice.

    PubMed

    Jiang, Fei; He, Jinyan; Navarro-Alvarez, Nalu; Xu, Jian; Li, Xia; Li, Peng; Wu, Wenxue

    2016-01-01

    Chronic non-progressive pneumonia, a disease that has become a worldwide epidemic has caused considerable loss to sheep industry. Mycoplasma ovipneumoniae (M. ovipneumoniae) is the causative agent of interstitial pneumonia in sheep, goat and bighorn. We here have identified by immunogold and immunoblotting that elongation factor Tu (EF-Tu) and heat shock protein 70 (HSP 70) are membrane-associated proteins on M. ovipneumonaiea. We have evaluated the humoral and cellular immune responses in vivo by immunizing BALB/c mice with both purified recombinant proteins rEF-Tu and rHSP70. The sera of both rEF-Tu and rHSP70 treated BALB/c mice demonstrated increased levels of IgG, IFN-γ, TNF-α, IL-12(p70), IL-4, IL-5 and IL-6. In addition, ELISPOT assay showed significant increase in IFN-γ+ secreting lymphocytes in the rHSP70 group when compared to other groups. Collectively our study reveals that rHSP70 induces a significantly better cellular immune response in mice, and may act as a Th1 cytokine-like adjuvant in immune response induction. Finally, growth inhibition test (GIT) of M. ovipneumoniae strain Y98 showed that sera from rHSP70 or rEF-Tu-immunized mice inhibited in vitro growth of M. ovipneumoniae. Our data strongly suggest that EF-Tu and HSP70 of M. ovipneumoniae are membrane-associated proteins capable of inducing antibody production, and cytokine secretion. Therefore, these two proteins may be potential candidates for vaccine development against M. ovipneumoniae infection in sheep. PMID:27537186

  8. Cloning, expression and biochemical characterization of a β-carbonic anhydrase from the soil bacterium Enterobacter sp. B13.

    PubMed

    Eminoğlu, Ayşenur; Vullo, Daniela; Aşık, Aycan; Çolak, Dilşat Nigar; Supuran, Claudiu T; Çanakçı, Sabriye; Osman Beldüz, Ali

    2016-12-01

    A recombinant carbonic anhydrase (CA, EC 4.2.1.1) from the soil-dwelling bacterium Enterobacter sp. B13 was cloned and purified by Co(2+) affinity chromatography. Bioinformatic analysis showed that the new enzyme (denominated here B13-CA) belongs to the β-class CAs and to possess 95% homology with the ortholog enzyme from Escherichia coli encoded by the can gene, whereas its sequence homology with the other such enzyme from E. coli (encoded by the cynT gene) was of 33%. B13-CA was characterized kinetically as a catalyst for carbon dioxide hydration to bicarbonate and protons. The enzyme shows a significant catalytic activity, with the following kinetic parameters at 20 °C and pH of 8.3: kcat of 4.8 × 10(5) s(-1) and kcat/Km of 5.6 × 10(7) M(-1) × s(-1). This activity was potently inhibited by acetazolamide which showed a KI of 78.9 nM. Although only this compound was investigated for the moment as B13-CA inhibitor, further studies may reveal new classes of inhibitors/activators of this enzyme which may show biomedical or environmental applications, considering the posssible role of this enzyme in CaCO3 biomineralization processes. PMID:26497870

  9. Unexpectedly strong energy stabilization inside the hydrophobic core of small protein rubredoxin mediated by aromatic residues: correlated ab initio quantum chemical calculations.

    PubMed

    Vondrásek, Jirí; Bendová, Lada; Klusák, Vojtech; Hobza, Pavel

    2005-03-01

    The formation of a hydrophobic core of globular proteins is believed to be the consequence of exterior hydrophobic forces of entropic nature. This, together with the low occurrence of hydrogen bonds in the protein core, leads to the opinion that the energy contribution of core formation to protein folding and stability is negligible. We show that stabilization inside the hydrophobic core of a small protein, rubredoxin, determined by means of high-level correlated ab initio calculations (complete basis set limit of MP2 stabilization energy + CCSD(T) correction term), amounted to approximately 50 kcal/mol. These results clearly demonstrate strong attraction inside a hydrophobic core. This finding may lead to substantial changes in the current view of protein folding. We also point out the inability of the DFT/B3LYP method to describe a strong attraction between studied amino acids.

  10. Lipid oxidation in trout muscle is strongly inhibited by a protein that specifically binds hemin released from hemoglobin

    PubMed Central

    Cai, He; Grunwald, Eric W; Park, Sungyong; Lei, Benfang; Richards, Mark P.

    2013-01-01

    The recombinant Streptococcal protein apoShp can be used as a probe for hemoglobin (Hb) reactivity in fish muscle due to its specific affinity for hemin that is released from Hb at post mortem pH values. Hemin affinity measurements indicated that apoShp binds hemin released from Hb but not myoglobin (Mb). Hemin affinity of holoShp was higher at pH 5.7 compared to pH 8.0. This may be attributed to enhanced electrostatic interaction of His58 with the heme-7-propionate at lower pH. ApoShp readily acquired hemin that was released from trout IV metHb in the presence of washed cod muscle during 2°C storage at pH 6.3. This was based on increases in redness in the washed cod matrix which occurs when apoShp binds hemin that is released from metHb. ApoShp prevented Hb-mediated lipid oxidation in washed cod muscle during 2°C storage. The prevention of Hb-mediated lipid oxidation by apoShp was likely due to bis-methionyl coordination of hemin that dissociated from metHb. This hexa-coordination of hemin appears to prevent peroxide-mediated redox reactions and there is no component in the matrix capable of dissociating hemin from Shp. ApoShp was also added to minced muscle from Rainbow trout (Oncorhynchus mykiss) to examine the degree to which Hb contributes to lipid oxidation in trout muscle. Addition of apoShp inhibited approximately 90% of the lipid oxidation that occurred in minced trout muscle during 9 days of 2°C storage based on lipid peroxide, hexanal, and thiobarituric acid reactive substances (TBARS) values. These results strongly suggest that Hb is the primary promoter of lipid oxidation in trout muscle. PMID:23570608

  11. Identification of two homologous mitochondrial DNA sequences, which bind strongly and specifically to a mitochondrial protein of Paracentrotus lividus.

    PubMed Central

    Roberti, M; Mustich, A; Gadaleta, M N; Cantatore, P

    1991-01-01

    Using a combination of band shift and DNasel protection experiments, two Paracentrotus lividus mitochondrial sequences, able to bind tightly and selectively to a mitochondrial protein from sea urchin embryos, have been found. The two sequences, which compete with each other for binding to the protein, are located in two genome regions which are thought to contain regulatory signals for mitochondrial replication and transcription. A computer analysis suggests that the sequence TTTTRTANNTCYYATCAYA, common to the two binding regions, is the minimal recognition signal for the binding to the protein. We discuss the hypothesis that the protein binding capacity of these two sequences is involved in the control of sea urchin mtDNA replication during developmental stages. Images PMID:1956785

  12. Strong improvement of interfacial properties can result from slight structural modifications of proteins: the case of native and dry-heated lysozyme.

    PubMed

    Desfougères, Yann; Saint-Jalmes, Arnaud; Salonen, Anniina; Vié, Véronique; Beaufils, Sylvie; Pezennec, Stéphane; Desbat, Bernard; Lechevalier, Valérie; Nau, Françoise

    2011-12-20

    Identification of the key physicochemical parameters of proteins that determine their interfacial properties is still incomplete and represents a real stake challenge, especially for food proteins. Many studies have thus consisted in comparing the interfacial behavior of different proteins, but it is difficult to draw clear conclusions when the molecules are completely different on several levels. Here the adsorption process of a model protein, the hen egg-white lysozyme, and the same protein that underwent a thermal treatment in the dry state, was characterized. The consequences of this treatment have been previously studied: net charge and hydrophobicity increase and lesser protein stability, but no secondary and tertiary structure modification (Desfougères, Y.; Jardin, J.; Lechevalier, V.; Pezennec, S.; Nau, F. Biomacromolecules 2011, 12, 156-166). The present study shows that these slight modifications dramatically increase the interfacial properties of the protein, since the adsorption to the air-water interface is much faster and more efficient (higher surface pressure). Moreover, a thick and strongly viscoelastic multilayer film is created, while native lysozyme adsorbs in a fragile monolayer film. Another striking result is that completely different behaviors were observed between two molecular species, i.e., native and native-like lysozyme, even though these species could not be distinguished by usual spectroscopic methods. This suggests that the air-water interface could be considered as a useful tool to reveal very subtle differences between protein molecules. PMID:22040020

  13. Hypoxia Strongly Affects Mitochondrial Ribosomal Proteins and Translocases, as Shown by Quantitative Proteomics of HeLa Cells

    PubMed Central

    Bousquet, Paula A.; Sandvik, Joe Alexander; Arntzen, Magnus Ø.; Jeppesen Edin, Nina F.; Christoffersen, Stine; Krengel, Ute; Pettersen, Erik O.; Thiede, Bernd

    2015-01-01

    Hypoxia is an important and common characteristic of many human tumors. It is a challenge clinically due to the correlation with poor prognosis and resistance to radiation and chemotherapy. Understanding the biochemical response to hypoxia would facilitate the development of novel therapeutics for cancer treatment. Here, we investigate alterations in gene expression in response to hypoxia by quantitative proteome analysis using stable isotope labeling with amino acids in cell culture (SILAC) in conjunction with LCMS/MS. Human HeLa cells were kept either in a hypoxic environment or under normoxic conditions. 125 proteins were found to be regulated, with maximum alteration of 18-fold. In particular, three clusters of differentially regulated proteins were identified, showing significant upregulation of glycolysis and downregulation of mitochondrial ribosomal proteins and translocases. This interaction is likely orchestrated by HIF-1. We also investigated the effect of hypoxia on the cell cycle, which shows accumulation in G1 and a prolonged S phase under these conditions. Implications. This work not only improves our understanding of the response to hypoxia, but also reveals proteins important for malignant progression, which may be targeted in future therapies. PMID:26421188

  14. Structural Insights into the Unusually Strong ATPase Activity of the AAA Domain of the Caenorhabditis elegans Fidgetin-like 1 (FIGL-1) Protein*

    PubMed Central

    Peng, Wentao; Lin, Zhijie; Li, Weirong; Lu, Jing; Shen, Yuequan; Wang, Chunguang

    2013-01-01

    The FIGL-1 (fidgetin like-1) protein is a homolog of fidgetin, a protein whose mutation leads to multiple developmental defects. The FIGL-1 protein contains an AAA (ATPase associated with various activities) domain and belongs to the AAA superfamily. However, the biological functions and developmental implications of this protein remain unknown. Here, we show that the AAA domain of the Caenorhabditis elegans FIGL-1 protein (CeFIGL-1-AAA), in clear contrast to homologous AAA domains, has an unusually high ATPase activity and forms a hexamer in solution. By determining the crystal structure of CeFIGL-1-AAA, we found that the loop linking helices α9 and α10 folds into the short helix α9a, which has an acidic surface and interacts with a positively charged surface of the neighboring subunit. Disruption of this charge interaction by mutagenesis diminishes both the ATPase activity and oligomerization capacity of the protein. Interestingly, the acidic residues in helix α9a of CeFIGL-1-AAA are not conserved in other homologous AAA domains that have relatively low ATPase activities. These results demonstrate that the sequence of CeFIGL-1-AAA has adapted to establish an intersubunit charge interaction, which contributes to its strong oligomerization and ATPase activity. These unique properties of CeFIGL-1-AAA distinguish it from other homologous proteins, suggesting that CeFIGL-1 may have a distinct biological function. PMID:23979136

  15. Novel Halomonas sp. B15 isolated from Larnaca Salt Lake in Cyprus that generates vanillin and vanillic acid from ferulic acid.

    PubMed

    Vyrides, Ioannis; Agathangelou, Maria; Dimitriou, Rodothea; Souroullas, Konstantinos; Salamex, Anastasia; Ioannou, Aristostodimos; Koutinas, Michalis

    2015-08-01

    Vanillin is a high value added product with many applications in the food, fragrance and pharmaceutical industries. A natural and low-cost method to produce vanillin is by microbial bioconversions through ferulic acid. Until now, limited microorganisms have been found capable of bioconverting ferulic acid to vanillin at high yield. This study aimed to screen halotolerant strains of bacteria from Larnaca Salt Lake which generate vanillin and vanillic acid from ferulic acid. From a total of 50 halotolenant/halophilic strains 8 grew in 1 g/L ferulic acid and only 1 Halomonas sp. B15 and 3 Halomonas elognata strains were capable of bioconverting ferulic acid to vanillic acid at 100 g NaCl/L. The highest vanillic acid (365 mg/L) at these conditions generated by Halomonas sp. B15 which corresponds to ferulic acid bioconversion yield of 36.5%. Using the resting cell technique with an initial ferulic acid concentration of 0.5 g/L at low salinity, the highest production of vanillin (245 mg/L) took place after 48 h, corresponding to a bioconversion yield of 49%. This is the first reported Halomonas sp. with high yield of vanillin production from ferulic acid at low salinity.

  16. Crystallization and preliminary X-ray analysis of the complex of NADH and 3α-hydroxysteroid dehydrogenase from Pseudomonas sp. B-0831

    SciTech Connect

    Kataoka, Sachiyo; Nakamura, Shota; Ohkubo, Tadayasu; Ueda, Shigeru; Uchiyama, Susumu; Kobayashi, Yuji; Oda, Masayuki

    2006-06-01

    The complex of NADH and 3α-HSD from Pseudomonas sp. B-0831 has been crystallized and X-ray diffraction data have been collected to 1.8 Å resolution. The NAD(P){sup +}-dependent enzyme 3α-hydroxysteroid dehydrogenase (3α-HSD) catalyzes the reversible interconversion of hydroxyl and oxo groups at position 3 of the steroid nucleus. The complex of NADH and 3α-HSD from Pseudomonas sp. B-0831 was crystallized by the hanging-drop vapour-diffusion method. Refinement of crystallization conditions with microseeding improved the quality of the X-ray diffraction data to a resolution of 1.8 Å. The crystals belonged to the orthorhombic space group P2{sub 1}2{sub 1}2{sub 1}, with unit-cell parameters a = 62.46, b = 82.25, c = 86.57 Å, and contained two molecules, reflecting dimer formation of 3α-HSD, in the asymmetric unit.

  17. Strong Antibody Responses to Mycobacterium tuberculosis PE-PGRS62 Protein Are Associated with Latent and Active Tuberculosis▿

    PubMed Central

    Koh, Kah Wee; Soh, Shu E; Seah, Geok Teng

    2009-01-01

    Mycobacterium tuberculosis has a unique family of PE-PGRS proteins with conserved N-terminal domains (PE) containing site-specific proline-glutamine residues and polymorphic GC-rich repetitive sequences (PGRS). Tuberculosis (TB) patients produce antibodies against some such proteins, but it is not clear whether these responses correlate with disease. Clinical groups with different mycobacterium exposure were studied for their seroreactivity to PE-PGRS17 and PE-PGRS62 proteins and their respective PE domains. There were minimal antibody responses against both PE domains and full-length PE-PGRS17, even in patients with active TB. However, patients with active and latent TB showed significantly higher PE-PGRS62-specific immunoglobulin G antibody responses than treated TB patients and mycobacterium-reactive TB contacts without latent infection. Latently infected persons had high anti-PE-PGRS62 responses but low responses to the 38-kDa antigen commonly used for TB serology, while treated TB cases showed the opposite response. Thus, patterns of seroreactivity to PE-PGRS62 correlate with clinical status and are associated with latent TB infection. PMID:19487480

  18. Investigations of ultrafast ligand rebinding to heme and heme proteins using temperature and strong magnetic field perturbations

    NASA Astrophysics Data System (ADS)

    Zhang, Zhenyu

    This thesis is written to summarize investigations of the mechanisms that underlie the kinetics of diatomic ligand rebinding to the iron atom of the heme group, which is chelated inside heme proteins. The family of heme proteins is a major object of studies for several branches of scientific research activity. Understanding the ligand binding mechanisms and pathways is one of the major goals for biophysics. My interests mainly focus on the physics of this ligand binding process. Therefore, to investigate the problem, isolated from the influence of the protein matrix, Fe-protophorphyrin IX is chosen as the prototype system in my studies. Myoglobin, the most extensively and intensively studied protein, is another ideal system that allows coupling the protein polypeptide matrix into the investigation. A technique to synchro-lock two laser pulse trains electronically is applied to our pump-probe spectroscopic studies. Based on this technique, a two color, fs/ps pump-probe system is developed which extends the temporal window for our investigation to 13ns and fills a gap existing in previous pump-probe investigations. In order to apply this newly-developed pump-probe laser system to implement systematic studies on the kinetics of diatomic ligand (NO, CO, O2) rebinding to heme and heme proteins, several experimental setups are utilized. In Chapter 1, the essential background knowledge, which helps to understand the iron-ligand interaction, is briefly described. In Chapter 2, in addition to a description of the preparation protocols of protein samples and details of the method for data analysis, three home-made setups are described, which include: a picosecond laser regenerative amplifier, a pump-probe application along the bore (2-inch in diameter) of a superconducting magnet and a temperature-controllable cryostat for spinning sample cell. Chapter 3 presents high magnetic field studies of several heme-ligand or protein-ligand systems. Pump-probe spectroscopy is used to

  19. Characterization of Strong Promoters from an Environmental Flavobacterium hibernum Strain by Using a Green Fluorescent Protein-Based Reporter System▿

    PubMed Central

    Chen, S.; Bagdasarian, M.; Kaufman, M. G.; Walker, E. D.

    2007-01-01

    We developed techniques for the genetic manipulation of Flavobacterium species and used it to characterize several promoters found in these bacteria. Our studies utilized Flavobacterium hibernum strain W22, an environmental strain we isolated from tree hole habitats of mosquito larvae. Plasmids from F. hibernum strain W22 were more efficiently (∼1,250-fold) transferred by electroporation into F. hibernum strain W22 than those isolated from Escherichia coli, thus indicating that an efficient restriction barrier exists between these species. The strong promoter, tac, functional in proteobacteria, did not function in Flavobacterium strains. Therefore, a promoter-trap plasmid, pSCH03, containing a promoterless gfpmut3 gene was constructed. A library of 9,000 clones containing chromosomal fragments of F. hibernum strain W22 in pSCH03 was screened for their ability to drive expression of the promoterless gfpmut3 gene. Twenty strong promoters were used for further study. The transcription start points were determined from seven promoter clones by the 5′ rapid amplification of cDNA ends technique. Promoter consensus sequences from Flavobacterium were identified as TAnnTTTG and TTG, where n is any nucleotide, centered approximately 7 and 33 bp upstream of the transcription start site, respectively. A putative novel ribosome binding site consensus sequence is proposed as TAAAA by aligning the 20-bp regions upstream of the translational start site in 25 genes. Our primary results demonstrate that at least some promoter and ribosome binding site motifs of Flavobacterium strains are unusual within the bacterial domain and suggest an early evolutionary divergence of this bacterial group. The techniques presented here allow for more detailed genetics-based studies and analyses of Flavobacterium species in the environment. PMID:17189449

  20. Molecular energy dissipation in nanoscale networks of Dentin Matrix Protein 1 is strongly dependent on ion valence

    PubMed Central

    Adams, J; Fantner, G E; Fisher, L W; Hansma, P K

    2008-01-01

    The fracture resistance of biomineralized tissues such as bone, dentin, and abalone is greatly enhanced through the nanoscale interactions of stiff inorganic mineral components with soft organic adhesive components. A proper understanding of the interactions that occur within the organic component, and between the organic and inorganic components, is therefore critical for a complete understanding of the mechanics of these tissues. In this paper, we use Atomic Force Microscope (AFM) force spectroscopy and dynamic force spectroscopy to explore the effect of ionic interactions within a nanoscale system consisting of networks of Dentin Matrix Protein 1 (DMP1) (a component of both bone and dentin organic matrix), a mica surface, and an AFM tip. We find that DMP1 is capable of dissipating large amounts of energy through an ion-mediated mechanism, and that the effectiveness increases with increasing ion valence. PMID:18843380

  1. Molecular energy dissipation in nanoscale networks of dentin matrix protein 1 is strongly dependent on ion valence

    NASA Astrophysics Data System (ADS)

    Adams, J.; Fantner, G. E.; Fisher, L. W.; Hansma, P. K.

    2008-09-01

    The fracture resistance of biomineralized tissues such as bone, dentin, and abalone is greatly enhanced through the nanoscale interactions of stiff inorganic mineral components with soft organic adhesive components. A proper understanding of the interactions that occur within the organic component, and between the organic and inorganic components, is therefore critical for a complete understanding of the mechanics of these tissues. In this paper, we use atomic force microscope (AFM) force spectroscopy and dynamic force spectroscopy to explore the effect of ionic interactions within a nanoscale system consisting of networks of dentin matrix protein 1 (DMP1) (a component of both bone and dentin organic matrix), a mica surface and an AFM tip. We find that DMP1 is capable of dissipating large amounts of energy through an ion-mediated mechanism, and that the effectiveness increases with increasing ion valence.

  2. Strong Interaction

    SciTech Connect

    Karsch, F.; Vogelsang, V.

    2009-09-29

    We will give here an overview of our theory of the strong interactions, Quantum Chromo Dynamics (QCD) and its properties. We will also briefly review the history of the study of the strong interactions, and the discoveries that ultimately led to the formulation of QCD. The strong force is one of the four known fundamental forces in nature, the others being the electromagnetic, the weak and the gravitational force. The strong force, usually referred to by scientists as the 'strong interaction', is relevant at the subatomic level, where it is responsible for the binding of protons and neutrons to atomic nuclei. To do this, it must overcome the electric repulsion between the protons in an atomic nucleus and be the most powerful force over distances of a few fm (1fm=1 femtometer=1 fermi=10{sup -15}m), the typical size of a nucleus. This property gave the strong force its name.

  3. An alternatively spliced surfactant protein B mRNA in normal human lung: disease implication.

    PubMed Central

    Lin, Z; Wang, G; Demello, D E; Floros, J

    1999-01-01

    We identified an alternatively-spliced surfactant protein B (SP-B) mRNA from normal human lung with a 12 nt deletion at the beginning of exon 8. This deletion causes a loss of four amino acids in the SP-B precursor protein. Sequence comparison of the 3' splice sites reveals only one difference in the frequency of U/C in the 11 predominantly-pyrimidine nucleotide tract, 73% for the normal and 45% for the alternatively-spliced SP-B mRNA (77-99% for the consensus sequence). Analysis of SP-B mRNA in lung indicates that the abundance of the alternatively-spliced form is very low and varies among individuals. Although the relative abundance of the deletion form of SP-B mRNA remains constant among normal lungs, it is found with relatively higher abundance in the lungs of some individuals with diseases such as congenital alveolar proteinosis, respiratory distress syndrome, bronchopulmonary dysplasia, alveolar capillary dysplasia and hypophosphatasia. This observation points to the possibility that the alternative splicing is a potential regulatory mechanism of SP-B and may play a role in the pathogenesis of disease under certain circumstances. PMID:10493923

  4. Mercury (II) removal by resistant bacterial isolates and mercuric (II) reductase activity in a new strain of Pseudomonas sp. B50A.

    PubMed

    Giovanella, Patricia; Cabral, Lucélia; Bento, Fátima Menezes; Gianello, Clesio; Camargo, Flávio Anastácio Oliveira

    2016-01-25

    This study aimed to isolate mercury resistant bacteria, determine the minimum inhibitory concentration for Hg, estimate mercury removal by selected isolates, explore the mer genes, and detect and characterize the activity of the enzyme mercuric (II) reductase produced by a new strain of Pseudomonas sp. B50A. The Hg removal capacity of the isolates was determined by incubating the isolates in Luria Bertani broth and the remaining mercury quantified by atomic absorption spectrophotometry. A PCR reaction was carried out to detect the merA gene and the mercury (II) reductase activity was determined in a spectrophotometer at 340 nm. Eight Gram-negative bacterial isolates were resistant to high mercury concentrations and capable of removing mercury, and of these, five were positive for the gene merA. The isolate Pseudomonas sp. B50A removed 86% of the mercury present in the culture medium and was chosen for further analysis of its enzyme activity. Mercuric (II) reductase activity was detected in the crude extract of this strain. This enzyme showed optimal activity at pH 8 and at temperatures between 37 °C and 45 °C. The ions NH4(+), Ba(2+), Sn(2+), Ni(2+) and Cd(2+) neither inhibited nor stimulated the enzyme activity but it decreased in the presence of the ions Ca(2+), Cu(+) and K(+). The isolate and the enzyme detected were effective in reducing Hg(II) to Hg(0), showing the potential to develop bioremediation technologies and processes to clean-up the environment and waste contaminated with mercury.

  5. Decreases in procalcitonin and C-reactive protein are strong predictors of survival in ventilator-associated pneumonia

    PubMed Central

    Seligman, Renato; Meisner, Michael; Lisboa, Thiago C; Hertz, Felipe T; Filippin, Tania B; Fachel, Jandyra MG; Teixeira, Paulo JZ

    2006-01-01

    Introduction This study sought to assess the prognostic value of the kinetics of procalcitonin (PCT), C-reactive protein (CRP) and clinical scores (clinical pulmonary infection score (CPIS), Sequential Organ Failure Assessment (SOFA)) in the outcome of ventilator-associated pneumonia (VAP) at an early time point, when adequacy of antimicrobial treatment is evaluated. Methods This prospective observational cohort study was conducted in a teaching hospital. The subjects were 75 patients consecutively admitted to the intensive care unit from October 2003 to August 2005 who developed VAP. Patients were followed for 28 days after the diagnosis, when they were considered survivors. Patients who died before the 28th day were non-survivors. There were no interventions. Results PCT, CRP and SOFA score were determined on day 0 and day 4. Variables included in the univariable logistic regression model for survival were age, Acute Physiology and Chronic Health Evaluation (APACHE) II score, decreasing ΔSOFA, decreasing ΔPCT and decreasing ΔCRP. Survival was directly related to decreasing ΔPCT with odds ratio (OR) = 5.67 (95% confidence interval 1.78 to 18.03), decreasing ΔCRP with OR = 3.78 (1.24 to 11.50), decreasing ΔSOFA with OR = 3.08 (1.02 to 9.26) and APACHE II score with OR = 0.92 (0.86 to 0.99). In a multivariable logistic regression model for survival, only decreasing ΔPCT with OR = 4.43 (1.08 to 18.18) and decreasing ΔCRP with OR = 7.40 (1.58 to 34.73) remained significant. Decreasing ΔCPIS was not related to survival (p = 0.59). There was a trend to correlate adequacy to survival. Fifty percent of the 20 patients treated with inadequate antibiotics and 65.5% of the 55 patients on adequate antibiotics survived (p = 0.29). Conclusion Measurement of PCT and CRP at onset and on the fourth day of treatment can predict survival of VAP patients. A decrease in either one of these marker values predicts survival. PMID:16956405

  6. AdoMet radical proteins--from structure to evolution--alignment of divergent protein sequences reveals strong secondary structure element conservation.

    PubMed

    Nicolet, Yvain; Drennan, Catherine L

    2004-01-01

    Eighteen subclasses of S-adenosyl-l-methionine (AdoMet) radical proteins have been aligned in the first bioinformatics study of the AdoMet radical superfamily to utilize crystallographic information. The recently resolved X-ray structure of biotin synthase (BioB) was used to guide the multiple sequence alignment, and the recently resolved X-ray structure of coproporphyrinogen III oxidase (HemN) was used as the control. Despite the low 9% sequence identity between BioB and HemN, the multiple sequence alignment correctly predicted all but one of the core helices in HemN, and correctly predicted the residues in the enzyme active site. This alignment further suggests that the AdoMet radical proteins may have evolved from half-barrel structures (alphabeta)4 to three-quarter-barrel structures (alphabeta)6 to full-barrel structures (alphabeta)8. It predicts that anaerobic ribonucleotide reductase (RNR) activase, an ancient enzyme that, it has been suggested, serves as a link between the RNA and DNA worlds, will have a half-barrel structure, whereas the three-quarter barrel, exemplified by HemN, will be the most common architecture for AdoMet radical enzymes, and fewer members of the superfamily will join BioB in using a complete (alphabeta)8 TIM-barrel fold to perform radical chemistry. These differences in barrel architecture also explain how AdoMet radical enzymes can act on substrates that range in size from 10 atoms to 608 residue proteins.

  7. Isolation of cross-linked peptides by diagonal strong cation exchange chromatography for protein complex topology studies by peptide fragment fingerprinting from large sequence databases.

    PubMed

    Buncherd, Hansuk; Roseboom, Winfried; Ghavim, Behrad; Du, Weina; de Koning, Leo J; de Koster, Chris G; de Jong, Luitzen

    2014-06-27

    Knowledge of spatial proximity of amino acid residues obtained by chemical cross-linking and mass spectrometric analysis provides information about protein folding, protein-protein interactions and topology of macromolecular assemblies. We show that the use of bis(succinimidyl)-3-azidomethyl glutarate as a cross-linker provides a solution for two major analytical problems of cross-link mapping by peptide fragment fingerprinting (PFF) from complex sequence databases, i.e., low abundance of protease-generated target peptides and lack of knowledge of the masses of linked peptides. Tris(carboxyethyl)phosphine (TCEP) reduces the azido group in cross-linked peptides to an amine group in competition with cleavage of an amide bond formed in the cross-link reaction. TCEP-induced reaction products were separated by diagonal strong cation exchange (SCX) from unmodified peptides. The relation between the sum of the masses of the cleavage products and the mass of the parent cross-linked peptide enables determination of the masses of candidate linked peptides. By reversed phase LC-MS/MS analysis of secondary SCX fractions, we identified several intraprotein and interprotein cross-links in a HeLa cell nuclear extract, aided by software tools supporting PFF from the entire human sequence database. The data provide new information about interacting protein domains, among others from assemblies involved in splicing.

  8. NMR study of the phosphoryl binding loop in purine nucleotide proteins: Evidence for strong hydrogen binding in human N-ras p21

    SciTech Connect

    Redfield, A.G.; Papastavros, M.Z. )

    1990-04-10

    The structure of the phosphoryl binding region of human N-ras p21 was probed by using heteronuclear proton-observed NMR methods. Normal protein and a Gly-12 {yields} Asp-12 mutant protein were prepared with two amino acids labeled with {sup 15}N at their amide positions: valine and glycine, aspartic acid and glycine, and lysine and glycine. The authors completed the identification of amide {sup 15}NH resonances from Gly-12 and Asp-12 to the end of the phosphoryl binding domain consensus sequence (Lys-16) in protein complexed with GDP and have made tentative amide identifications from Val-9 to Ser-17. The methods used, together with initial identifications of the Gly-12 and -13 amide resonances, were described previously. The amide resonances of both Gly-13 and Lys-16 are shifted downfield below 10.4 ppm in both the normal and mutant proteins. These downfield shifts are presumed to be due to strong hydrogen bonds with the {beta}-phosphate of GDP.

  9. Goose parvovirus structural proteins expressed by recombinant baculoviruses self-assemble into virus-like particles with strong immunogenicity in goose

    SciTech Connect

    Ju, Huanyu; Wei, Na; Wang, Qian; Wang, Chunyuan; Jing, Zhiqiang; Guo, Lu; Liu, Dapeng; Gao, Mingchun; Ma, Bo; Wang, Junwei

    2011-05-27

    Highlights: {yields} All three capsid proteins can be expressed in insect cells in baculovirus expression system. {yields} All three recombinant proteins were spontaneously self-assemble into virus-like particles whose size and appearance were similar to those of native purified GPV virions. {yields} The immunogenicity of GPV-VLPs was better than commercial inactivated vaccine and attenuated vaccine. -- Abstract: Goose parvovirus (GPV), a small non-enveloped ssDNA virus, can cause Derzsy's disease, and three capsid proteins of VP1, VP2, and VP3 are encoded by an overlapping nucleotide sequence. However, little is known on whether recombinant viral proteins (VPs) could spontaneously assemble into virus-like particles (VLPs) in insect cells and whether these VLPs could retain their immunoreactivity and immunogenicity in susceptible geese. To address these issues, genes for these GPV VPs were amplified by PCR, and the recombinant VPs proteins were expressed in insect cells using a baculovirus expression system for the characterization of their structures, immunoreactivity, and immunogenicity. The rVP1, rVP2, and rVP3 expressed in Sf9 cells were detected by anti-GPV sera, anti-VP3 sera, and anti-His antibodies, respectively. Electron microscopy revealed that these rVPs spontaneously assembled into VLPs in insect cells, similar to that of the purified wild-type GPV virions. In addition, vaccination with individual types of VLPs, particularly with the rVP2-VLPs, induced higher titers of antibodies and neutralized different strains of GPVs in primary goose and duck embryo fibroblast cells in vitro. These data indicated that these VLPs retained immunoreactivity and had strong immunogenicity in susceptible geese. Therefore, our findings may provide a framework for development of new vaccines for the prevention of Derzsy's disease and vehicles for the delivery of drugs.

  10. Interfacial reactions of ozone with surfactant protein B in a model lung surfactant system.

    PubMed

    Kim, Hugh I; Kim, Hyungjun; Shin, Young Shik; Beegle, Luther W; Jang, Seung Soon; Neidholdt, Evan L; Goddard, William A; Heath, James R; Kanik, Isik; Beauchamp, J L

    2010-02-24

    Oxidative stresses from irritants such as hydrogen peroxide and ozone (O(3)) can cause dysfunction of the pulmonary surfactant (PS) layer in the human lung, resulting in chronic diseases of the respiratory tract. For identification of structural changes of pulmonary surfactant protein B (SP-B) due to the heterogeneous reaction with O(3), field-induced droplet ionization (FIDI) mass spectrometry has been utilized. FIDI is a soft ionization method in which ions are extracted from the surface of microliter-volume droplets. We report structurally specific oxidative changes of SP-B(1-25) (a shortened version of human SP-B) at the air-liquid interface. We also present studies of the interfacial oxidation of SP-B(1-25) in a nonionizable 1-palmitoyl-2-oleoyl-sn-glycerol (POG) surfactant layer as a model PS system, where competitive oxidation of the two components is observed. Our results indicate that the heterogeneous reaction of SP-B(1-25) at the interface is quite different from that in the solution phase. In comparison with the nearly complete homogeneous oxidation of SP-B(1-25), only a subset of the amino acids known to react with ozone are oxidized by direct ozonolysis in the hydrophobic interfacial environment, both with and without the lipid surfactant layer. Combining these experimental observations with the results of molecular dynamics simulations provides an improved understanding of the interfacial structure and chemistry of a model lung surfactant system subjected to oxidative stress.

  11. Interactions of the C-terminus of lung surfactant protein B with lipid bilayers are modulated by acyl chain saturation.

    PubMed

    Antharam, Vijay C; Farver, R Suzanne; Kuznetsova, Anna; Sippel, Katherine H; Mills, Frank D; Elliott, Douglas W; Sternin, Edward; Long, Joanna R

    2008-11-01

    Lung surfactant protein B (SP-B) is critical to minimizing surface tension in the alveoli. The C-terminus of SP-B, residues 59-80, has much of the surface activity of the full protein and serves as a template for the development of synthetic surfactant replacements. The molecular mechanisms responsible for its ability to restore lung compliance were investigated with circular dichroism, differential scanning calorimetry, and (31)P and (2)H solid-state NMR spectroscopy. SP-B(59-80) forms an amphipathic helix which alters lipid organization and acyl chain dynamics in fluid lamellar phase 4:1 DPPC:POPG and 3:1 POPC:POPG MLVs. At higher levels of SP-B(59-80) in the POPC:POPG lipid system a transition to a nonlamellar phase is observed while DPPC:POPG mixtures remain in a lamellar phase. Deuterium NMR shows an increase in acyl chain order in DPPC:POPG MLVs on addition of SP-B(59-80); in POPC:POPG MLVs, acyl chain order parameters decrease. Our results indicate SP-B(59-80) penetrates deeply into DPPC:POPG bilayers and binds more peripherally to POPC:POPG bilayers. Similar behavior has been observed for KL(4), a peptide mimetic of SP-B which was originally designed using SP-B(59-80) as a template and has been clinically demonstrated to be successful in treating respiratory distress syndrome. The ability of these helical peptides to differentially partition into lipid lamellae based on their degree of monounsaturation and subsequent changes in lipid dynamics suggest a mechanism for lipid organization and trafficking within the dynamic lung environment. PMID:18694722

  12. Conformation and molecular topography of the N-terminal segment of surfactant protein B in structure-promoting environments.

    PubMed

    Gordon, L M; Horvath, S; Longo, M L; Zasadzinski, J A; Taeusch, H W; Faull, K; Leung, C; Waring, A J

    1996-08-01

    Although the effects of surfactant protein B (SP-B) on lipid surface activity in vitro and in vivo are well known, the relationship between molecular structure and function is still not fully understood. To further characterize protein structure-activity correlations, we have used physical techniques to study conformation, orientation, and molecular topography of N-terminal SP-B peptides in lipids and structure-promoting environments. Fourier transform infrared (FTIR) and CD measurements of SP-B1-25 (residues 1-25) in methanol, SDS micelles, egg yolk lecithin (EYL) liposomes, and surfactant lipids indicate the peptide has a dominant helical content, with minor turn and disordered components. Polarized FTIR studies of SP-B1-25 indicate the long molecular axis lies at an oblique angle to the surface of lipid films. Truncated peptides were similarly examined to assign more accurately the discrete conformations within the SP-B1-25 sequence. Residues Cys-8-Gly-25 are largely alpha-helix in methanol, whereas the N-terminal segment Phe-1-Cys-8 had turn and helical propensities. Addition of SP-B1-25 spin-labeled at the N-terminal Phe (i.e., SP-B1-25) to SDS, EYL, or surfactant lipids yielded electron spin resonance spectra that reflect peptide bound to lipids, but retaining considerable mobility. The absence of characteristic radical broadening indicates that SP-B1-25 is minimally aggregated when it interacts with these lipids. Further, the high polarity of SP-B1-25 argues that the reporter on Phe-1 resides in the headgroup of the lipid dispersions. The blue-shift in the endogenous fluorescence of Trp-9 near the N-terminus of SP-B1-25 suggests that this residue also lies near the lipid headgroup. A summary model based on the above physical experiments is presented for SP-B1-25 interacting with lipids.

  13. The role of charged amphipathic helices in the structure and function of surfactant protein B.

    PubMed

    Waring, A J; Walther, F J; Gordon, L M; Hernandez-Juviel, J M; Hong, T; Sherman, M A; Alonso, C; Alig, T; Braun, A; Bacon, D; Zasadzinski, J A

    2005-12-01

    Surfactant protein B (SP-B) is essential for normal lung surfactant function. Theoretical models predict that the disulfide cross-linked, N- and C-terminal domains of SP-B fold as charged amphipathic helices, and suggest that these adjacent helices participate in critical surfactant activities. This hypothesis is tested using a disulfide-linked construct (Mini-B) based on the primary sequences of the N- and C-terminal domains. Consistent with theoretical predictions of the full-length protein, both isotope-enhanced Fourier transform infrared (FTIR) spectroscopy and molecular modeling confirm the presence of charged amphipathic alpha-helices in Mini-B. Similar to that observed with native SP-B, Mini-B in model surfactant lipid mixtures exhibits marked in vitro activity, with spread films showing near-zero minimum surface tensions during cycling using captive bubble surfactometry. In vivo, Mini-B shows oxygenation and dynamic compliance that compare favorably with that of full-length SP-B. Mini-B variants (i.e. reduced disulfides or cationic residues replaced by uncharged residues) or Mini-B fragments (i.e. unlinked N- and C-terminal domains) produced greatly attenuated in vivo and in vitro surfactant properties. Hence, the combination of structure and charge for the amphipathic alpha-helical N- and C-terminal domains are key to SP-B function.

  14. Endogenous proteolytic cleavage of disease-associated prion protein to produce C2 fragments is strongly cell- and tissue-dependent.

    PubMed

    Dron, Michel; Moudjou, Mohammed; Chapuis, Jérôme; Salamat, Muhammad Khalid Farooq; Bernard, Julie; Cronier, Sabrina; Langevin, Christelle; Laude, Hubert

    2010-04-01

    The abnormally folded form of the prion protein (PrP(Sc)) accumulating in nervous and lymphoid tissues of prion-infected individuals can be naturally cleaved to generate a N-terminal-truncated fragment called C2. Information about the identity of the cellular proteases involved in this process and its possible role in prion biology has remained limited and controversial. We investigated PrP(Sc) N-terminal trimming in different cell lines and primary cultured nerve cells, and in the brain and spleen tissue from transgenic mice infected by ovine and mouse prions. We found the following: (i) the full-length to C2 ratio varies considerably depending on the infected cell or tissue. Thus, in primary neurons and brain tissue, PrP(Sc) accumulated predominantly as untrimmed species, whereas efficient trimming occurred in Rov and MovS cells, and in spleen tissue. (ii) Although C2 is generally considered to be the counterpart of the PrP(Sc) proteinase K-resistant core, the N termini of the fragments cleaved in vivo and in vitro can actually differ, as evidenced by a different reactivity toward the Pc248 anti-octarepeat antibody. (iii) In lysosome-impaired cells, the ratio of full-length versus C2 species dramatically increased, yet efficient prion propagation could occur. Moreover, cathepsin but not calpain inhibitors markedly inhibited C2 formation, and in vitro cleavage by cathepsins B and L produced PrP(Sc) fragments lacking the Pc248 epitope, strongly arguing for the primary involvement of acidic hydrolases of the endolysosomal compartment. These findings have implications on the molecular analysis of PrP(Sc) and cell pathogenesis of prion infection. PMID:20154089

  15. A vaccine based on a mutant transferrin binding protein B of Haemophilus parasuis induces a strong T-helper 2 response and bacterial clearance after experimental infection.

    PubMed

    Martínez-Martínez, Sonia; Frandoloso, Rafael; Rodríguez-Ferri, Elías-Fernando; García-Iglesias, María-José; Pérez-Martínez, Claudia; Álvarez-Estrada, Álvaro; Gutiérrez-Martín, César-Bernardo

    2016-10-15

    This study aimed to characterize the type of immune response induced by an experimental vaccine based on a mutant Haemophilus parasuis transferrin binding protein (Tbp) B (Y167A) defective in its ability to bind porcine transferrin. Clinical and pathological signs, bacterial clearance, antibody response and the cytokine profile in alveolar macrophages and spleen after the vaccination and challenge of twenty-two colostrum-deprived pigs with 10(8) CFU of H. parasuis were analysed. Pigs vaccinated with Y167A were compared to those vaccinated with native TbpB (nTbpB), those treated with a commercial bacterin (CB) against Glässer's disease, those unvaccinated challenged (CH) and those unvaccinated unchallenged (UNCH) pigs. The rectal temperatures of Y167A pigs resembled those of UNCH pigs and were significantly lower than those of the nTbpB, CB and CH animals. A major reduction in pathological changes of the challenged pigs was observed in the Y167A group. H. parasuis was cleared from 88.9% of the samples from Y167A pigs versus 60.0% and 55.6% from those of the CB and nTbpB groups, respectively. The antibody response elicited by Y167A by ELISA was notably higher than that observed for nTbpB and CB pigs and was capable of preventing the expression and secretion of IL-8. The expression of IL-4 and IL-5, which were associated with the specific antibody levels, suggests that the main mechanism of protection conferred by Y167A vaccine is based on a strong T-helper 2 response. PMID:27590421

  16. Protein-tyrosine phosphatase activity in human adipocytes is strongly correlated with insulin-stimulated glucose uptake and is a target of insulin-induced oxidative inhibition.

    PubMed

    Wu, Xiangdong; Hardy, V Elise; Joseph, Jeffrey I; Jabbour, Serge; Mahadev, Kalyankar; Zhu, Li; Goldstein, Barry J

    2003-06-01

    Protein-tyrosine phosphatases (PTPases), in particular PTP1B, have been shown to modulate insulin signal transduction in liver and skeletal muscle in animal models; however, their role in human adipose tissue remains unclear. The uptake of (14)C-D-glucose in response to 10 or 100 nmol/L insulin was measured in isolated subcutaneous adipocytes from subjects with a mean age of 44 years (range, 26 to 58) and mean body mass index (BMI) of 35.6 (range, 29.7 to 45.5). The endogenous activity of total PTPases and specifically of PTP1B in immunoprecipitates was measured in cell lysates under an inert atmosphere with and without added reducing agents. Using nonlinear regression analysis, higher BMI was significantly correlated with lower adipocyte glucose uptake (r = 0.73, P =.01) and with increased endogenous total PTPase activity (r = 0.64, P =.04). Correlation with waist circumference gave similar results. The endogenous total PTPase activity also strongly correlated with insulin-stimulated glucose uptake (R =.89, P <.0001); however, the activity of PTP1B was unrelated to the level of glucose uptake. Consistent with the insulin-stimulated oxidative inhibition of thiol-dependent PTPases reported for 3T3-L1 adipocytes and hepatoma cells, treatment of human adipocytes with 100 nmol/L insulin for 5 minutes lowered endogenous PTPase activity to 37% of control (P <.001), which was increased 25% by subsequent treatment with dithiothreitol in vitro. Cellular treatment with diphenyleneiodonium (DPI), an NADPH oxidase inhibitor that blocks the cellular generation of H(2)O(2) and reduces the insulin-induced reduction of cellular PTPase activity, also diminished insulin-stimulated glucose uptake by 82% (P =.001). These data suggest that total cellular PTPase activity, but not the activity of PTP1B, is higher in more obese subjects and is negatively associated with insulin-stimulated glucose transport. The insulin-stimulated oxidative inhibition of PTPases may also have an important

  17. Fluorescence, polarized fluorescence, and Brewster angle microscopy of palmitic acid and lung surfactant protein B monolayers.

    PubMed Central

    Lipp, M M; Lee, K Y; Waring, A; Zasadzinski, J A

    1997-01-01

    Fluorescence, polarized fluorescence, and Brewster angle microscopy reveal that human lung surfactant protein SP-B and its amino terminus (SP-B[1-25]) alter the phase behavior of palmitic acid monolayers by inhibiting the formation of condensed phases and creating a new fluid protein-rich phase. This fluid phase forms a network that separates condensed phase domains at coexistence and persists to high surface pressures. The network changes the monolayer collapse mechanism from heterogeneous nucleation/growth and fracturing processes to a more homogeneous process through isolating individual condensed phase domains. This results in higher surface pressures at collapse, and monolayers easier to respread on expansion, factors essential to the in vivo function of lung surfactant. The network is stabilized by a low-line tension between the coexisting phases, as confirmed by the observation of extended linear domains, or "stripe" phases, and a Gouy-Chapman analysis of protein-containing monolayers. Comparison of isotherm data and observed morphologies of monolayers containing SP-B(1-25) with those containing the full SP-B sequence show that the shortened peptide retains most of the native activity of the full-length protein, which may lead to cheaper and more effective synthetic replacement formulations. Images FIGURE 1 FIGURE 3 FIGURE 4 FIGURE 6 FIGURE 7 FIGURE 8 FIGURE 9 FIGURE 10 PMID:9168053

  18. Development of high-productivity, strong cation-exchange adsorbers for protein capture by graft polymerization from membranes with different pore sizes

    PubMed Central

    Chenette, Heather C.S.; Robinson, Julie R.; Hobley, Eboni; Husson, Scott M.

    2012-01-01

    This paper describes the surface modification of macroporous membranes using ATRP (atom transfer radical polymerization) to create cation-exchange adsorbers with high protein binding capacity at high product throughput. The work is motivated by the need for a more economical and rapid capture step in downstream processing of protein therapeutics. Membranes with three reported nominal pore sizes (0.2, 0.45, 1.0 μm) were modified with poly(3-sulfopropyl methacrylate, potassium salt) tentacles, to create a high density of protein binding sites. A special formulation was used in which the monomer was protected by a crown ether to enable surface-initiated ATRP of this cationic polyelectrolyte. Success with modification was supported by chemical analysis using Fourier-transform infrared spectroscopy and indirectly by measurement of pure water flux as a function of polymerization time. Uniformity of modification within the membranes was visualized with confocal laser scanning microscopy. Static and dynamic binding capacities were measured using lysozyme protein to allow comparisons with reported performance data for commercial cation-exchange materials. Dynamic binding capacities were measured for flow rates ranging from 13 to 109 column volumes (CV)/min. Results show that this unique ATRP formulation can be used to fabricate cation-exchange membrane adsorbers with dynamic binding capacities as high as 70 mg/mL at a throughput of 100 CV/min and unprecedented productivity of 300 mg/mL/min. PMID:23175597

  19. In Vivo-Expressed Proteins of Virulent Leptospira interrogans Serovar Autumnalis N2 Elicit Strong IgM Responses of Value in Conclusive Diagnosis

    PubMed Central

    Raja, Veerapandian; Shanmughapriya, Santhanam; Kanagavel, Murugesan; Artiushin, Sergey C.; Velineni, Sridhar; Timoney, John F.

    2015-01-01

    Leptospirosis is a serious zoonosis that is underdiagnosed because of limited access to laboratory facilities in Southeast Asia, Central and South America, and Oceania. Timely diagnosis of locally distributed serovars of high virulence is crucial for successful care and outbreak management. Using pooled patient sera, an expression gene library of a virulent Leptospira interrogans serovar Autumnalis strain N2 isolated in South India was screened. The identified genes were characterized, and the purified recombinant proteins were used as antigens in IgM enzyme-linked immunosorbent assay (ELISA) either singly or in combination. Sera (n = 118) from cases of acute leptospirosis along with sera (n = 58) from healthy subjects were tested for reactivity with the identified proteins in an ELISA designed to detect specific IgM responses. We have identified nine immunoreactive proteins, ArgC, RecA, GlpF, FliD, TrmD, RplS, RnhB, Lp28.6, and Lrr44.9, which were found to be highly conserved among pathogenic leptospires. Apparently, the proteins ArgC, RecA, GlpF, FliD, TrmD, and Lrr44.9 are expressed during natural infection of the host and undetectable in in vitro cultures. Among all the recombinant proteins used as antigens in IgM ELISA, ArgC had the highest sensitivity and specificity, 89.8% and 95.5%, respectively, for the conclusive diagnosis of leptospirosis. The use of ArgC and RecA in combination for IgM ELISA increased the sensitivity and specificity to 95.7% and 94.9%, respectively. ArgC and RecA thus elicited specific IgM responses and were therefore effective in laboratory confirmation of Leptospira infection. PMID:26607308

  20. A fusion protein of the estrogen receptor (ER) and nuclear receptor corepressor (NCoR) strongly inhibits estrogen-dependent responses in breast cancer cells.

    PubMed

    Chien, P Y; Ito, M; Park, Y; Tagami, T; Gehm, B D; Jameson, J L

    1999-12-01

    Nuclear receptor corepressor (NCoR) mediates repression (silencing) of basal gene transcription by nuclear receptors for thyroid hormone and retinoic acid. The goal of this study was to create novel estrogen receptor (ER) mutants by fusing transferable repressor domains from the N-terminal region of NCoR to a functional ER fragment. Three chimeric NCoR-ER proteins were created and shown to lack transcriptional activity. These fusion proteins silenced basal transcription of the ERE2-tk-Luc reporter gene and inhibited the activity of co-transfected wild-type ER (wtER), indicating that they possess dominant negative activity. One of the fusion proteins (CDE-RD1), containing the ER DNA-binding and ligand-binding domains linked to the NCoR repressor domain (RD1), was selected for detailed examination. Its hormone affinity, intracellular localization, and level of expression in transfected cells were similar to wtER, and it bound to the estrogen response element (ERE) DNA in gel shift assays. Glutathione-S-transferase pull-down assays showed that CDE-RD1 retains the ability to bind to steroid receptor coactivator-1. Introduction of a DNA-binding domain mutation into the CDE-RD1 fusion protein eliminated silencing and dominant negative activity. Thus, the RD1 repressor domain prevents transcriptional activation despite the apparent ability of CDE-RD1 to bind DNA, ligand, and coactivators. Transcriptional silencing was incompletely reversed by trichostatin A, suggesting a histone deacetylase-independent mechanism for repression. CDE-RD1 inhibited ER-mediated transcription in T47D and MDA-MB-231 breast cancer cells and repressed the growth of T47D cells when delivered to the cells by a retroviral vector. These ER-NCoR fusion proteins provide a novel means for inhibiting ER-mediated cellular responses, and analogous strategies could be used to create dominant negative mutants of other transcription factors.

  1. Directed, strong, and reversible immobilization of proteins tagged with a β-trefoil lectin domain: a simple method to immobilize biomolecules on plain agarose matrixes.

    PubMed

    López-Gallego, Fernando; Acebrón, Ivan; Mancheño, Jose Miguel; Raja, Sebastian; Lillo, M Pilar; Guisán Seijas, Jose Manuel

    2012-03-21

    A highly stable lipase from Geobacillus thermocatenolatus (BTL2) and the enhanced green fluorescent protein from Aquorea victoria (EGFP) were recombinantly produced N-terminally tagged to the lectin domain of the hemolytic pore-forming toxin LSLa from the mushroom Laetiporus sulphureus . Such a domain (LSL(150)), recently described as a novel fusion tag, is based on a β-trefoil scaffold with two operative binding sites for galactose or galactose-containing derivatives. The fusion proteins herein analyzed have enabled us to characterize the binding mode of LSL(150) to polymeric and solid substrates such as agarose beads. The lectin-fusion proteins are able to be quantitatively bound to both cross-linked and non-cross-linked agarose matrixes in a very rapid manner, resulting in a surprisingly dynamic protein distribution inside the porous beads that evolves from heterogeneous to homogeneous along the postimmobilization time. Such dynamic distribution can be related to the reversible nature of the LSL(150)-agarose interaction. Furthermore, this latter interaction is temperature dependent since it is 4-fold stronger when the immobilization takes place at 25 °C than when it does at 4 °C. The strongest lectin-agarose interaction is also quite stable under a survey of different conditions such as high temperatures (up to 60 °C) or high organic solvent concentrations (up to 60% of acetonitrile). Notably, the use of cross-linked agarose would endow the system with more robustness due to its better mechanical properties compared to the noncross-linked one. The stability of the LSL(150)-agarose interaction would prevent protein leaching during the operation process unless high pH media are used. In summary, we believe that the LSL(150) lectin domain exhibits interesting structural features as an immobilization domain that makes it suitable to reversibly immobilize industrially relevant enzymes in very simple carriers as agarose.

  2. The bovine viral diarrhea virus E2 protein formulated with a novel adjuvant induces strong, balanced immune responses and provides protection from viral challenge in cattle.

    PubMed

    Snider, Marlene; Garg, Ravendra; Brownlie, Robert; van den Hurk, Jan V; van Drunen Littel-van den Hurk, Sylvia

    2014-11-28

    Bovine viral diarrhea virus (BVDV) is still one of the most serious pathogens in cattle, meriting the development of improved vaccines. Recently, we developed a new adjuvant consisting of poly[di(sodium carboxylatoethylphenoxy)]-phosphazene (PCEP), either CpG ODN or poly(I:C), and an immune defense regulator (IDR) peptide. As this adjuvant has been shown to mediate the induction of robust, balanced immune responses, it was evaluated in an E2 subunit vaccine against BVDV in lambs and calves. The BVDV type 2 E2 protein was produced at high levels in a mammalian expression system and purified. When formulated with either CpG ODN or poly(I:C), together with IDR and PCEP, the E2 protein elicited high antibody titers and production of IFN-γ secreting cells in lambs. As the immune responses were stronger when poly(I:C) was used, the E2 protein with poly(I:C), IDR and PCEP was subsequently tested in cattle. Robust virus neutralizing antibodies as well as cell-mediated immune responses, including CD8(+) cytotoxic T cell (CTL) responses, were induced. The fact that CTL responses were demonstrated in calves vaccinated with an E2 protein subunit vaccine indicates that this adjuvant formulation promotes cross-presentation. Furthermore, upon challenge with a high dose of virulent BVDV-2, the vaccinated calves showed almost no temperature response, weight loss, leukopenia or virus replication, in contrast to the control animals, which had severe clinical disease. These data suggest that this E2 subunit formulation induces significant protection from BVDV-2 challenge, and thus is a promising BVDV vaccine candidate; in addition, the adjuvant platform has applications in bovine vaccines in general.

  3. Genetic variants of surfactant proteins A, B, C, and D in bronchopulmonary dysplasia.

    PubMed

    Pavlovic, J; Papagaroufalis, C; Xanthou, M; Liu, W; Fan, R; Thomas, N J; Apostolidou, I; Papathoma, E; Megaloyianni, E; DiAngelo, S; Floros, J

    2006-01-01

    BPD_28D (O2 dependency at 28 days of life) and BPD_36W (O2 dependency at 36 wks post-menstrual age) are diseases of prematurely born infants exposed to mechanical ventilation and/or oxygen supplementation. In order to determine whether genetic variants of surfactant proteins (SPs-A, B, C, and D) and SP-B-linked microsatellite markers are risk factors in BPD, we performed a family based association study using a Greek study group of 71 neonates (<30 wks gestational age) from 60 families with, 52 BPD_28D and 19 BPD_36W, affected infants. Genotyping was performed using newly designed pyrosequencing assays and previously published methods. Associations between genetic variants of SPs and BPD subgroups were determined using Transmission Disequilibrium Test (TDT) and Family Based Association Test (FBAT). Significant associations (pSP-B and SP-B-linked microsatellite markers, and haplotypes of SP-A, SP-D, and SP-B. Specifically, allele B-18_C associated with susceptibility in BPD_36W. Microsatellite marker AAGG_6 associated with susceptibility in BPD_28D/36W group. Haplotype analysis revealed ten susceptibility and one protective haplotypes for SP-B and SP-B-linked microsatellite markers and two SP-A-SP-D protective haplotypes. The data indicate that SP loci are linked to BPD. Studies in different study groups and/or of larger sample size are warranted to confirm these observations and delineate genetic background of BPD subgroups.

  4. Aggressive behaviour and physiological responses to pheromones are strongly impaired in mice deficient for the olfactory G-protein -subunit G8.

    PubMed

    Montani, Giorgia; Tonelli, Simone; Sanghez, Valentina; Ferrari, Pier Francesco; Palanza, Paola; Zimmer, Andreas; Tirindelli, Roberto

    2013-08-15

    Heterotrimeric G-proteins are critical players in the transduction mechanisms underlying odorant and pheromonal signalling. In the vomeronasal organ (VNO) of the adult mouse, two different G-protein complexes have been identified. Gαoβ2γ8 is preferentially expressed in the basal neurons and coexpresses with type-2 vomeronasal pheromone receptors (V2Rs) whereas Gαi2β2γ2 is found in the apical neurons and coexpresses with type-1 vomeronasal pheromone receptors (V1Rs). V2R-expressing neurons project to the posterior accessory olfactory bulb (AOB) whereas neurons expressing V1Rs send their axon to the anterior AOB. Gγ8 is also expressed in developing olfactory neurons where this protein is probably associated with Go. Here, we generated mice with a targeted deletion of the Gγ8 gene and investigated the behavioural effects and the physiological consequences of this mutation. Gγ8(-/-) mice show a normal development of the main olfactory epithelium; moreover, they do not display major deficits in odour perception. In contrast, the VNO undergoes a slow but remarkable loss of basal neurons starting from the fourth postnatal week, with a 40% reduction of cells at 2 months and 70% at 1 year. This loss is associated with a reduced early-gene expression in the posterior AOB of mice stimulated with pheromones. More interestingly, the Gγ8 deletion specifically leads to a reduced pheromone-mediated aggressiveness in both males and females, all other socio-sexual behaviours remaining unaltered. This study defines a specific role for Gγ8 in maintenance of the neuronal population of the VNO and in the mechanisms of pheromonal signalling that involve the aggressive behaviour towards conspecifics.

  5. Conformational mapping of the N-terminal segment of surfactant protein B in lipid using 13C-enhanced Fourier transform infrared spectroscopy.

    PubMed

    Gordon, L M; Lee, K Y; Lipp, M M; Zasadzinski, J A; Walther, F J; Sherman, M A; Waring, A J

    2000-04-01

    Synthetic peptides based on the N-terminal domain of human surfactant protein B (SP-B1-25; 25 amino acid residues; NH2-FPIPLPYCWLCRALIKRIQAMIPKG) retain important lung activities of the full-length, 79-residue protein. Here, we used physical techniques to examine the secondary conformation of SP-B1-25 in aqueous, lipid and structure-promoting environments. Circular dichroism and conventional, 12C-Fourier transform infrared (FTIR) spectroscopy each indicated a predominate alpha-helical conformation for SP-B1-25 in phosphate-buffered saline, liposomes of 1-palmitoyl-2-oleoyl phosphatidylglycerol and the structure-promoting solvent hexafluoroisopropanol; FTIR spectra also showed significant beta- and random conformations for peptide in these three environments. In further experiments designed to map secondary structure to specific residues, isotope-enhanced FTIR spectroscopy was performed with 1-palmitoyl-2-oleoyl phosphatidylglycerol liposomes and a suite of SP-B1-25 peptides labeled with 13C-carbonyl groups at either single or multiple sites. Combining these 13C-enhanced FTIR results with energy minimizations and molecular simulations indicated the following model for SP-B1-25 in 1-palmitoyl-2-oleoyl phosphatidylglycerol: beta-sheet (residues 1-6), alpha-helix (residues 8-22) and random (residues 23-25) conformations. Analogous structural motifs are observed in the corresponding homologous N-terminal regions of several proteins that also share the 'saposin-like' (i.e. 5-helix bundle) folding pattern of full-length, human SP-B. In future studies, 13C-enhanced FTIR spectroscopy and energy minimizations may be of general use in defining backbone conformations at amino acid resolution, particularly for peptides or proteins in membrane environments.

  6. Cell-specific modulation of surfactant proteins by ambroxol treatment

    SciTech Connect

    Seifart, Carola . E-mail: zwiebel@mailer.uni-marburg.de; Clostermann, Ursula; Seifart, Ulf

    2005-02-15

    Ambroxol [trans-4-(2-amino-3,5-dibromobenzylamino)-cyclohexanole hydrochloride], a mucolytic agent, was postulated to provide surfactant stimulatory properties and was previously used to prevent surfactant deficiency. Currently, the underlying mechanisms are not exactly clear. Because surfactant homeostasis is regulated by surfactant-specific proteins (SP), we analyzed protein amount and mRNA expression in whole lung tissue, isolated type II pneumocytes and bronchoalveolar lavage of Sprague-Dawley rats treated with ambroxol i.p. (75 mg/kg body weight, twice a day [every 12 h]). The methods used included competitive polymerase chain reaction (RT-PCR), Northern blotting, Western immunoblotting, and immunohistochemistry. In isolated type II pneumocytes of ambroxol-treated animals, SP-C protein and mRNA content were increased, whereas SP-A, -B and -D protein, mRNA, and immunoreactivity remained unaffected. However, ambroxol treatment resulted in a significant increase of SP-B and in a decrease of SP-D in whole lung tissue with enhanced immunostaining for SP-B in Clara Cells. SP-A and SP-D were significantly decreased in BAL fluid of ambroxol-treated animals. The data suggest that surfactant protein expression is modulated in a cell-specific manner by ambroxol, as type II pneumocytes exhibited an increase in SP-C, whereas Clara cells exhibited an increase in the immunoreactivity for SP-B accounting for the increased SP-B content of whole lung tissue. The results indicate that ambroxol may exert its positive effects, observed in the treatment of diseases related to surfactant deficiency, via modulation of surfactant protein expression.

  7. Cell-specific modulation of surfactant proteins by ambroxol treatment.

    PubMed

    Seifart, Carola; Clostermann, Ursula; Seifart, Ulf; Müller, Bernd; Vogelmeier, Claus; von Wichert, Peter; Fehrenbach, Heinz

    2005-02-15

    Ambroxol [trans-4-(2-amino-3,5-dibromobenzylamino)-cyclohexanole hydrochloride], a mucolytic agent, was postulated to provide surfactant stimulatory properties and was previously used to prevent surfactant deficiency. Currently, the underlying mechanisms are not exactly clear. Because surfactant homeostasis is regulated by surfactant-specific proteins (SP), we analyzed protein amount and mRNA expression in whole lung tissue, isolated type II pneumocytes and bronchoalveolar lavage of Sprague-Dawley rats treated with ambroxol i.p. (75 mg/kg body weight, twice a day [every 12 h]). The methods used included competitive polymerase chain reaction (RT-PCR), Northern blotting, Western immunoblotting, and immunohistochemistry. In isolated type II pneumocytes of ambroxol-treated animals, SP-C protein and mRNA content were increased, whereas SP-A, -B and -D protein, mRNA, and immunoreactivity remained unaffected. However, ambroxol treatment resulted in a significant increase of SP-B and in a decrease of SP-D in whole lung tissue with enhanced immunostaining for SP-B in Clara Cells. SP-A and SP-D were significantly decreased in BAL fluid of ambroxol-treated animals. The data suggest that surfactant protein expression is modulated in a cell-specific manner by ambroxol, as type II pneumocytes exhibited an increase in SP-C, whereas Clara cells exhibited an increase in the immunoreactivity for SP-B accounting for the increased SP-B content of whole lung tissue. The results indicate that ambroxol may exert its positive effects, observed in the treatment of diseases related to surfactant deficiency, via modulation of surfactant protein expression.

  8. Accessory Interaction Motifs in the Atg19 Cargo Receptor Enable Strong Binding to the Clustered Ubiquitin-related Atg8 Protein*

    PubMed Central

    Abert, Christine; Kontaxis, Georg

    2016-01-01

    Selective autophagy contributes to cellular homeostasis by delivering harmful material into the lysosomal system for degradation via vesicular intermediates referred to as autophagosomes. The cytoplasm-to-vacuole targeting pathway is a variant of selective autophagy in Saccharomyces cerevisiae during which hydrolases such as prApe1 are transported into the vacuole. In general, selectivity is achieved by autophagic cargo receptors that link the cargo to autophagosomal membranes because of their ability to simultaneously interact with the cargo and Atg8 proteins that coat the membrane. The Atg19 receptor contains multiple Atg8 interaction sites in its C terminus in addition to a canonical Atg8-interacting LC3-interacting region (LIR, with LC3 being a homolog of Atg8) motif, but their mode of interaction with Atg8 is unclear. Here we show, using a combination of NMR, microscopy-based interaction assays, and prApe1 processing experiments, that two additional sites interact with Atg8 in a LIR-like and thus mutually exclusive manner. We term these motifs accessory LIR motifs because their affinities are lower than that of the canonical LIR motif. Thus, one Atg19 molecule has the ability to interact with multiple Atg8 proteins simultaneously, resulting in a high-avidity interaction that may confer specific binding to the Atg8-coated autophagosomal membrane on which Atg8 is concentrated. PMID:27402840

  9. Transgenic frogs expressing the highly fluorescent protein venus under the control of a strong mammalian promoter suitable for monitoring living cells.

    PubMed

    Sakamaki, Kazuhiro; Takagi, Chiyo; Yoshino, Jun; Yokota, Hideo; Nakamura, Sakiko; Kominami, Katsuya; Hyodo, Akiko; Takamune, Kazufumi; Yuge, Masahiro; Ueno, Naoto

    2005-06-01

    To easily monitor living cells and organisms, we have created a transgenic Xenopus line expressing Venus, a brighter variant of yellow fluorescent protein, under the control of the CMV enhancer/chicken beta-actin (CAG) promoter. The established line exhibited high fluorescent intensity not only in most tissues of tadpoles to adult frogs but also in germ cells of both sexes, which enabled three-dimensional imaging of fluorescing organs from images of the serial slices of the transgenic animals. Furthermore, by using this transgenic line, we generated chimeric animals by brain implantation and importantly, we found that the brain grafts survived and expressed Venus in recipients after development, highlighting the boundary between fluorescent and nonfluorescent areas in live animals. Thus, Venus-expressing transgenic frogs, tadpoles, and embryos would facilitate their use in many applications, including the tracing of the fluorescent cells after tissue/organ transplantation.

  10. A mouse monoclonal antibody against dengue virus type 1 Mochizuki strain targeting envelope protein domain II and displaying strongly neutralizing but not enhancing activity.

    PubMed

    Yamanaka, Atsushi; Kotaki, Tomohiro; Konishi, Eiji

    2013-12-01

    Dengue fever and its more severe form, dengue hemorrhagic fever, are major global concerns. Infection-enhancing antibodies are major factors hypothetically contributing to increased disease severity. In this study, we generated 26 monoclonal antibodies (MAbs) against the dengue virus type 1 Mochizuki strain. We selected this strain because a relatively large number of unique and rare amino acids were found on its envelope protein. Although most MAbs showing neutralizing activities exhibited enhancing activities at subneutralizing doses, one MAb (D1-IV-7F4 [7F4]) displayed neutralizing activities without showing enhancing activities at lower concentrations. In contrast, another MAb (D1-V-3H12 [3H12]) exhibited only enhancing activities, which were suppressed by pretreatment of cells with anti-FcγRIIa. Although antibody engineering revealed that antibody subclass significantly affected 7F4 (IgG3) and 3H12 (IgG1) activities, neutralizing/enhancing activities were also dependent on the epitope targeted by the antibody. 7F4 recognized an epitope on the envelope protein containing E118 (domain II) and had a neutralizing activity 10- to 1,000-fold stronger than the neutralizing activity of previously reported human or humanized neutralizing MAbs targeting domain I and/or domain II. An epitope-blocking enzyme-linked immunosorbent assay (ELISA) indicated that a dengue virus-immune population possessed antibodies sharing an epitope with 7F4. Our results demonstrating induction of these antibody species (7F4 and 3H12) in Mochizuki-immunized mice may have implications for dengue vaccine strategies designed to minimize induction of enhancing antibodies in vaccinated humans. PMID:24049185

  11. Interleukin-22 binding protein (IL-22BP) is constitutively expressed by a subset of conventional dendritic cells and is strongly induced by retinoic acid

    PubMed Central

    Martin, JCJ; Bériou, G; Heslan, M; Chauvin, C; Utriainen, L; Aumeunier, A; Scott, CL; Mowat, A; Cerovic, V; Houston, SA; Leboeuf, M; Hubert, FX; Hémont, C; Merad, M; Milling, S; Josien, R

    2014-01-01

    IL-22 is mainly produced at barrier surfaces by T cells and innate lymphoid cells and is crucial to maintain epithelial integrity. However, dysregulated IL-22 action leads to deleterious inflammation and is involved in diseases such as psoriasis, intestinal inflammation and cancer. IL-22BP is a soluble inhibitory IL-22 receptor and may represent a crucial regulator of IL-22. We show both in rats and mice that, in the steady state, the main source of IL-22BP is constituted by a subset of conventional dendritic cells (DC) in lymphoid and non lymphoid tissues. In mouse intestine, IL-22BP was specifically expressed in lamina propria CD103+CD11b+ DC. In humans, IL-22BP was expressed in immature monocyte-derived DC (MDDC) and strongly induced by retinoic acid (RA) but dramatically reduced upon maturation. Our data suggest that a subset of immature DC may actively participate in the regulation of IL-22 activity in the gut by producing high levels of IL-22BP. PMID:23653115

  12. Strong conservation of rhoptry-associated-protein-1 (RAP-1) locus organization and sequence among Babesia isolates infecting sheep from China (Babesia motasi-like phylogenetic group).

    PubMed

    Niu, Qingli; Valentin, Charlotte; Bonsergent, Claire; Malandrin, Laurence

    2014-12-01

    Rhoptry-associated-protein 1 (RAP-1) is considered as a potential vaccine candidate due to its involvement in red blood cell invasion by parasites in the genus Babesia. We examined its value as a vaccine candidate by studying RAP-1 conservation in isolates of Babesia sp. BQ1 Ningxian, Babesia sp. Tianzhu and Babesia sp. Hebei, responsible for ovine babesiosis in different regions of China. The rap-1 locus in these isolates has very similar features to those described for Babesia sp. BQ1 Lintan, another Chinese isolate also in the B. motasi-like phylogenetic group, namely the presence of three types of rap-1 genes (rap-1a, rap-1b and rap-1c), multiple conserved rap-1b copies (5) interspaced with more or less variable rap-1a copies (6), and the 3' localization of one rap-1c. The isolates Babesia sp. Tianzhu, Babesia sp. BQ1 Lintan and Ningxian were almost identical (average nucleotide identity of 99.9%) over a putative locus of about 31 Kb, including the intergenic regions. Babesia sp. Hebei showed a similar locus organization but differed in the rap-1 locus sequence, for each gene and intergenic region, with an average nucleotide identity of 78%. Our results are in agreement with 18S rDNA phylogenetic studies performed on these isolates. However, in extremely closely related isolates the rap-1 locus seems more conserved (99.9%) than the 18S rDNA (98.7%), whereas in still closely related isolates the identities are much lower (78%) compared with the 18S rDNA (97.7%). The particularities of the rap-1 locus in terms of evolution, phylogeny, diagnosis and vaccine development are discussed.

  13. Mature Surfactant Protein-B Expression by Immunohistochemistry as a Marker for Surfactant System Development in the Fetal Sheep Lung.

    PubMed

    Lock, Mitchell C; McGillick, Erin V; Orgeig, Sandra; Zhang, Song; McMillen, I Caroline; Morrison, Janna L

    2015-11-01

    Evaluation of the number of type II alveolar epithelial cells (AECs) is an important measure of the lung's ability to produce surfactant. Immunohistochemical staining of these cells in lung tissue commonly uses antibodies directed against mature surfactant protein (SP)-C, which is regarded as a reliable SP marker of type II AECs in rodents. There has been no study demonstrating reliable markers for surfactant system maturation by immunohistochemistry in the fetal sheep lung despite being widely used as a model to study lung development. Here we examine staining of a panel of surfactant pro-proteins (pro-SP-B and pro-SP-C) and mature proteins (SP-B and SP-C) in the fetal sheep lung during late gestation in the saccular/alveolar phase of development (120, 130, and 140 days), with term being 150 ± 3 days, to identify the most reliable marker of surfactant producing cells in this species. Results from this study indicate that during late gestation, use of anti-SP-B antibodies in the sheep lung yields significantly higher cell counts in the alveolar epithelium than SP-C antibodies. Furthermore, this study highlights that mature SP-B antibodies are more reliable markers than SP-C antibodies to evaluate surfactant maturation in the fetal sheep lung by immunohistochemistry.

  14. Nearly 1000 Protein Identifications from 50 ng of Xenopus laevis Zygote Homogenate Using Online Sample Preparation on a Strong Cation Exchange Monolith Based Microreactor Coupled with Capillary Zone Electrophoresis.

    PubMed

    Zhang, Zhenbin; Sun, Liangliang; Zhu, Guijie; Cox, Olivia F; Huber, Paul W; Dovichi, Norman J

    2016-01-01

    A sulfonate-silica hybrid strong cation exchange monolith microreactor was synthesized and coupled to a linear polyacrylamide coated capillary for online sample preparation and capillary zone electrophoresis-tandem mass spectrometry (CZE-MS/MS) bottom-up proteomic analysis. The protein sample was loaded onto the microreactor in an acidic buffer. After online reduction, alkylation, and digestion with trypsin, the digests were eluted with 200 mM ammonium bicarbonate at pH 8.2 for CZE-MS/MS analysis using 1 M acetic acid as the background electrolyte. This combination of basic elution and acidic background electrolytes results in both sample stacking and formation of a dynamic pH junction. 369 protein groups and 1274 peptides were identified from 50 ng of Xenopus laevis zygote homogenate, which is comparable with an offline sample preparation method, but the time required for sample preparation was decreased from over 24 h to less than 40 min. Dramatically improved performance was produced by coupling the reactor to a longer separation capillary (∼100 cm) and a Q Exactive HF mass spectrometer. 975 protein groups and 3749 peptides were identified from 50 ng of Xenopus protein using the online sample preparation method.

  15. Proteins.

    ERIC Educational Resources Information Center

    Doolittle, Russell F.

    1985-01-01

    Examines proteins which give rise to structure and, by virtue of selective binding to other molecules, make genes. Binding sites, amino acids, protein evolution, and molecular paleontology are discussed. Work with encoding segments of deoxyribonucleic acid (exons) and noncoding stretches (introns) provides new information for hypotheses. (DH)

  16. Protein

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Proteins are the major structural and functional components of all cells in the body. They are macromolecules that comprise 1 or more chains of amino acids that vary in their sequence and length and are folded into specific 3-dimensional structures. The sizes and conformations of proteins, therefor...

  17. Enhanced biocatalytic production of L-cysteine by Pseudomonas sp. B-3 with in situ product removal using ion-exchange resin.

    PubMed

    Wang, Pu; He, Jun-Yao; Yin, Jiang-Feng

    2015-03-01

    Bioconversion of DL-2-amino-Δ(2)-thiazoline-4-carboxylic acid (DL-ATC) catalyzed by whole cells of Pseudomonas sp. was successfully applied for the production of L-cysteine. It was found, however, like most whole-cell biocatalytic processes, the accumulated L-cysteine produced obvious inhibition to the activity of biocatalyst and reduced the yield. To improve L-cysteine productivity, an anion exchange-based in situ product removal (ISPR) approach was developed. Several anion-exchange resins were tested to select a suitable adsorbent used in the bioconversion of DL-ATC for the in situ removal of L-cysteine. The strong basic anion-exchange resin 201 × 7 exhibited the highest adsorption capacity for L-cysteine and low adsorption for DL-ATC, which is a favorable option. With in situ addition of 60 g L(-1) resin 201 × 7, the product inhibition can be reduced significantly and 200 mmol L(-1) of DL-ATC was converted to L-cysteine with 90.4 % of yield and 28.6 mmol L(-1 )h(-1) of volumetric productivity. Compared to the bioconversion without the addition of resin, the volumetric productivity of L-cysteine was improved by 2.27-fold using ISPR method.

  18. A sugar beet chlorophyll a/b binding protein promoter void of G-box like elements confers strong and leaf specific reporter gene expression in transgenic sugar beet

    PubMed Central

    Stahl, Dietmar J; Kloos, Dorothee U; Hehl, Reinhard

    2004-01-01

    Background Modification of leaf traits in sugar beet requires a strong leaf specific promoter. With such a promoter, expression in taproots can be avoided which may otherwise take away available energy resources for sugar accumulation. Results Suppression Subtractive Hybridization (SSH) was utilized to generate an enriched and equalized cDNA library for leaf expressed genes from sugar beet. Fourteen cDNA fragments corresponding to thirteen different genes were isolated. Northern blot analysis indicates the desired tissue specificity of these genes. The promoters for two chlorophyll a/b binding protein genes (Bvcab11 and Bvcab12) were isolated, linked to reporter genes, and transformed into sugar beet using promoter reporter gene fusions. Transient and transgenic analysis indicate that both promoters direct leaf specific gene expression. A bioinformatic analysis revealed that the Bvcab11 promoter is void of G-box like regulatory elements with a palindromic ACGT core sequence. The data indicate that the presence of a G-box element is not a prerequisite for leaf specific and light induced gene expression in sugar beet. Conclusions This work shows that SSH can be successfully employed for the identification and subsequent isolation of tissue specific sugar beet promoters. These promoters are shown to drive strong leaf specific gene expression in transgenic sugar beet. The application of these promoters for expressing resistance improving genes against foliar diseases is discussed. PMID:15579211

  19. Proteins

    NASA Astrophysics Data System (ADS)

    Regnier, Fred E.; Gooding, Karen M.

    Because of the complexity of cellular material and body fluids, it is seldom possible to analyze a natural product directly. Qualitative and quantitative analyses must often be preceded by some purification step that separates the molecular species being examined from interfering materials. In the case of proteins, column liquid chromatography has been used extensively for these fractionations. With the advent of gel permeation, cation exchange, anion exchange, hydrophobic, and affinity chromatography, it became possible to resolve proteins through their fundamental properties of size, charge, hydrophobicity, and biological affinity. The chromatographic separations used in the early isolation and characterization of many proteins later became analytical tools in their routine analysis. Unfortunately, these inherently simple and versatile column chromatographic techniques introduced in the 50s and 60s have a severe limitation in routine analysis-separation time. It is common to encounter 1-24 h separation times with the classical gel-type supports.

  20. Strong Navajo marriages.

    PubMed

    Skogrand, Linda; Mueller, Mary Lou; Arrington, Rachel; LeBlanc, Heidi; Spotted Elk, Davina; Dayzie, Irene; Rosenband, Reva

    2008-01-01

    The purpose of this qualitative study, conducted in two Navajo Nation chapters, was to learn what makes Navajo marriages strong because no research has been done on this topic. Twenty-one Navajo couples (42 individuals) who felt they had strong marriages volunteered to participate in the study. Couples identified the following marital strengths: (1) maintain communication, (2) nurture your relationship, (3) learn about marriage, (4) be prepared for marriage, and (5) have a strong foundation.

  1. Strong Navajo marriages.

    PubMed

    Skogrand, Linda; Mueller, Mary Lou; Arrington, Rachel; LeBlanc, Heidi; Spotted Elk, Davina; Dayzie, Irene; Rosenband, Reva

    2008-01-01

    The purpose of this qualitative study, conducted in two Navajo Nation chapters, was to learn what makes Navajo marriages strong because no research has been done on this topic. Twenty-one Navajo couples (42 individuals) who felt they had strong marriages volunteered to participate in the study. Couples identified the following marital strengths: (1) maintain communication, (2) nurture your relationship, (3) learn about marriage, (4) be prepared for marriage, and (5) have a strong foundation. PMID:19085828

  2. Strong Navajo Marriages

    ERIC Educational Resources Information Center

    Skogrand, Linda; Mueller, Mary Lou; Arrington, Rachel; LeBlanc, Heidi; Spotted Elk, Davina; Dayzie, Irene; Rosenbrand, Reva

    2008-01-01

    The purpose of this qualitative study, conducted in two Navajo Nation chapters, was to learn what makes Navajo marriages strong because no research has been done on this topic. Twenty-one Navajo couples (42 individuals) who felt they had strong marriages volunteered to participate in the study. Couples identified the following marital strengths:…

  3. What Is Strong Correlation?

    ERIC Educational Resources Information Center

    Kozak, Marcin

    2009-01-01

    Interpretation of correlation is often based on rules of thumb in which some boundary values are given to help decide whether correlation is non-important, weak, strong or very strong. This article shows that such rules of thumb may do more harm than good, and instead of supporting interpretation of correlation--which is their aim--they teach a…

  4. Novel influenza virus vectors expressing Brucella L7/L12 or Omp16 proteins in cattle induced a strong T-cell immune response, as well as high protectiveness against B. abortus infection.

    PubMed

    Tabynov, Kaissar; Kydyrbayev, Zhailaubay; Ryskeldinova, Sholpan; Yespembetov, Bolat; Zinina, Nadezhda; Assanzhanova, Nurika; Kozhamkulov, Yerken; Inkarbekov, Dulat; Gotskina, Tatyana; Sansyzbay, Abylai

    2014-04-11

    This paper presents the results of a study of the immunogenicity and protectiveness of new candidate vector vaccine against Brucella abortus - a bivalent vaccine formulation consisting of a mixture of recombinant influenza A subtype H5N1 or H1N1 (viral constructs vaccine formulation) viruses expressing Brucella ribosomal protein L7/L12 and Omp16, in cattle. To increase the effectiveness of the candidate vaccine, adjuvants such as Montanide Gel01 or chitosan were included in its composition. Immunization of cattle (heifers aged 1-1.5 years, 5 animals per group) with the viral constructs vaccine formulation only, or its combination with adjuvants Montanide Gel01 or chitosan, was conducted via the conjunctival method using cross prime (influenza virus subtype H5N1) and booster (influenza virus subtype H1N1) vaccination schedules at an interval of 28 days. Vaccine candidates were evaluated in comparison with the positive (B. abortus S19) and negative (PBS) controls. The viral constructs vaccine formulations, particularly in combination with Montanide Gel01 adjuvant promoted formation of IgG antibodies (with a predominance of antibodies of isotype IgG2a) against Brucella L7/L12 and Omp16 proteins in ELISA. Moreover, these vaccines in cattle induced a strong antigen-specific T-cell immune response, as indicated by a high number of CD4(+) and CD8(+) cells, as well as the concentration of IFN-γ, and most importantly provided a high level of protectiveness comparable to the commercial B. abortus S19 vaccine and superior to the B. abortus S19 vaccine in combination with Montanide Gel01 adjuvant. Based on these findings, we recommended the bivalent vaccine formulation containing the adjuvant Montanide Gel01 for practical use in cattle.

  5. Vaccination of koalas (Phascolarctos cinereus) with a recombinant chlamydial major outer membrane protein adjuvanted with poly I:C, a host defense peptide and polyphosphazine, elicits strong and long lasting cellular and humoral immune responses.

    PubMed

    Khan, Shahneaz Ali; Waugh, Courtney; Rawlinson, Galit; Brumm, Jacqui; Nilsson, Karen; Gerdts, Volker; Potter, Andrew; Polkinghorne, Adam; Beagley, Kenneth; Timms, Peter

    2014-10-01

    Chlamydial infections are wide spread in koalas across their range and a solution to this debilitating disease has been sought for over a decade. Antibiotics are the currently accepted therapeutic measure, but are not an effective treatment due to the asymptomatic nature of some infections and a low efficacy rate. Thus, a vaccine would be an ideal way to address this infectious disease threat in the wild. Previous vaccine trials have used a three-dose regimen; however this is very difficult to apply in the field as it would require multiple capture events, which are stressful and invasive processes for the koala. In addition, it requires skilled koala handlers and a significant monetary investment. To overcome these challenges, in this study we utilized a polyphosphazine based poly I:C and a host defense peptide adjuvant combined with recombinant chlamydial major outer membrane protein (rMOMP) antigen to induce long lasting (54 weeks) cellular and humoral immunity in female koalas with a novel single immunizing dose. Immunized koalas produced a strong IgG response in plasma, as well as at mucosal sites. Moreover, they showed high levels of C. pecorum specific neutralizing antibodies in the plasma as well as vaginal and conjunctival secretions. Lastly, Chlamydia-specific lymphocyte proliferation responses were produced against both whole chlamydial elementary bodies and rMOMP protein, over the 12-month period. The results of this study suggest that a single dose rMOMP vaccine incorporating a poly I:C, host defense peptide and polyphosphazine adjuvant is able to stimulate both arms of the immune system in koalas, thereby providing an alternative to antibiotic treatment and/or a three-dose vaccine regime.

  6. Vaccination of koalas (Phascolarctos cinereus) with a recombinant chlamydial major outer membrane protein adjuvanted with poly I:C, a host defense peptide and polyphosphazine, elicits strong and long lasting cellular and humoral immune responses.

    PubMed

    Khan, Shahneaz Ali; Waugh, Courtney; Rawlinson, Galit; Brumm, Jacqui; Nilsson, Karen; Gerdts, Volker; Potter, Andrew; Polkinghorne, Adam; Beagley, Kenneth; Timms, Peter

    2014-10-01

    Chlamydial infections are wide spread in koalas across their range and a solution to this debilitating disease has been sought for over a decade. Antibiotics are the currently accepted therapeutic measure, but are not an effective treatment due to the asymptomatic nature of some infections and a low efficacy rate. Thus, a vaccine would be an ideal way to address this infectious disease threat in the wild. Previous vaccine trials have used a three-dose regimen; however this is very difficult to apply in the field as it would require multiple capture events, which are stressful and invasive processes for the koala. In addition, it requires skilled koala handlers and a significant monetary investment. To overcome these challenges, in this study we utilized a polyphosphazine based poly I:C and a host defense peptide adjuvant combined with recombinant chlamydial major outer membrane protein (rMOMP) antigen to induce long lasting (54 weeks) cellular and humoral immunity in female koalas with a novel single immunizing dose. Immunized koalas produced a strong IgG response in plasma, as well as at mucosal sites. Moreover, they showed high levels of C. pecorum specific neutralizing antibodies in the plasma as well as vaginal and conjunctival secretions. Lastly, Chlamydia-specific lymphocyte proliferation responses were produced against both whole chlamydial elementary bodies and rMOMP protein, over the 12-month period. The results of this study suggest that a single dose rMOMP vaccine incorporating a poly I:C, host defense peptide and polyphosphazine adjuvant is able to stimulate both arms of the immune system in koalas, thereby providing an alternative to antibiotic treatment and/or a three-dose vaccine regime. PMID:25196393

  7. Novel influenza virus vectors expressing Brucella L7/L12 or Omp16 proteins in cattle induced a strong T-cell immune response, as well as high protectiveness against B. abortus infection.

    PubMed

    Tabynov, Kaissar; Kydyrbayev, Zhailaubay; Ryskeldinova, Sholpan; Yespembetov, Bolat; Zinina, Nadezhda; Assanzhanova, Nurika; Kozhamkulov, Yerken; Inkarbekov, Dulat; Gotskina, Tatyana; Sansyzbay, Abylai

    2014-04-11

    This paper presents the results of a study of the immunogenicity and protectiveness of new candidate vector vaccine against Brucella abortus - a bivalent vaccine formulation consisting of a mixture of recombinant influenza A subtype H5N1 or H1N1 (viral constructs vaccine formulation) viruses expressing Brucella ribosomal protein L7/L12 and Omp16, in cattle. To increase the effectiveness of the candidate vaccine, adjuvants such as Montanide Gel01 or chitosan were included in its composition. Immunization of cattle (heifers aged 1-1.5 years, 5 animals per group) with the viral constructs vaccine formulation only, or its combination with adjuvants Montanide Gel01 or chitosan, was conducted via the conjunctival method using cross prime (influenza virus subtype H5N1) and booster (influenza virus subtype H1N1) vaccination schedules at an interval of 28 days. Vaccine candidates were evaluated in comparison with the positive (B. abortus S19) and negative (PBS) controls. The viral constructs vaccine formulations, particularly in combination with Montanide Gel01 adjuvant promoted formation of IgG antibodies (with a predominance of antibodies of isotype IgG2a) against Brucella L7/L12 and Omp16 proteins in ELISA. Moreover, these vaccines in cattle induced a strong antigen-specific T-cell immune response, as indicated by a high number of CD4(+) and CD8(+) cells, as well as the concentration of IFN-γ, and most importantly provided a high level of protectiveness comparable to the commercial B. abortus S19 vaccine and superior to the B. abortus S19 vaccine in combination with Montanide Gel01 adjuvant. Based on these findings, we recommended the bivalent vaccine formulation containing the adjuvant Montanide Gel01 for practical use in cattle. PMID:24598723

  8. Living Bones, Strong Bones

    NASA Video Gallery

    In this classroom activity, engineering, nutrition, and physical activity collide when students design and build a healthy bone model of a space explorer which is strong enough to withstand increas...

  9. On Strong Anticipation

    PubMed Central

    Stepp, N.; Turvey, M. T.

    2009-01-01

    We examine Dubois's (2003) distinction between weak anticipation and strong anticipation. Anticipation is weak if it arises from a model of the system via internal simulations. Anticipation is strong if it arises from the system itself via lawful regularities embedded in the system's ordinary mode of functioning. The assumption of weak anticipation dominates cognitive science and neuroscience and in particular the study of perception and action. The assumption of strong anticipation, however, seems to be required by anticipation's ubiquity. It is, for example, characteristic of homeostatic processes at the level of the organism, organs, and cells. We develop the formal distinction between strong and weak anticipation by elaboration of anticipating synchronization, a phenomenon arising from time delays in appropriately coupled dynamical systems. The elaboration is conducted in respect to (a) strictly physical systems, (b) the defining features of circadian rhythms, often viewed as paradigmatic of biological behavior based in internal models, (c) Pavlovian learning, and (d) forward models in motor control. We identify the common thread of strongly anticipatory systems and argue for its significance in furthering understanding of notions such as “internal”, “model” and “prediction”. PMID:20191086

  10. Strongly correlated Bose gases

    NASA Astrophysics Data System (ADS)

    Chevy, F.; Salomon, C.

    2016-10-01

    The strongly interacting Bose gas is one of the most fundamental paradigms of quantum many-body physics and the subject of many experimental and theoretical investigations. We review recent progress on strongly correlated Bose gases, starting with a description of beyond mean-field corrections. We show that the Efimov effect leads to non universal phenomena and to a metastability of the low temperature Bose gas through three-body recombination to deeply bound molecular states. We outline differences and similarities with ultracold Fermi gases, discuss recent experiments on the unitary Bose gas, and finally present a few perspectives for future research.

  11. Intranasal vaccination of recombinant H5N1 HA1 proteins fused with foldon and Fc induces strong mucosal immune responses with neutralizing activity: Implication for developing novel mucosal influenza vaccines

    PubMed Central

    Yu, Fei; Li, Ye; Guo, Yan; Wang, Lili; Yang, Jie; Zhao, Guangyu; Zhou, Yusen; Du, Lanying; Jiang, Shibo

    2015-01-01

    The highly pathogenic avian influenza (HPAI) H5N1 virus remains a threat to public health because of its continued spread in poultry in some countries and its ability to infect humans with high mortality rate, calling for the development of effective and safe vaccines against H5N1 infection. Here, we constructed 4 candidate vaccines by fusing H5N1 hemagglutinin 1 (HA1) with foldon (HA1-Fd), human IgG Fc (HA1-Fc), foldon and Fc (HA1-FdFc) or His-tag (HA1-His). We then compared their ability to induce mucosal immune responses and neutralizing antibodies in the presence or absence of Poly(I:C) and CpG adjuvants via the intranasal route. Without an adjuvant, HA1-FdFc could elicit appreciable humoral immune responses and local mucosal IgA antibodies in immunized mice, while other vaccine candidates only induced background immune responses. In the presence of Poly(I:C) and CpG, both HA1-Fd and HA1-Fc elicited much higher levels of serum IgG and local mucosal IgA antibodies than HA1-His. Poly(I:C) and CpG could also augment the neutralizing antibody responses induced by these 4 vaccine candidates in the order of HA1-FdFc > HA1-Fc > HA1-Fd > HA1-His. These results suggest that both Fd and Fc potentiate the immunogenicity of the recombinant HA1 protein and that Poly(I:C) and CpG serve as efficient mucosal adjuvants in promoting efficacy of these vaccine candidates to induce strong systemic and local antibody responses and potent neutralizing antibodies, providing a useful strategy to develop effective and safe mucosal H5N1 vaccines. PMID:26260706

  12. Intranasal vaccination of recombinant H5N1 HA1 proteins fused with foldon and Fc induces strong mucosal immune responses with neutralizing activity: Implication for developing novel mucosal influenza vaccines.

    PubMed

    Yu, Fei; Li, Ye; Guo, Yan; Wang, Lili; Yang, Jie; Zhao, Guangyu; Zhou, Yusen; Du, Lanying; Jiang, Shibo

    2015-01-01

    The highly pathogenic avian influenza (HPAI) H5N1 virus remains a threat to public health because of its continued spread in poultry in some countries and its ability to infect humans with high mortality rate, calling for the development of effective and safe vaccines against H5N1 infection. Here, we constructed 4 candidate vaccines by fusing H5N1 hemagglutinin 1 (HA1) with foldon (HA1-Fd), human IgG Fc (HA1-Fc), foldon and Fc (HA1-FdFc) or His-tag (HA1-His). We then compared their ability to induce mucosal immune responses and neutralizing antibodies in the presence or absence of Poly(I:C) and CpG adjuvants via the intranasal route. Without an adjuvant, HA1-FdFc could elicit appreciable humoral immune responses and local mucosal IgA antibodies in immunized mice, while other vaccine candidates only induced background immune responses. In the presence of Poly(I:C) and CpG, both HA1-Fd and HA1-Fc elicited much higher levels of serum IgG and local mucosal IgA antibodies than HA1-His. Poly(I:C) and CpG could also augment the neutralizing antibody responses induced by these 4 vaccine candidates in the order of HA1-FdFc > HA1-Fc > HA1-Fd > HA1-His. These results suggest that both Fd and Fc potentiate the immunogenicity of the recombinant HA1 protein and that Poly(I:C) and CpG serve as efficient mucosal adjuvants in promoting efficacy of these vaccine candidates to induce strong systemic and local antibody responses and potent neutralizing antibodies, providing a useful strategy to develop effective and safe mucosal H5N1 vaccines.

  13. Strong Little Magnets

    ERIC Educational Resources Information Center

    Moloney, Michael J.

    2007-01-01

    Did you know that some strong little cylindrical magnets available in local hardware stores can have an effective circumferential current of 2500 A? This intriguing information can be obtained by hanging a pair of magnets at the center of a coil, as shown in Fig. 1, and measuring the oscillation frequency as a function of coil current.

  14. Strong stellar winds.

    PubMed

    Conti, P S; McCray, R

    1980-04-01

    The hottest and most luminous stars lose a substantial fraction of their mass in strong stellar winds. These winds not only affect the evolution of the star, they also carve huge expanding cavities in the surrounding interstellar medium, possibly affecting star formation. The winds are probably driven by radiation pressure, but uncertainties persist in their theoretical description. Strong x-ray sources associated with a few of these hot stars may be used to probe the stellar winds. The nature of the weak x-ray sources recently observed to be associated with many of these stars is uncertain. It is suggested that roughly 10 percent of the luminous hot stars may have as companions neutron stars or black holes orbiting within the stellar winds.

  15. Open Flavor Strong Decays

    NASA Astrophysics Data System (ADS)

    García-Tecocoatzi, H.; Bijker, R.; Ferretti, J.; Galatà, G.; Santopinto, E.

    2016-10-01

    In this contribution, we discuss the results of a QM calculation of the open-flavor strong decays of **** light nucleon resonances. These are the results of a recent calculation, where we used a modified ^3P_0 model for the amplitudes and the U(7) algebraic model and the hypercentral quark model to predict the baryon spectrum. The decay amplitudes are compared with the existing experimental data.

  16. Strongly intensive quantities

    SciTech Connect

    Gorenstein, M. I.; Gazdzicki, M.

    2011-07-15

    Analysis of fluctuations of hadron production properties in collisions of relativistic particles profits from use of measurable intensive quantities which are independent of system size variations. The first family of such quantities was proposed in 1992; another is introduced in this paper. Furthermore we present a proof of independence of volume fluctuations for quantities from both families within the framework of the grand canonical ensemble. These quantities are referred to as strongly intensive ones. Influence of conservation laws and resonance decays is also discussed.

  17. Strong poison revisited.

    PubMed

    Prince, Roger C; Gailer, Jürgen; Gunson, Diane E; Turner, Raymond J; George, Graham N; Pickering, Ingrid J

    2007-11-01

    Selenium in the form of selenocysteine plays an essential role in a number of proteins, but its role in non-enzymatic biochemistry is also important. In this short review we discuss the interactions between inorganic selenium, arsenic and mercury under physiological conditions, especially in the presence of glutathione. This chemistry is obviously important in making the arsenic and mercury unavailable for more toxic interactions, but in the process it suggests that a side-effect of chronic arsenic and/or mercury exposure is likely to be functional selenium deficiency.

  18. Strong Poison Revisited

    SciTech Connect

    Prince, R.C.; Gailer, J.; Gunson, D.E.; Turner, R.J.; George, G.N.; Pickering, I.J.

    2009-06-04

    Selenium in the form of selenocysteine plays an essential role in a number of proteins, but its role in non-enzymatic biochemistry is also important. In this short review we discuss the interactions between inorganic selenium, arsenic and mercury under physiological conditions, especially in the presence of glutathione. This chemistry is obviously important in making the arsenic and mercury unavailable for more toxic interactions, but in the process it suggests that a side-effect of chronic arsenic and/or mercury exposure is likely to be functional selenium deficiency.

  19. Strong, Lightweight, Porous Materials

    NASA Technical Reports Server (NTRS)

    Leventis, Nicholas; Meador, Mary Ann B.; Johnston, James C.; Fabrizio, Eve F.; Ilhan, Ulvi

    2007-01-01

    A new class of strong, lightweight, porous materials has been invented as an outgrowth of an effort to develop reinforced silica aerogels. The new material, called X-Aerogel is less hygroscopic, but no less porous and of similar density to the corresponding unmodified aerogels. However, the property that sets X-Aerogels apart is their mechanical strength, which can be as much as two and a half orders of magnitude stronger that the unmodified aerogels. X-Aerogels are envisioned to be useful for making extremely lightweight, thermally insulating, structural components, but they may also have applications as electrical insulators, components of laminates, catalyst supports, templates for electrode materials, fuel-cell components, and filter membranes.

  20. Strongly anisotropic polymer networks

    NASA Astrophysics Data System (ADS)

    Ulrich, Stephan; Zippelius, Annette; Benetatos, Panayotis

    2011-03-01

    We investigate a network of worm-like chains, which are strongly oriented along a preferred direction due to an external field, boundary conditions, or a nematic environment. We discuss the effects of random permanent cross-links, whose density may follow an arbitrary distribution along the alignment direction. We show that the tilt modulus is unaffected by cross-links. As the cross-link density is increased beyond the gel point, the network develops a stiffness to in-plane shear deformations. Results for the shear elasticity and fluctuations of the polymer chains are presented. The case of cross-linking the chains on one end only is highlighted, it constitutes a simple model for polymer brushes. Moreover force-extension curves are presented for a toy model that consists of two cross-linked chains.

  1. Finding Strong Bridges and Strong Articulation Points in Linear Time

    NASA Astrophysics Data System (ADS)

    Italiano, Giuseppe F.; Laura, Luigi; Santaroni, Federico

    Given a directed graph G, an edge is a strong bridge if its removal increases the number of strongly connected components of G. Similarly, we say that a vertex is a strong articulation point if its removal increases the number of strongly connected components of G. In this paper, we present linear-time algorithms for computing all the strong bridges and all the strong articulation points of directed graphs, solving an open problem posed in [2].

  2. Strongly correlated surface states

    NASA Astrophysics Data System (ADS)

    Alexandrov, Victor A.

    Everything has an edge. However trivial, this phrase has dominated theoretical condensed matter in the past half a decade. Prior to that, questions involving the edge considered to be more of an engineering problem rather than a one of fundamental science: it seemed self-evident that every edge is different. However, recent advances proved that many surface properties enjoy a certain universality, and moreover, are 'topologically' protected. In this thesis I discuss a selected range of problems that bring together topological properties of surface states and strong interactions. Strong interactions alone can lead to a wide spectrum of emergent phenomena: from high temperature superconductivity to unconventional magnetic ordering; interactions can change the properties of particles, from heavy electrons to fractional charges. It is a unique challenge to bring these two topics together. The thesis begins by describing a family of methods and models with interactions so high that electrons effectively disappear as particles and new bound states arise. By invoking the AdS/CFT correspondence we can mimic the physical systems of interest as living on the surface of a higher dimensional universe with a black hole. In a specific example we investigate the properties of the surface states and find helical spin structure of emerged particles. The thesis proceeds from helical particles on the surface of black hole to a surface of samarium hexaboride: an f-electron material with localized magnetic moments at every site. Interactions between electrons in the bulk lead to insulating behavior, but the surfaces found to be conducting. This observation motivated an extensive research: weather the origin of conduction is of a topological nature. Among our main results, we confirm theoretically the topological properties of SmB6; introduce a new framework to address similar questions for this type of insulators, called Kondo insulators. Most notably we introduce the idea of Kondo

  3. Foreshocks of strong earthquakes

    NASA Astrophysics Data System (ADS)

    Guglielmi, A. V.; Sobisevich, L. E.; Sobisevich, A. L.; Lavrov, I. P.

    2014-07-01

    The specific enhancement of ultra-low-frequency (ULF) electromagnetic oscillations a few hours prior to the strong earthquakes, which was previously mentioned in the literature, motivated us to search for the distinctive features of the mechanical (foreshock) activity of the Earth's crust in the epicentral zones of the future earthquakes. Activation of the foreshocks three hours before the main shock is revealed, which is roughly similar to the enhancement of the specific electromagnetic ULF emission. It is hypothesized that the round-the-world seismic echo signals from the earthquakes, which form the peak of energy release 2 h 50 min before the main events, act as the triggers of the main shocks due to the cumulative action of the surface waves converging to the epicenter. It is established that the frequency of the fluctuations in the foreshock activity decreases at the final stages of the preparation of the main shocks, which probably testifies to the so-called mode softening at the approach of the failure point according to the catastrophe theory.

  4. Strong-interaction nonuniversality

    SciTech Connect

    Volkas, R. R.; Foot, R.; He, X.; Joshi, G. C.

    1989-07-01

    The universal QCD color theory is extended to an SU(3)/sub 1//direct product/SU(3)/sub 2//direct product/SU(3)/sub 3/ gauge theory, where quarks of the /ital i/th generation transform as triplets under SU(3)/sub /ital i// and singlets under the other two factors. The usual color group is then identified with the diagonal subgroup, which remains exact after symmetry breaking. The gauge bosons associated with the 16 broken generators then form two massive octets under ordinary color. The interactions between quarks and these heavy gluonlike particles are explicitly nonuniversal and thus an exploration of their physical implications allows us to shed light on the fundamental issue of strong-interaction universality. Nonuniversality and weak flavor mixing are shown to generate heavy-gluon-induced flavor-changing neutral currents. The phenomenology of these processes is studied, as they provide the major experimental constraint on the extended theory. Three symmetry-breaking scenarios are presented. The first has color breaking occurring at the weak scale, while the second and third divorce the two scales. The third model has the interesting feature of radiatively induced off-diagonal Kobayashi-Maskawa matrix elements.

  5. Kinematics of Strong Discontinuities

    NASA Technical Reports Server (NTRS)

    Peterson, K.; Nguyen, G.; Sulsky, D.

    2006-01-01

    Synthetic Aperture Radar (SAR) provides a detailed view of the Arctic ice cover. When processed with the RADARSAT Geophysical Processor System (RGPS), it provides estimates of sea ice motion and deformation over large regions of the Arctic for extended periods of time. The deformation is dominated by the appearance of linear kinematic features that have been associated with the presence of leads. The RGPS deformation products are based on the assumption that the displacement and velocity are smooth functions of the spatial coordinates. However, if the dominant deformation of multiyear ice results from the opening, closing and shearing of leads, then the displacement and velocity can be discontinuous. This presentation discusses the kinematics associated with strong discontinuities that describe possible jumps in displacement or velocity. Ice motion from SAR data are analyzed using this framework. It is assumed that RGPS cells deform due to the presence of a lead. The lead orientation is calculated to optimally account for the observed deformation. It is shown that almost all observed deformation can be represented by lead opening and shearing. The procedure used to reprocess motion data to account for leads will be described and applied to regions of the Beaufort Sea. The procedure not only provides a new view of ice deformation, it can be used to obtain information about the presence of leads for initialization and/or validation of numerical simulations.

  6. The immunodominant T helper 2 (Th2) response elicited in BALB/c mice by the Leishmania LiP2a and LiP2b acidic ribosomal proteins cannot be reverted by strong Th1 inducers

    PubMed Central

    Iborra, S; Abánades, D R; Parody, N; Carrión, J; Risueño, R M; Pineda, M A; Bonay, P; Alonso, C; Soto, M

    2007-01-01

    The search for disease-associated T helper 2 (Th2) Leishmania antigens and the induction of a Th1 immune response to them using defined vaccination protocols is a potential strategy to induce protection against Leishmania infection. Leishmania infantum LiP2a and LiP2b acidic ribosomal protein (P proteins) have been described as prominent antigens during human and canine visceral leishmaniasis. In this study we demonstrate that BALB/c mice infected with Leishmania major develop a Th2-like humoral response against Leishmania LiP2a and LiP2b proteins and that the same response is induced in BALB/c mice when the parasite P proteins are immunized as recombinant molecules without adjuvant. The genetic immunization of BALB/c mice with eukaryotic expression plasmids coding for these proteins was unable to redirect the Th2-like response induced by these antigens, and only the co-administration of the recombinant P proteins with CpG oligodeoxynucleotides (CpG ODN) promoted a mixed Th1/Th2 immune response. According to the preponderance of a Th2 or mixed Th1/Th2 responses elicited by the different regimens of immunization tested, no evidence of protection was observed in mice after challenge with L. major. Although alterations of the clinical outcome were not detected in mice presensitized with the P proteins, the enhanced IgG1 and interleukin (IL)-4 response against total Leishmania antigens in these mice may indicate an exacerbation of the disease. PMID:17900304

  7. Interdependent TTF1 - ErbB4 interactions are critical for surfactant protein-B homeostasis in primary mouse lung alveolar type II cells.

    PubMed

    Marten, Elger; Nielsen, Heber C; Dammann, Christiane E L

    2015-09-01

    ErbB4 receptor and thyroid transcription factor (TTF)-1 are important modulators of fetal alveolar type II (ATII) cell development and injury. ErbB4 is an upstream regulator of TTF-1, promoting its expression in MLE-12 cells, an ATII cell line. Both proteins are known to promote surfactant protein-B gene (SftpB) and protein (SP-B) expression, but their feedback interactions on each other are not known. We hypothesized that TTF-1 expression has a feedback effect on ErbB4 expression in an in-vitro model of isolated mouse ATII cells. We tested this hypothesis by analyzing the effects of overexpressing HER4 and Nkx2.1, the genes of ErbB4 and TTF-1 on TTF-1 and ErbB4 protein expression, respectively, as well as SP-B protein expression in primary fetal mouse lung ATII cells. Transient ErbB4 protein overexpression upregulated TTF-1 protein expression in primary fetal ATII cells, similarly to results previously shown in MLE-12 cells. Transient TTF-1 protein overexpression down regulated ErbB4 protein expression in both cell types. TTF-1 protein was upregulated in primary transgenic ErbB4-depleted adult ATII cells, however SP-B protein expression in these adult transgenic ATII cells was not affected by the absence of ErbB4. The observation that TTF-1 is upregulated in fetal ATII cells by ErbB4 overexpression and also in ErbB4-deleted adult ATII cells suggests additional factors interact with ErbB4 to regulate TTF-1 levels. We conclude that the interdependency of TTF-1 and ErbB4 is important for surfactant protein levels. The interactive regulation of ErbB4 and TTF-1 needs further elucidation.

  8. Osa protein constitutes a strong oncogenic suppression system that can block vir-dependent transfer of IncQ plasmids between Agrobacterium cells and the establishment of IncQ plasmids in plant cells.

    PubMed

    Lee, Lan-Ying; Gelvin, Stanton B

    2004-11-01

    The osa (oncogenic suppressive activity) gene of the IncW group plasmid pSa is sufficient to suppress tumorigenesis by Agrobacterium tumefaciens. osa confers oncogenic suppression by inhibiting VirE2 protein export. This result is similar, but not identical, to that of oncogenic suppression by the IncQ plasmid RSF1010. We conducted a series of experiments to compare oncogenic suppression by these two systems. Agrobacterium strains harboring plasmids containing osa are more able to effect oncogenic suppression than are similar strains containing various RSF1010 derivatives. When osa is present within a donor Agrobacterium strain that also carries a derivative of RSF1010, the transfer of RSF1010 derivatives to recipient bacteria and their establishment in plants are blocked. Oncogenic suppression is still effected when the osa gene is integrated into the Agrobacterium chromosome, suggesting that it is the osa gene product that is active in suppression and that suppression does not require a protein-nucleic acid intermediate like that described for IncQ plasmids. Extracellular complementation experiments with tobacco leaf disks indicated that Osa blocks stable transfer of RSF1010 to plant cells by inhibiting transfer of VirE2, which is essential for the transfer of RSF1010 into plant cells, and not by inhibiting the actual transfer of RSF1010 itself. Our results suggest that Osa and RSF1010 cause oncogenic suppression by using different mechanisms. PMID:15489437

  9. Glutamine May Repress the Weak LPS and Enhance the Strong Heat Shock Induction of Monocyte and Lymphocyte HSP72 Proteins but May Not Modulate the HSP72 mRNA in Patients with Sepsis or Trauma

    PubMed Central

    Briassouli, Efrossini; Tzanoudaki, Marianna; Goukos, Dimitris; Routsi, Christina; Nanas, Serafim; Vardas, Kostas; Apostolou, Kleovoulos; Kanariou, Maria; Daikos, George; Briassoulis, George

    2015-01-01

    Objective. We assessed the lipopolysaccharide (LPS) or heat shock (HS) induction of heat shock protein-72 (HSP72) in peripheral blood mononuclear cells (PBMCs) of patients with severe sepsis (SS) or trauma-related systemic inflammatory response syndrome (SIRS), compared to healthy individuals (H); we also investigated any pre- or posttreatment modulating glutamine (Gln) effect. Methods. SS (11), SIRS (10), and H (19) PBMCs were incubated with 1 μg/mL LPS or 43°HS. Gln 10 mM was either added 1 h before or 1 h after induction or was not added at all. We measured monocyte (m), lymphocyte (l), mRNA HSP72, HSP72 polymorphisms, interleukins (ILs), monocyte chemoattractant protein-1 (MCP-1), and cortisol levels. Results. Baseline lHSP72 was higher in SS (p < 0.03), and mHSP72 in SIRS (p < 0.02), compared to H. Only HS induced l/mHSP72/mRNA HSP72; LPS induced IL-6, IL-8, IL-10, and MCP-1. Induced mRNA was related to l/mHSP72, and was related negatively to cytokines. Intracellular l/mHSP72/HSP72 mRNA was related to serum ILs, not being influenced by cortisol, illness severity, and HSP72 polymorphisms. Gln did not induce mRNA in any group but modified l/mHSP72 after LPS/HS induction unpredictably. Conclusions. HSP72 mRNA and l/mHSP72 are higher among critically ill patients, further induced by HS, not by LPS. HSP72 proteins and HSP72 mRNA are related to serum ILs and are negatively related to supernatant cytokines, not being influenced by HSP72 polymorphisms, cortisol, or illness severity. Gln may depress l/mHSP72 after LPS exposure and enhance them after HS induction, but it may not affect early induced HSP72 mRNA. PMID:26550577

  10. Expression and Localization of Lung Surfactant Proteins in Human Testis

    PubMed Central

    Wagner, Walter; Matthies, Cord; Ruf, Christian; Hartmann, Arndt; Garreis, Fabian; Paulsen, Friedrich

    2015-01-01

    Background Surfactant proteins (SPs) have been described in various tissues and fluids including tissues of the nasolacrimal apparatus, airways and digestive tract. Human testis have a glandular function as a part of the reproductive and the endocrine system, but no data are available on SPs in human testis and prostate under healthy and pathologic conditions. Objective The aim of the study was the detection and characterization of the surfactant proteins A, B, C and D (SP-A, SP-B, SP-C, SP-D) in human testis. Additionally tissue samples affected by testicular cancer were investigated. Results Surfactant proteins A, B, C and D were detected using RT-PCR in healthy testis. By means of Western blot analysis, these SPs were detected at the protein level in normal testis, seminoma and seminal fluid, but not in spermatozoa. Expression of SPs was weaker in seminoma compared to normal testicular tissue. SPs were localized in combination with vimentin immunohistochemically in cells of Sertoli and Leydig. Conclusion Surfactant proteins seem to be inherent part of the human testis. By means of physicochemical properties the proteins appear to play a role during immunological and rheological process of the testicular tissue. The presence of SP-B and SP-C in cells of Sertoli correlates with their function of fluid secretion and may support transportation of spermatozoa. In seminoma the expression of all SP's was generally weaker compared to normal germ cells. This could lead to a reduction of immunomodulatory and rheology processes in the germ cell tumor. PMID:26599233

  11. Strong-back safety latch

    SciTech Connect

    DeSantis, G.N.

    1995-03-06

    The calculation decides the integrity of the safety latch that will hold the strong-back to the pump during lifting. The safety latch will be welded to the strong-back and will latch to a 1.5-in. dia cantilever rod welded to the pump baseplate. The static and dynamic analysis shows that the safety latch will hold the strong-back to the pump if the friction clamps fail and the pump become free from the strong-back. Thus, the safety latch will meet the requirements of the Lifting and Rigging Manual for under the hook lifting for static loading; it can withstand shock loads from the strong-back falling 0.25 inch.

  12. Recent advances of strong-strong beam-beam simulation

    SciTech Connect

    Qiang, Ji; Furman, Miguel A.; Ryne, Robert D.; Fischer, Wolfram; Ohmi,Kazuhito

    2004-09-15

    In this paper, we report on recent advances in strong-strong beam-beam simulation. Numerical methods used in the calculation of the beam-beam forces are reviewed. A new computational method to solve the Poisson equation on nonuniform grid is presented. This method reduces the computational cost by a half compared with the standard FFT based method on uniform grid. It is also more accurate than the standard method for a colliding beam with low transverse aspect ratio. In applications, we present the study of coherent modes with multi-bunch, multi-collision beam-beam interactions at RHIC. We also present the strong-strong simulation of the luminosity evolution at KEKB with and without finite crossing angle.

  13. Titanium: light, strong, and white

    USGS Publications Warehouse

    Woodruff, Laurel; Bedinger, George

    2013-01-01

    Titanium (Ti) is a strong silver-gray metal that is highly resistant to corrosion and is chemically inert. It is as strong as steel but 45 percent lighter, and it is twice as strong as aluminum but only 60 percent heavier. Titanium dioxide (TiO2) has a very high refractive index, which means that it has high light-scattering ability. As a result, TiO2 imparts whiteness, opacity, and brightness to many products. ...Because of the unique physical properties of titanium metal and the whiteness provided by TiO2, titanium is now used widely in modern industrial societies.

  14. An Anionic Phospholipid Enables the Hydrophobic Surfactant Proteins to Alter Spontaneous Curvature

    PubMed Central

    Chavarha, Mariya; Loney, Ryan W.; Rananavare, Shankar B.; Hall, Stephen B.

    2013-01-01

    The hydrophobic surfactant proteins, SP-B and SP-C, greatly accelerate the adsorption of the surfactant lipids to an air/water interface. Previous studies of factors that affect curvature suggest that vesicles may adsorb via a rate-limiting structure with prominent negative curvature, in which the hydrophilic face of the lipid leaflets is concave. To determine if SP-B and SP-C might promote adsorption by inducing negative curvature, we used small-angle x-ray scattering to test whether the physiological mixture of the two proteins affects the radius of cylindrical monolayers in the inverse hexagonal phase. With dioleoyl phosphatidylethanolamine alone, the proteins had no effect on the hexagonal lattice constant, suggesting that the proteins fail to insert into the cylindrical monolayers. The surfactant lipids also contain ∼10% anionic phospholipids, which might allow incorporation of the cationic proteins. With 10% of the anionic dioleoyl phosphatidylglycerol added to dioleoyl phosphatidylethanolamine, the proteins induced a dose-related decrease in the hexagonal lattice constant. At 30°C, the reduction reached a maximum of 8% relative to the lipids alone at ∼1% (w/w) protein. Variation of NaCl concentration tested whether the effect of the protein represented a strictly electrostatic effect that screening by electrolyte would eliminate. With concentrations up to 3 M NaCl, the dose-related change in the hexagonal lattice constant decreased but persisted. Measurements at different hydrations determined the location of the pivotal plane and proved that the change in the lattice constant produced by the proteins resulted from a shift in spontaneous curvature. These results provide the most direct evidence yet that the surfactant proteins can induce negative curvature in lipid leaflets. This finding supports the model in which the proteins promote adsorption by facilitating the formation of a negatively curved, rate-limiting structure. PMID:23442910

  15. Creating and Nurturing Strong Teams.

    ERIC Educational Resources Information Center

    Martin, Kaye M.

    1999-01-01

    Discusses ways to create and sustain strong teaching teams, including matching curriculum goals, complementary professional strengths, and exercise of autonomy. Elaborates the administrator's role in nurturing and supporting teamwork. (JPB)

  16. Simulating strongly correlated electrons with a strongly interacting Fermi gas

    SciTech Connect

    Thomas, John E.

    2013-05-28

    The quantum many-body physics of strongly-correlated fermions is studied in a degenerate, strongly- interacting atomic Fermi gas, first realized by our group with DOE support in 2002. This system, which exhibits strong spin pairing, is now widely studied and provides an important paradigm for testing predictions based on state-of-the-art many-body theory in fields ranging from nuclear matter to high temperature superfluidity and superconductivity. As the system is strongly interacting, both the superfluid and the normal fluid are nontrivial and of great interest. A central part of our program on Fermi gases is the connection between the study of thermodynamics, supported by DOE and the study of hydrodynamic transport, supported by NSF. This connection is especially interesting in view of a recent conjecture from the string theory community on the concept of nearly perfect normal fluids, which exhibit a minimum ratio of shear viscosity to entropy density in strongly-interacting, scale-invariant systems.

  17. A synthetic segment of surfactant protein A: structure, in vitro surface activity, and in vivo efficacy.

    PubMed

    Walther, F J; David-Cu, R; Leung, C; Bruni, R; Hernández-Juviel, J; Gordon, L M; Waring, A J

    1996-06-01

    Surfactant protein A (SP-A) is a 248-residue, water-soluble, lipid-associating protein found in lung surfactant. Analysis of the amino acid sequence using the Eisenberg hydrophobic moment algorithm predicts that the SP-A segment spanning residues 114-144 has high hydrophobic moments, typical of lipid-associating amphipathic domains. The secondary structure, in vitro surface activity and in vivo lung activity of this SP-A sequence were studied with a 31-residue synthetic peptide analog (A114-144). Analysis of the secondary structure using circular dichroism and Fourier transform infrared spectroscopy indicated association with lipid dispersions and a dominant helical content. Surface activity measurements of A114-144 with surfactant lipid dispersions and the hydrophobic surfactant proteins B and C (SP-B/C) showed that A114-144 enhances surface activity under conditions of dynamic compression and respreading on a Langmuir/Wilhelmy surface balance. Synthetic surfactant dispersions containing A114-144 improved lung compliance in spontaneously breathing, 28-d premature rabbits to a greater degree than surfactant dispersions with synthetic SP-B/C and synthetic surfactant lipids alone. These observations indicate that inclusion of A114-144 may improve synthetic preparations currently used for surfactant replacement therapy.

  18. Strongly interacting ultracold polar molecules

    NASA Astrophysics Data System (ADS)

    Gadway, Bryce; Yan, Bo

    2016-08-01

    This paper reviews recent advances in the study of strongly interacting systems of dipolar molecules. Heteronuclear molecules feature large and tunable electric dipole moments, which give rise to long-range and anisotropic dipole-dipole interactions. Ultracold samples of dipolar molecules with long-range interactions offer a unique platform for quantum simulations and the study of correlated many-body physics. We provide an introduction to the physics of dipolar quantum gases, both electric and magnetic, and summarize the multipronged efforts to bring dipolar molecules into the quantum regime. We discuss in detail the recent experimental progress in realizing and studying strongly interacting systems of polar molecules trapped in optical lattices, with particular emphasis on the study of interacting spin systems and non-equilibrium quantum magnetism. Finally, we conclude with a brief discussion of the future prospects for studies of strongly interacting dipolar molecules.

  19. The SNAP Strong Lens Survey

    SciTech Connect

    Marshall, P.

    2005-01-03

    Basic considerations of lens detection and identification indicate that a wide field survey of the types planned for weak lensing and Type Ia SNe with SNAP are close to optimal for the optical detection of strong lenses. Such a ''piggy-back'' survey might be expected even pessimistically to provide a catalogue of a few thousand new strong lenses, with the numbers dominated by systems of faint blue galaxies lensed by foreground ellipticals. After sketching out our strategy for detecting and measuring these galaxy lenses using the SNAP images, we discuss some of the scientific applications of such a large sample of gravitational lenses: in particular we comment on the partition of information between lens structure, the source population properties and cosmology. Understanding this partitioning is key to assessing strong lens cosmography's value as a cosmological probe.

  20. Strongly interacting ultracold polar molecules

    NASA Astrophysics Data System (ADS)

    Gadway, Bryce; Yan, Bo

    2016-08-01

    This paper reviews recent advances in the study of strongly interacting systems of dipolar molecules. Heteronuclear molecules feature large and tunable electric dipole moments, which give rise to long-range and anisotropic dipole–dipole interactions. Ultracold samples of dipolar molecules with long-range interactions offer a unique platform for quantum simulations and the study of correlated many-body physics. We provide an introduction to the physics of dipolar quantum gases, both electric and magnetic, and summarize the multipronged efforts to bring dipolar molecules into the quantum regime. We discuss in detail the recent experimental progress in realizing and studying strongly interacting systems of polar molecules trapped in optical lattices, with particular emphasis on the study of interacting spin systems and non-equilibrium quantum magnetism. Finally, we conclude with a brief discussion of the future prospects for studies of strongly interacting dipolar molecules.

  1. Simulation of the strong interaction.

    PubMed

    Kenway, Richard

    2002-06-15

    In the Standard Model (SM) of particle physics, quarks are permanently confined by the strong interaction into bound states called hadrons. The values of some parameters, such as the quark masses and the strengths of the decays of one quark flavour into another, cannot be measured directly and must be deduced from experiments on hadrons. This requires calculations of the strong-interaction effects within the bound states, which are only possible using numerical simulations of quantum chromodynamics (QCD), the quantum field theory of the strong interaction. In conjunction with experimental data from B factories over the next few years, QCD simulations may provide clues to physics beyond the SM. The simulations are computationally intensive and, for the past 20 years, have exploited leading-edge computing technology. This continues today, with a project to develop a 10 Tflops computer for QCD costing less than 1 US dollar per Mflops.

  2. Strong Photoassociation in Ultracold Fermions

    NASA Astrophysics Data System (ADS)

    Jing, Li; Jamison, Alan; Rvachov, Timur; Ebadi, Sepher; Son, Hyungmok; Jiang, Yijun; Zwierlein, Martin; Ketterle, Wolfgang

    2016-05-01

    Despite many studies there are still open questions about strong photoassociation in ultracold gases. Photoassociation occurs only at short range and thus can be used as a tool to probe and control the two-body correlation function in an interacting many-body system and to engineer Hamiltonians using dissipation. We propose the possibility to slow down decoherence by photoassociation through the quantum Zeno effect. This can realized by shining strong photoassociation light on the superposition of the lowest two hyperfine states of Lithium 6. NSF, ARO-MURI, Samsung, NSERC.

  3. PREFACE: Strongly Coupled Coulomb Systems Strongly Coupled Coulomb Systems

    NASA Astrophysics Data System (ADS)

    Neilson, David; Senatore, Gaetano

    2009-05-01

    This special issue contains papers presented at the International Conference on Strongly Coupled Coulomb Systems (SCCS), held from 29 July-2 August 2008 at the University of Camerino. Camerino is an ancient hill-top town located in the Apennine mountains of Italy, 200 kilometres northeast of Rome, with a university dating back to 1336. The Camerino conference was the 11th in a series which started in 1977: 1977: Orleans-la-Source, France, as a NATO Advanced Study Institute on Strongly Coupled Plasmas (hosted by Marc Feix and Gabor J Kalman) 1982: Les Houches, France (hosted by Marc Baus and Jean-Pierre Hansen) 1986: Santa Cruz, California, USA (hosted by Forrest J Rogers and Hugh E DeWitt) 1989: Tokyo, Japan (hosted by Setsuo Ichimaru) 1992: Rochester, New York, USA (hosted by Hugh M Van Horn and Setsuo Ichimaru) 1995: Binz, Germany (hosted by Wolf Dietrich Kraeft and Manfred Schlanges) 1997: Boston, Massachusetts, USA (hosted by Gabor J Kalman) 1999: St Malo, France (hosted by Claude Deutsch and Bernard Jancovici) 2002: Santa Fe, New Mexico, USA (hosted by John F Benage and Michael S Murillo) 2005: Moscow, Russia (hosted by Vladimir E Fortov and Vladimir Vorob'ev). The name of the series was changed in 1996 from Strongly Coupled Plasmas to Strongly Coupled Coulomb Systems to reflect a wider range of topics. 'Strongly Coupled Coulomb Systems' encompasses diverse many-body systems and physical conditions. The purpose of the conferences is to provide a regular international forum for the presentation and discussion of research achievements and ideas relating to a variety of plasma, liquid and condensed matter systems that are dominated by strong Coulomb interactions between their constituents. Each meeting has seen an evolution of topics and emphases that have followed new discoveries and new techniques. The field has continued to see new experimental tools and access to new strongly coupled conditions, most recently in the areas of warm matter, dusty plasmas

  4. A strongly coupled anyon material

    NASA Astrophysics Data System (ADS)

    Brattan, Daniel K.

    2015-11-01

    We use alternative quantisation of the D3-D5 system to explore properties of a strongly coupled anyon material at finite density and temperature. We study the transport properties of the material and find both diffusion and massive holographic zero sound modes. By studying the anyon number conductivity we also find evidence for the anyonic analogue of the metal-insulator transition.

  5. Strong covalent hydration of terephthalaldehyde.

    PubMed

    Baymak, Melek S; Vercoe, Kellie L; Zuman, Petr

    2005-11-24

    Spectrophotometric and electroanalytical studies indicate that one of the formyl groups of terephthalaldehyde in aqueous solution is present in about 23% as a geminal diol. Stronger covalent hydration of CHO in terephthalaldehyde than in p-nitrobenzaldehyde is attributed to a strong resonance interaction between the two formyl groups.

  6. Strong coupling electroweak symmetry breaking

    SciTech Connect

    Barklow, T.L.; Burdman, G.; Chivukula, R.S.

    1997-04-01

    The authors review models of electroweak symmetry breaking due to new strong interactions at the TeV energy scale and discuss the prospects for their experimental tests. They emphasize the direct observation of the new interactions through high-energy scattering of vector bosons. They also discuss indirect probes of the new interactions and exotic particles predicted by specific theoretical models.

  7. Dynamics of Strongly Compressible Turbulence

    NASA Astrophysics Data System (ADS)

    Towery, Colin; Poludnenko, Alexei; Hamlington, Peter

    2015-11-01

    Strongly compressible turbulence, wherein the turbulent velocity fluctuations directly generate compression effects, plays a critical role in many important scientific and engineering problems of interest today, for instance in the processes of stellar formation and also hypersonic vehicle design. This turbulence is very unusual in comparison to ``normal,'' weakly compressible and incompressible turbulence, which is relatively well understood. Strongly compressible turbulence is characterized by large variations in the thermodynamic state of the fluid in space and time, including excited acoustic modes, strong, localized shock and rarefaction structures, and rapid heating due to viscous dissipation. The exact nature of these thermo-fluid dynamics has yet to be discerned, which greatly limits the ability of current computational engineering models to successfully treat these problems. New direct numerical simulation (DNS) results of strongly compressible isotropic turbulence will be presented along with a framework for characterizing and evaluating compressible turbulence dynamics and a connection will be made between the present diagnostic analysis and the validation of engineering turbulence models.

  8. Strongly Coupled Nanotube Electromechanical Resonators.

    PubMed

    Deng, Guang-Wei; Zhu, Dong; Wang, Xin-He; Zou, Chang-Ling; Wang, Jiang-Tao; Li, Hai-Ou; Cao, Gang; Liu, Di; Li, Yan; Xiao, Ming; Guo, Guang-Can; Jiang, Kai-Li; Dai, Xing-Can; Guo, Guo-Ping

    2016-09-14

    Coupling an electromechanical resonator with carbon-nanotube quantum dots is a significant method to control both the electronic charge and the spin quantum states. By exploiting a novel microtransfer technique, we fabricate two separate strongly coupled and electrically tunable mechanical resonators for the first time. The frequency of the two resonators can be individually tuned by the bottom gates, and in each resonator, the electron transport through the quantum dot can be strongly affected by the phonon mode and vice versa. Furthermore, the conductance of either resonator can be nonlocally modulated by the other resonator through phonon-phonon interaction between the two resonators. Strong coupling is observed between the phonon modes of the two resonators, where the coupling strength larger than 200 kHz can be reached. This strongly coupled nanotube electromechanical resonator array provides an experimental platform for future studies of the coherent electron-phonon interaction, the phonon-mediated long-distance electron interaction, and entanglement state generation.

  9. Strong cosmic censorship and the strong curvature singularities

    SciTech Connect

    Kro-dotlak, A.

    1987-11-01

    Conditions are given under which any asymptotically simple and empty space-time that has a partial Cauchy surface with an asymptotically simple past is globally hyperbolic. It is shown that this result suggests that the Cauchy horizons of the type occurring in Reissner--Nordstroem and Kerr space-times are unstable. This in turn gives support for the validity of the strong cosmic censorship hypothesis.

  10. Quality control by <strong>HyperS>pectral <strong>I>maging (HSI) in solid waste recycling: logics, algorithms and procedures

    NASA Astrophysics Data System (ADS)

    Bonifazi, Giuseppe; Serranti, Silvia

    2014-03-01

    In secondary raw materials and recycling sectors, the products quality represents, more and more, the key issue to pursuit in order to be competitive in a more and more demanding market, where quality standards and products certification play a preheminent role. These goals assume particular importance when recycling actions are applied. Recovered products, resulting from waste materials, and/or dismissed products processing, are, in fact, always seen with a certain suspect. An adequate response of the industry to the market can only be given through the utilization of equipment and procedures ensuring pure, high-quality production, and efficient work and cost. All these goals can be reached adopting not only more efficient equipment and layouts, but also introducing new processing logics able to realize a full control of the handled material flow streams fulfilling, at the same time, i) an easy management of the procedures, ii) an efficient use of the energy, iii) the definition and set up of reliable and robust procedures, iv) the possibility to implement network connectivity capabilities finalized to a remote monitoring and control of the processes and v) a full data storage, analysis and retrieving. Furthermore the ongoing legislation and regulation require the implementation of recycling infrastructure characterised by high resources efficiency and low environmental impacts, both aspects being strongly linked to the waste materials and/or dismissed products original characteristics. For these reasons an optimal recycling infrastructure design primarily requires a full knowledge of the characteristics of the input waste. What previously outlined requires the introduction of a new important concept to apply in solid waste recycling, the recycling-oriented characterization, that is the set of actions addressed to strategically determine selected attributes, in order to get goaloriented data on waste for the development, implementation or improvement of recycling

  11. PREFACE: Strongly correlated electron systems Strongly correlated electron systems

    NASA Astrophysics Data System (ADS)

    Saxena, Siddharth S.; Littlewood, P. B.

    2012-07-01

    This special section is dedicated to the Strongly Correlated Electron Systems Conference (SCES) 2011, which was held from 29 August-3 September 2011, in Cambridge, UK. SCES'2011 is dedicated to 100 years of superconductivity and covers a range of topics in the area of strongly correlated systems. The correlated electronic and magnetic materials featured include f-electron based heavy fermion intermetallics and d-electron based transition metal compounds. The selected papers derived from invited presentations seek to deepen our understanding of the rich physical phenomena that arise from correlation effects. The focus is on quantum phase transitions, non-Fermi liquid phenomena, quantum magnetism, unconventional superconductivity and metal-insulator transitions. Both experimental and theoretical work is presented. Based on fundamental advances in the understanding of electronic materials, much of 20th century materials physics was driven by miniaturisation and integration in the electronics industry to the current generation of nanometre scale devices. The achievements of this industry have brought unprecedented advances to society and well-being, and no doubt there is much further to go—note that this progress is founded on investments and studies in the fundamentals of condensed matter physics from more than 50 years ago. Nevertheless, the defining challenges for the 21st century will lie in the discovery in science, and deployment through engineering, of technologies that can deliver the scale needed to have an impact on the sustainability agenda. Thus the big developments in nanotechnology may lie not in the pursuit of yet smaller transistors, but in the design of new structures that can revolutionise the performance of solar cells, batteries, fuel cells, light-weight structural materials, refrigeration, water purification, etc. The science presented in the papers of this special section also highlights the underlying interest in energy-dense materials, which

  12. EDITORIAL: Strongly correlated electron systems Strongly correlated electron systems

    NASA Astrophysics Data System (ADS)

    Ronning, Filip; Batista, Cristian

    2011-03-01

    Strongly correlated electrons is an exciting and diverse field in condensed matter physics. This special issue aims to capture some of that excitement and recent developments in the field. Given that this issue was inspired by the 2010 International Conference on Strongly Correlated Electron Systems (SCES 2010), we briefly give some history in order to place this issue in context. The 2010 International Conference on Strongly Correlated Electron Systems was held in Santa Fe, New Mexico, a reunion of sorts from the 1989 International Conference on the Physics of Highly Correlated Electron Systems that also convened in Santa Fe. SCES 2010—co-chaired by John Sarrao and Joe Thompson—followed the tradition of earlier conferences, in this century, hosted by Buzios (2008), Houston (2007), Vienna (2005), Karlsruhe (2004), Krakow (2002) and Ann Arbor (2001). Every three years since 1997, SCES has joined the International Conference on Magnetism (ICM), held in Recife (2000), Rome (2003), Kyoto (2006) and Karlsruhe (2009). Like its predecessors, SCES 2010 topics included strongly correlated f- and d-electron systems, heavy-fermion behaviors, quantum-phase transitions, non-Fermi liquid phenomena, unconventional superconductivity, and emergent states that arise from electronic correlations. Recent developments from studies of quantum magnetism and cold atoms complemented the traditional subjects and were included in SCES 2010. 2010 celebrated the 400th anniversary of Santa Fe as well as the birth of astronomy. So what's the connection to SCES? The Dutch invention of the first practical telescope and its use by Galileo in 1610 and subsequent years overturned dogma that the sun revolved about the earth. This revolutionary, and at the time heretical, conclusion required innovative combinations of new instrumentation, observation and mathematics. These same combinations are just as important 400 years later and are the foundation of scientific discoveries that were discussed

  13. Serum Levels of Surfactant Proteins in Patients with Combined Pulmonary Fibrosis and Emphysema (CPFE)

    PubMed Central

    Papaioannou, Andriana I.; Kostikas, Konstantinos; Manali, Effrosyni D.; Papadaki, Georgia; Roussou, Aneza; Spathis, Aris; Mazioti, Argyro; Tomos, Ioannis; Papanikolaou, Ilias; Loukides, Stelios; Chainis, Kyriakos; Karakitsos, Petros; Griese, Matthias; Papiris, Spyros

    2016-01-01

    Introduction Emphysema and idiopathic pulmonary fibrosis (IPF) present either per se or coexist in combined pulmonary fibrosis and emphysema (CPFE). Serum surfactant proteins (SPs) A, B, C and D levels may reflect lung damage. We evaluated serum SP levels in healthy controls, emphysema, IPF, and CPFE patients and their associations to disease severity and survival. Methods 122 consecutive patients (31 emphysema, 62 IPF, and 29 CPFE) and 25 healthy controls underwent PFTs, ABG-measurements, 6MWT and chest HRCT. Serum levels of SPs were measured. Patients were followed-up for 1-year. Results SP-A and SP-D levels differed between groups (p = 0.006 and p<0.001 respectively). In post-hoc analysis, SP-A levels differed only between controls and CPFE (p<0.05) and CPFE and emphysema (p<0.05). SP-D differed between controls and IPF or CPFE (p<0.001 for both comparisons). In IPF SP-B correlated to pulmonary function while SP-A, correlated to the Composite Physiological Index (CPI). Controls current smokers had higher SP-A and SP-D levels compared to non-smokers (p = 0.026 and p = 0.023 respectively). SP-D levels were higher in CPFE patients with extended emphysema (p = 0.042). In patients with IPF, SP-B levels at the upper quartile of its range (≥26 ng/mL) presented a weak association with reduced survival (p = 0.05). Conclusion In conclusion, serum SP-A and SP-D levels were higher where fibrosis exists or coexists and related to disease severity, suggesting that serum SPs relate to alveolar damage in fibrotic lungs and may reflect either local overproduction or overleakage. The weak association between high levels of SP-B and survival needs further validation in clinical trials. PMID:27337142

  14. Strong Gravitational Lensing with SNAP

    NASA Astrophysics Data System (ADS)

    Blandford, R. D.; Koopmans, L. V. E.

    2001-12-01

    As currently configured, SNAP should cover an area of sky to sufficient depth to observe tens of thousands of strong (ie multiple-imaging) gravitational lenses. This could provide an unprecedented database for performing cosmography, studies of large scale structure and galactic structure.and should complement the weak lensing program which will concentrate on larger scales. The challenge will be to recognize multiple imaging efficiently in an unbiased way and to organize effective follow up so as to obtain spectroscopic redshifts and monitor variable sources, when appropriate. Experience with the CLASS radio survey and the CASTLES program will be invaluable as we transition from the detailed study of a few tens of strong lenses through the ACS ultra-deep, deep and wide surveys (which should yield hundreds of examples of multiple imaging) to the larger samples envisaged from SNAP. New approaches to data analysis will be needed and coordinated planning with other proposed large survey instruments, like SKA, will be essential.

  15. Comparing strengths of directional selection: how strong is strong?

    PubMed

    Hereford, Joe; Hansen, Thomas F; Houle, David

    2004-10-01

    The fundamental equation in evolutionary quantitative genetics, the Lande equation, describes the response to directional selection as a product of the additive genetic variance and the selection gradient of trait value on relative fitness. Comparisons of both genetic variances and selection gradients across traits or populations require standardization, as both are scale dependent. The Lande equation can be standardized in two ways. Standardizing by the variance of the selected trait yields the response in units of standard deviation as the product of the heritability and the variance-standardized selection gradient. This standardization conflates selection and variation because the phenotypic variance is a function of the genetic variance. Alternatively, one can standardize the Lande equation using the trait mean, yielding the proportional response to selection as the product of the squared coefficient of additive genetic variance and the mean-standardized selection gradient. Mean-standardized selection gradients are particularly useful for summarizing the strength of selection because the mean-standardized gradient for fitness itself is one, a convenient benchmark for strong selection. We review published estimates of directional selection in natural populations using mean-standardized selection gradients. Only 38 published studies provided all the necessary information for calculation of mean-standardized gradients. The median absolute value of multivariate mean-standardized gradients shows that selection is on average 54% as strong as selection on fitness. Correcting for the upward bias introduced by taking absolute values lowers the median to 31%, still very strong selection. Such large estimates clearly cannot be representative of selection on all traits. Some possible sources of overestimation of the strength of selection include confounding environmental and genotypic effects on fitness, the use of fitness components as proxies for fitness, and biases in

  16. Strongly interacting parton matter equilibration

    SciTech Connect

    Ozvenchuk, V.; Linnyk, O.; Bratkovskaya, E.; Gorenstein, M.; Cassing, W.

    2012-07-15

    We study the kinetic and chemical equilibration in 'infinite' parton matter within the Parton-Hadron-String Dynamics transport approach. The 'infinite' matter is simulated within a cubic box with periodic boundary conditions initialized at different energy densities. Particle abundances, kinetic energy distributions, and the detailed balance of the off-shell quarks and gluons in the strongly-interacting quarkgluon plasma are addressed and discussed.

  17. Tilts in strong ground motion

    USGS Publications Warehouse

    Graizer, V.

    2006-01-01

    Most instruments used in seismological practice to record ground motion are pendulum seismographs, velocigraphs, or accelerographs. In most cases it is assumed that seismic instruments are only sensitive to the translational motion of the instrument's base. In this study the full equation of pendulum motion, including the inputs of rotations and tilts, is considered. It is shown that tilting the accelerograph's base can severely impact its response to the ground motion. The method of tilt evaluation using uncorrected strong-motion accelerograms was first suggested by Graizer (1989), and later tested in several laboratory experiments with different strong-motion instruments. The method is based on the difference in the tilt sensitivity of the horizontal and vertical pendulums. The method was applied to many of the strongest records of the Mw 6.7 Northridge earthquake of 1994. Examples are shown when relatively large tilts of up to a few degrees occurred during strong earthquake ground motion. Residual tilt extracted from the strong-motion record at the Pacoima Dam-Upper Left Abutment reached 3.1?? in N45??E direction, and was a result of local earthquake-induced tilting due to high-amplitude shaking. This value is in agreement with the residual tilt measured by using electronic level a few days after the earthquake. The method was applied to the building records from the Northridge earthquake. According to the estimates, residual tilt reached 2.6?? on the ground floor of the 12-story Hotel in Ventura. Processing of most of the strongest records of the Northridge earthquake shows that tilts, if happened, were within the error of the method, or less than about 0.5??.

  18. Strongly magnetized classical plasma models

    NASA Technical Reports Server (NTRS)

    Montgomery, D.; Peyraud, J.; Dewitt, C.

    1974-01-01

    Discrete particle processes in the presence of a strong external magnetic field were investigated. These processes include equations of state and other equilibrium thermodynamic relations, thermal relaxation phenomena, transport properties, and microscopic statistical fluctuations in such quantities as the electric field and the charge density. Results from the equilibrium statistical mechanics of two-dimensional plasmas are discussed, along with nonequilibrium statistical mechanics of the electrostatic guiding-center plasma (a two-dimensional plasma model).

  19. Strong CP and SUZ2

    NASA Astrophysics Data System (ADS)

    Albaid, Abdelhamid; Dine, Michael; Draper, Patrick

    2015-12-01

    Solutions to the strong CP problem typically introduce new scales associated with the spontaneous breaking of symmetries. Absent any anthropic argument for small overline{θ} , these scales require stabilization against ultraviolet corrections. Supersymmetry offers a tempting stabilization mechanism, since it can solve the "big" electroweak hierarchy problem at the same time. One family of solutions to strong CP, including generalized parity models, heavy axion models, and heavy η' models, introduces {Z}_2 copies of (part of) the Standard Model and an associated scale of {Z}_2 -breaking. We review why, without additional structure such as supersymmetry, the {Z}_2 -breaking scale is unacceptably tuned. We then study "SUZ2" models, supersymmetric theories with {Z}_2 copies of the MSSM. We find that the addition of SUSY typically destroys the {Z}_2 protection of overline{θ}=0 , even at tree level, once SUSY and {Z}_2 are broken. In theories like supersymmetric completions of the twin Higgs, where {Z}_2 addresses the little hierarchy problem but not strong CP, two axions can be used to relax overline{θ}.

  20. Noise in Strong Lensing Cosmography

    NASA Astrophysics Data System (ADS)

    Dalal, Neal; Hennawi, Joseph F.; Bode, Paul

    2005-03-01

    Giant arcs in strong lensing galaxy clusters can provide a purely geometric determination of cosmological parameters, such as the dark energy density and equation of state. We investigate sources of noise in cosmography with giant arcs, focusing in particular on errors induced by density fluctuations along the line of sight and errors caused by modeling uncertainties. We estimate parameter errors in two independent ways, first by developing a Fisher matrix formalism for strong lensing parameters and next by directly ray-tracing through N-body simulations using a multiplane lensing code. We show that for reasonable power spectra, density fluctuations from large-scale structures produce >100% errors in cosmological parameters derived from any single sight line, precluding the use of individual clusters or ``golden lenses'' to derive accurate cosmological constraints. Modeling uncertainties can similarly lead to large errors, and we show that the use of parameterized mass models in fitting strong lensing clusters can significantly bias the inferred cosmological parameters. We lastly speculate on the means by which these errors may be corrected.

  1. Disordered strongly correlated electronic systems

    NASA Astrophysics Data System (ADS)

    Javan Mard, Hossein

    Disorder can have a vast variety of consequences for the physics of phase transitions. Some transitions remain unchanged in the presence of disorder while others are completely destroyed. In this dissertation we study the effects of quenched disorder on electronic systmens at zero temperature. First, we perform variational studies of the interaction-localization problem to describe the interaction-induced renormalizations of the effective (screened) random potential seen by quasiparticles. Here we present results of careful finite-size scaling studies for the conductance of disordered Hubbard chains at half-filling and zero temperature. While our results indicate that quasiparticle wave functions remain exponentially localized even in the presence of moderate to strong repulsive interactions, we show that interactions produce a strong decrease of the characteristic conductance scale g* signaling the crossover to strong localization. This effect, which cannot be captured by a simple renormalization of the disorder strength, instead reflects a peculiar non-Gaussian form of the spatial correlations of the screened disordered potential, a hitherto neglected mechanism to dramatically reduce the impact of Anderson localization (interference) effects. Second, we formulate a strong-disorder renormalization-group (SDRG) approach to study the beta function of the tight-binding model in one dimension with both diagonal and off-diagonal disorder for states at the band center. We show that the SDRG method, when used to compute transport properties, yields exact results since it is identical to the transfer matrix method. The beta function is shown to be universal when only off-diagonal disorder is present even though single-parameter scaling is known to be violated. A different single-parameter scaling theory is formulated for this particular (particle-hole symmetric) case. Upon breaking particle-hole symmetry (by adding diagonal disorder), the beta function is shown to

  2. Strong interactive massive particles from a strong coupled theory

    SciTech Connect

    Khlopov, Maxim Yu.; Kouvaris, Chris

    2008-03-15

    Minimal walking technicolor models can provide a nontrivial solution for cosmological dark matter, if the lightest technibaryon is doubly charged. Technibaryon asymmetry generated in the early Universe is related to baryon asymmetry, and it is possible to create an excess of techniparticles with charge (-2). These excessive techniparticles are all captured by {sup 4}He, creating techni-O-helium tOHe atoms, as soon as {sup 4}He is formed in big bang nucleosynthesis. The interaction of techni-O-helium with nuclei opens new paths to the creation of heavy nuclei in big bang nucleosynthesis. Because of the large mass of technibaryons, the tOHe ''atomic'' gas decouples from the baryonic matter and plays the role of dark matter in large scale structure formation, while structures in small scales are suppressed. Nuclear interactions with matter slow down cosmic techni-O-helium in the Earth below the threshold of underground dark matter detectors, thus escaping severe cryogenic dark matter search constraints. On the other hand, these nuclear interactions are not sufficiently strong to exclude this form of strongly interactive massive particles by constraints from the XQC experiment. Experimental tests of this hypothesis are possible in the search for tOHe in balloon-borne experiments (or on the ground) and for its charged techniparticle constituents in cosmic rays and accelerators. The tOHe atoms can cause cold nuclear transformations in matter and might form anomalous isotopes, offering possible ways to exclude (or prove?) their existence.

  3. PREFACE: Strongly correlated electron systems Strongly correlated electron systems

    NASA Astrophysics Data System (ADS)

    Saxena, Siddharth S.; Littlewood, P. B.

    2012-07-01

    This special section is dedicated to the Strongly Correlated Electron Systems Conference (SCES) 2011, which was held from 29 August-3 September 2011, in Cambridge, UK. SCES'2011 is dedicated to 100 years of superconductivity and covers a range of topics in the area of strongly correlated systems. The correlated electronic and magnetic materials featured include f-electron based heavy fermion intermetallics and d-electron based transition metal compounds. The selected papers derived from invited presentations seek to deepen our understanding of the rich physical phenomena that arise from correlation effects. The focus is on quantum phase transitions, non-Fermi liquid phenomena, quantum magnetism, unconventional superconductivity and metal-insulator transitions. Both experimental and theoretical work is presented. Based on fundamental advances in the understanding of electronic materials, much of 20th century materials physics was driven by miniaturisation and integration in the electronics industry to the current generation of nanometre scale devices. The achievements of this industry have brought unprecedented advances to society and well-being, and no doubt there is much further to go—note that this progress is founded on investments and studies in the fundamentals of condensed matter physics from more than 50 years ago. Nevertheless, the defining challenges for the 21st century will lie in the discovery in science, and deployment through engineering, of technologies that can deliver the scale needed to have an impact on the sustainability agenda. Thus the big developments in nanotechnology may lie not in the pursuit of yet smaller transistors, but in the design of new structures that can revolutionise the performance of solar cells, batteries, fuel cells, light-weight structural materials, refrigeration, water purification, etc. The science presented in the papers of this special section also highlights the underlying interest in energy-dense materials, which

  4. PREFACE: Strongly Coupled Coulomb Systems

    NASA Astrophysics Data System (ADS)

    Fortov, Vladimir E.; Golden, Kenneth I.; Norman, Genri E.

    2006-04-01

    This special issue contains papers presented at the International Conference on Strongly Coupled Coulomb Systems (SCCS) which was held during the week of 20 24 June 2005 in Moscow, Russia. The Moscow conference was the tenth in a series of conferences. The previous conferences were organized as follows. 1977: Orleans-la-Source, France, as a NATO Advanced Study Institute on Strongly Coupled Plasmas (organized by Marc Feix and Gabor J Kalman) 1982: Les Houches, France (organized by Marc Baus and Jean-Pierre Hansen) 1986: Santa Cruz, California, USA (hosted by Forrest J Rogers and Hugh E DeWitt) 1989: Tokyo, Japan (hosted by Setsuo Ichimaru) 1992: Rochester, NY, USA (hosted by Hugh M Van Horn and Setsuo Ichimaru) 1995: Binz, Germany (hosted by Wolf Dietrich Kraeft and Manfred Schlanges) 1997: Boston, Massachusetts, USA (hosted by Gabor J Kalman) 1999: St Malo, France (hosted by Claude Deutsch and Bernard Jancovici) 2002: Santa Fe, New Mexico, USA (hosted by John F Benage and Michael S Murillo) After 1995 the name of the series was changed from `Strongly Coupled Plasmas' to the present name in order to extend the topics of the conferences. The planned frequency for the future is once every three years. The purpose of these conferences is to provide an international forum for the presentation and discussion of research accomplishments and ideas relating to a variety of plasma liquid and condensed matter systems, dominated by strong Coulomb interactions between their constituents. Strongly coupled Coulomb systems encompass diverse many-body systems and physical conditions. Each meeting has seen an evolution of topics and emphasis as new discoveries and new methods appear. This year, sessions were organized for invited presentations and posters on dense plasmas and warm matter, astrophysics and dense hydrogen, non-neutral and ultracold plasmas, dusty plasmas, condensed matter 2D and layered charged-particle systems, Coulomb liquids, and statistical theory of SCCS. Within

  5. Topics in strongly correlated electrons

    NASA Astrophysics Data System (ADS)

    Berdnikov, Ilya

    The thesis is a collection of three topics connected together by the common themes of strong interactions, magnetism and quantum phases, such as the Aharonov-Bohm or Berry phase. The first part of the present dissertation discusses the possibility of examining microscopic origins of magnetism in strongly interacting systems by exploiting the setting of ultra-cold atomic gases in optical lattices. We discuss signatures of correlation in the trap, and propose an experiment to measure the phase diagram of itinerant magnetism directly. The second part focuses on the exotic phase of matter exhibiting the Fractional Quantum Hall Effect, which emerges when interacting particles are placed in a very strong magnetic field. We propose a trial ground state wave-function and prove that it is the unique highest density ground state of a well-motivated pseudo-potential Hamiltonian. The exchange statistics of quasiparticles are shown to be exotic, and overlaps with results of exact diagonalization are also discussed. The final part of the thesis studies frustrated magnetic systems, in which competing forces cannot not be satisfied simultaneously, doped with electrons. The interplay of frustration and itinerant behavior generates Berry phases associated with charge transport. We study the effects of these phases on electronic behavior, as well as the effect electrons have on the underlying magnetic textures. In the quasi-classical limit, we conjecture a field-driven metal-insulator transition, and discuss persistent currents arising in ground states selected by the presence of charge. In the quantum regime we derive the full Hamiltonian and discuss small fluctuations about the classical results.

  6. Dynamics of strongly correlated and strongly inhomogeneous plasmas.

    PubMed

    Kählert, Hanno; Kalman, Gabor J; Bonitz, Michael

    2014-07-01

    Kinetic and fluid equations are derived for the dynamics of classical inhomogeneous trapped plasmas in the strong coupling regime. The starting point is an extended Singwi-Tosi-Land-Sjölander (STLS) ansatz for the dynamic correlation function, which is allowed to depend on time and both particle coordinates separately. The time evolution of the correlation function is determined from the second equation of the Bogolyubov-Born-Green-Kirkwood-Yvon hierarchy. We study the equations in the linear limit and derive a nonlocal equation for the fluid displacement field. Comparisons to first-principles molecular dynamics simulations reveal an excellent quality of our approach thereby overcoming the limitations of the broadly used STLS scheme.

  7. Strong dynamics at the LHC

    NASA Astrophysics Data System (ADS)

    Ittisamai, Pawin

    The limitations of the Standard Model of particle physics, despite its being a well-established theory, have prompted various proposals for new physics capable of addressing its shortcomings. The particular issue to be explored here is the mechanism of electroweak symmetry breaking, the probing of which lies within the TeV-scale physics accessible to the Large Hadron Collider (LHC). This thesis focuses on the phenomenology of a class of models featuring a dynamical breaking of the electroweak symmetry via strong dynamics. Consequences of recent experiments and aspects of near-future experiments are presented. We study the implications of the LHC Higgs searches available at the time the related journal article was written for technicolor models that feature colored technifermions. Then we discuss the properties of a technicolor model featuring strong-top dynamics that is viable for explaining the recently discovered boson of mass 126 GeV. We introduce a novel method of characterizing the color structure of a new massive vector boson, often predicted in various new physics models, using information that will be promptly available if it is discovered in the near-future experiments at the LHC. We generalize the idea for more realistic models where a vector boson has flavor non-universal couplings to quarks. Finally, we discuss the possibilities of probing the chiral structure of a new color-octet vector boson.

  8. EDITORIAL: Strongly correlated electron systems Strongly correlated electron systems

    NASA Astrophysics Data System (ADS)

    Ronning, Filip; Batista, Cristian

    2011-03-01

    Strongly correlated electrons is an exciting and diverse field in condensed matter physics. This special issue aims to capture some of that excitement and recent developments in the field. Given that this issue was inspired by the 2010 International Conference on Strongly Correlated Electron Systems (SCES 2010), we briefly give some history in order to place this issue in context. The 2010 International Conference on Strongly Correlated Electron Systems was held in Santa Fe, New Mexico, a reunion of sorts from the 1989 International Conference on the Physics of Highly Correlated Electron Systems that also convened in Santa Fe. SCES 2010—co-chaired by John Sarrao and Joe Thompson—followed the tradition of earlier conferences, in this century, hosted by Buzios (2008), Houston (2007), Vienna (2005), Karlsruhe (2004), Krakow (2002) and Ann Arbor (2001). Every three years since 1997, SCES has joined the International Conference on Magnetism (ICM), held in Recife (2000), Rome (2003), Kyoto (2006) and Karlsruhe (2009). Like its predecessors, SCES 2010 topics included strongly correlated f- and d-electron systems, heavy-fermion behaviors, quantum-phase transitions, non-Fermi liquid phenomena, unconventional superconductivity, and emergent states that arise from electronic correlations. Recent developments from studies of quantum magnetism and cold atoms complemented the traditional subjects and were included in SCES 2010. 2010 celebrated the 400th anniversary of Santa Fe as well as the birth of astronomy. So what's the connection to SCES? The Dutch invention of the first practical telescope and its use by Galileo in 1610 and subsequent years overturned dogma that the sun revolved about the earth. This revolutionary, and at the time heretical, conclusion required innovative combinations of new instrumentation, observation and mathematics. These same combinations are just as important 400 years later and are the foundation of scientific discoveries that were discussed

  9. An Engineered Strong Promoter for Streptomycetes

    PubMed Central

    Wang, Weishan; Li, Xiao; Wang, Juan; Xiang, Sihai; Feng, Xiaozhou

    2013-01-01

    Well-characterized promoters are essential tools for metabolic engineering and synthetic biology. In Streptomyces coelicolor, the native kasOp is a temporally expressed promoter strictly controlled by two regulators, ScbR and ScbR2. In this work, first, kasOp was engineered to remove a common binding site of ScbR and ScbR2 upstream of its core region, thus generating a stronger promoter, kasOp3. Second, another ScbR binding site internal to the kasOp3 core promoter region was abolished by random mutation and screening of the mutant library to obtain the strongest promoter, kasOp* (where the asterisk is used to distinguish the engineered promoter from the native promoter). The activities of kasOp* were compared with those of two known strong promoters, ermEp* and SF14p, in three Streptomyces species. kasOp* showed the highest activity at the transcription and protein levels in all three hosts. Furthermore, relative to ermEp* and SF14p, kasOp* was shown to confer the highest actinorhodin production level when used to drive the expression of actII-ORF4 in S. coelicolor. Therefore, kasOp* is a simple and well-defined strong promoter useful for gene overexpression in streptomycetes. PMID:23686264

  10. Breathers in strongly anharmonic lattices.

    PubMed

    Rosenau, Philip; Pikovsky, Arkady

    2014-02-01

    We present and study a family of finite amplitude breathers on a genuinely anharmonic Klein-Gordon lattice embedded in a nonlinear site potential. The direct numerical simulations are supported by a quasilinear Schrodinger equation (QLS) derived by averaging out the fast oscillations assuming small, albeit finite, amplitude vibrations. The genuinely anharmonic interlattice forces induce breathers which are strongly localized with tails evanescing at a doubly exponential rate and are either close to a continuum, with discrete effects being suppressed, or close to an anticontinuum state, with discrete effects being enhanced. Whereas the D-QLS breathers appear to be always stable, in general there is a stability threshold which improves with spareness of the lattice.

  11. Strong Langmuir turbulence at Jupiter?

    NASA Technical Reports Server (NTRS)

    Cairns, Iver H.; Robinson, P. A.

    1992-01-01

    Langmuir wave packets with short scale lengths less than an approximately equal to 100 lambda e have been observed in Jupiter's foreshock. Theoretical constraints on the electric fields and scale sizes of collapsing wave packets are summarized, extended and placed in a form suitable for easy comparison with Voyager and Ulysses data. The published data are reviewed and possible instrumental underestimation of fields discussed. New upper limits for the fields of the published wave packets are estimated. Wave packets formed at the nucleation scale from the observed large-scale fields cannot collapse because they are disrupted before collapse occurs. The published wave packets are quantitatively inconsistent with strong turbulence collapse. Strict constraints exist for more intense wave packets to be able to collapse: E greater than or approximately equals to 1-8 mV/m for scales less than or approximately equal to 100 lambda e. Means for testing these conclusions using Voyager and Ulysses data are suggested.

  12. Properties of strong coupled superconductors

    NASA Astrophysics Data System (ADS)

    Bulaevskii, L. N.; Dolgov, O. V.; Ptitsyn, M. O.

    1987-07-01

    By use of Eliashberg equations the system of electrons and phonons with the Einstein spectrum alpha (sub 2) (omega) F(omega) = lambda x omega/2 delta (omega - OMEGA) is studied. The orbital and paramagnetic upper critical magnetic fields are obtained in the case of strong electron-phonon coupling lambda including lambda is much greater than 1. For lambda much greater than 1 superconducting parameters at very low temperatures differ remarkably from that near T(sub c), the crossover takes place at a temperature corresponding to the phonon frequency omega. For lambda is greater than or approximately 4 at temperatures below about omega/3 the superconducting correlation length decreases giving the positive curvature in the temperature dependence of upper critical field. The obtained results favor the ratio delta(O)/T (sub c) to be proportional to the square root of lambda at lambda is greater than or approximately 4/6. The coefficients of GL functional are calculated. The absolute value of specific heat jump grows with lambda while its relative value drops. At lambda is greater than or approximately 4 the resistivity above T(sub c) increases linearly with temperature.

  13. Strongly correlated perovskite fuel cells

    NASA Astrophysics Data System (ADS)

    Zhou, You; Guan, Xiaofei; Zhou, Hua; Ramadoss, Koushik; Adam, Suhare; Liu, Huajun; Lee, Sungsik; Shi, Jian; Tsuchiya, Masaru; Fong, Dillon D.; Ramanathan, Shriram

    2016-06-01

    Fuel cells convert chemical energy directly into electrical energy with high efficiencies and environmental benefits, as compared with traditional heat engines. Yttria-stabilized zirconia is perhaps the material with the most potential as an electrolyte in solid oxide fuel cells (SOFCs), owing to its stability and near-unity ionic transference number. Although there exist materials with superior ionic conductivity, they are often limited by their ability to suppress electronic leakage when exposed to the reducing environment at the fuel interface. Such electronic leakage reduces fuel cell power output and the associated chemo-mechanical stresses can also lead to catastrophic fracture of electrolyte membranes. Here we depart from traditional electrolyte design that relies on cation substitution to sustain ionic conduction. Instead, we use a perovskite nickelate as an electrolyte with high initial ionic and electronic conductivity. Since many such oxides are also correlated electron systems, we can suppress the electronic conduction through a filling-controlled Mott transition induced by spontaneous hydrogen incorporation. Using such a nickelate as the electrolyte in free-standing membrane geometry, we demonstrate a low-temperature micro-fabricated SOFC with high performance. The ionic conductivity of the nickelate perovskite is comparable to the best-performing solid electrolytes in the same temperature range, with a very low activation energy. The results present a design strategy for high-performance materials exhibiting emergent properties arising from strong electron correlations.

  14. Strong majorization entropic uncertainty relations

    NASA Astrophysics Data System (ADS)

    Rudnicki, Łukasz; Puchała, Zbigniew; Życzkowski, Karol

    2014-05-01

    We analyze entropic uncertainty relations in a finite-dimensional Hilbert space and derive several strong bounds for the sum of two entropies obtained in projective measurements with respect to any two orthogonal bases. We improve the recent bounds by Coles and Piani [P. Coles and M. Piani, Phys. Rev. A 89, 022112 (2014), 10.1103/PhysRevA.89.022112], which are known to be stronger than the well-known result of Maassen and Uffink [H. Maassen and J. B. M. Uffink, Phys. Rev. Lett. 60, 1103 (1988), 10.1103/PhysRevLett.60.1103]. Furthermore, we find a bound based on majorization techniques, which also happens to be stronger than the recent results involving the largest singular values of submatrices of the unitary matrix connecting both bases. The first set of bounds gives better results for unitary matrices close to the Fourier matrix, while the second one provides a significant improvement in the opposite sectors. Some results derived admit generalization to arbitrary mixed states, so that corresponding bounds are increased by the von Neumann entropy of the measured state. The majorization approach is finally extended to the case of several measurements.

  15. Strongly correlated perovskite fuel cells.

    PubMed

    Zhou, You; Guan, Xiaofei; Zhou, Hua; Ramadoss, Koushik; Adam, Suhare; Liu, Huajun; Lee, Sungsik; Shi, Jian; Tsuchiya, Masaru; Fong, Dillon D; Ramanathan, Shriram

    2016-05-16

    Fuel cells convert chemical energy directly into electrical energy with high efficiencies and environmental benefits, as compared with traditional heat engines. Yttria-stabilized zirconia is perhaps the material with the most potential as an electrolyte in solid oxide fuel cells (SOFCs), owing to its stability and near-unity ionic transference number. Although there exist materials with superior ionic conductivity, they are often limited by their ability to suppress electronic leakage when exposed to the reducing environment at the fuel interface. Such electronic leakage reduces fuel cell power output and the associated chemo-mechanical stresses can also lead to catastrophic fracture of electrolyte membranes. Here we depart from traditional electrolyte design that relies on cation substitution to sustain ionic conduction. Instead, we use a perovskite nickelate as an electrolyte with high initial ionic and electronic conductivity. Since many such oxides are also correlated electron systems, we can suppress the electronic conduction through a filling-controlled Mott transition induced by spontaneous hydrogen incorporation. Using such a nickelate as the electrolyte in free-standing membrane geometry, we demonstrate a low-temperature micro-fabricated SOFC with high performance. The ionic conductivity of the nickelate perovskite is comparable to the best-performing solid electrolytes in the same temperature range, with a very low activation energy. The results present a design strategy for high-performance materials exhibiting emergent properties arising from strong electron correlations.

  16. Strongly correlated perovskite fuel cells.

    PubMed

    Zhou, You; Guan, Xiaofei; Zhou, Hua; Ramadoss, Koushik; Adam, Suhare; Liu, Huajun; Lee, Sungsik; Shi, Jian; Tsuchiya, Masaru; Fong, Dillon D; Ramanathan, Shriram

    2016-06-01

    Fuel cells convert chemical energy directly into electrical energy with high efficiencies and environmental benefits, as compared with traditional heat engines. Yttria-stabilized zirconia is perhaps the material with the most potential as an electrolyte in solid oxide fuel cells (SOFCs), owing to its stability and near-unity ionic transference number. Although there exist materials with superior ionic conductivity, they are often limited by their ability to suppress electronic leakage when exposed to the reducing environment at the fuel interface. Such electronic leakage reduces fuel cell power output and the associated chemo-mechanical stresses can also lead to catastrophic fracture of electrolyte membranes. Here we depart from traditional electrolyte design that relies on cation substitution to sustain ionic conduction. Instead, we use a perovskite nickelate as an electrolyte with high initial ionic and electronic conductivity. Since many such oxides are also correlated electron systems, we can suppress the electronic conduction through a filling-controlled Mott transition induced by spontaneous hydrogen incorporation. Using such a nickelate as the electrolyte in free-standing membrane geometry, we demonstrate a low-temperature micro-fabricated SOFC with high performance. The ionic conductivity of the nickelate perovskite is comparable to the best-performing solid electrolytes in the same temperature range, with a very low activation energy. The results present a design strategy for high-performance materials exhibiting emergent properties arising from strong electron correlations. PMID:27279218

  17. Promoting Strong Written Communication Skills

    NASA Astrophysics Data System (ADS)

    Narayanan, M.

    2015-12-01

    The reason that an improvement in the quality of technical writing is still needed in the classroom is due to the fact that universities are facing challenging problems not only on the technological front but also on the socio-economic front. The universities are actively responding to the changes that are taking place in the global consumer marketplace. Obviously, there are numerous benefits of promoting strong written communication skills. They can be summarized into the following six categories. First, and perhaps the most important: The University achieves learner satisfaction. The learner has documented verbally, that the necessary knowledge has been successfully acquired. This results in learner loyalty that in turn will attract more qualified learners.Second, quality communication lowers the cost per pupil, consequently resulting in increased productivity backed by a stronger economic structure and forecast. Third, quality communications help to improve the cash flow and cash reserves of the university. Fourth, having high quality communication enables the university to justify the need for high costs of tuition and fees. Fifth, better quality in written communication skills result in attracting top-quality learners. This will lead to happier and satisfied learners, not to mention greater prosperity for the university as a whole. Sixth, quality written communication skills result in reduced complaints, thus meaning fewer hours spent on answering or correcting the situation. The University faculty and staff are thus able to devote more time on scholarly activities, meaningful research and productive community service. References Boyer, Ernest L. (1990). Scholarship reconsidered: Priorities of the Professorate.Princeton, NJ: Carnegie Foundation for the Advancement of Teaching. Hawkins, P., & Winter, J. (1997). Mastering change: Learning the lessons of the enterprise.London: Department for Education and Employment. Buzzel, Robert D., and Bradley T. Gale. (1987

  18. Hydrophobic Surfactant Proteins Induce a Phosphatidylethanolamine to Form Cubic Phases

    PubMed Central

    Chavarha, Mariya; Khoojinian, Hamed; Schulwitz, Leonard E.; Biswas, Samares C.; Rananavare, Shankar B.; Hall, Stephen B.

    2010-01-01

    Abstract The hydrophobic surfactant proteins SP-B and SP-C promote rapid adsorption of pulmonary surfactant to an air/water interface. Previous evidence suggests that they achieve this effect by facilitating the formation of a rate-limiting negatively curved stalk between the vesicular bilayer and the interface. To determine whether the proteins can alter the curvature of lipid leaflets, we used x-ray diffraction to investigate how the physiological mixture of these proteins affects structures formed by 1-palmitoyl-2-oleoyl phosphatidylethanolamine, which by itself undergoes the lamellar-to-inverse hexagonal phase transition at 71°C. In amounts as low as 0.03% (w:w) and at temperatures as low as 57°C, the proteins induce formation of bicontinuous inverse cubic phases. The proteins produce a dose-related shift of diffracted intensity to the cubic phases, with minimal evidence of other structures above 0.1% and 62°C, but no change in the lattice-constants of the lamellar or cubic phases. The induction of the bicontinuous cubic phases, in which the individual lipid leaflets have the same saddle-shaped curvature as the hypothetical stalk-intermediate, supports the proposed model of how the surfactant proteins promote adsorption. PMID:20409474

  19. Effects of Bufei Yishen Granules Combined with Acupoint Sticking Therapy on Pulmonary Surfactant Proteins in Chronic Obstructive Pulmonary Disease Rats

    PubMed Central

    Tian, Yange; Li, Ya; Dong, Yuqiong; Yao, Fengjia; Mao, Jing; Li, Linlin; Wang, Lili; Luo, Shan; Wang, Minghang

    2016-01-01

    Our previous studies have demonstrated the beneficial effects of Bufei Yishen granules combined with acupoint sticking therapy (the integrated therapy) in chronic obstructive pulmonary disease (COPD), but the underlying mechanism remains unclear. Dysfunction of pulmonary surfactant proteins (SPs, including SP-A, SP-B, SP-C, and SP-D) may be included in pathophysiology of COPD. This study aimed to explore the mechanism of the integrated therapy on SPs. COPD rat models were established. The treatment groups received Bufei Yishen granules or acupoint sticking or their combination. Using aminophylline as a positive control drug. The levels of SPs in serum, BALF, and lung were measured. The results showed that the integrated therapy markedly reduced the levels of SPs in serum and increased these indicators in the lung. The integrated therapy was better than aminophylline in reducing the levels of SPs and was better than Bufei Yishen granules in reducing SP-A, SP-C, and SP-D in serum. The integrated therapy was better than aminophylline and Bufei Yishen granules in increasing SP-A, SP-B, and SP-D mRNA in the lung. SP-A and SP-D in BALF were positively correlated with PEF and EF50. The levels of SPs are associated with airway limitation. The beneficial effects of the integrated therapy may be involved in regulating pulmonary surfactant proteins.

  20. Surfactant proteins, SP-A and SP-D, in respiratory fungal infections: their role in the inflammatory response.

    PubMed

    Carreto-Binaghi, Laura Elena; Aliouat, El Moukhtar; Taylor, Maria Lucia

    2016-06-01

    Pulmonary surfactant is a complex fluid that comprises phospholipids and four proteins (SP-A, SP-B, SP-C, and SP-D) with different biological functions. SP-B, SP-C, and SP-D are essential for the lungs' surface tension function and for the organization, stability and metabolism of lung parenchyma. SP-A and SP-D, which are also known as pulmonary collectins, have an important function in the host's lung immune response; they act as opsonins for different pathogens via a C-terminal carbohydrate recognition domain and enhance the attachment to phagocytic cells or show their own microbicidal activity by increasing the cellular membrane permeability. Interactions between the pulmonary collectins and bacteria or viruses have been extensively studied, but this is not the same for fungal pathogens. SP-A and SP-D bind glucan and mannose residues from fungal cell wall, but there is still a lack of information on their binding to other fungal carbohydrate residues. In addition, both their relation with immune cells for the clearance of these pathogens and the role of surfactant proteins' regulation during respiratory fungal infections remain unknown. Here we highlight the relevant findings associated with SP-A and SP-D in those respiratory mycoses where the fungal infective propagules reach the lungs by the airways.

  1. Effects of Bufei Yishen Granules Combined with Acupoint Sticking Therapy on Pulmonary Surfactant Proteins in Chronic Obstructive Pulmonary Disease Rats

    PubMed Central

    Tian, Yange; Li, Ya; Dong, Yuqiong; Yao, Fengjia; Mao, Jing; Li, Linlin; Wang, Lili; Luo, Shan; Wang, Minghang

    2016-01-01

    Our previous studies have demonstrated the beneficial effects of Bufei Yishen granules combined with acupoint sticking therapy (the integrated therapy) in chronic obstructive pulmonary disease (COPD), but the underlying mechanism remains unclear. Dysfunction of pulmonary surfactant proteins (SPs, including SP-A, SP-B, SP-C, and SP-D) may be included in pathophysiology of COPD. This study aimed to explore the mechanism of the integrated therapy on SPs. COPD rat models were established. The treatment groups received Bufei Yishen granules or acupoint sticking or their combination. Using aminophylline as a positive control drug. The levels of SPs in serum, BALF, and lung were measured. The results showed that the integrated therapy markedly reduced the levels of SPs in serum and increased these indicators in the lung. The integrated therapy was better than aminophylline in reducing the levels of SPs and was better than Bufei Yishen granules in reducing SP-A, SP-C, and SP-D in serum. The integrated therapy was better than aminophylline and Bufei Yishen granules in increasing SP-A, SP-B, and SP-D mRNA in the lung. SP-A and SP-D in BALF were positively correlated with PEF and EF50. The levels of SPs are associated with airway limitation. The beneficial effects of the integrated therapy may be involved in regulating pulmonary surfactant proteins. PMID:27699176

  2. Tunneling in strongly correlated materials

    NASA Astrophysics Data System (ADS)

    Maltseva, Marianna

    Tunneling studies of strongly correlated materials provide information about the nature of electronic correlations, which is vital for investigation of emergent materials at the microscopic level. In particular, scanning tunneling spectroscopy/microscopy (STS/STM) studies have made major contributions to understanding cuprate superconductors (66), yet there is a sense that huge STM data arrays contain much more precious information to be extracted and analyzed. One of the most pressing questions in the field is how to improve the data analysis, so as to extract more information from STM data. A dominant trend in STM data analysis has been to interpret the data within a particular microscopic model, while using only basic data analysis tools. To decrease the reliance of the STM data interpretation on particular microscopic models, further advances in data analysis methods are necessary. In Chapter 2 of this Thesis, we discuss how one can extract information about the phase of the order parameter from STM data. We show that symmetrized and anti-symmetrized correlators of local density of states give rise to observable coherence factor effects. In Chapter 3, we apply this framework to analyze the recent scanning tunneling experiments on an underdoped cuprate superconductor Ca2-xNaxCuO2Cl2 by T. Hanaguri et al. (60). In Chapter 4, we propose a model for nodal quasiparticle scattering in a disordered vortex lattice. Recently, scanning tunneling studies of a Kondo lattice material URu2Si2 became possible (117). If it proves possible to apply scanning tunneling spectroscopy to Kondo lattice materials, then remarkable new opportunities in the ongoing investigation may emerge. In Chapter 5, we examine the effect of co-tunneling to develop a theory of tunneling into a Kondo lattice. We find that the interference between the direct tunneling and the co-tunneling channels leads to a novel asymmetric lineshape, which has two peaks and a gap. The presence of the peaks suggests

  3. Association between the surfactant protein A (SP-A) gene locus and respiratory-distress syndrome in the Finnish population.

    PubMed Central

    Rämet, M; Haataja, R; Marttila, R; Floros, J; Hallman, M

    2000-01-01

    Respiratory-distress syndrome (RDS) in the newborn is a major cause of neonatal mortality and morbidity. Although prematurity is the most-important risk factor for RDS, the syndrome does not develop in many premature infants. The main cause of RDS is a deficiency of pulmonary surfactant, which consists of phospholipids and specific proteins. The genes underlying susceptibility to RDS are insufficiently known. The candidate-gene approach was used to study the association between the surfactant protein A (SP-A) gene locus and RDS in the genetically homogeneous Finnish population. In the present study, 88 infants with RDS and 88 control infants that were matched for degree of prematurity, prenatal glucocorticoid therapy, and sex were analyzed for SP-A genotypes. We show that certain SP-A1 alleles (6A2 and 6A3) and an SP-A1/SP-A2 haplotype (6A2/1A0) were associated with RDS. The 6A2 allele was overrepresented and the 6A3 allele was underrepresented in infants with RDS. These associations were particularly strong among small premature infants born at gestational age <32 wk. In infants protected from RDS (those that had no RDS, despite extreme prematurity and lack of glucocorticoid therapy), compared with infants that had RDS develop despite having received glucocorticoid therapy, the frequencies of 6A2 (.22 vs.71), 6A3 (.72 vs.17), 6A2/1A0 (.17 vs.68), 6A3/1A1 (.39 vs.10), and 6A3/1A2 (.28 vs.06) in the two groups, respectively, were strikingly different. According to the results of conditional logistic-regression analysis, diseases associated with premature birth did not explain the association between the odds of a particular homozygous SP-A1 genotype (6A2/6A2 and 6A3/6A3) and RDS. In the population evaluated in the present study, SP-B intron 4 variant frequencies were low and had no detectable association with RDS. We conclude that the SP-A gene locus is an important determinant for predisposition to RDS in premature infants. PMID:10762543

  4. Biomimicry of surfactant protein C.

    PubMed

    Brown, Nathan J; Johansson, Jan; Barron, Annelise E

    2008-10-01

    Since the widespread use of exogenous lung surfactant to treat neonatal respiratory distress syndrome, premature infant survival and respiratory morbidity have dramatically improved. Despite the effectiveness of the animal-derived surfactant preparations, there still remain some concerns and difficulties associated with their use. This has prompted investigation into the creation of synthetic surfactant preparations. However, to date, no clinically used synthetic formulation is as effective as the natural material. This is largely because the previous synthetic formulations lacked analogues of the hydrophobic proteins of the lung surfactant system, SP-B and SP-C, which are critical functional constituents. As a result, recent investigation has turned toward the development of a new generation of synthetic, biomimetic surfactants that contain synthetic phospholipids along with a mimic of the hydrophobic protein portion of lung surfactant. In this Account, we detail our efforts in creating accurate mimics of SP-C for use in a synthetic surfactant replacement therapy. Despite SP-C's seemingly simple structure, the predominantly helical protein is extraordinarily challenging to work with given its extreme hydrophobicity and structural instability, which greatly complicates the creation of an effective SP-C analogue. Drawing inspiration from Nature, two promising biomimetic approaches have led to the creation of rationally designed biopolymers that recapitulate many of SP-C's molecular features. The first approach utilizes detailed SP-C structure-activity relationships and amino acid folding propensities to create a peptide-based analogue, SP-C33. In SP-C33, the problematic and metastable polyvaline helix is replaced with a structurally stable polyleucine helix and includes a well-placed positive charge to prevent aggregation. SP-C33 is structurally stable and eliminates the association propensity of the native protein. The second approach follows the same design

  5. Strong curvature singularities and causal simplicity

    SciTech Connect

    Krolak, A. )

    1992-02-01

    Techniques of differential topology in Lorentzian manifolds developed by Geroch, Hawking, and Penrose are used to rule out a class of locally naked strong curvature singularities in strongly causal space-times. This result yields some support to the validity of Penrose's strong cosmic censorship hypothesis.

  6. Keeping Marriages Strong in Challenging Times

    ERIC Educational Resources Information Center

    Ober, Marci Wolff

    2009-01-01

    What makes a strong marriage anyway...? There are definite qualities that exist in healthy marriages, that is, a marriage that is defined by both partners to be "mostly" or "usually" very satisfying. This article explores these qualities and looks at what really works to make and keep marriages strong, healthy, and satisfying for a lifetime. It…

  7. On the Strong Direct Summand Conjecture

    ERIC Educational Resources Information Center

    McCullough, Jason

    2009-01-01

    In this thesis, our aim is the study the Vanishing of Maps of Tor Conjecture of Hochster and Huneke. We mainly focus on an equivalent characterization called the Strong Direct Summand Conjecture, due to N. Ranganathan. Our results are separated into three chapters. In Chapter 3, we prove special cases of the Strong Direct Summand Conjecture in…

  8. LHC Phenomenology and Lattice Strong Dynamics

    NASA Astrophysics Data System (ADS)

    Fleming, G. T.

    2013-03-01

    While the LHC experimentalists work to find evidence of physics beyond the standard model, lattice gauge theorists are working as well to characterize the range of possible phenomena in strongly-coupled models of electroweak symmetry breaking. I will summarize the current progress of the Lattice Strong Dynamics (LSD) collaboration on the flavor dependence of SU(3) gauge theories.

  9. Strongly correlated quantum spin liquid in herbertsmithite

    SciTech Connect

    Shaginyan, V. R.; Popov, K. G.; Khodel, V. A.

    2013-05-15

    Strongly correlated Fermi systems are among the most intriguing and fundamental systems in physics. We show that the herbertsmithite ZnCu{sub 3}(OH){sub 6}Cl{sub 2} can be regarded as a new type of strongly correlated electrical insulator that possesses properties of heavy-fermion metals with one exception: it resists the flow of electric charge. We demonstrate that herbertsmithite's low-temperature properties are defined by a strongly correlated quantum spin liquid made with hypothetic particles such as fermionic spinons that carry spin 1/2 and no charge. Our calculations of its thermodynamic and relaxation properties are in good agreement with recent experimental facts and allow us to reveal their scaling behavior, which strongly resembles that observed in heavy-fermion metals. Analysis of the dynamic magnetic susceptibility of strongly correlated Fermi systems suggests that there exist at least two types of its scaling.

  10. Seismic switch for strong motion measurement

    DOEpatents

    Harben, P.E.; Rodgers, P.W.; Ewert, D.W.

    1995-05-30

    A seismic switching device is described that has an input signal from an existing microseismic station seismometer and a signal from a strong motion measuring instrument. The seismic switch monitors the signal level of the strong motion instrument and passes the seismometer signal to the station data telemetry and recording systems. When the strong motion instrument signal level exceeds a user set threshold level, the seismometer signal is switched out and the strong motion signal is passed to the telemetry system. The amount of time the strong motion signal is passed before switching back to the seismometer signal is user controlled between 1 and 15 seconds. If the threshold level is exceeded during a switch time period, the length of time is extended from that instant by one user set time period. 11 figs.

  11. Seismic switch for strong motion measurement

    DOEpatents

    Harben, Philip E.; Rodgers, Peter W.; Ewert, Daniel W.

    1995-01-01

    A seismic switching device that has an input signal from an existing microseismic station seismometer and a signal from a strong motion measuring instrument. The seismic switch monitors the signal level of the strong motion instrument and passes the seismometer signal to the station data telemetry and recording systems. When the strong motion instrument signal level exceeds a user set threshold level, the seismometer signal is switched out and the strong motion signal is passed to the telemetry system. The amount of time the strong motion signal is passed before switching back to the seismometer signal is user controlled between 1 and 15 seconds. If the threshold level is exceeded during a switch time period, the length of time is extended from that instant by one user set time period.

  12. Puerto Rico Strong Motion Seismic Network

    NASA Astrophysics Data System (ADS)

    Huerta-Lopez, C. I.; Martínez-Cruzado, J. A.; Martínez-Pagan, J.; Santana-Torres, E. X.; Torres-O, D. M.

    2014-12-01

    The Puerto Rico Strong Motion Seismic Network is currently in charge of the operation of: (i) free-field (ff) strong motion stations, (ii) instrumented structures (STR) (Dams, Bridges, Buildings), and (iii) the data acquisition/monitoring and analysis of earthquakes considered strong from the point of view of their intensity and magnitude. All these instruments are deployed in the Puerto Rico Island (PRI), US-, and British-Virgin Islands (BVI), and Dominican Republic (DR). The Puerto Rico Island and the Caribbean region have high potential to be affected by earthquakes that could be catastrophic for the area. The Puerto Rico Strong Motion Seismic Network (actually Puerto Rico Strong Motion Program, PRSMP) has grown since 1970's from 7 ff strong motion stations and one instrumented building with analog accelerographs to 111 ff strong motion stations and 16 instrumented buildings with digital accelerographs: PRI: 88 ff, 16 STR., DR: 13 ff, BVI: 5 ff, 2 STR collecting data via IP (internet), DU (telephone), and stand alone stations The current stage of the PRSMP seismic network, the analysis of moderate earthquakes that were recorded and/or occurred on the island, results of the intensity distribution of selected earthquakes, as well as results of dynamic parameter identification of some of the instrumented structures are here presented.

  13. Pigment-protein complexes

    SciTech Connect

    Siegelman, H W

    1980-01-01

    The photosynthetically-active pigment protein complexes of procaryotes and eucaryotes include chlorophyll proteins, carotenochlorophyll proteins, and biliproteins. They are either integral components or attached to photosynthetic membranes. Detergents are frequently required to solubilize the pigment-protein complexes. The membrane localization and detergent solubilization strongly suggest that the pigment-protein complexes are bound to the membranes by hydrophobic interactions. Hydrophobic interactions of proteins are characterized by an increase in entropy. Their bonding energy is directly related to temperature and ionic strength. Hydrophobic-interaction chromatography, a relatively new separation procedure, can furnish an important method for the purification of pigment-protein complexes. Phycobilisome purification and properties provide an example of the need to maintain hydrophobic interactions to preserve structure and function.

  14. Strong correlation in Kohn-Sham DFT

    NASA Astrophysics Data System (ADS)

    Malet Giralt, Francesc; Mirtschink, André; Cremon, Jonas; Mendl, Christian; Giesbertz, Klaas; Reimann, Stephanie; Gori-Giorgi, Paola; Mathematical Physics, Lund University Collaboration; Mathematics Department, Technische Universität München Collaboration

    2014-03-01

    The knowledge on the strong-interacting limit of density functional theory can be used to construct exchange- correlation functionals able to address strongly-correlated systems without introducing any symmetry breaking. We report calculations on semiconductor nanostructures and one-dimensional models for chemical systems, showing that this approach yields quantitatively good results in both the weakly- and the strongly-correlated regimes, with a numerical cost much lower than the traditional wavefunction methods. This work has been supported by a VIDI grant of the NWO and a Marie Curie grant within the FP7 programme.

  15. Dual field theory of strong interactions

    SciTech Connect

    Akers, D.

    1987-07-01

    A dual field theory of strong interactions is derived from a Lagrangian of the Yang-Mills and Higgs fields. The existence of a magnetic monopole of mass 2397 MeV and Dirac charge g = (137/2)e is incorporated into the theory. Unification of the strong, weak, and electromagnetic forces is shown to converge at the mass of the intermediate vector boson W/sup +/-/. The coupling constants of the strong and weak interactions are derived in terms of the fine-structure constant ..cap alpha.. = 1/137.

  16. Physics in Very Strong Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Lai, Dong

    2015-10-01

    This paper provides an introduction to a number of astrophysics problems related to strong magnetic fields. The first part deals with issues related to atoms, condensed matter and high-energy processes in very strong magnetic fields, and how these issues influence various aspects of neutron star astrophysics. The second part deals with classical astrophysical effects of magnetic fields: Even relatively "weak" fields can play a strong role in various astrophysical problems, ranging from stars, accretion disks and outflows, to the formation and merger of compact objects.

  17. Strong photoassociation in a degenerate fermi gas

    NASA Astrophysics Data System (ADS)

    Rvachov, Timur; Jamison, Alan; Jing, Li; Son, Hyungmok; Ebadi, Sepehr; Jiang, Yijun; Zwierlein, Martin; Ketterle, Wolfgang

    2016-05-01

    Despite many studies there remain open questions about strong photoassociation in ultracold gases. We study the effects of strong photoassociation in ultracold fermions. Photoassociation occurs only at short range and thus can be used as a tool to probe and control the two-body correlation function in an interacting many-body system. We study the effects of strong photoassociation in 6 Li, the onset of saturation, and its effects on spin polarized and interacting spin-mixtures. This work was funded by the NSF, ARO-MURI, SAMSUNG, and NSERC.

  18. Strongly Anisotropic Bianchi i Quantum Cosmology

    NASA Astrophysics Data System (ADS)

    Schmidt, Hans-Jürgen

    2002-12-01

    We report on the period-doubling bifurcation recently detected for strongly anisotropic Bianchi I quantum cosmology by M. Bachmann and H.-J. Schmidt and present further arguments related to the quantum boundary.

  19. Green jobs and a strong middle class.

    PubMed

    Podesta, John D

    2009-01-01

    Green jobs are critical to building a strong middle class, and millions of green jobs can be created through energy efficiency. The models already exist for this work, but we need sustained investment to bring them to scale.

  20. 78 FR 15710 - Strong Sensitizer Guidance

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-03-12

    ... From the Federal Register Online via the Government Publishing Office CONSUMER PRODUCT SAFETY COMMISSION Strong Sensitizer Guidance AGENCY: Consumer Product Safety Commission. ACTION: Notice of availability. SUMMARY: The U.S. Consumer Product Safety Commission (CPSC or Commission) is announcing...

  1. Strongly magnetized accretion discs require poloidal flux

    NASA Astrophysics Data System (ADS)

    Salvesen, Greg; Armitage, Philip J.; Simon, Jacob B.; Begelman, Mitchell C.

    2016-08-01

    Motivated by indirect observational evidence for strongly magnetized accretion discs around black holes, and the novel theoretical properties of such solutions, we investigate how a strong magnetization state can develop and persist. To this end, we perform local simulations of accretion discs with an initially purely toroidal magnetic field of equipartition strength. We demonstrate that discs with zero net vertical magnetic flux and realistic boundary conditions cannot sustain a strong toroidal field. However, a magnetic pressure-dominated disc can form from an initial configuration with a sufficient amount of net vertical flux and realistic boundary conditions. Our results suggest that poloidal flux is a necessary prerequisite for the sustainability of strongly magnetized accretion discs.

  2. Strong color fields and heavy flavor production

    SciTech Connect

    Bautista, I.; Pajares, C.

    2010-09-15

    The clustering of color sources provides a natural framework for soft partonic interactions producing strong color fields. We study the consequences of these color fields in the production of heavy flavor and the behavior of the nuclear modification factor.

  3. Trident Pair Production in Strong Laser Pulses

    SciTech Connect

    Ilderton, Anton

    2011-01-14

    We calculate the trident pair production amplitude in a strong laser background. We allow for finite pulse durations, while still treating the laser fields nonperturbatively in strong-field QED. Our approach reveals explicitly the individual contributions of the one-step and two-step processes. We also expose the role gauge invariance plays in the amplitudes and discuss the relation between our results and the optical theorem.

  4. Strong and specific effects of cations on lysozyme chloride solubility.

    PubMed

    Bénas, Philippe; Legrand, Laurent; Riès-Kautt, Madeleine

    2002-10-01

    The influence of salt nature and concentration on tetragonal lysozyme chloride crystal solubility is presented for a set of mono-, di- and trivalent cations (Cs(+), Rb(+), Mn(2+), Co(2+) and Yb(3+)). The results show that cations have as strong an effect on protein solubility as anions and that they present their own particular effects as co-ions. Indeed, after decreasing at low ionic strength, lysozyme solubility increases with high concentration of polyvalent cations, probably due to co-ion binding and therefore the concomitant increase of the net charge of the protein-salt complex. These new results are discussed in order to progress in the understanding of the crystallisation process at the atomic level. PMID:12351866

  5. Strong Motion Recording in the United States

    NASA Astrophysics Data System (ADS)

    Archuleta, R. J.; Fletcher, J. B.; Shakal, A. F.

    2014-12-01

    The United States strong motion program began in 1932 when the Coast and Geodetic Survey (C&GS) installed eight strong motion accelerographs in California. During the March 1933 Long Beach earthquake, three of these produced the first strong motion records. With this success the C&GS expanded the number of accelerographs to 71 by 1964. With development of less expensive, mass-produced accelerographs the number of strong motion accelerographs expanded to ~575 by 1972. Responsibilities for operating the network and disseminating data were transferred to the National Oceanic and Atmospheric Administration in 1970 and then to the U.S. Geological Survey in 1973. In 1972 the California Legislature established the California Strong Motion Instrumentation Program (CSMIP). CSMIP operates accelerographs at 812 ground stations, with multi-channel accelerographs in 228 buildings, 125 lifelines and 37 geotechnical arrays, in California. The USGS and the ANSS effort operate accelerographs at 1584 ground stations, 96 buildings, 14 bridges, 70 dams, and 15 multi-channel geotechnical arrays. The USC Los Angeles array has 78 ground stations; UCSB operates 5 geotechnical arrays; other government and private institutions also operate accelerographs. Almost all accelerographs are now digital with a sampling rate of 200 Hz. Most of the strong motion data can be downloaded from the Center for Engineering Strong Motion Data (http://strongmotioncenter.org). As accelerographs have become more sophisticated, the concept of what constitutes strong motion has blurred because small earthquakes (M ~3) are well recorded on accelerometers as well as seismometers. However, when accelerations are over ~10%g and velocities over ~1 cm/s, the accelerometers remain on scale, providing the unclipped data necessary to analyze the ground motion and its consequences. Strong motion data are essential to the development of ground motion prediction equations, understanding structural response, performance

  6. The Italian Strong Motion Network (RAN)

    NASA Astrophysics Data System (ADS)

    Costa, Giovanni; Ammirati, Alfredo; de Nardis, Rita; Filippi, Luisa; Gallo, Antonella; Lavecchia, Giusy; Sirignano, Sebastiano; Zambonelli, Elisa; Nicoletti, Mario

    2014-05-01

    A network for the strong motion monitoring of the territory allows recording data that provide an excellent opportunity to study the source, path, and site effects on the ground motions, specifically in near source area, for updating seismic hazard map and consequently construction codes and earthquake resistant design. Strong motion data also help to increase the effective preparation and response to seismic emergencies and the ability of a community to quickly recover from the damages of an earthquake contributes to lower the seismic risk usually measured in term of casualties and economic losses. The Italian network for monitoring the strong movement of the national territory (RAN) is the result of a fruitful cooperation over the last 16 years between the Italian government, the regions and local authorities and now counts more than 500 stations. Over the years, as a priority the DPC has focused mainly on the expansion of the network in terms of the number of measurement points and technological improvement of instrumentation as well as the data transmission system. A data acquisition centre was implemented in which the Antelope software collects, processes and archives, automatically, the data of the RAN and of the external strong motion networks that contribute to the database of the RAN. Recently the DPC has dedicated specific resources to improve the response of the network, in particular, in case of emergency. The efficiency of the network on a daily basis is not less than 95% and temporary networks were installed in the epicentral area within 24 hours after the earthquake and connected to the data acquisition centre in Rome. A fast seismic data analysis is essential to provide useful information to Authorities which make decisions immediately after a strong earthquake occurrence. During a strong earthquake, the modern accelerometers are the only instruments which can provide near source high-quality data that are important both for scientific and for civil

  7. Visible periodicity of strong nucleosome DNA sequences.

    PubMed

    Salih, Bilal; Tripathi, Vijay; Trifonov, Edward N

    2015-01-01

    Fifteen years ago, Lowary and Widom assembled nucleosomes on synthetic random sequence DNA molecules, selected the strongest nucleosomes and discovered that the TA dinucleotides in these strong nucleosome sequences often appear at 10-11 bases from one another or at distances which are multiples of this period. We repeated this experiment computationally, on large ensembles of natural genomic sequences, by selecting the strongest nucleosomes--i.e. those with such distances between like-named dinucleotides, multiples of 10.4 bases, the structural and sequence period of nucleosome DNA. The analysis confirmed the periodicity of TA dinucleotides in the strong nucleosomes, and revealed as well other periodic sequence elements, notably classical AA and TT dinucleotides. The matrices of DNA bendability and their simple linear forms--nucleosome positioning motifs--are calculated from the strong nucleosome DNA sequences. The motifs are in full accord with nucleosome positioning sequences derived earlier, thus confirming that the new technique, indeed, detects strong nucleosomes. Species- and isochore-specific variations of the matrices and of the positioning motifs are demonstrated. The strong nucleosome DNA sequences manifest the highest hitherto nucleosome positioning sequence signals, showing the dinucleotide periodicities in directly observable rather than in hidden form.

  8. Shock waves in strongly coupled plasmas

    SciTech Connect

    Khlebnikov, Sergei; Kruczenski, Martin; Michalogiorgakis, Georgios

    2010-12-15

    Shock waves are supersonic disturbances propagating in a fluid and giving rise to dissipation and drag. Weak shocks, i.e., those of small amplitude, can be well described within the hydrodynamic approximation. On the other hand, strong shocks are discontinuous within hydrodynamics and therefore probe the microscopics of the theory. In this paper, we consider the case of the strongly coupled N=4 plasma whose microscopic description, applicable for scales smaller than the inverse temperature, is given in terms of gravity in an asymptotically AdS{sub 5} space. In the gravity approximation, weak and strong shocks should be described by smooth metrics with no discontinuities. For weak shocks, we find the dual metric in a derivative expansion, and for strong shocks we use linearized gravity to find the exponential tail that determines the width of the shock. In particular, we find that, when the velocity of the fluid relative to the shock approaches the speed of light v{yields}1 the penetration depth l scales as l{approx}(1-v{sup 2}){sup 1/4}. We compare the results with second-order hydrodynamics and the Israel-Stewart approximation. Although they all agree in the hydrodynamic regime of weak shocks, we show that there is not even qualitative agreement for strong shocks. For the gravity side, the existence of shock waves implies that there are disturbances of constant shape propagating on the horizon of the dual black holes.

  9. Harvesting excitons through plasmonic strong coupling

    NASA Astrophysics Data System (ADS)

    Gonzalez-Ballestero, Carlos; Feist, Johannes; Moreno, Esteban; Garcia-Vidal, Francisco J.

    2015-09-01

    Exciton harvesting is demonstrated in an ensemble of quantum emitters coupled to localized surface plasmons. When the interaction between emitters and the dipole mode of a metallic nanosphere reaches the strong-coupling regime, the exciton conductance is greatly increased. The spatial map of the conductance matches the plasmon field intensity profile, which indicates that transport properties can be tuned by adequately tailoring the field of the plasmonic resonance. Under strong coupling, we find that pure dephasing can have detrimental or beneficial effects on the conductance, depending on the effective number of participating emitters. Finally, we show that the exciton transport in the strong-coupling regime occurs on an ultrafast time scale given by the inverse Rabi splitting (˜10 fs), which is orders of magnitude faster than transport through direct hopping between the emitters.

  10. Strongly Nonlinear Stress Waves in Dissipative Metamaterials

    NASA Astrophysics Data System (ADS)

    Xu, Yichao; Nesterenko, Vitali

    2015-06-01

    We present the measurements, numerical simulations, and theoretical analysis of stress wave propagation in a one-dimensional strongly nonlinear dissipative metamaterial composed of steel disks and Nitrile O-rings. A stress wave of bell shape is generated by impactor with different masses. A strongly nonlinear double power-law is used to describe the nonlinear viscoelastic force interaction between the disks due to the compression of rubber O-rings. Numerical modeling including a nonlinear dissipative term is developed to predict the wave shape and propagation speed. The shape of generated stress wave can be dramatically changed by the viscous dissipation, which may prevent the pulse from splitting into trains of solitary waves. This strongly nonlinear dissipative metamaterial has a potential for attenuation of dynamic loading and allows an enhanced tunability of signal speed.

  11. Strong diquark correlations inside the proton

    NASA Astrophysics Data System (ADS)

    Segovia, Jorge

    2016-03-01

    Quantum Chromodynamics is thought to be the relativistic quantum field theory that describes the strong interaction of the Standard Model. This interaction produces mesons but it is also able to generate quark-quark (diquark) correlations inside baryons. In this work, we employ a continuum approach to QCD based on Dyson-Schwinger equations to calculate the electromagnetic form factors of the proton and analyze in a deeper way the consequences of having strong diquark correlations. Comparison with the experimental data reveals that the presence of strong diquark correlations within the proton is sufficient to understand empirical extractions of the flavour-separated form factors. The explained reduction of the ratios F1d/F1u and F2d/F2u at high Q2 in the quark-diquark picture are responsible of the precocious scaling of the F2p/F1p observed experimentally.

  12. Strongly interacting bubbles under an ultrasonic horn.

    PubMed

    Yasui, Kyuichi; Iida, Yasuo; Tuziuti, Toru; Kozuka, Teruyuki; Towata, Atsuya

    2008-01-01

    Numerical simulations of bubble pulsations have been performed for a system of two bubble clouds in order to study the experimentally observed bubble motion under an ultrasonic horn by high-speed video camera. The comparison between the calculated results and the experimental observation of the bubble pulsation has indicated that the bubble pulsation is strongly influenced by the interaction with surrounding bubbles. The expansion of a bubble during the rarefaction phase of ultrasound is strongly reduced by the bubble-bubble interaction. Some bubbles move toward the horn tip due to the secondary Bjerknes force acting from the bubbles near the horn tip. It has also been shown that the acoustic amplitude in the liquid is strongly reduced by cavitation due to the decrease in acoustic radiation resistance.

  13. Vacuum birefringence in strong inhomogeneous electromagnetic fields

    NASA Astrophysics Data System (ADS)

    Karbstein, Felix; Gies, Holger; Reuter, Maria; Zepf, Matt

    2015-10-01

    Birefringence is one of the fascinating properties of the vacuum of quantum electrodynamics (QED) in strong electromagnetic fields. The scattering of linearly polarized incident probe photons into a perpendicularly polarized mode provides a distinct signature of the optical activity of the quantum vacuum and thus offers an excellent opportunity for a precision test of nonlinear QED. Precision tests require accurate predictions and thus a theoretical framework that is capable of taking the detailed experimental geometry into account. We derive analytical solutions for vacuum birefringence which include the spatio-temporal field structure of a strong optical pump laser field and an x-ray probe. We show that the angular distribution of the scattered photons depends strongly on the interaction geometry and find that scattering of the perpendicularly polarized scattered photons out of the cone of the incident probe x-ray beam is the key to making the phenomenon experimentally accessible with the current generation of FEL/high-field laser facilities.

  14. Simple supersymmetric strongly coupled preon model

    NASA Astrophysics Data System (ADS)

    Fajfer, S.; Tadić, D.

    1988-08-01

    This supersymmetric-SU(5) composite model is a natural generalization of the usual strong-coupling models. Preon superfields are in representations 5* and 10. The product representations 5*×10, 5×10, 5×5, and 5*×5 contain only those strongly hypercolor bound states which are needed in the standard electroweak theory. There are no superfluous quarklike states. The neutrino is massless. Only one strongly hypercolor bound singlet (10×10*) can exist as a free particle. At higher energies one should expect to see a plethora of new particles. Grand unification happens at the scale M~1014 GeV. Cabibbo mixing can be incorporated by using a transposed Kobayashi-Maskawa mixing matrix.

  15. Strong-Field Tunneling without Ionization

    SciTech Connect

    Nubbemeyer, T.; Gorling, K.; Saenz, A.; Eichmann, U.; Sandner, W.

    2008-12-05

    In the tunneling regime of strong laser field ionization we measure a substantial fraction of neutral atoms surviving the laser pulse in excited states. The measured excited neutral atom yield extends over several orders of magnitude as a function of laser intensity. Our findings are compatible with the strong-field tunneling-plus-rescattering model, confirming the existence of a widely unexplored neutral exit channel (frustrated tunneling ionization). Strong experimental support for this mechanism as origin of excited neutral atoms stems from the dependence of the excited neutral yield on the laser ellipticity, which is as expected for a rescattering process. Theoretical support for the proposed mechanism comes from the agreement of the neutral excited state distribution centered at n=6-10 obtained from both, a full quantum mechanical and a semiclassical calculation, in agreement with the experimental results.

  16. Functional Protein Microarray Technology

    PubMed Central

    Hu, Shaohui; Xie, Zhi; Qian, Jiang; Blackshaw, Seth; Zhu, Heng

    2010-01-01

    Functional protein microarrays are emerging as a promising new tool for large-scale and high-throughput studies. In this article, we will review their applications in basic proteomics research, where various types of assays have been developed to probe binding activities to other biomolecules, such as proteins, DNA, RNA, small molecules, and glycans. We will also report recent progress of using functional protein microarrays in profiling protein posttranslational modifications, including phosphorylation, ubiquitylation, acetylation, and nitrosylation. Finally, we will discuss potential of functional protein microarrays in biomarker identification and clinical diagnostics. We strongly believe that functional protein microarrays will soon become an indispensible and invaluable tool in proteomics research and systems biology. PMID:20872749

  17. Forces stabilizing proteins.

    PubMed

    Nick Pace, C; Scholtz, J Martin; Grimsley, Gerald R

    2014-06-27

    The goal of this article is to summarize what has been learned about the major forces stabilizing proteins since the late 1980s when site-directed mutagenesis became possible. The following conclusions are derived from experimental studies of hydrophobic and hydrogen bonding variants. (1) Based on studies of 138 hydrophobic interaction variants in 11 proteins, burying a -CH2- group on folding contributes 1.1±0.5 kcal/mol to protein stability. (2) The burial of non-polar side chains contributes to protein stability in two ways: first, a term that depends on the removal of the side chains from water and, more importantly, the enhanced London dispersion forces that result from the tight packing in the protein interior. (3) Based on studies of 151 hydrogen bonding variants in 15 proteins, forming a hydrogen bond on folding contributes 1.1±0.8 kcal/mol to protein stability. (4) The contribution of hydrogen bonds to protein stability is strongly context dependent. (5) Hydrogen bonds by side chains and peptide groups make similar contributions to protein stability. (6) Polar group burial can make a favorable contribution to protein stability even if the polar group is not hydrogen bonded. (7) Hydrophobic interactions and hydrogen bonds both make large contributions to protein stability.

  18. Forces Stabilizing Proteins

    PubMed Central

    Pace, C. Nick; Scholtz, J. Martin; Grimsley, Gerald R.

    2014-01-01

    The goal of this article is to summarize what has been learned about the major forces stabilizing proteins since the late 1980s when site-directed mutagenesis became possible. The following conclusions are derived from experimental studies of hydrophobic and hydrogen bonding variants. 1. Based on studies of 138 hydrophobic interaction variants in 11 proteins, burying a –CH2– group on folding contributes 1.1 ± 0.5 kcal/mol to protein stability. 2. The burial of nonpolar side chains contributes to protein stability in two ways: first, a term that depends on the removal of the side chains from water and, more importantly, the enhanced London dispersion forces that result from the tight packing in the protein interior. 3. Based on studies of 151 hydrogen bonding variants in 15 proteins, forming a hydrogen bond on folding contributes 1.1 ± 0.8 kcal/mol to protein stability. 4. The contribution of hydrogen bonds to protein stability is strongly context dependent. 5. Hydrogen bonds by side chains and peptide groups make similar contributions to protein stability. 6. Polar group burial can make a favorable contribution to protein stability even if the polar group is not hydrogen bonded. 7. Hydrophobic interactions and hydrogen bonds both make large contributions to protein stability. PMID:24846139

  19. Scintillation index in strong oceanic turbulence

    NASA Astrophysics Data System (ADS)

    Baykal, Yahya

    2016-09-01

    Scintillation index of spherical wave in strongly turbulent oceanic medium is evaluated. In the evaluation, modified Rytov solution and our recent formulation that expresses the oceanic turbulence parameters by the atmospheric turbulence structure constant, are employed. Variations of the scintillation index in strong oceanic turbulence are examined versus the oceanic turbulence parameters such as the rate of dissipation of kinetic energy per unit mass of fluid, the rate of dissipation of mean-squared temperature, viscosity, wavelength, the link length, and the ratio of temperature to salinity contributions to the refractive index spectrum.

  20. Strong-Field Resonant Dynamics in Semiconductors

    NASA Astrophysics Data System (ADS)

    Wismer, Michael S.; Kruchinin, Stanislav Yu.; Ciappina, Marcelo; Stockman, Mark I.; Yakovlev, Vladislav S.

    2016-05-01

    We predict that a direct band gap semiconductor (GaAs) resonantly excited by a strong ultrashort laser pulse exhibits a novel regime: kicked anharmonic Rabi oscillations. In this regime, Rabi oscillations are strongly coupled to intraband motion, and interband transitions mainly take place when electrons pass near the Brillouin zone center where electron populations undergo very rapid changes. The asymmetry of the residual population distribution induces an electric current controlled by the carrier-envelope phase of the driving pulse. The predicted effects are experimentally observable using photoemission and terahertz spectroscopies.

  1. The Determination of the Strong Coupling Constant

    NASA Astrophysics Data System (ADS)

    Dissertori, Günther

    2016-10-01

    The strong coupling constant is one of the fundamental parameters of the Standard Theory of particle physics. In this review I will briefly summarise the theoretical framework, within which the strong coupling constant is defined and how it is connected to measurable observables. Then I will give an historical overview of its experimental determinations and discuss the current status and world average value. Among the many different techniques used to determine this coupling constant in the context of quantum chromodynamics, I will focus in particular on a number of measurements carried out at the Large Electron-Positron Collider (LEP) and the Large Hadron Collider (LHC) at CERN.

  2. Experimental investigation of strong field trident production

    SciTech Connect

    Esberg, J.; Kirsebom, K.; Knudsen, H.; Thomsen, H. D.; Uggerhoej, E.; Uggerhoej, U. I.; Sona, P.; Mangiarotti, A.; Ketel, T. J.; Dizdar, A.; Dalton, M. M.; Ballestrero, S.; Connell, S. H.

    2010-10-01

    We show by experiment that an electron impinging on an electric field that is of critical magnitude in its rest frame, may produce an electron-positron pair. Our measurements address higher-order QED, using the strong electric fields obtainable along particular crystallographic directions in single crystals. For the amorphous material our data are in good agreement with theory, whereas a discrepancy with theory on the magnitude of the trident enhancement is found in the precisely aligned case where the strong electric field acts.

  3. Strongly coupled stress waves in heterogeneous plates.

    NASA Technical Reports Server (NTRS)

    Wang, A. S. D.; Chou, P. C.; Rose, J. L.

    1972-01-01

    Consideration of coupled stress waves generated by an impulsive load applied at one end of a semiinfinite plate. For the field equations governing the one-dimensional coupled waves a hyperbolic system of equations is obtained in which a strong coupling in the second derivatives exists. The method of characteristics described by Chou and Mortimer (1967) is extended to cover the case of strong coupling, and a study is made of the transient stress waves in a semiinfinite plate subjected to an initial step input. Coupled discontinuity fronts are found to propagate at different velocities. The normal plate stress and the bending moment at different time regimes are illustrated by graphs.

  4. Weak side of strong topological insulators

    NASA Astrophysics Data System (ADS)

    Sbierski, Björn; Schneider, Martin; Brouwer, Piet W.

    2016-04-01

    Strong topological insulators may have nonzero weak indices. The nonzero weak indices allow for the existence of topologically protected helical states along line defects of the lattice. If the lattice admits line defects that connect opposite surfaces of a slab of such a "weak-and-strong" topological insulator, these states effectively connect the surface states at opposite surfaces. Depending on the phases accumulated along the dislocation lines, this connection results in a suppression of in-plane transport and the opening of a spectral gap or in an enhanced density of states and an increased conductivity.

  5. Semimetallization of dielectrics in strong optical fields

    DOE PAGES

    Kwon, Ojoon; Paasch-Colberg, Tim; Apalkov, Vadym; Kim, Bum -Kyu; Kim, Ju -Jin; Stockman, Mark I.; Kim, D.

    2016-02-18

    At the heart of ever growing demands for faster signal processing is ultrafast charge transport and control by electromagnetic fields in semiconductors. Intense optical fields have opened fascinating avenues for new phenomena and applications in solids. Because the period of optical fields is on the order of a femtosecond, the current switching and its control by an optical field may pave a way to petahertz optoelectronic devices. Lately, a reversible semimetallization in fused silica on a femtosecond time scale by using a few-cycle strong field (~1 V/Å) is manifested. The strong Wannier-Stark localization and Zener-type tunneling were expected to drivemore » this ultrafast semimetallization. Wider spread of this technology demands better understanding of whether the strong field behavior is universally similar for different dielectrics. Here we employ a carrier-envelope-phase stabilized, few-cycle strong optical field to drive the semimetallization in sapphire, calcium fluoride and quartz and to compare this phenomenon and show its remarkable similarity between them. The similarity in response of these materials, despite the distinguishable differences in their physical properties, suggests the universality of the physical picture explained by the localization of Wannier-Stark states. Lastly, our results may blaze a trail to PHz-rate optoelectronics.« less

  6. Semimetallization of dielectrics in strong optical fields

    PubMed Central

    Kwon, Ojoon; Paasch-Colberg, Tim; Apalkov, Vadym; Kim, Bum-Kyu; Kim, Ju-Jin; Stockman, Mark I.; Kim, D.

    2016-01-01

    At the heart of ever growing demands for faster signal processing is ultrafast charge transport and control by electromagnetic fields in semiconductors. Intense optical fields have opened fascinating avenues for new phenomena and applications in solids. Because the period of optical fields is on the order of a femtosecond, the current switching and its control by an optical field may pave a way to petahertz optoelectronic devices. Lately, a reversible semimetallization in fused silica on a femtosecond time scale by using a few-cycle strong field (~1 V/Å) is manifested. The strong Wannier-Stark localization and Zener-type tunneling were expected to drive this ultrafast semimetallization. Wider spread of this technology demands better understanding of whether the strong field behavior is universally similar for different dielectrics. Here we employ a carrier-envelope-phase stabilized, few-cycle strong optical field to drive the semimetallization in sapphire, calcium fluoride and quartz and to compare this phenomenon and show its remarkable similarity between them. The similarity in response of these materials, despite the distinguishable differences in their physical properties, suggests the universality of the physical picture explained by the localization of Wannier-Stark states. Our results may blaze a trail to PHz-rate optoelectronics. PMID:26888147

  7. Semimetallization of dielectrics in strong optical fields

    NASA Astrophysics Data System (ADS)

    Kwon, Ojoon; Paasch-Colberg, Tim; Apalkov, Vadym; Kim, Bum-Kyu; Kim, Ju-Jin; Stockman, Mark I.; Kim, D.

    2016-02-01

    At the heart of ever growing demands for faster signal processing is ultrafast charge transport and control by electromagnetic fields in semiconductors. Intense optical fields have opened fascinating avenues for new phenomena and applications in solids. Because the period of optical fields is on the order of a femtosecond, the current switching and its control by an optical field may pave a way to petahertz optoelectronic devices. Lately, a reversible semimetallization in fused silica on a femtosecond time scale by using a few-cycle strong field (~1 V/Å) is manifested. The strong Wannier-Stark localization and Zener-type tunneling were expected to drive this ultrafast semimetallization. Wider spread of this technology demands better understanding of whether the strong field behavior is universally similar for different dielectrics. Here we employ a carrier-envelope-phase stabilized, few-cycle strong optical field to drive the semimetallization in sapphire, calcium fluoride and quartz and to compare this phenomenon and show its remarkable similarity between them. The similarity in response of these materials, despite the distinguishable differences in their physical properties, suggests the universality of the physical picture explained by the localization of Wannier-Stark states. Our results may blaze a trail to PHz-rate optoelectronics.

  8. Three Strands Form Strong School Leadership

    ERIC Educational Resources Information Center

    Saphier, Jon; King, Matt; D'Auria, John

    2006-01-01

    In this article, the authors illustrate the three fundamental elements of school leadership: academic focus, shared beliefs and values, and productive professional relationships. These three elements purportedly produce strong organizational cultures, more teaching expertise, and better student achievement and more thoughtful and caring citizens.…

  9. Dynamo Activity in Strongly Magnetized Accretion Disks

    NASA Astrophysics Data System (ADS)

    Salvesen, Greg; Simon, Jacob B.; Armitage, Philip J.; Begelman, Mitchell C.

    2016-01-01

    Strongly magnetized accretion disks around black holes have many attractive features that may explain the enigmatic behavior observed from X-ray binaries. The physics and structure of these disks are governed by a dynamo-like mechanism, which channels the accretion power liberated by the magnetorotational instability into an ordered toroidal magnetic field. To study dynamo activity, we performed three-dimensional, stratified, isothermal, ideal magnetohydrodynamic shearing box simulations. In our simulations, the strength of this self-sustained toroidal magnetic field depends on the net vertical magnetic flux we impose, which allows us to study weak-to-strong magnetization regimes. We find that the entire disk develops into a magnetic pressure-dominated state for a sufficiently strong net vertical magnetic flux. Over the two orders of magnitude in net vertical magnetic flux that we consider, the effective α-viscosity parameter scales as a power-law. We quantify dynamo properties of toroidal magnetic flux production and its buoyant escape as a function of disk magnetization. Finally, we compare our simulations to an analytic model for the vertical structure of strongly magnetized disks applicable to the high/soft state of X-ray binaries.

  10. Charm production in a strong magnetic field

    SciTech Connect

    Machado, C. S.; Navarra, F. S.; Noronha, J.; Oliveira, E. G. de; Strickland, M.

    2014-11-11

    We discuss the effects of a strong magnetic field on B and D mesons, focusing on the changes of the energy levels and the masses of the bound states. Using the Color Evaporation Model we discuss the possible changes in the production of J/ψ and Υ. We briefly comment the recent experimental data.

  11. MRS photodiode in strong magnetic field

    SciTech Connect

    Beznosko, D.; Blazey, G.; Dyshkant, A.; Francis, K.; Kubik, D.; Rykalin, V.; Tartaglia, M.A.; Zutshi, v.; /Northern Illinois U.

    2004-12-01

    The experimental results on the performance of the MRS (Metal/Resistor/Semiconductor) photodiode in the strong magnetic field of 4.4T, and the possible impact of the quench of the magnet at 4.5T on sensor's operation are reported.

  12. Strong Female Characters in Recent Children's Literature.

    ERIC Educational Resources Information Center

    Heine, Pat; Inkster, Christine; Kazemek, Frank; Williams, Sandra; Raschke, Sylvia; Stevens, Della

    1999-01-01

    Shares the authors' criteria for evaluating female characters as positive role models in children's literature. Explores the criteria by examining "The Ballad of Lucy Wipple" (Karen Cushman). Discusses other recently published picture books and novels which feature strong females in history, in contemporary times, and in fantasy. (SR)

  13. Diphoton resonance from a new strong force

    NASA Astrophysics Data System (ADS)

    Georgi, Howard; Nakai, Yuichiro

    2016-10-01

    We explore a "partial unification" model that a new strong gauge group is combined with the ordinary color and hypercharge gauge groups. The VEV responsible for the combination is of the order of the S U (2 )×U (1 ) breaking scale, but the coupling of the new physics to standard model particles is suppressed by the strong interaction of the new gauge group. This simple extension of the standard model has a rich phenomenology, including composite particles of the new confining gauge interaction, a coloron and a Z' which are rather weakly coupled to standard model particles, and massive vector bosons charged under both the ordinary color and hypercharge gauge groups and the new strong gauge group. The new scalar glueball could be produced by gluon fusion and decay into two photons, both through loops of the new massive vector bosons. The simplest version of the model has some issues: the massive vector bosons are stable and the coloron and the Z' are strongly constrained by search data. An extension of the model to include additional fermions with the new gauge coupling, though not as simple and elegant, can address both issues and more. It allows the massive vector boson to decay into a colorless, neutral state that could be a candidate of the dark matter. And the coloron and Z' can decay dominantly into the new fermions, completely changing the search bounds. If the massive vector bosons are still long lived, they could form new bound states, "vector bosoniums" with additional interesting phenomenology. The model is an explicit example of how new physics at small scales could be hidden by strong interactions.

  14. Super-strong magneto-rheological fluids

    NASA Astrophysics Data System (ADS)

    Tao, R.

    2001-03-01

    A typical MR fluid is a suspension of magnetic particles of micrometer size in a liquid. Upon application of a strong magnetic field, the fluid turns into a solid. This process is reversible and the response time is of milliseconds. MR fluids presently have a yield shear stress around 80 kPa, which is adequate for applications in shock absorbers and vibration dampers, but is inadequate for automobile clutch etc. Efforts in searching for new materials in the past decades came with limited results. Thus we have developed a new approach to change the microstructure of MR fluids and make them super-strong. It is well known that under a strong magnetic field, the ideal structure of MR fluids is a body-centered tetragonal (bct) lattice. The mechanical strength of MR fluids strongly depends on the microstructure. A bct-lattice based thick column has a much higher yield stress than a single-chain structure. When a magnetic field is applied to a MR fluid, the particles first form chains. With time, the chains may aggregate into columns. However, the unassisted aggregation is not very useful, as it is slow and produces columns with a limited thickness. Our method is based on assisted aggregations. Immediately after a magnetic field is applied, we compress the MR fluid in the field direction before a shear force is applied. The compression pushes the induced chains together to form thick columns. This microstructure change greatly enhances the yield stress. The experiment on an iron-based MR fluid finds 800 kPa for the yield stress, ten times stronger than that without the compression. When the magnetic field is removed, the MR fluid still returns to the liquid state quickly. The upper limit of this structure-enhanced yield stress seems well above 800 kPa. The super-strong MR fluids are suitable for many industrial applications. *Supported by NSF Grant 0196022

  15. Using Strong Magnetic Fields to Control Solutal Convection

    NASA Technical Reports Server (NTRS)

    Ramachandran, N.; Leslie, F. W.

    2003-01-01

    An important component in biotechnology, particularly in the area of protein engineering and rational drug design is the knowledge of the precise three-dimensional molecular structure of proteins. The quality of structural information obtained from X-ray diffraction methods is directly dependent on the degree of perfection of the protein crystals. As a consequence, the growth of high quality macromolecular crystals for diffraction analyses has been the central focus for biochemists, biologists, and bioengineers. Macromolecular crystals are obtained from solutions that contain the crystallizing species in equilibrium with higher aggregates, ions, precipitants, other possible phases of the protein, foreign particles, the walls of the container, and a likely host of other impurities. By changing transport modes in general, i.e., reduction of convection and sedimentation, as is achieved in microgravity , we have been able to dramatically affect the movement and distribution of macromolecules in the fluid, and thus their transport, formation of crystal nuclei, and adsorption to the crystal surface. While a limited number of high quality crystals from space flights have been obtained, as the recent National Research Council (NRC) review of the NASA microgravity crystallization program pointed out, the scientific approach and research in crystallization of proteins has been mainly empirical yielding inconclusive results. We postulate that we can reduce convection in ground-based experiments and we can understand the different aspects of convection control through the use of strong magnetic fields and field gradients. We postulate that limited convection in a magnetic field will provide the environment for the growth of high quality crystals. The approach exploits the variation of fluid magnetic susceptibility with concentration for this purpose and the convective damping is realized by appropriately positioning the crystal growth cell so that the magnetic susceptibility

  16. Basic properties of strongly code disjoint checkers

    NASA Astrophysics Data System (ADS)

    Nicolaidis, M.

    1990-09-01

    In order to ensure total self checking, checkers have been introduced by Carter and defined by Anderson to be totally self checking: that is they are code disjoint, self testing, and fault secure. Checkers which are only code disjoint and self testing are also discussed. Strongly code disjoint checkers are not fault secure. Some researchers feel that the fault secure property is indeed necessary. This lack of agreement about the basic concepts of checkers is an important drawback in further research on self checking checkers. The various arguments used in the debate are presented. Aspects of the problem over which there is the most disagreement are highlighted. Some important points concerning strongly code disjoint checkers are discussed.

  17. Strongly correlated quantum walks in optical lattices

    NASA Astrophysics Data System (ADS)

    Preiss, Philipp M.; Ma, Ruichao; Tai, M. Eric; Lukin, Alexander; Rispoli, Matthew; Zupancic, Philip; Lahini, Yoav; Islam, Rajibul; Greiner, Markus

    2015-03-01

    Full control over the dynamics of interacting, indistinguishable quantum particles is an important prerequisite for the experimental study of strongly correlated quantum matter and the implementation of high-fidelity quantum information processing. We demonstrate such control over the quantum walk—the quantum mechanical analog of the classical random walk—in the regime where dynamics are dominated by interparticle interactions. Using interacting bosonic atoms in an optical lattice, we directly observed fundamental effects such as the emergence of correlations in two-particle quantum walks, as well as strongly correlated Bloch oscillations in tilted optical lattices. Our approach can be scaled to larger systems, greatly extending the class of problems accessible via quantum walks.

  18. Waves in strong centrifugal fields: dissipationless gas

    NASA Astrophysics Data System (ADS)

    Bogovalov, S. V.; Kislov, V. A.; Tronin, I. V.

    2015-04-01

    Linear waves are investigated in a rotating gas under the condition of strong centrifugal acceleration of the order 106 g realized in gas centrifuges for separation of uranium isotopes. Sound waves split into three families of the waves under these conditions. Dispersion equations are obtained. The characteristics of the waves strongly differ from the conventional sound waves on polarization, velocity of propagation and distribution of energy of the waves in space for two families having frequencies above and below the frequency of the conventional sound waves. The energy of these waves is localized in rarefied region of the gas. The waves of the third family were not specified before. They propagate exactly along the rotational axis with the conventional sound velocity. These waves are polarized only along the rotational axis. Radial and azimuthal motions are not excited. Energy of the waves is concentrated near the wall of the rotor where the density of the gas is largest.

  19. Strong ground motion prediction using virtual earthquakes.

    PubMed

    Denolle, M A; Dunham, E M; Prieto, G A; Beroza, G C

    2014-01-24

    Sedimentary basins increase the damaging effects of earthquakes by trapping and amplifying seismic waves. Simulations of seismic wave propagation in sedimentary basins capture this effect; however, there exists no method to validate these results for earthquakes that have not yet occurred. We present a new approach for ground motion prediction that uses the ambient seismic field. We apply our method to a suite of magnitude 7 scenario earthquakes on the southern San Andreas fault and compare our ground motion predictions with simulations. Both methods find strong amplification and coupling of source and structure effects, but they predict substantially different shaking patterns across the Los Angeles Basin. The virtual earthquake approach provides a new approach for predicting long-period strong ground motion. PMID:24458636

  20. Temperature equilibration in strongly coupled plasma

    SciTech Connect

    Thode, L. E.; Chang, C. H.; Snell, C. M.; Daughton, W. S.; Csanak, G. Y.

    2002-01-01

    A laser-driven experiment investigating electron-ion equilibration in strongly coupled plasma was performed in 1995. At that time, standard estimates for the electron-ion equilibration time were two-to-three orders of magnitude faster than observed experimentally. As a result, the electron-ion equilibration time was taken as a fitting parameter to understand the experimental results. Based upon guidance from nonequilibrium molecular dynamics mixture calculations 121 and comparison with strongly coupled resistivity experiments, we have developed a consistent binary collision model to understand the electron-ion equilibration experiment. The model has been implemented in a newly developed multi-species, multi-temperature physics code, which was used for simulation of the experiment. The resulting electron-ion exchange rate is close to the experiment, which is about three orders-of-magnitude slower than given by standard estimates, most of which is the result of a modified coulomb logarithm.

  1. Spectral properties of strongly correlated systems

    NASA Astrophysics Data System (ADS)

    Monien, H.

    1998-01-01

    The pseudogap and the suppression of coherent transport in the direction perpendicular to the CuO planes of the high-temperature superconductors are clearly related to strong correlations. We study the suppression of coherent transport modelling the layered structure of the high-temperature superconductors by a pair of strongly correlated planes which are connected by a hopping transfer integral t⊥ in the limit of large in-plane coordination number. The suppression of low-energy density of states (pseudogap) by low-energy fluctuation close to a phase transition can be studied in one dimension using techniques introduced by Abrikosova and Ryzhkin. We present results which are exact in the limit of large correlation lengths which differ significantly from results obtained earlier. Our results may be relevant to the “pseudogap” phenomenon occurring in underdoped high- Tc superconductors and quasi-one-dimensional organic conductors and to the theory of liquid metals.

  2. Hydrogen Strongly Coupled Plasma at Megabar Pressures

    NASA Astrophysics Data System (ADS)

    Fortov, Vladimir

    2011-06-01

    New experimental results on thermodynamics and electrical conductivity of shock and isoentropically compressed hydrogen and deuterium are presented. Strongly coupled plasmas in which pressures achieved 18 Mbar, Coulomb coupling parameter exceeded 450, electron degeneracy parameter came up to 290 were obtained with semi-spherical explosive-driven generators. Theoretical models for description of thermodynamics of warm dense hydrogen, the experiment and theory comparison for hydrogen strongly non-ideal plasmas under high energy density are presented. Experimental and theoretical problems in studying of warm dense hydrogen are discussed. Work done in collaboration with R.I. Il'kayev, M.A. Mochalov, M.V. Zhernokletov, A.L. Mikhailov, V.B. Mintsev, I.L. Iosilevskiy, and V.Ya. Ternovoi.

  3. New strong interactions above the electroweak scale

    SciTech Connect

    White, A.R.

    1994-08-09

    Theoretical arguments for a new higher-color quark sector, based on Pomeron physics in QCD, are briefly described. The electroweak symmetry-breaking, Strong CP conservation, and electroweak scale CP violation, that is naturally produced by this sector is also outlined. A further consequence is that above the electroweak scale there will be a radical change in the strong interaction. Electroweak states, in particular multiple W`s and Z`s, and new, semi-stable, very massive, baryons, will be commonly produced. The possible correlation of expected phenomena with a wide range of observed Cosmic Ray effects at and above the primary spectrum knee is described. Related phenomena that might be seen in the highest energy hard scattering events at the Fermilab Tevatron, some of which could be confused with top production, are also briefly discussed.

  4. Strongly correlated thermoelectric transport beyond linear response

    NASA Astrophysics Data System (ADS)

    Dutt, Prasenjit; Le Hur, Karyn

    2013-12-01

    We investigate nonlinear thermoelectric transport through quantum impurity systems with strong on-site interactions. We show that the steady-state transport through interacting quantum impurities in contact with electron reservoirs at significantly different temperatures can be captured by an effective-equilibrium density matrix, expressed compactly in terms of the Lippmann-Schwinger operators of the system. In addition, the reservoirs can be maintained at arbitrary chemical potentials. The interplay between the temperature gradient and bias voltage gives rise to a nontrivial breaking of particle-hole symmetry in the strongly correlated regime, manifest in the Abrikosov-Suhl localized electron resonance. This purely many-body effect, which is in agreement with experimental results, is beyond the purview of mean-field arguments.

  5. Decay of Resonaces in Strong Magnetic Field

    NASA Astrophysics Data System (ADS)

    Filip, Peter

    2015-08-01

    We suggest that decay properties (branching ratios) of hadronic resonances may become modified in strong external magnetic field. The behavior of K±*, K0* vector mesons as well as Λ* (1520) and Ξ0* baryonic states is considered in static fields 1013-1015 T. In particular, n = 0 Landau level energy increase of charged particles in the external magnetic field, and the interaction of hadron magnetic moments with the field is taken into account. We suggest that enhanced yield of dileptons and photons from ρ0(770) mesons may occur if strong decay channel ρ0 → π+π- is significantly suppressed. CP - violating π+π- decays of pseudoscalar ηc and η(547) mesons in the magnetic field are discussed, and superpositions of quarkonium states ηc,b and χc,b(nP) with Ψ(nS), ϒ(nS) mesons in the external field are considered.

  6. Strong regularizing effect of integrable systems

    SciTech Connect

    Zhou, Xin

    1997-11-01

    Many time evolution problems have the so-called strong regularization effect, that is, with any irregular initial data, as soon as becomes greater than 0, the solution becomes C{sup {infinity}} for both spacial and temporal variables. This paper studies 1 x 1 dimension integrable systems for such regularizing effect. In the work by Sachs, Kappler [S][K], (see also earlier works [KFJ] and [Ka]), strong regularizing effect is proved for KdV with rapidly decaying irregular initial data, using the inverse scattering method. There are two equivalent Gel`fand-Levitan-Marchenko (GLM) equations associated to an inverse scattering problem, one is normalized at x = {infinity} and another at x = {infinity}. The method of [S][K] relies on the fact that the KdV waves propagate only in one direction and therefore one of the two GLM equations remains normalized and can be differentiated infinitely many times. 15 refs.

  7. Nonperturbative enhancement of superloop at strong coupling

    NASA Astrophysics Data System (ADS)

    Belitsky, A. V.

    2016-10-01

    We address the near-collinear expansion of NMHV six-particle scattering amplitudes at strong value of the 't Hooft coupling in planar maximally supersymmetric Yang-Mills theory. We complement recent studies of this observable within the context of the Pentagon Operator Product Expansion, via the dual superWilson loop description, by studying effects of multiple scalar exchanges that accompany (or not) massive flux-tube excitations. Due to the fact that holes have a very small, nonperturbatively generated mass mh which is exponentially suppressed in the 't Hooft coupling, their exchanges must be resummed in the ultraviolet limit, τ ≪ 1 /mh. This procedure yields a contribution to the expectation value of the superloop which enters on equal footing with the classical area - a phenomenon which was earlier observed for MHV amplitudes. In all components, the near-massless scalar exchanges factorize from the ones of massive particles, at leading order in strong coupling.

  8. Solvable model of a strongly driven micromaser

    SciTech Connect

    Lougovski, P.; Walther, H.; Casagrande, F.; Lulli, A.; Englert, B.-G.; Solano, E.

    2004-02-01

    We study the dynamics of a micromaser where the pumping atoms are strongly driven by a resonant classical field during their transit through the cavity mode. We derive a master equation for this strongly driven micromaser, involving the contributions of the unitary atom-field interactions and the dissipative effects of a thermal bath. We find analytical solutions for the temporal evolution and the steady state of this system by means of phase-space techniques, providing an unusual solvable model of an open quantum system, including pumping and decoherence. We derive closed expressions for all relevant expectation values, describing the statistics of the cavity field and the detected atomic levels. The transient regime shows the buildup of mixtures of mesoscopic fields evolving towards a super-Poissonian steady-state field that, nevertheless, yields atomic correlations that exhibit stronger nonclassical features than the conventional micromaser.

  9. Photon scattering from strongly driven atomic ensembles

    SciTech Connect

    Jin Luling; Evers, Joerg; Macovei, Mihai

    2011-10-15

    The second-order correlation function for light emitted from a strongly and near-resonantly driven dilute cloud of atoms is discussed. Because of the strong driving, the fluorescence spectrum separates into distinct peaks, for which the spectral properties can be defined individually. It is shown that the second-order correlations for various combinations of photons from different spectral lines exhibit bunching together with super-Poissonian or sub-Poissonian photon statistics, tunable by the choice of the detector positions. Additionally, a Cauchy-Schwarz inequality is violated for photons emitted from particular spectral bands. The emitted light intensity is proportional to the square of the number of particles, and thus can potentially be intense. Three different averaging procedures to model ensemble disorder are compared.

  10. Strong ground motion prediction using virtual earthquakes.

    PubMed

    Denolle, M A; Dunham, E M; Prieto, G A; Beroza, G C

    2014-01-24

    Sedimentary basins increase the damaging effects of earthquakes by trapping and amplifying seismic waves. Simulations of seismic wave propagation in sedimentary basins capture this effect; however, there exists no method to validate these results for earthquakes that have not yet occurred. We present a new approach for ground motion prediction that uses the ambient seismic field. We apply our method to a suite of magnitude 7 scenario earthquakes on the southern San Andreas fault and compare our ground motion predictions with simulations. Both methods find strong amplification and coupling of source and structure effects, but they predict substantially different shaking patterns across the Los Angeles Basin. The virtual earthquake approach provides a new approach for predicting long-period strong ground motion.

  11. Photoneutrino energy losses in strong magnetic fields.

    NASA Technical Reports Server (NTRS)

    Canuto, V.; Fassio-Canuto, L.

    1973-01-01

    Previously computed rates of energy losses (Petrosian et al., 1967) ignored the presence of strong magnetic fields, hence the change brought in when such a field (about 10 to the 12th to 10 to the 13th power G) is included is studied. The results indicate that for T about 10 to the 8th power K and densities rho of about 10,000 g/cu cm, the presence of a strong H field decreases the energy losses by at the most a factor between 10 and 100 in the region up to rho = 1,000,000 g/cu cm. At higher densities the neutrino emissivities are almost identical.

  12. Bose polarons in the strongly interacting regime

    NASA Astrophysics Data System (ADS)

    Kedar, Dhruv; Hu, Ming-Guang; van de Graaff, Michael; Corson, John; Cornell, Eric; Jin, Deborah

    2016-05-01

    Impurities immersed in and interacting with a Bose-Einstein condensate (BEC) are predicted to form quasiparticle excitations called Bose polarons. I will present experimental evidence of Bose polarons in cold atoms obtained using radio-frequency spectroscopy to measure the excitation spectrum of fermionic K-40 impurities interacting with a BEC of Rb-87 atoms. We use an interspecies Feshbach resonance to tune the interactions between the impurities and the bosons, and we take data in the strongly interacting regime.

  13. Strong coupling QED with two fermionic flavors

    SciTech Connect

    Wang, K.C.

    1990-11-01

    We report the recent results of our simulation of strong coupling QED, with non-compact action, on lattices 10{sup 4} and 16{sup 4}. Since we are dealing with two staggered fermionic flavors, we use hybrid algorithm to do the simulation. In addition to the measurement of the chiral order parameter {l angle}{bar {psi}}{psi}{r angle}, we also measure magnetic monopole susceptibility, {chi}, throughout the region of chiral transition. 6 refs., 6 figs.

  14. Concepts in strong Langmuir turbulence theory

    SciTech Connect

    DuBois, D.F.; Rose, H.A.

    1990-01-01

    Some of the basic concepts of strong Langmuir turbulence (SLT) theory are reviewed. In SLT system, a major fraction of the turbulent energy is carried by local, time-dependent, nonlinear excitations called cavitons. Modulational instability, localization of Langmuir fields by density fluctuations, caviton nucleation, collapse, and burnout and caviton correlations are reviewed. Recent experimental evidence will be presented for SLT phenomena in the interaction of powerful HF waves with the ionosphere and in laser-plasma interaction experiments. 38 refs., 11 figs.

  15. Kinetic Characterization of Strongly Coupled Systems

    SciTech Connect

    Knapek, C. A.; Ivlev, A. V.; Klumov, B. A.; Morfill, G. E.; Samsonov, D.

    2007-01-05

    We propose a simple method to determine the local coupling strength {gamma} experimentally, by linking the individual particle dynamics with the local density and crystal structure of a 2D plasma crystal. By measuring particle trajectories with high spatial and temporal resolution we obtain the first maps of {gamma} and temperature at individual particle resolution. We employ numerical simulations to test this new method, and discuss the implications to characterize strongly coupled systems.

  16. Strongly scale-dependent non-Gaussianity

    SciTech Connect

    Riotto, Antonio; Sloth, Martin S.

    2011-02-15

    We discuss models of primordial density perturbations where the non-Gaussianity is strongly scale dependent. In particular, the non-Gaussianity may have a sharp cutoff and be very suppressed on large cosmological scales, but sizable on small scales. This may have an impact on probes of non-Gaussianity in the large-scale structure and in the cosmic microwave background radiation anisotropies.

  17. Strong, Ductile Rotor For Cryogenic Flowmeters

    NASA Technical Reports Server (NTRS)

    Royals, W. T.

    1993-01-01

    Improved magnetic flowmeter rotor resists cracking at cryogenic temperatures, yet provides adequate signal to magnetic pickup outside flowmeter housing. Consists mostly of stainless-steel alloy 347, which is ductile and strong at low temperatures. Small bead of stainless-steel alloy 410 welded in groove around circumference of round bar of stainless-steel alloy 347; then rotor machined from bar. Tips of rotor blades contain small amounts of magnetic alloy, and passage of tips detected.

  18. Kummer solitons in strongly nonlocal nonlinear media

    NASA Astrophysics Data System (ADS)

    Zhong, Wei-Ping; Belić, Milivoj

    2009-01-01

    We solve the three-dimensional (3D) time-dependent strongly nonlocal nonlinear Schrödinger equation (NNSE) in spherical coordinates, with the help of Kummer's functions. We obtain analytical solitary solutions, which we term the Kummer solitons. We compare analytical solutions with the numerical solutions of NNSE. We discuss higher-order Kummer spatial solitons, which can exist in various forms, such as the 3D vortex solitons and the multipole solitons.

  19. Quantum states with strong positive partial transpose

    SciTech Connect

    Chruscinski, Dariusz; Jurkowski, Jacek; Kossakowski, Andrzej

    2008-02-15

    We construct a large class of bipartite M x N quantum states which defines a proper subset of states with positive partial transposes (PPTs). Any state from this class has PPT but the positivity of its partial transposition is recognized with respect to canonical factorization of the original density operator. We propose to call elements from this class states with strong positive partial transposes (SPPTs). We conjecture that all SPPT states are separable.

  20. Tilts in strong-ground motion

    NASA Astrophysics Data System (ADS)

    Graizer, V.

    2006-12-01

    Most instruments used in seismological practice to record ground motion are pendulum seismographs, velocigraphs or accelerographs. In most cases it is assumed that seismic instruments are only sensitive to the translational motion of the instrument's base. In this study the full equation of pendulum motion including the inputs of rotations and tilts is considered. It is shown that tilting the accelerograph's base can severely impact its response to the ground motion. The method of tilt evaluation using uncorrected strong-motion accelerograms was first suggested by Graizer (1989), and later tested in a number of laboratory experiments with different strong-motion instruments. The method is based on the difference in the tilt sensitivity of the horizontal and vertical pendulums. The method was applied to a number of strongest records of the Mw 6.7 Northridge earthquake of 1994. Examples are shown when relatively large tilts of up to a few degrees occurred during strong earthquake ground motion. Residual tilt extracted from the strong-motion record at the Pacoima Dam Upper Left Abutment reached 3.1 degrees in N45E direction, and was a result of local earthquake induced tilting due to high amplitude shaking. This value is in agreement with the residual tilt measured using electronic level a few days after the earthquake. The method was applied to the building records from the Northridge earthquake. According to the estimates, residual tilt reached 2.6 degrees on the ground floor of the 12-story Hotel in Ventura. Processing of most of the strongest records of the Northridge earthquake shows that tilts, if happened, were within the error of the method, or less than about 0.5 degree.

  1. Relativistically modulational instability by strong Langmuir waves

    SciTech Connect

    Liu, X. L.; Liu, S. Q.; Li, X. Q.

    2012-09-15

    Based on the set of nonlinear coupling equations, which has considered the relativistic effects of electrons, modulational instability by strong Langmuir waves has been investigated in this paper. Both the characteristic scale and maximum growth rate of the Langmuir field will enhance with the increase in the electron relativistic effect. The numerical results indicate that longitudinal perturbations induce greater instability than transverse perturbations do, which will lead to collapse and formation of the pancake-like structure.

  2. Dynamics of strongly-coupled spiking neurons.

    PubMed

    Bressloff, P C; Coombes, S

    2000-01-01

    We present a dynamical theory of integrate-and-fire neurons with strong synaptic coupling. We show how phase-locked states that are stable in the weak coupling regime can destabilize as the coupling is increased, leading to states characterized by spatiotemporal variations in the interspike intervals (ISIs). The dynamics is compared with that of a corresponding network of analog neurons in which the outputs of the neurons are taken to be mean firing rates. A fundamental result is that for slow interactions, there is good agreement between the two models (on an appropriately defined timescale). Various examples of desynchronization in the strong coupling regime are presented. First, a globally coupled network of identical neurons with strong inhibitory coupling is shown to exhibit oscillator death in which some of the neurons suppress the activity of others. However, the stability of the synchronous state persists for very large networks and fast synapses. Second, an asymmetric network with a mixture of excitation and inhibition is shown to exhibit periodic bursting patterns. Finally, a one-dimensional network of neurons with long-range interactions is shown to desynchronize to a state with a spatially periodic pattern of mean firing rates across the network. This is modulated by deterministic fluctuations of the instantaneous firing rate whose size is an increasing function of the speed of synaptic response. PMID:10636934

  3. Systematic errors in strong lens modeling

    NASA Astrophysics Data System (ADS)

    Johnson, Traci Lin; Sharon, Keren; Bayliss, Matthew B.

    2015-08-01

    The lensing community has made great strides in quantifying the statistical errors associated with strong lens modeling. However, we are just now beginning to understand the systematic errors. Quantifying these errors is pertinent to Frontier Fields science, as number counts and luminosity functions are highly sensitive to the value of the magnifications of background sources across the entire field of view. We are aware that models can be very different when modelers change their assumptions about the parameterization of the lensing potential (i.e., parametric vs. non-parametric models). However, models built while utilizing a single methodology can lead to inconsistent outcomes for different quantities, distributions, and qualities of redshift information regarding the multiple images used as constraints in the lens model. We investigate how varying the number of multiple image constraints and available redshift information of those constraints (ex., spectroscopic vs. photometric vs. no redshift) can influence the outputs of our parametric strong lens models, specifically, the mass distribution and magnifications of background sources. We make use of the simulated clusters by M. Meneghetti et al. and the first two Frontier Fields clusters, which have a high number of multiply imaged galaxies with spectroscopically-measured redshifts (or input redshifts, in the case of simulated clusters). This work will not only inform upon Frontier Field science, but also for work on the growing collection of strong lensing galaxy clusters, most of which are less massive and are capable of lensing a handful of galaxies, and are more prone to these systematic errors.

  4. Strong convergence for reduced free products

    NASA Astrophysics Data System (ADS)

    Pisier, Gilles

    2016-06-01

    Using an inequality due to Ricard and Xu, we give a different proof of Paul Skoufranis’s recent result showing that the strong convergence of possibly non-commutative random variables X(k) → X is stable under reduced free product with a fixed non-commutative random variable Y. In fact we obtain a more general fact: assuming that the families X(k) = {X i(k)} and Y(k) = {Y j(k)} are ∗-free as well as their limits (in moments) X = {Xi} and Y = {Yj}, the strong convergences X(k) → X and Y(k) → Y imply that of {X(k),Y(k)} to {X,Y }. Phrased in more striking language: the reduced free product is “continuous” with respect to strong convergence. The analogue for weak convergence (i.e. convergence of all moments) is obvious. Our approach extends to the amalgamated free product, left open by Skoufranis.

  5. Forecasting area of strong aftershock occurrence

    NASA Astrophysics Data System (ADS)

    Baranov, Sergey; Shebalin, Peter

    2016-04-01

    Forecasting an area of strong aftershock was never, at our knowledge, considered in terms of operational forecasting. Different declustering models exist to separate post-factum the aftershocks from "independent" events. Large number of studies discussed in previous years the form of the distribution of the aftershocks distances from the mainshock fault. Here we present results of our attempts to assimilate the above researches into a model that can be used in operational aftershock forecasting. Our study was based on data provided by ANSS catalog for 1980-2015. We tried more than 20 well known and suggested by ourselves models of aftershock areas to retrospective forecasting of strong aftershock areas. We tried the models based on data for 12 hours after a mainshock and estimated their forecast quality using special modification of L-test to achieve an optimal model. As a result of our study is a model that can be used in operational forecasting area of strong aftershocks. The research was supported by Russian Foundation for Basic Research (Project 16-05-00263A).

  6. Doubling strong lensing as a cosmological probe

    NASA Astrophysics Data System (ADS)

    Linder, Eric V.

    2016-10-01

    Strong gravitational lensing provides a geometric probe of cosmology in a unique manner through distance ratios involving the source and lens. This is well-known for the time delay distance derived from measured delays between lightcurves of the images of variable sources such as quasars. Recently, double source plane lens systems involving two constant sources lensed by the same foreground lens have been proposed as another probe, involving a different ratio of distances measured from the image positions and fairly insensitive to the lens modeling. Here we demonstrate that these two different sets of strong lensing distance ratios have strong complementarity in cosmological leverage. Unlike other probes, the double source distance ratio is actually more sensitive to the dark energy equation of state parameters w0 and wa than to the matter density Ωm, for low redshift lenses. Adding double source distance ratio measurements can improve the dark energy figure of merit by 40% for a sample of fewer than 100 low redshift systems, or even better for the optimal redshift distribution we derive.

  7. Inflationary magnetogenesis without the strong coupling problem

    SciTech Connect

    Ferreira, Ricardo J.Z.; Jain, Rajeev Kumar; Sloth, Martin S. E-mail: jain@cp3.dias.sdu.dk

    2013-10-01

    The simplest gauge invariant models of inflationary magnetogenesis are known to suffer from the problems of either large backreaction or strong coupling, which make it difficult to self-consistently achieve cosmic magnetic fields from inflation with a field strength larger than 10{sup −32}G today on the Mpc scale. Such a strength is insufficient to act as seed for the galactic dynamo effect, which requires a magnetic field larger than 10{sup −20}G. In this paper we analyze simple extensions of the minimal model, which avoid both the strong coupling and back reaction problems, in order to generate sufficiently large magnetic fields on the Mpc scale today. First we study the possibility that the coupling function which breaks the conformal invariance of electromagnetism is non-monotonic with sharp features. Subsequently, we consider the effect of lowering the energy scale of inflation jointly with a scenario of prolonged reheating where the universe is dominated by a stiff fluid for a short period after inflation. In the latter case, a systematic study shows upper bounds for the magnetic field strength today on the Mpc scale of 10{sup −13}G for low scale inflation and 10{sup −25}G for high scale inflation, thus improving on the previous result by 7-19 orders of magnitude. These results are consistent with the strong coupling and backreaction constraints.

  8. Diphotons, new vacuum angles, and strong CP

    DOE PAGES

    Draper, Patrick; McKeen, David

    2016-04-20

    The Standard Model contains a well-understood, natural, spin-0 diphoton resonance: the π0. Numerous studies have pointed out that the hint of a new diphoton resonance at 750 GeV could be a pion analog, identified with the pseudo-Nambu-Goldstone boson of a chiral symmetry spontaneously broken by new strong dynamics at the TeV scale. These “hypercolor” models are generically expected to violate parity through a topological angle θ~. We discuss the physics of θ~ and its impact on the phenomenology of the new sector. We also describe some of the theoretical implications of a nonzero θ~. In particular, θ~ can generate anmore » O(1) threshold correction to the QCD vacuum angle θ near the TeV scale, sharply constraining ultraviolet solutions to the strong CP problem. Furthermore, finding that θ~ is small may be interpreted as evidence in favor of UV solutions to strong CP, particularly those based on spontaneously broken P or CP symmetries.« less

  9. Strong CP, Flavor, and Twisted Split Fermions

    SciTech Connect

    Harnik, Roni; Perez, Gilad; Schwartz, Matthew D.; Shirman, Yuri

    2004-11-10

    We present a natural solution to the strong CP problem in the context of split fermions. By assuming CP is spontaneously broken in the bulk, a weak CKM phase is created in the standard model due to a twisting in flavor space of the bulk fermion wavefunctions. But the strong CP phase remains zero, being essentially protected by parity in the bulk and CP on the branes. As always in models of spontaneous CP breaking, radiative corrections to theta bar from the standard model are tiny, but even higher dimension operators are not that dangerous. The twisting phenomenon was recently shown to be generic, and not to interfere with the way that split fermions naturally weaves small numbers into the standard model. It follows that out approach to strong CP is compatible with flavor, and we sketch a comprehensive model. We also look at deconstructed version of this setup which provides a viable 4D model of spontaneous CP breaking which is not in the Nelson-Barr class.

  10. Cosmological test using strong gravitational lensing systems

    NASA Astrophysics Data System (ADS)

    Yuan, C. C.; Wang, F. Y.

    2015-09-01

    As one of the probes of universe, strong gravitational lensing systems allow us to compare different cosmological models and constrain vital cosmological parameters. This purpose can be reached from the dynamic and geometry properties of strong gravitational lensing systems, for instance, time-delay Δτ of images, the velocity dispersion σ of the lensing galaxies and the combination of these two effects, Δτ/σ2. In this paper, in order to carry out one-on-one comparisons between ΛCDM universe and Rh = ct universe, we use a sample containing 36 strong lensing systems with the measurement of velocity dispersion from the Sloan Lens Advanced Camera for Surveys (SLACS) and Lens Structure and Dynamic survey (LSD) survey. Concerning the time-delay effect, 12 two-image lensing systems with Δτ are also used. In addition, Monte Carlo simulations are used to compare the efficiency of the three methods as mentioned above. From simulations, we estimate the number of lenses required to rule out one model at the 99.7 per cent confidence level. Comparing with constraints from Δτ and the velocity dispersion σ, we find that using Δτ/σ2 can improve the discrimination between cosmological models. Despite the independence tests of these methods reveal a correlation between Δτ/σ2 and σ, Δτ/σ2 could be considered as an improved method of σ if more data samples are available.

  11. Is strong reciprocity really strong in the lab, let alone in the real world?

    PubMed

    Güney, Şule; Newell, Ben R

    2012-02-01

    We argue that standard experiments supporting the existence of "strong reciprocity" do not represent many cooperative situations outside the laboratory. More representative experiments that incorporate "earned" rather than "windfall" wealth also do not provide evidence for the impact of strong reciprocity on cooperation in contemporary real-life situations or in evolutionary history, supporting the main conclusions of the target article.

  12. 77 FR 53212 - Notice of Proposed Information Collection: Comment Request Strong Cities Strong Communities...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-08-31

    ... Communities National Resource Network AGENCY: Office of the Assistant Secretary for Policy Development and... Proposal: Strong Cities Strong Communities National Resource Network. OMB Control Number, if applicable... National Resource Network. The U.S. Department of Housing and Urban Development Appropriations Act,...

  13. Prevention of strong earthquakes: Goal or utopia?

    NASA Astrophysics Data System (ADS)

    Mukhamediev, Sh. A.

    2010-11-01

    In the present paper, we consider ideas suggesting various kinds of industrial impact on the close-to-failure block of the Earth’s crust in order to break a pending strong earthquake (PSE) into a number of smaller quakes or aseismic slips. Among the published proposals on the prevention of a forthcoming strong earthquake, methods based on water injection and vibro influence merit greater attention as they are based on field observations and the results of laboratory tests. In spite of this, the cited proofs are, for various reasons, insufficient to acknowledge the proposed techniques as highly substantiated; in addition, the physical essence of these methods has still not been fully understood. First, the key concept of the methods, namely, the release of the accumulated stresses (or excessive elastic energy) in the source region of a forthcoming strong earthquake, is open to objection. If we treat an earthquake as a phenomenon of a loss in stability, then, the heterogeneities of the physicomechanical properties and stresses along the existing fault or its future trajectory, rather than the absolute values of stresses, play the most important role. In the present paper, this statement is illustrated by the classical examples of stable and unstable fractures and by the examples of the calculated stress fields, which were realized in the source regions of the tsunamigenic earthquakes of December 26, 2004 near the Sumatra Island and of September 29, 2009 near the Samoa Island. Here, just before the earthquakes, there were no excessive stresses in the source regions. Quite the opposite, the maximum shear stresses τmax were close to their minimum value, compared to τmax in the adjacent territory. In the present paper, we provide quantitative examples that falsify the theory of the prevention of PSE in its current form. It is shown that the measures for the prevention of PSE, even when successful for an already existing fault, can trigger or accelerate a catastrophic

  14. Protein Condensation

    NASA Astrophysics Data System (ADS)

    Gunton, James D.; Shiryayev, Andrey; Pagan, Daniel L.

    2007-09-01

    Preface; 1. Introduction; 2. Globular protein structure; 3. Experimental methods; 4. Thermodynamics and statistical mechanics; 5. Protein-protein interactions; 6. Theoretical studies of equilibrium; 7. Nucleation theory; 8. Experimental studies of nucleation; 9. Lysozyme; 10. Some other globular proteins; 11. Membrane proteins; 12. Crystallins and cataracts; 13. Sickle hemoglobin and sickle cell anemia; 14, Alzheimer's disease; Index.

  15. Protein Condensation

    NASA Astrophysics Data System (ADS)

    Gunton, James D.; Shiryayev, Andrey; Pagan, Daniel L.

    2014-07-01

    Preface; 1. Introduction; 2. Globular protein structure; 3. Experimental methods; 4. Thermodynamics and statistical mechanics; 5. Protein-protein interactions; 6. Theoretical studies of equilibrium; 7. Nucleation theory; 8. Experimental studies of nucleation; 9. Lysozyme; 10. Some other globular proteins; 11. Membrane proteins; 12. Crystallins and cataracts; 13. Sickle hemoglobin and sickle cell anemia; 14, Alzheimer's disease; Index.

  16. Comparison of the properties of the E6 and E7 genes of low- and high-risk cutaneous papillomaviruses reveals strongly transforming and high Rb-binding activity for the E7 protein of the low-risk human papillomavirus type 1.

    PubMed Central

    Schmitt, A; Harry, J B; Rapp, B; Wettstein, F O; Iftner, T

    1994-01-01

    A comparative analysis of different properties of the E6 and E7 proteins of high-risk and low-risk cutaneous papillomaviruses was performed. The corresponding genomic regions of human papillomavirus types 1 and 8 (HPV1 and HPV8) and of the cottontail rabbit papillomavirus (CRPV) were cloned into the eucaryotic expression vector pZipNeo-SV(X)-1 and into vectors for in vitro transcription and translation. With the help of these vectors, the individual proteins were investigated for their ability to transform C127 and NIH 3T3 rodent fibroblasts, bind the Rb protein in vitro, transactivate the adenovirus E2 promoter, and cooperate in the immortalization of primary human keratinocytes. Expression vectors for HPV16 E6 and E7 were used as a positive control. A highly transformed phenotype could be observed with rodent cell lines expressing HPV8 E6, HPV16 E6 and E7, and, surprisingly, HPV1 E7. In contrast, no transformation was detected with CRPV long E6 and HPV8 E7, whereas cells expressing HPV1 E6 and CRPV short E6 exhibited a weakly transformed phenotype. Although neither CRPV E6 nor CRPV E7 caused morphological transformation of C127 cells, CRPV E6 was able to induce anchorage-independent growth in both rodent cell lines, whereas CRPV E7 led to high cloning efficiencies only in NIH 3T3 cells. The in vitro Rb-binding affinities relative to that of HPV 16 E7 were 66% for HPV1 E7, 34% for HPV8 E7, and 11% for CRPV E7. In spite of its high Rb-binding affinity, HPV1 E7 did not trans activate the adenovirus E2 promoter, whereas HPV8 E7 and CRPV E7 showed low activities. Complementation studies in primary human keratinocytes revealed a weak immortalizing potential for HPV8 E7 and indicated a low degree of cooperativity between CRPV E7 and CRPV or HPV16 E6. Images PMID:7933087

  17. (1+2)-dimensional strongly nonlocal solitons

    SciTech Connect

    Ouyang Shigen; Guo Qi

    2007-11-15

    Approximate solutions of (1+2)-dimensional strongly nonlocal solitons (SNSs) are presented. It is shown that the power of a SNS in a nematic liquid crystal is in direct proportion to the second power of the degree of nonlocality, the power of a SNS in a nonlocal medium with a logarithmic nonlocal response is in inverse proportion to the second power of its beamwidth, and the power of a SNS in a nonlocal medium with an sth-power decay nonlocal response is in direct proportion to the (s+2)th power of the degree of nonlocality.

  18. Bose Polarons in the Strongly Interacting Regime.

    PubMed

    Hu, Ming-Guang; Van de Graaff, Michael J; Kedar, Dhruv; Corson, John P; Cornell, Eric A; Jin, Deborah S

    2016-07-29

    When an impurity is immersed in a Bose-Einstein condensate, impurity-boson interactions are expected to dress the impurity into a quasiparticle, the Bose polaron. We superimpose an ultracold atomic gas of ^{87}Rb with a much lower density gas of fermionic ^{40}K impurities. Through the use of a Feshbach resonance and radio-frequency spectroscopy, we characterize the energy, spectral width, and lifetime of the resultant polaron on both the attractive and the repulsive branches in the strongly interacting regime. The width of the polaron in the attractive branch is narrow compared to its binding energy, even as the two-body scattering length diverges. PMID:27517776

  19. Obama Indicates Strong Support for Science

    NASA Astrophysics Data System (ADS)

    Showstack, Randy

    2009-05-01

    In remarks delivered at the U.S. National Academy of Sciences (NAS) annual meeting on 27 April, U.S. President Barack Obama indicated his administration's strong support for science and for pursuing a clean energy economy. He also announced a goal that the United States “will devote more than 3% of our [gross domestic product] to research and development.” “This represents the largest commitment to scientific research and innovation in American history,” Obama said, noting that the American Recovery and Reinvestment Act already is providing the nation with its largest single boost to investment in basic research.

  20. Strongly nonlinear magnetosonic waves and ion acceleration

    SciTech Connect

    Rau, B.; Tajima, T.

    1997-11-01

    The electromagnetic fields associated with a nonlinear compressional Alfven wave propagating perpendicular to an external magnetic field of arbitrary strength are derived. For the strongly magnetized and high phase velocity case relevant for ion acceleration to high energies, we show that the electric field increases proportionally only to the external magnetic field O (B{sub ext}[in T] MV/cm) and the electrostatic potential increases with the square root of the ion-to-electron mass ratio {radical}M{sub i}/m{sub e}.

  1. Dynamical simulations of strongly correlated electron materials

    NASA Astrophysics Data System (ADS)

    Kress, Joel; Barros, Kipton; Batista, Cristian; Chern, Gia-Wei; Kotliar, Gabriel

    We present a formulation of quantum molecular dynamics that includes electron correlation effects via the Gutzwiller method. Our new scheme enables the study of the dynamical behavior of atoms and molecules with strong electron interactions. The Gutzwiller approach goes beyond the conventional mean-field treatment of the intra-atomic electron repulsion and captures crucial correlation effects such as band narrowing and electron localization. We use Gutzwiller quantum molecular dynamics to investigate the Mott transition in the liquid phase of a single-band metal and uncover intriguing structural and transport properties of the atoms.

  2. Nondipole effects in strong-field ionization

    NASA Astrophysics Data System (ADS)

    Ivanov, I. A.; Dubau, J.; Kim, Kyung Taec

    2016-09-01

    We present a study of the relativistic nondipole effects in strong-field tunneling ionization process driven by a linearly polarized laser pulse. We consider the role of these effects in breaking the symmetry with respect to the inversion of the momentum component perpendicular to the laser-field polarization direction, which the dipole differential ionization probabilities possess. The study is based on the solution of a three-dimensional time-dependent Schrödinger equation taking into account the leading-order relativistic corrections.

  3. Towards NMHV amplitudes at strong coupling

    NASA Astrophysics Data System (ADS)

    Belitsky, A. V.

    2016-10-01

    Pentagon Operator Product Expansion provides a non-perturbative framework for analysis of scattering amplitudes in planar maximally supersymmetric gauge theory building up on their duality to null polygonal superWilson loop and integrability. In this paper, we construct a systematic expansion for the main ingredients of the formalism, i.e., pentagons, at large 't Hooft coupling as a power series in its inverse value. The calculations are tested against relations provided by the so-called Descent Equation which mixes transitions at different perturbative orders. We use leading order results to have a first glimpse into the structure of scattering amplitude at NMHV level at strong coupling.

  4. Strong Interactions in Strange Exotic Atoms

    NASA Astrophysics Data System (ADS)

    Mareš, J.

    2003-08-01

    Strong interaction level shifts and widths in - and K- atoms have been analyzed. The phenomenological density dependent approach as well as the relativistic mean field (RMF) model yield nucleus optical potentials with a repulsive real part in the nuclear interior. This has important consequences for the spectroscopy of hypernuclei. The study of K- atoms cannot resolve the depth of the K- nucleus potential. The fits to the kaonic atom data are satisfactory for both the relatively shallow potentials derived from chiral models and for the deep potentials based on the phenomenological and RMF analyses.

  5. Strong correlations in actinide redox reactions.

    PubMed

    Horowitz, S E; Marston, J B

    2011-02-14

    Reduction-oxidation (redox) reactions of the redox couples An(VI)/An(V), An(V)/An(IV), and An(IV)/An(III), where An is an element in the family of early actinides (U, Np, and Pu), as well as Am(VI)/Am(V) and Am(V)/Am(III), are modeled by combining density functional theory with a generalized Anderson impurity model that accounts for the strong correlations between the 5f electrons. Diagonalization of the Anderson impurity model yields improved estimates for the redox potentials and the propensity of the actinide complexes to disproportionate.

  6. Strong correlations in actinide redox reactions

    NASA Astrophysics Data System (ADS)

    Horowitz, S. E.; Marston, J. B.

    2011-02-01

    Reduction-oxidation (redox) reactions of the redox couples An(VI)/An(V), An(V)/An(IV), and An(IV)/An(III), where An is an element in the family of early actinides (U, Np, and Pu), as well as Am(VI)/Am(V) and Am(V)/Am(III), are modeled by combining density functional theory with a generalized Anderson impurity model that accounts for the strong correlations between the 5f electrons. Diagonalization of the Anderson impurity model yields improved estimates for the redox potentials and the propensity of the actinide complexes to disproportionate.

  7. Gravitational leptogenesis, C, CP and strong equivalence

    NASA Astrophysics Data System (ADS)

    McDonald, Jamie I.; Shore, Graham M.

    2015-02-01

    The origin of matter-antimatter asymmetry is one of the most important outstanding problems at the interface of particle physics and cosmology. Gravitational leptogenesis (baryogenesis) provides a possible mechanism through explicit couplings of spacetime curvature to appropriate lepton (or baryon) currents. In this paper, the idea that these strong equivalence principle violating interactions could be generated automatically through quantum loop effects in curved spacetime is explored, focusing on the realisation of the discrete symmetries C, CP and CPT which must be broken to induce matter-antimatter asymmetry. The related issue of quantum corrections to the dispersion relation for neutrino propagation in curved spacetime is considered within a fully covariant framework.

  8. Fundamental Structure of Matter and Strong Interaction

    SciTech Connect

    Jian-Ping Chen

    2011-11-01

    More than 99% of the visible matter in the universe are the protons and neutrons. Their internal structure is mostly governed by the strong interaction. Understanding their internal structure in terms of fundamental degrees-of-freedom is one of the most important subjects in modern physics. Worldwide efforts in the last few decades have lead to numerous surprises and discoveries, but major challenges still remain. An overview of the progress will be presented with a focus on the recent studies of the proton and neutron's electromagnetic and spin structure. Future perspectives will be discussed.

  9. Bose Polarons in the Strongly Interacting Regime

    NASA Astrophysics Data System (ADS)

    Hu, Ming-Guang; Van de Graaff, Michael J.; Kedar, Dhruv; Corson, John P.; Cornell, Eric A.; Jin, Deborah S.

    2016-07-01

    When an impurity is immersed in a Bose-Einstein condensate, impurity-boson interactions are expected to dress the impurity into a quasiparticle, the Bose polaron. We superimpose an ultracold atomic gas of 87Rb with a much lower density gas of fermionic 40 impurities. Through the use of a Feshbach resonance and radio-frequency spectroscopy, we characterize the energy, spectral width, and lifetime of the resultant polaron on both the attractive and the repulsive branches in the strongly interacting regime. The width of the polaron in the attractive branch is narrow compared to its binding energy, even as the two-body scattering length diverges.

  10. Empirical prediction of strong ground motion

    USGS Publications Warehouse

    Boore, David M.; Joyner, William B.

    1993-01-01

    In 1982, we published equations for the prediction of various measures of ground motion as a function of earthquake magnitude, distance from the earthquake rupture, and site geology. Many more strong-motion recordings have been obtained since we published our equations. The predictions of the ground motions from our published equations are in reasonable agreement with the peak accelerations from the new data. The increased number of data, however, allow us to refine our predictions for some regions of magnitude and distance space, and perhaps for other variables.

  11. Radiation reaction in strong field QED

    NASA Astrophysics Data System (ADS)

    Ilderton, Anton; Torgrimsson, Greger

    2013-10-01

    We derive radiation reaction from QED in a strong background field. We identify, in general, the diagrams and processes contributing to recoil effects in the average momentum of a scattered electron, using perturbation theory in the Furry picture: we work to lowest nontrivial order in α. For the explicit example of scattering in a plane wave background, we compare QED with classical electrodynamics in the limit ℏ → 0, finding agreement with the Lorentz-Abraham-Dirac and Landau-Lifshitz equations, and with Larmor's formula. The first quantum corrections are also presented.

  12. Development of a strong electromagnet wiggler

    SciTech Connect

    Burns, M.J.; Deis, G.A.; Holmes, R.H.; Van Maren, R.D.; Halbach, K.

    1987-01-01

    The Strong Electromagnet (SEM) wiggler is a permanent magnet-assisted electromagnet under development at the Lawrence Livermore National Laboratory (LLNL) as part of the Induction Linac Free-Electron-Laser (IFEL) program. This concept uses permanent magnets within the wiggler to provide a reverse bias flux in the iron and thus delay the onset of magnetic saturation. The electromagnet coils determine the wiggler field and operate at low current densities by virtue of their placement away from the midplane. We describe here the design approach used and test data from a 7-period wiggler prototype that includes curved pole tips to provide wiggle-plane focusing. 7 refs.

  13. Strong cooperativity between subunits in voltage-gated proton channels

    PubMed Central

    Gonzalez, Carlos; Koch, Hans P.; Drum, Ben M.; Larsson, H. Peter

    2010-01-01

    Voltage-activated proton (HV) channels are essential components in the innate immune response. HV channels are dimeric proteins with one proton permeation pathway per subunit. It is not known how HV channels are activated by voltage and whether there is any cooperativity between subunits during voltage activation. Using cysteine accessibility measurements and voltage clamp fluorometry, we show data that are consistent with that the fourth transmembrane segment S4 functions as the voltage sensor in HV channels from Ciona intestinalis. Surprisingly, in a dimeric HV channel, S4 in both subunits have to move to activate the two proton permeation pathways. In contrast, if HV subunits are prevented from dimerizing, then the movement of a single S4 is sufficient to activate the proton permeation pathway in a subunit. These results suggest a strong cooperativity between subunits in dimeric HV channels. PMID:20023639

  14. Simple rheology of mixed proteins

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Mixing different proteins to form strong gel networks for food applications may create synergistic increases in viscoelasticity that cannot be achieved with a single protein. In this study, small amplitude oscillatory shear analyses were used to investigate the rheology of calcium caseinate (CC), e...

  15. Efimov correlations in strongly interacting Bose gases

    NASA Astrophysics Data System (ADS)

    Hofmann, Johannes; Barth, Marcus

    A series of recent hallmark experiments have demonstrated that Bose gases can be created in the strongly interacting unitary limit in the non-degenerate high-temperature regime. These systems display the three-body Efimov effect, which poses a theoretical challenge to compute observables including these relevant three-body correlations. In this talk, I shall present our results for the virial coefficients, the contact parameters, and the momentum distribution of a strongly interacting three-dimensional Bose gas obtained by means of a virial expansion up to third order in the fugacity, which takes into account three-body correlations exactly. Our results characterize the non-degenerate regime of the interacting Bose gas, where the thermal wavelength is smaller than the interparticle spacing but the scattering length may be arbitrarily large. In addition, we provide a calculation of the momentum distribution at unitarity, which displays a universal high-momentum tail with a log-periodic momentum dependence - a direct signature of Efimov physics. In particular, we provide a quantitative description of the momentum distribution at high momentum as measured by the JILA group [Makotyn et al., Nat. Phys. 10, 116 (2014)]. Our results allow the spectroscopy of Efimov states at unitarity.

  16. Relativistically strong electromagnetic radiation in a plasma

    NASA Astrophysics Data System (ADS)

    Bulanov, S. V.; Esirkepov, T. Zh.; Kando, M.; Kiriyama, H.; Kondo, K.

    2016-03-01

    Physical processes in a plasma under the action of relativistically strong electromagnetic waves generated by high-power lasers have been briefly reviewed. These processes are of interest in view of the development of new methods for acceleration of charged particles, creation of sources of bright hard electromagnetic radiation, and investigation of macroscopic quantum-electrodynamical processes. Attention is focused on nonlinear waves in a laser plasma for the creation of compact electron accelerators. The acceleration of plasma bunches by the radiation pressure of light is the most efficient regime of ion acceleration. Coherent hard electromagnetic radiation in the relativistic plasma is generated in the form of higher harmonics and/or electromagnetic pulses, which are compressed and intensified after reflection from relativistic mirrors created by nonlinear waves. In the limit of extremely strong electromagnetic waves, radiation friction, which accompanies the conversion of radiation from the optical range to the gamma range, fundamentally changes the behavior of the plasma. This process is accompanied by the production of electron-positron pairs, which is described within quantum electrodynamics theory.

  17. Multimode Strong Coupling in Circuit QED

    NASA Astrophysics Data System (ADS)

    Sundaresan, Neereja; Liu, Yanbing; Sadri, Darius; Szocs, Laszlo; Underwood, Devin; Malekakhlagh, Moein; Tureci, Hakan; Houck, Andrew

    We present experimental and theoretical studies in the multimode strong coupling (MMSC) regime of cavity quantum electrodynamics (QED). In MMSC, a single atom is simultaneously coupled to a large, but discrete, number of cavity harmonics, with atom-mode coupling strengths comparable to the free spectral range (FSR). This regime is readily accessible in circuit QED, by strongly coupling a transmon qubit to a low fundamental frequency microwave cavity. We present some key results from our original experiment (PRX 5, 021035, 2015), in which a transmon qubit, resonant with the 75th harmonic of a 90 MHz cavity, reached qubit-mode coupling strengths exceeding 30MHz. When this system is coherently driven, we observed complex multimode fluorescence, with the notable formation of ultra-narrow linewidths. To better understand these unique features of multimode resonance fluorescence we developed a quantum formalism, which attributes the spectral linewidth narrowing to the correlated spontaneous emission of doubly dressed states. Finally we will share preliminary experimental results from our continuing study of MMSC, this time from a system where qubit-mode coupling strengths approach and even exceed the FSR.

  18. Heat treatment modelling using strongly continuous semigroups.

    PubMed

    Malek, Alaeddin; Abbasi, Ghasem

    2015-07-01

    In this paper, mathematical simulation of bioheat transfer phenomenon within the living tissue is studied using the thermal wave model. Three different sources that have therapeutic applications in laser surgery, cornea laser heating and cancer hyperthermia are used. Spatial and transient heating source, on the skin surface and inside biological body, are considered by using step heating, sinusoidal and constant heating. Mathematical simulations describe a non-Fourier process. Exact solution for the corresponding non-Fourier bioheat transfer model that has time lag in its heat flux is proposed using strongly continuous semigroup theory in conjunction with variational methods. The abstract differential equation, infinitesimal generator and corresponding strongly continuous semigroup are proposed. It is proved that related semigroup is a contraction semigroup and is exponentially stable. Mathematical simulations are done for skin burning and thermal therapy in 10 different models and the related solutions are depicted. Unlike numerical solutions, which suffer from uncertain physical results, proposed analytical solutions do not have unwanted numerical oscillations.

  19. Spherical Strong-Shock Inferences on OMEGA

    NASA Astrophysics Data System (ADS)

    Nora, R.; Lafon, M.; Betti, R.; Theobald, W.; Seka, W.; Delettrez, J. A.

    2014-10-01

    A milestone for shock ignition is to experimentally verify the generation of several hundred Mbar shocks at shock-ignition-relevant laser intensities. This paper presents the first experimental evidence of strong shocks generated in a spherical geometry. Using the temporal delay between the launch of the strong shock at the outer surface of the spherical target and the time when the shock converges at the center, the shock properties can be inferred using radiation-hydrodynamic simulations. Peak ablation pressures exceeding 200 Mbar are inferred at laser intensities of ~ 3 ×1015 W/cm2. The shock strength is significantly enhanced by the coupling of copius amounts of hot electrons, up to 2 kJ with Thot ~ 50 to 100 keV. This material is based upon work supported by the Department of Energy National Nuclear Security Administration under Award Number DE-NA0001944 and the Office of Fusion Energy Sciences Number DE-FG02-04ER54786.

  20. Bose condensates with strong anisotropic interaction

    NASA Astrophysics Data System (ADS)

    Avdeenkov, Alexander; Bohn, John L.; Bortolotti, Daniele C. E.

    2004-05-01

    We theoretically investigate trapped Bose condensates with strong dipolar interactions, in the presence of an external electrostatic field. As a prototype we consider polar OH molecules. Previously such systems have been studied in the case of a very strong external field that aligns all the dipoles along the field axis[1,2]. Here we relax this assumption and investigate the influence of finite external field, also taking into account the internal fine structure of the molecules. As a first approximation we treat the intermolecular coordinates as adiabatic and construct an effective potential by diagonalizing Stark and dipole-dipole hamiltonians. The anisotropy of these adiabatic surfaces is a function of an external field, and does not always resemble the interaction between polarized dipoles. We discuss the implications of finite electric field on the stability and geometry of the condensate. [1] K.Goral, K.Rzazewski, and T.Pfau, Phys.Rev.A 61, 051601/1(2000) [2] L.Santos, G.V.Shlyapnikov, P.Zoller and M.Lewenstein, Phys.Rev.Lett.85,1791(2000)

  1. Emergent quasicrystals in strongly correlated systems

    NASA Astrophysics Data System (ADS)

    Sagi, Eran; Nussinov, Zohar

    2016-07-01

    Commensurability is of paramount importance in numerous strongly interacting electronic systems. In the fractional quantum Hall effect, a rich cascade of increasingly narrow plateaux appear at larger denominator filling fractions. Rich commensurate structures also emerge, at certain filling fractions, in high temperature superconductors and other electronic systems. A natural question concerns the character of these and other electronic systems at irrational filling fractions. Here we demonstrate that quasicrystalline structures naturally emerge in these situations, and trigger behaviors not typically expected of periodic systems. We first show that irrationally filled quantum Hall systems cross over into quasiperiodically ordered configuration in the thin-torus limit. Using known properties of quasicrystals, we argue that these states are unstable against the effects of disorder, in agreement with the existence of quantum Hall plateaux. We then study analogous physical situations in a system of cold Rydberg atoms placed on an optical lattice. Such an experimental setup is generally disorder free, and can therefore be used to detect the emergent quasicrystals we predict. We discuss similar situations in the Falicov-Kimball model, where known exact results can be used to establish quasicrystalline structures in one and two dimensions. We briefly speculate on possible relations between our theoretical findings and the existence of glassy dynamics and other features of strongly correlated electronic systems.

  2. Thermally driven motion of strongly heated fluids

    NASA Astrophysics Data System (ADS)

    Deboer, P. C. T.

    1983-02-01

    Approximate equations which are derived for the thermally driven motion of strongly heated, shallow fluids were examined. The equations follow from formal perturbation theory, using the nondimensionalized depth epsilon of the fluid as the smaller parameter. They govern the zeroth order temperature, pressure, and density. The method used is also applied to a weakly heated, deep fluid, using the nondimensionalized strength delta' of the heat source distribution as the small parameter. In the later case, the equations govern the first order perturbations in temperature, pressure, and density, while the unperturbed situation is the so called adiabatic state. The Boussinesq equations are recovered for a weakly heated, shallow fluid, independent of the relative magnitude of delta' and epsilon. For the case of a weakly heated, shallow ideal gas maintained at constant volume and heated throughout the volume, the equations account for the effect of perturbation pressure on perturbation density and on compression heating. A final case considered is that of a strongly heated, deep liquid with a small coefficient of thermal expansion. The energy equation for this case is found to be significantly different from that for a weakly heated, deep liquid. For two dimensional geometries, the various sets of equations derived are amendable to a common numerical method of solution.

  3. Ambipolar diffusion in strongly electronegative plasma

    NASA Astrophysics Data System (ADS)

    Lisovskiy, Valeriy; Yegorenkov, Vladimir

    2012-10-01

    This paper presents the treatment of the analytical model of ambipolar diffusion in quasi-neutral electronegative plasma consisting of electrons, a single species of negative ions and a single species of positive ions, which was proposed by Thompson J.B. [Proc. Phys. Soc., 73 (1959) 818]. We demonstrate that in plasma with the concentration of negative ions more than 10 times exceeding that of electrons one has to take into account the mobility of negative and positive ions. We established that in strongly electronegative plasma when both conditions α >> 1 (α = n-/ne) and μe << α.μ- hold, the ambipolar diffusion coefficients for positive and negative ions as well as electrons are close to the coefficients of their free diffusion. Consequently in strongly electronegative plasma the diffusion ceases to be ambipolar (even for large plasma concentration) and becomes to be free, i.e. charged particles of different species and sign cease to affect the diffusion motion of each other.

  4. Heat treatment modelling using strongly continuous semigroups.

    PubMed

    Malek, Alaeddin; Abbasi, Ghasem

    2015-07-01

    In this paper, mathematical simulation of bioheat transfer phenomenon within the living tissue is studied using the thermal wave model. Three different sources that have therapeutic applications in laser surgery, cornea laser heating and cancer hyperthermia are used. Spatial and transient heating source, on the skin surface and inside biological body, are considered by using step heating, sinusoidal and constant heating. Mathematical simulations describe a non-Fourier process. Exact solution for the corresponding non-Fourier bioheat transfer model that has time lag in its heat flux is proposed using strongly continuous semigroup theory in conjunction with variational methods. The abstract differential equation, infinitesimal generator and corresponding strongly continuous semigroup are proposed. It is proved that related semigroup is a contraction semigroup and is exponentially stable. Mathematical simulations are done for skin burning and thermal therapy in 10 different models and the related solutions are depicted. Unlike numerical solutions, which suffer from uncertain physical results, proposed analytical solutions do not have unwanted numerical oscillations. PMID:25912988

  5. Rotation and Strong Magnetism of White Dwarfs

    NASA Astrophysics Data System (ADS)

    Kissin, Yevgeni; Thompson, Christopher

    2015-06-01

    We study the co-evolution of rotation and magnetism during the post-main sequence expansion of 1 and 5 M⊙ stars. The magnetic field is sourced by a dynamo operating near the core-envelope boundary, which is driven by the downward pumping of angular momentum though the envelope. In stars with strong and magnetized main-sequence winds, this angular momentum must be supplied by a binary planetary or stellar companion. Magnetic helicity is advected into the growing core as the magnetic field enforces solid-body rotation there, corresponding to a dipolar magnetic field ˜ 106-107 G in the white dwarf (WD) remnant. We estimate the residual spin that results from a shutoff of the dynamo, combined with decoupling of core and envelope, during the last stages of the AGB. Only a thin magnetized layer is left behind in a massive WD: the ohmic transport time is typically less than a Gyr, suggesting that the incidence of strong magnetism in massive WDs will be observed to decrease with age.

  6. Beam plasma interaction in strongly coupled plasmas

    NASA Astrophysics Data System (ADS)

    Rosenberg, Marlene; Kalman, Gabor J.; Kyrkos, Stamatios; Donko, Zoltan

    2006-04-01

    The well-known problem of beam-plasma instability acquires new aspects when one or both of the two components (the beam and the plasma) are strongly interacting. We have now theoretically considered the case when the plasma is in the solid phase and forms a lattice. In this situation, the inherent anisotropy of the lattice leads to a coupling between the longitudinal and transverse polarizations. One of the novel features of the beam-plasma instability in this scenario is the possible excitation of transverse modes, which should be an experimentally observable signature of the instability. We have initially concentrated on a 2D toy model with the beam lying in the lattice plane. At the same time, we have initiated a molecular dynamics simulation program for studying various aspects of the penetration of a beam into a plasma lattice. The beam parameters can be adjusted in order to see the effects of increasing coupling strength within the beam and to distinguish between collective phenomena and scattering on individual particles. When both components are strongly interacting, a number of remarkable phenomena—trapping of beam particles, creation of dislocations, local melting of the lattice—may be observed.

  7. Cardiac Strong Inward Rectifier Potassium Channels

    PubMed Central

    Anumonwo, Justus MB; Lopatin, Anatoli N

    2009-01-01

    Cardiac IK1 and IKACh are the major potassium currents displaying classical strong inward rectification, a unique property that is critical for their roles in cardiac excitability. In the last fifteen years, research on IK1 and IKACh has been propelled by the cloning of the underlying inwardly rectifying potassium (Kir) channels, the discovery of the molecular mechanism of strong rectification and the linking of a number of disorders of cardiac excitability to defects in genes encoding Kir channels. Disease-causing mutations in Kir genes have been shown experimentally to affect one or more of the following channel properties: structure, assembly, trafficking and regulation, with the ultimate effect of a gain-, or a loss-of-function of the channel. It is now established that IK1 and IKACh channels are heterotetramers of Kir2 and Kir3 subunits, respectively. Each homomeric Kir channel has distinct biophysical and regulatory properties, and individual Kir subunits often display different patterns of regional, cellular and membrane distribution. These differences are thought to underlie important variations in the physiological properties of IK1 and IKACh. It has become increasingly clear that the contribution of IK1 and IKACh channels to cardiac electrical activity goes beyond their long recognized role in the stabilization of resting membrane potential and shaping the late phase of action potential repolarization in individual myocytes, but extends to being critical elements determining the overall electrical stability of the heart. PMID:19703462

  8. Theory of the strongly disordered Weyl semimetal

    NASA Astrophysics Data System (ADS)

    Altland, Alexander; Bagrets, Dmitry

    2016-02-01

    In disordered Weyl semimetals, mechanisms of topological origin lead to novel mechanisms of transport, which manifest themselves in unconventional types of electromagnetic response. Prominent examples of transport phenomena particular to the Weyl context include the anomalous Hall effect, the chiral magnetic effect, and the formation of totally field-dominated regimes of transport in which the longitudinal conductance is proportional to an external magnetic field. In this paper, we discuss the manifestations of these phenomena at large length scales including the cases of strong disorder and/or magnetic field which are beyond the scope of diagrammatic perturbation theory. Our perhaps most striking finding is the identification of a regime of drift-diffusion transport where diffusion at short scales gives way to effectively ballistic dynamics at large scales before a reentrance to diffusion takes place at yet larger scales. We show that this regime plays a key role in understanding the interplay of the various types of magnetoresponse of the system. Our results are obtained by describing the strongly disordered system in terms of an effective field theory of Chern-Simons type. The paper contains a self-contained derivation of this theory and a discussion of both equilibrium and nonequilibrium (noise) transport phenomena following from it.

  9. Physics of protein motility and motor proteins

    NASA Astrophysics Data System (ADS)

    Kolomeisky, Anatoly B.

    2013-09-01

    Motor proteins are enzymatic molecules that transform chemical energy into mechanical motion and work. They are critically important for supporting various cellular activities and functions. In the last 15 years significant progress in understanding the functioning of motor proteins has been achieved due to revolutionary breakthroughs in single-molecule experimental techniques and strong advances in theoretical modelling. However, microscopic mechanisms of protein motility are still not well explained, and the collective efforts of many scientists are needed in order to solve these complex problems. In this special section the reader will find the latest advances on the difficult road to mapping motor proteins dynamics in various systems. Recent experimental developments have allowed researchers to monitor and to influence the activity of single motor proteins with a high spatial and temporal resolution. It has stimulated significant theoretical efforts to understand the non-equilibrium nature of protein motility phenomena. The latest results from all these advances are presented and discussed in this special section. We would like to thank the scientists from all over the world who have reported their latest research results for this special section. We are also grateful to the staff and editors of Journal of Physics: Condensed Matter for their invaluable help in handling all the administrative and refereeing activities. The field of motor proteins and protein motility is fast moving, and we hope that this collection of articles will be a useful source of information in this highly interdisciplinary area. Physics of protein motility and motor proteins contents Physics of protein motility and motor proteinsAnatoly B Kolomeisky Identification of unique interactions between the flexible linker and the RecA-like domains of DEAD-box helicase Mss116 Yuan Zhang, Mirkó Palla, Andrew Sun and Jung-Chi Liao The load dependence of the physical properties of a molecular motor

  10. Strong correlations in gravity and biophysics

    NASA Astrophysics Data System (ADS)

    Krotov, Dmitry

    The unifying theme of this dissertation is the use of correlations. In the first part (chapter 2), we investigate correlations in quantum field theories in de Sitter space. In the second part (chapters 3,4,5), we use correlations to investigate a theoretical proposal that real (observed in nature) transcriptional networks of biological organisms are operating at a critical point in their phase diagram. In chapter 2 we study the infrared dependence of correlators in various external backgrounds. Using the Schwinger-Keldysh formalism we calculate loop corrections to the correlators in the case of the Poincare patch and the complete de Sitter space. In the case of the Poincare patch, the loop correction modifies the behavior of the correlator at large distances. In the case of the complete de Sitter space, the loop correction has a strong dependence on the infrared cutoff in the past. It grows linearly with time, suggesting that at some point the correlations become strong and break the symmetry of the classical background. In chapter 3 we derive the signatures of critical behavior in a model organism, the embryo of Drosophila melanogaster. They are: strong correlations in the fluctuations of different genes, a slowing of dynamics, long range correlations in space, and departures from a Gaussian distribution of these fluctuations. We argue that these signatures are observed experimentally. In chapter 4 we construct an effective theory for the zero mode in this system. This theory is different from the standard Landau-Ginsburg description. It contains gauge fields (the result of the broken translational symmetry inside the cell), which produce observable contributions to the two-point function of the order parameter. We show that the behavior of the two-point function for the network of N genes is described by the action of a relativistic particle moving on the surface of the N - 1 dimensional sphere. We derive a theoretical bound on the decay of the correlations and

  11. Implication of Terminal Residues at Protein-Protein and Protein-DNA Interfaces.

    PubMed

    Martin, Olivier M F; Etheve, Loïc; Launay, Guillaume; Martin, Juliette

    2016-01-01

    Terminal residues of protein chains are charged and more flexible than other residues since they are constrained only on one side. Do they play a particular role in protein-protein and protein-DNA interfaces? To answer this question, we considered large sets of non-redundant protein-protein and protein-DNA complexes and analyzed the status of terminal residues and their involvement in interfaces. In protein-protein complexes, we found that more than half of terminal residues (62%) are either modified by attachment of a tag peptide (10%) or have missing coordinates in the analyzed structures (52%). Terminal residues are almost exclusively located at the surface of proteins (94%). Contrary to charged residues, they are not over or under-represented in protein-protein interfaces, but strongly prefer the peripheral region of interfaces when present at the interface (83% of terminal residues). The almost exclusive location of terminal residues at the surface of the proteins or in the rim regions of interfaces explains that experimental methods relying on tail hybridization can be successfully applied without disrupting the complexes under study. Concerning conformational rearrangement in protein-protein complexes, despite their expected flexibility, terminal residues adopt similar locations between the free and bound forms of the docking benchmark. In protein-DNA complexes, N-terminal residues are twice more frequent than C-terminal residues at interfaces. Both N-terminal and C-terminal residues are under-represented in interfaces, in contrast to positively charged residues, which are strongly favored. When located in protein-DNA interfaces, terminal residues prefer the periphery. N-terminal and C-terminal residues thus have particular properties with regard to interfaces, which cannot be reduced to their charged nature. PMID:27611671

  12. Implication of Terminal Residues at Protein-Protein and Protein-DNA Interfaces

    PubMed Central

    Martin, Olivier M. F.; Etheve, Loïc; Launay, Guillaume

    2016-01-01

    Terminal residues of protein chains are charged and more flexible than other residues since they are constrained only on one side. Do they play a particular role in protein-protein and protein-DNA interfaces? To answer this question, we considered large sets of non-redundant protein-protein and protein-DNA complexes and analyzed the status of terminal residues and their involvement in interfaces. In protein-protein complexes, we found that more than half of terminal residues (62%) are either modified by attachment of a tag peptide (10%) or have missing coordinates in the analyzed structures (52%). Terminal residues are almost exclusively located at the surface of proteins (94%). Contrary to charged residues, they are not over or under-represented in protein-protein interfaces, but strongly prefer the peripheral region of interfaces when present at the interface (83% of terminal residues). The almost exclusive location of terminal residues at the surface of the proteins or in the rim regions of interfaces explains that experimental methods relying on tail hybridization can be successfully applied without disrupting the complexes under study. Concerning conformational rearrangement in protein-protein complexes, despite their expected flexibility, terminal residues adopt similar locations between the free and bound forms of the docking benchmark. In protein-DNA complexes, N-terminal residues are twice more frequent than C-terminal residues at interfaces. Both N-terminal and C-terminal residues are under-represented in interfaces, in contrast to positively charged residues, which are strongly favored. When located in protein-DNA interfaces, terminal residues prefer the periphery. N-terminal and C-terminal residues thus have particular properties with regard to interfaces, which cannot be reduced to their charged nature. PMID:27611671

  13. Strong and electromagnetic interactions of heavy baryons

    SciTech Connect

    Delbourgo, R.; Liu, D.

    1996-06-01

    It is possible to express all the strong and electromagnetic interactions of ground state hadrons in terms of a single coupling constant and the constituent quark masses {ital m}{sub {ital ud}}{approx_equal}0.34 GeV, {ital m}{sub {ital s}}{approx_equal}0.43 GeV, and {ital m}{sub {ital c}}{approx_equal}1.5 GeV by using spin-flavor relativistic supermultiplet theory. We show that this produces results which are generally accurate to within 10{percent}. We thereby predict widths and couplings of recently and soon-to-be discovered heavy hadrons. {copyright} {ital 1996 The American Physical Society.}

  14. Strong CP violation in external magnetic fields

    SciTech Connect

    Millo, R.; Faccioli, P.

    2008-03-15

    We study the response of the QCD vacuum to an external magnetic field, in the presence of strong CP violation. Using chiral perturbation theory and large N{sub c} expansion, we show that the external field would polarize quantum fluctuations and induce an electric dipole moment of the vacuum along the direction of the magnetic field. We estimate the magnitude of this effect in different physical scenarios. In particular, we find that the polarization induced by the magnetic field of a magnetar could accelerate electric charges up to energies of the order {approx}{theta}10{sup 3} TeV. We also suggest a connection with the possible existence of ''hot-spots'' on the surface of neutron stars.

  15. Strong crystal size effect on deformation twinning.

    PubMed

    Yu, Qian; Shan, Zhi-Wei; Li, Ju; Huang, Xiaoxu; Xiao, Lin; Sun, Jun; Ma, Evan

    2010-01-21

    Deformation twinning in crystals is a highly coherent inelastic shearing process that controls the mechanical behaviour of many materials, but its origin and spatio-temporal features are shrouded in mystery. Using micro-compression and in situ nano-compression experiments, here we find that the stress required for deformation twinning increases drastically with decreasing sample size of a titanium alloy single crystal, until the sample size is reduced to one micrometre, below which the deformation twinning is entirely replaced by less correlated, ordinary dislocation plasticity. Accompanying the transition in deformation mechanism, the maximum flow stress of the submicrometre-sized pillars was observed to saturate at a value close to titanium's ideal strength. We develop a 'stimulated slip' model to explain the strong size dependence of deformation twinning. The sample size in transition is relatively large and easily accessible in experiments, making our understanding of size dependence relevant for applications.

  16. Strongly Acidic Auxin Indole-3-Methanesulfonic Acid

    PubMed Central

    Cohen, Jerry D.; Baldi, Bruce G.; Bialek, Krystyna

    1985-01-01

    A radiochemical synthesis is described for [14C]indole-3-methanesulfonic acid (IMS), a strongly acidic auxin analog. Techniques were developed for fractionation and purification of IMS using normal and reverse phase chromatography. In addition, the utility of both Fourier transform infrared spectrometry and fast atom bombardment mass spectrometry for analysis of IMS has been demonstrated. IMS was shown to be an active auxin, stimulating soybean hypocotyl elongation, bean first internode curvature, and ethylene production. IMS uptake by thin sections of soybean hypocotyl was essentially independent of solution pH and, when applied at a 100 micromolar concentration, IMS exhibited a basipetal polarity in its transport in both corn coleoptile and soybean hypocotyl sections. [14C]IMS should, therefore, be a useful compound to study fundamental processes related to the movement of auxins in plant tissues and organelles. PMID:16664007

  17. Strong gravity and structure of topological solitons

    NASA Astrophysics Data System (ADS)

    Rybakov, Yu. P.

    The unification of Skyrme and Faddeev chiral models describing baryons and leptons respectively as topological solitons is suggested within the framework of 16-spinor field ψ = ψ1 ⊕ ψ2 nonlinear model containing two 8-semispinors ψ1 and ψ2. Using Brioschi identity for 8-spinors and special structure of the Higgs potential V implying the spontaneous symmetry breaking, it is possible to realize topological soliton-like excitations of two kinds due to the choice of S2- or S3- manifolds as phase spaces. The interactions with electromagnetic, Yang--Mills and gravitational fields are exhibited through the extention of derivatives via gauge invariance principle. Specific inclusion in the Higgs potential of the Kretschmann gravitational invariant K = RμνσλRμνσλ/48 permits one to obtain the strong gravity behavior at small distances and guarantee the correspondence with Quantum Mechanics at large distances.

  18. Scaling of chaos in strongly nonlinear lattices

    SciTech Connect

    Mulansky, Mario

    2014-06-15

    Although it is now understood that chaos in complex classical systems is the foundation of thermodynamic behavior, the detailed relations between the microscopic properties of the chaotic dynamics and the macroscopic thermodynamic observations still remain mostly in the dark. In this work, we numerically analyze the probability of chaos in strongly nonlinear Hamiltonian systems and find different scaling properties depending on the nonlinear structure of the model. We argue that these different scaling laws of chaos have definite consequences for the macroscopic diffusive behavior, as chaos is the microscopic mechanism of diffusion. This is compared with previous results on chaotic diffusion [M. Mulansky and A. Pikovsky, New J. Phys. 15, 053015 (2013)], and a relation between microscopic chaos and macroscopic diffusion is established.

  19. Circuit electromechanics with single photon strong coupling

    SciTech Connect

    Xue, Zheng-Yuan Yang, Li-Na; Zhou, Jian

    2015-07-13

    In circuit electromechanics, the coupling strength is usually very small. Here, replacing the capacitor in circuit electromechanics by a superconducting flux qubit, we show that the coupling among the qubit and the two resonators can induce effective electromechanical coupling which can attain the strong coupling regime at the single photon level with feasible experimental parameters. We use dispersive couplings among two resonators and the qubit while the qubit is also driven by an external classical field. These couplings form a three-wave mixing configuration among the three elements where the qubit degree of freedom can be adiabatically eliminated, and thus results in the enhanced coupling between the two resonators. Therefore, our work constitutes the first step towards studying quantum nonlinear effect in circuit electromechanics.

  20. Strong mobility in weakly disordered systems

    SciTech Connect

    Ben-naim, Eli; Krapivsky, Pavel

    2009-01-01

    We study transport of interacting particles in weakly disordered media. Our one-dimensional system includes (i) disorder, the hopping rate governing the movement of a particle between two neighboring lattice sites is inhomogeneous, and (ii) hard core interaction, the maximum occupancy at each site is one particle. We find that over a substantial regime, the root-mean-square displacement of a particle s grows superdiffusively with time t, {sigma}{approx}({epsilon}t){sup 2/3}, where {epsilon} is the disorder strength. Without disorder the particle displacement is subdiffusive, {sigma} {approx}t{sup 1/4}, and therefore disorder strongly enhances particle mobility. We explain this effect using scaling arguments, and verify the theoretical predictions through numerical simulations. Also, the simulations show that regardless of disorder strength, disorder leads to stronger mobility over an intermediate time regime.

  1. Strongly Interacting Matter at High Energy Density

    SciTech Connect

    McLerran,L.

    2008-09-07

    This lecture concerns the properties of strongly interacting matter (which is described by Quantum Chromodynamics) at very high energy density. I review the properties of matter at high temperature, discussing the deconfinement phase transition. At high baryon density and low temperature, large N{sub c} arguments are developed which suggest that high baryonic density matter is a third form of matter, Quarkyonic Matter, that is distinct from confined hadronic matter and deconfined matter. I finally discuss the Color Glass Condensate which controls the high energy limit of QCD, and forms the low x part of a hadron wavefunction. The Glasma is introduced as matter formed by the Color Glass Condensate which eventually thermalizes into a Quark Gluon Plasma.

  2. Bound states in a strong magnetic field

    SciTech Connect

    Machado, C. S.; Navarra, F. S.; Noronha, J.; Oliveira, E. G.; Ferreira Filho, L. G.

    2013-03-25

    We expect a strong magnetic field to be produced in the perpendicular direction to the reaction plane, in a noncentral heavy-ion collision . The strength of the magnetic field is estimated to be eB{approx}m{sup 2}{sub {pi}}{approx} 0.02 GeV{sup 2} at the RHIC and eB{approx} 15m{sup 2}{sub {pi}}{approx} 0.3 GeV{sup 2} at the LHC. We investigate the effects of the magnetic field on B{sup 0} and D{sup 0} mesons, focusing on the changes of the energy levels and of the mass of the bound states.

  3. Asymmetric fishnet metamaterials with strong optical activity.

    PubMed

    Zhang, Yong-Liang; Jin, Wei; Dong, Xian-Zi; Zhao, Zhen-Sheng; Duan, Xuan-Ming

    2012-05-01

    We investigate the optical properties of mono- and double-layer asymmetric fishnet metamaterials with orientated elliptical holes, which exhibit exotic spectral and polarization rotating characteristics in the visible spectral range. Our results show that nontrivial orientations of the holes with respect to the reciprocal lattice vectors of the periodic lattice in both systems produce strong polarization rotation as well as additional enhanced optical transmission peaks. Analysis of the electromagnetic field distribution shows the unusual effect is produced by the spinning localized surface plasmon resonances due to the asymmetric geometry. High sensitivity of the hybridized mode on the dielectric spacing, the aspect ratio of the holes and the embedding media in double-layer structure is also observed. The dependence of spectral and polarization response on the orientation of the holes and the embedding media is useful for design of chiral metamaterials at optical frequencies and tailoring the polarization behavior of the metallic nano-structures.

  4. Strong crystal size effect on deformation twinning.

    PubMed

    Yu, Qian; Shan, Zhi-Wei; Li, Ju; Huang, Xiaoxu; Xiao, Lin; Sun, Jun; Ma, Evan

    2010-01-21

    Deformation twinning in crystals is a highly coherent inelastic shearing process that controls the mechanical behaviour of many materials, but its origin and spatio-temporal features are shrouded in mystery. Using micro-compression and in situ nano-compression experiments, here we find that the stress required for deformation twinning increases drastically with decreasing sample size of a titanium alloy single crystal, until the sample size is reduced to one micrometre, below which the deformation twinning is entirely replaced by less correlated, ordinary dislocation plasticity. Accompanying the transition in deformation mechanism, the maximum flow stress of the submicrometre-sized pillars was observed to saturate at a value close to titanium's ideal strength. We develop a 'stimulated slip' model to explain the strong size dependence of deformation twinning. The sample size in transition is relatively large and easily accessible in experiments, making our understanding of size dependence relevant for applications. PMID:20090749

  5. Strong Localization of Positive Charge in DNA

    NASA Astrophysics Data System (ADS)

    Uskov, Dmitry; Burin, Alex

    2008-05-01

    The positive charge transfer in a DNA molecule is determined by two main factors: the structure and composition of specific DNA strand, and interaction of a positive charge with the DNA environment. In this letter we present results of microscopic linear response theory for balance of charge transfer reaction in synthetic strands GAGG and GAGGG, where experimental data on the rates of electron hole migration has been reported by Lewis et al Nature, 406, 51-53 (2000). Our theoretical predictions, based on experimental data for the ratio of reaction rates G^+A(G)n<->GA(G)n^+ , n=2,3, suggest that charge in DNA is strongly localized within the single base pair because of the self-induced reorganization of classical environment. The onset of localization has a threshold behavior characteristic to quantum bistability. We also demonstrate that our conclusion does not depend on details of the model.

  6. Origin of strong dispersion in Hubbard insulators

    DOE PAGES

    Wang, Y.; Wohlfeld, K.; Moritz, B.; Jia, C. J.; van Veenendaal, M.; Wu, K.; Chen, C. -C.; Devereaux, T. P.

    2015-08-10

    Using cluster perturbation theory, we explain the origin of the strongly dispersive feature found at high binding energy in the spectral function of the Hubbard model. By comparing the Hubbard and $t₋J₋3s$ model spectra, we show that this dispersion does not originate from either coupling to spin fluctuations ($∝ J$ ) or the free hopping ($∝ t$ ). Instead, it should be attributed to a long-range, correlated hopping $∝ t²/U$ which allows an effectively free motion of the hole within the same antiferromagnetic sublattice. This origin explains both the formation of the high-energy anomaly in the single-particle spectrum and themore » sensitivity of the high-binding-energy dispersion to the next-nearest-neighbor hopping $t'$ .« less

  7. Origin of strong dispersion in Hubbard insulators

    SciTech Connect

    Wang, Y.; Wohlfeld, K.; Moritz, B.; Jia, C. J.; van Veenendaal, M.; Wu, K.; Chen, C. -C.; Devereaux, T. P.

    2015-08-10

    Using cluster perturbation theory, we explain the origin of the strongly dispersive feature found at high binding energy in the spectral function of the Hubbard model. By comparing the Hubbard and $t₋J₋3s$ model spectra, we show that this dispersion does not originate from either coupling to spin fluctuations ($∝ J$ ) or the free hopping ($∝ t$ ). Instead, it should be attributed to a long-range, correlated hopping $∝ t²/U$ which allows an effectively free motion of the hole within the same antiferromagnetic sublattice. This origin explains both the formation of the high-energy anomaly in the single-particle spectrum and the sensitivity of the high-binding-energy dispersion to the next-nearest-neighbor hopping $t'$ .

  8. Utilizing Nanofabrication to Construct Strong, Luminescent Materials

    SciTech Connect

    Chen, Wei; Huang, Gang; Lu, Hong B.; McCready, David E.; Joly, Alan G.; Bovin, Jan-Olov

    2006-05-28

    Luminescent materials have been utilized widely in applications from lighting to sensing. The new development of technologies based on luminescence properties requires the materials to have high luminescence efficiency and mechanical strength. In this article, we report the fabrication of luminescent materials possessing high mechanical strength by nanofabrication with polyvinyl alcohol used as a stabilizer or coupling agent. X-ray diffraction and high resolution transmission microscope observations reveal that the nanocomposite sample contains ZnS and ZnO nanoparticles as well as kozoite and sodium nitrate. The mechanical strength and hardness of these nanocomposite materials are higher than polycarbonate and some carbon nanotube reinforced nanocomposites. Strong luminescence is observed in the new nanocomposites and the luminescence intensity does not degrade following up to 30 minutes of X-ray irradiation. Our results indicate that nanofabrication may provide a good method to improve the mechanical strength of luminescent materials for some applications in which high strength luminescent materials are needed.

  9. Disordered weak and strong topological insulators.

    PubMed

    Kobayashi, Koji; Ohtsuki, Tomi; Imura, Ken-Ichiro

    2013-06-01

    A global phase diagram of disordered weak and strong topological insulators is established numerically. As expected, the location of the phase boundaries is renormalized by disorder, a feature recognized in the study of the so-called topological Anderson insulator. Here, we report unexpected quantization, i.e., robustness against disorder of the conductance peaks on these phase boundaries. Another highlight of the work is on the emergence of two subregions in the weak topological insulator phase under disorder. According to the size dependence of the conductance, the surface states are either robust or "defeated" in the two subregions. The nature of the two distinct types of behavior is further revealed by studying the Lyapunov exponents.

  10. Is It Possible to Predict Strong Earthquakes?

    NASA Astrophysics Data System (ADS)

    Polyakov, Y. S.; Ryabinin, G. V.; Solovyeva, A. B.; Timashev, S. F.

    2015-07-01

    The possibility of earthquake prediction is one of the key open questions in modern geophysics. We propose an approach based on the analysis of common short-term candidate precursors (2 weeks to 3 months prior to strong earthquake) with the subsequent processing of brain activity signals generated in specific types of rats (kept in laboratory settings) who reportedly sense an impending earthquake a few days prior to the event. We illustrate the identification of short-term precursors using the groundwater sodium-ion concentration data in the time frame from 2010 to 2014 (a major earthquake occurred on 28 February 2013) recorded at two different sites in the southeastern part of the Kamchatka Peninsula, Russia. The candidate precursors are observed as synchronized peaks in the nonstationarity factors, introduced within the flicker-noise spectroscopy framework for signal processing, for the high-frequency component of both time series. These peaks correspond to the local reorganizations of the underlying geophysical system that are believed to precede strong earthquakes. The rodent brain activity signals are selected as potential "immediate" (up to 2 weeks) deterministic precursors because of the recent scientific reports confirming that rodents sense imminent earthquakes and the population-genetic model of K irshvink (Soc Am 90, 312-323, 2000) showing how a reliable genetic seismic escape response system may have developed over the period of several hundred million years in certain animals. The use of brain activity signals, such as electroencephalograms, in contrast to conventional abnormal animal behavior observations, enables one to apply the standard "input-sensor-response" approach to determine what input signals trigger specific seismic escape brain activity responses.

  11. Strong curvature effects in Neumann wave problems

    SciTech Connect

    Willatzen, M.; Pors, A.; Gravesen, J.

    2012-08-15

    Waveguide phenomena play a major role in basic sciences and engineering. The Helmholtz equation is the governing equation for the electric field in electromagnetic wave propagation and the acoustic pressure in the study of pressure dynamics. The Schroedinger equation simplifies to the Helmholtz equation for a quantum-mechanical particle confined by infinite barriers relevant in semiconductor physics. With this in mind and the interest to tailor waveguides towards a desired spectrum and modal pattern structure in classical structures and nanostructures, it becomes increasingly important to understand the influence of curvature effects in waveguides. In this work, we demonstrate analytically strong curvature effects for the eigenvalue spectrum of the Helmholtz equation with Neumann boundary conditions in cases where the waveguide cross section is a circular sector. It is found that the linear-in-curvature contribution originates from parity symmetry breaking of eigenstates in circular-sector tori and hence vanishes in a torus with a complete circular cross section. The same strong curvature effect is not present in waveguides subject to Dirichlet boundary conditions where curvature contributions contribute to second-order in the curvature only. We demonstrate this finding by considering wave propagation in a circular-sector torus corresponding to Neumann and Dirichlet boundary conditions, respectively. Results for relative eigenfrequency shifts and modes are determined and compared with three-dimensional finite element method results. Good agreement is found between the present analytical method using a combination of differential geometry with perturbation theory and finite element results for a large range of curvature ratios.

  12. Bodrum Strong Motion Network, Mugla, Turkey

    NASA Astrophysics Data System (ADS)

    Alcik, H. A.; Tanircan, G.; Korkmaz, A.

    2015-12-01

    The Gulf of Gökova is located in southwestern Turkey near the Aegean Sea and surrounded by Datça Peninsula to the south, the island of Kos to the west and Bodrum Peninsula to the north. The Bodrum peninsula with a population of one million in summer season is one of the most populated touristic centers of Turkey. This region is also surrounded by numerous active seismic entities such as Ula-Ören Fault Zone, Gökova Graben etc.. and demonstrates high seismic hazard. In the past, many destructive earthquakes have occurred in southwestern Turkey. One of the destructive historical earthquakes is 1493 Kos event (Mw=6.9) caused heavy damage in Bodrum. In the instrumental period seismic activity in the Gökova region includes the Ms>6.0 earthquakes of 23 April 1933 (Ms=6.4), 23 May 1941 (Ms=6.0), 13 December 1941 (Ms=6.5) events. Intense earthquake activity (Mw5+) occurred in Gulf of Gökova in August 2004 and January 2005. Considering the high seismicity and population of this region, a strong ground motion monitoring system stationed in dense settlements in the Bodrum Peninsula: Bodrum, Turgutreis, Yalıkavak, Çiftlik and Ortakent was deployed on June 2015. The network consists of 5 strong motion recorders, has been set up with the aim of monitoring of regional earthquakes, collecting accurate and reliable data for engineering and scientific research purposes, in particular to provide input for future earthquake rapid reporting and early warning implementation projects on urban environments in the Bodrum peninsula and the surrounding areas. In this poster presentation, we briefly introduce the Bodrum Network and discuss our future plans for further developments.

  13. Building Strong Geoscience Departments: A Workshop Report

    NASA Astrophysics Data System (ADS)

    Manduca, C. A.; MacDonald, R. H.; Richardson, R.; Feiss, P. G.

    2005-12-01

    The strength of Geoscience departments and their programs lies at the heart of developing a strong geoscience workforce capable of meeting the wide variety of challenges facing our society. In February 2005, 28 geoscience faculty, department chairs, and senior administrators from Ph.D. granting institutions, comprehensive and regional institutions, liberal arts colleges, and community colleges met to share information on strategies that had strengthened their own departments and to brainstorm ideas for collective action that would strengthen departments across the United States. Participants in the NSF funded workshop recognized that these are challenging times for geoscience departments and that a number of departments have been closed or are facing reorganization. However, they concluded that departments across the full spectrum of institutional types have more in common than was previously realized and that there are many best practices and successful innovations for meeting challenges that departments can learn from one another. As a step toward promoting this sharing, workshop participants created a document describing characteristics of thriving geoscience departments. This document, as well as: essays describing the variety of ways in which participants' departments have met challenges and opportunities; a bibliography of papers, reports and websites of use to departmental leaders; and resources for departmental leadership and planning, can be found at the 'Building Strong Geoscience Departments' website (serc.carleton.edu/departments). The workshop agenda, powerpoint slides and posters presented at the workshop, discussion summaries, and participant list can also be found at the website. Workshop participants have invited all departments engaged in teaching geoscience to participate in further discussion and sharing beginning with sessions at professional society meetings this fall. An advisory board has been formed to move forward in implementing the

  14. Cyclotron resonance cooling by strong laser field

    SciTech Connect

    Tagcuhi, Toshihiro; Mima, Kunioka

    1995-12-31

    Reduction of energy spread of electron beam is very important to increase a total output radiation power in free electron lasers. Although several cooling systems of particle beams such as a stochastic cooling are successfully operated in the accelerator physics, these cooling mechanisms are very slow and they are only applicable to high energy charged particle beams of ring accelerators. We propose here a new concept of laser cooling system by means of cyclotron resonance. Electrons being in cyclotron motion under a strong magnetic field can resonate with circular polarized electromagnetic field, and the resonance take place selectively depending on the velocity of the electrons. If cyclotron frequency of electrons is equal to the frequency of the electromagnetic field, they absorb the electromagnetic field energy strongly, but the other electrons remain unchanged. The absorbed energy will be converted to transverse kinetic energy, and the energy will be dumped into the radiation energy through bremastrahlung. To build a cooling system, we must use two laser beams, where one of them is counter-propagating and the other is co-propagating with electron beam. When the frequency of the counter-propagating laser is tuned with the cyclotron frequency of fast electrons and the co-propagating laser is tuned with the cyclotron frequency of slow electrons, the energy of two groups will approach and the cooling will be achieved. We solve relativistic motions of electrons with relativistic radiation dumping force, and estimate the cooling rate of this mechanism. We will report optimum parameters for the electron beam cooling system for free electron lasers.

  15. Finding communities in networks in the strong and almost-strong sense

    NASA Astrophysics Data System (ADS)

    Cafieri, Sonia; Caporossi, Gilles; Hansen, Pierre; Perron, Sylvain; Costa, Alberto

    2012-04-01

    Finding communities, or clusters or modules, in networks can be done by optimizing an objective function defined globally and/or by specifying conditions which must be satisfied by all communities. Radicchi [Proc. Natl. Acad. Sci. USAPNASA60027-842410.1073/pnas.0400054101 101, 2658 (2004)] define a susbset of vertices of a network to be a community in the strong sense if each vertex of that subset has a larger inner degree than its outer degree. A partition in the strong sense has only strong communities. In this paper we first define an enumerative algorithm to list all partitions in the strong sense of a network of moderate size. The results of this algorithm are given for the Zachary karate club data set, which is solved by hand, as well as for several well-known real-world problems of the literature. Moreover, this algorithm is slightly modified in order to apply it to larger networks, keeping only partitions with the largest number of communities. It is shown that some of the partitions obtained are informative, although they often have only a few communities, while they fail to give any information in other cases having only one community. It appears that degree 2 vertices play a big role in forcing large inhomogeneous communities. Therefore, a weakening of the strong condition is proposed and explored: we define a partition in the almost-strong sense by substituting a nonstrict inequality to a strict one in the definition of strong community for all vertices of degree 2. Results, for the same set of problems as before, then give partitions with a larger number of communities and are more informative.

  16. Clinical assessment of acid-base status. Strong ion difference theory.

    PubMed

    Constable, P D

    1999-11-01

    The traditional approach to evaluating acid-base balance uses the Henderson-Hasselbalch equation to categorize four primary acid-base disturbances: respiratory acidosis (increased PCO2), respiratory alkalosis (decreased PCO2), metabolic acidosis (decreased extracellular base excess), or metabolic alkalosis (increased extracellular base excess). The anion gap is calculated to detect the presence of unidentified anions in plasma. This approach works well clinically and is recommended for use whenever serum total protein, albumin, and phosphate concentrations are approximately normal; however, when their concentrations are markedly abnormal, the Henderson-Hasselbalch equation frequently provides erroneous conclusions as to the cause of an acid-base disturbance. Moreover, the Henderson-Hasselbalch approach is more descriptive than mechanistic. The new approach to evaluating acid-base balance uses the simplified strong ion model to categorize eight primary acid-base disturbances: respiratory acidosis (increased PCO2), respiratory alkalosis (decreased PCO2), strong ion acidosis (decreased [SID+]) or strong ion alkalosis (increased [SID+]), nonvolatile buffer ion acidosis (increased [ATOT]) or nonvolatile buffer ion alkalosis (decreased [ATOT]), and temperature acidosis (increased body temperature) or temperature alkalosis (decreased body temperature). The strong ion gap is calculated to detect the presence of unidentified anions in plasma. This simplified strong ion approach works well clinically and is recommended for use whenever serum total protein, albumin, and phosphate concentrations are markedly abnormal. The simplified strong ion approach is mechanistic and is therefore well suited for describing the cause of any acid-base disturbance. The new approach should therefore be valuable in a clinical setting and in research studies investigating acid-base balance. The presence of unmeasured strong ions in plasma or serum (such as lactate, ketoacids, and uremic anions

  17. Momentum transport in strongly coupled anisotropic plasmas in the presence of strong magnetic fields

    NASA Astrophysics Data System (ADS)

    Finazzo, Stefano Ivo; Critelli, Renato; Rougemont, Romulo; Noronha, Jorge

    2016-09-01

    We present a holographic perspective on momentum transport in strongly coupled, anisotropic non-Abelian plasmas in the presence of strong magnetic fields. We compute the anisotropic heavy quark drag forces and Langevin diffusion coefficients and also the anisotropic shear viscosities for two different holographic models, namely, a top-down deformation of strongly coupled N =4 super-Yang-Mills theory triggered by an external Abelian magnetic field, and a bottom-up Einstein-Maxwell-dilaton (EMD) model which is able to provide a quantitative description of lattice QCD thermodynamics with (2 +1 ) flavors at both zero and nonzero magnetic fields. We find that, in general, energy loss and momentum diffusion through strongly coupled anisotropic plasmas are enhanced by a magnetic field being larger in transverse directions than in the direction parallel to the magnetic field. Moreover, the anisotropic shear viscosity coefficient is smaller in the direction of the magnetic field than in the plane perpendicular to the field, which indicates that strongly coupled anisotropic plasmas become closer to the perfect fluid limit along the magnetic field. We also present, in the context of the EMD model, holographic predictions for the entropy density and the crossover critical temperature in a wider region of the (T , B ) phase diagram that has not yet been covered by lattice simulations. Our results for the transport coefficients in the phenomenologically realistic magnetic EMD model could be readily used as inputs in numerical codes for magnetohydrodynamics.

  18. Strong Motion Seismograph Based On MEMS Accelerometer

    NASA Astrophysics Data System (ADS)

    Teng, Y.; Hu, X.

    2013-12-01

    The MEMS strong motion seismograph we developed used the modularization method to design its software and hardware.It can fit various needs in different application situation.The hardware of the instrument is composed of a MEMS accelerometer,a control processor system,a data-storage system,a wired real-time data transmission system by IP network,a wireless data transmission module by 3G broadband,a GPS calibration module and power supply system with a large-volumn lithium battery in it. Among it,the seismograph's sensor adopted a three-axis with 14-bit high resolution and digital output MEMS accelerometer.Its noise level just reach about 99μg/√Hz and ×2g to ×8g dynamically selectable full-scale.Its output data rates from 1.56Hz to 800Hz. Its maximum current consumption is merely 165μA,and the device is so small that it is available in a 3mm×3mm×1mm QFN package. Furthermore,there is access to both low pass filtered data as well as high pass filtered data,which minimizes the data analysis required for earthquake signal detection. So,the data post-processing can be simplified. Controlling process system adopts a 32-bit low power consumption embedded ARM9 processor-S3C2440 and is based on the Linux operation system.The processor's operating clock at 400MHz.The controlling system's main memory is a 64MB SDRAM with a 256MB flash-memory.Besides,an external high-capacity SD card data memory can be easily added.So the system can meet the requirements for data acquisition,data processing,data transmission,data storage,and so on. Both wired and wireless network can satisfy remote real-time monitoring, data transmission,system maintenance,status monitoring or updating software.Linux was embedded and multi-layer designed conception was used.The code, including sensor hardware driver,the data acquisition,earthquake setting out and so on,was written on medium layer.The hardware driver consist of IIC-Bus interface driver, IO driver and asynchronous notification driver. The

  19. Isolation of strong constitutive promoters from Lactococcus lactis subsp. lactis N8.

    PubMed

    Zhu, Duolong; Liu, Fulu; Xu, Haijin; Bai, Yanling; Zhang, Xiuming; Saris, Per Erik Joakim; Qiao, Mingqiang

    2015-08-01

    The synthesis of heterologous proteins in Lactococcus lactis is strongly influenced by the promoter selected for the expression. The nisin A promoter is commonly used for induced expression of proteins in L. lactis, whereas few constitutive promoters (P45 and the weaker P32) have been used for protein expression studies. In this study, eight different putative strong constitutive promoters were identified through transcriptional analysis of L. lactis N8 and were investigated for their capability to drive nisZ gene expression with promoters P45 and P32 as control. Four strong promoters (P8, P5, P3 and P2) were identified as having a transcriptional activity that was higher than that of P45 through RT-qPCR and agar-diffusion experiments. In addition, these four promoters were fused to the erythromycin resistant gene (ermC) with promoter P45 as control and inserted into the backbone of the pNZ8048 vector. The transcriptional efficiencies of promoters P8, P5, P2 and P3 were all higher than promoter P45 based on the obtained MIC50 values and they all showed different activity levels. In conclusion, four strong constitutive promoters with a wide range of promoter activities were identified and are suitable for protein production in L. lactis. PMID:26156144

  20. Predictive Capability for Strongly Correlated Systems

    SciTech Connect

    Cyrus Umrigar

    2012-05-09

    Diffusion Monte Carlo methods can give highly accurate results for correlated systems, provided that well optimized trial wave functions with accurate nodal surfaces are employed. The Cornell team developed powerful methods for optimizing all the parameters within a multi-determinant Slater-Jastrow form of the wave function. These include the Jastrow parameters within a flexible electron-electron-nucleus form of the Jastrow function, the parameters multiplying the configuration state functions, the orbital parameters and the basis exponents. The method optimizes a linear combination of the energy and the variance of the local energy. The optimal parameters are found iteratively by diagonalizing the Hamiltonian matrix in the space spanned by the wave function and its first-order derivatives, making use of a strong zero-variance principle. It is highly robust, has become the method of choice for correlated wave function optimization and has been adopted by other QMC groups. This optimization method was used on the first-row atoms and homonuclear diatomic molecules, demonstrating that molecular well depths can be obtained with near chemical accuracy quite systematically at the diffusion Monte Carlo level for these systems. In addition the complete ground-state potential energy curve of the C{sub 2} molecule up to the dissociation limit was obtained, and, size consistency and broken spin-symmetry issues in quantum Monte Carlo calculations were studied. The method was used with a eight-electrons-in-eight-orbitals complete active space CAS(8,8) wave function to study the relative energies of the monocyclic and bicyclic forms of m-benzyne. The DMC calculations show that the monocyclic structure is lower in energy than the bicyclic structure by 1.92 kcal/ mole, which is in excellent agreement with the best coupled cluster results (CCSD(T)) and in disagreement with the CCSD results. QMC methods have for the most part been used only for ground states of a given symmetry. We

  1. Electronic properties of strongly correlated layered oxides

    NASA Astrophysics Data System (ADS)

    Lee, Wei-Cheng

    The two-dimensional electronic systems (2DESs) have kept surprising physicists for the last few decades. Examples include the integer and fractional quantum Hall effects, cuprate superconductivity, and graphene. This thesis is intended to develop suitable theoretical tools which can be generalized to study new types of 2DESs with strong correlation feature. The first part of this thesis describes the investigation of heterostructures made by Mott insulators. This work is mostly motivated by the significant improvement of techniques for layer-by-layer growth of transition metal oxides in the last few years. We construct a toy model based on generalized Hubbard model complemented with long-ranged Coulomb interaction, and we study it by Hartree-Fock theory, dynamical mean-field theory, and Thomas-Fermi theory. We argue that interesting 2D strongly correlated electronic systems can be created in such heterostructures under several conditions. Since these 2D systems are formed entirely due to the gap generated by electron-electron interaction, they are not addiabatically connected to a noninteracting electron states. This feature makes these 2D systems distinguish from the ones created in semiconductor heterostructures, and they may be potential systems having non-Fermi liquid behaviors. The second part of this thesis is devoted to the study of collective excitations in high-temperature superconductors. One important achievement in this work is to develop a time-dependent mean-field theory for t -- U -- J -- V model, an effective low energy model for cuprates. The time-dependent mean-field theory is proven to be identical to the generalized random-phase approximation (GRPA) which includes both the bubble and ladder diagrams. We propose that the famous 41 meV magnetic resonance mode observed in the inelastic neutron scattering measurements is a collective mode arising from a conjugation relation, which has been overlooked in previous work, between the antiferromagnetic

  2. Strong transverse coupling in the Tevatron

    SciTech Connect

    Annala, G; Carson, J; Edwards, Don; Gelfand, N; Harding, D; Johnson, T; Johnstone, J; Martens, M; Sen, T; Syphers, Mike

    2003-03-01

    The Tevatron was designed with an extensive set of correction and adjustment magnets built into the spool pieces in recognition of the circumstance that a superconducting synchrotron was not as easy to modify as its conventional forebearers. Recently, concern has mounted at the high excitation of the skew quadrupole correctors. The purpose of this note is to account for this situation. When slow extraction was attempted from the Main Ring in the summer of 1970 horizontal-vertical coupling prevented adequate transverse oscillation growth for efficient slow spill. This situation was corrected by an 8 mrad roll of each of twelve equi-spaced quadrupoles [1]. In order to avoid a repetition of this problem in the Tevatron, an extremely strong skew quadrupole circuit was built in at the outset. When the Tevatron was commissioned only 4$ of the capability of this circuit was required. Now, 20 years later, the excitation of this skew quadrupole circuit is approximately 60%. Other skew quadrupole correctors were installed in the neighborhood of the long straight sections, and for a variety of reasons the number of elements in the strong circuit was reduced from 48 to 42. These are relatively minor changes in the present context. Recall that in the normal Tevatron tuning process the skew quad circuits are adjusted to minimize the difference between the horizontal and vertical tunes to the level of {Delta}{nu}{sub min} {approx} 0.003. Normally the horizontal-vertical coupling is not observed directly by orbit measurements during this procedure. it was recognized that the strength of the skew quadrupole settings would imply an uncorrected minimum tune difference of 0.2 units. Clearly, with the skew quad circuit turned off the coupling of the orbital motion should be easily observable. In the following sections, the authors describe the recent Tevatron studies that exhibit the transverse coupling and the analyses that link these observations to the long term development of a

  3. Developing Strong Geoscience Programs and Departments

    NASA Astrophysics Data System (ADS)

    MacDonald, R.; Manduca, C. A.

    2002-12-01

    Strong geoscience programs are essential for preparing future geoscientists and developing a broad public understanding of our science. Faculty working as a department team can create stronger programs than individual faculty working alone. Workshops sponsored by Project Kaleidoscope (www.pkal.org) on departmental planning in the geosciences have emphasized the importance of designing programs in the context of both departmental and student goals. Well-articulated goals form a foundation for designing curriculum, courses, and other departmental activities. Course/skill matrices have emerged as particularly valuable tools for analyzing how individual courses combine in a curriculum to meet learning goals. Integrated programs where students have opportunities to learn and use skills in multiple contexts have been developed at several institutions. Departments are leveraging synergies between courses to more effectively reach departmental goals and capitalize on opportunities in the larger campus environment. A full departmental program extends beyond courses and curriculum. Studies in physics (National Task Force on Undergraduate Physics, Hilborne, 2002) indicate the importance of activities such as recruiting able students, mentoring students, providing courses appropriate for pre-service K-12 teachers, assisting with professional development for a diversity of careers, providing opportunities for undergraduates to participate in research, and making connections with the local industries and businesses that employ graduates. PKAL workshop participants have articulated a wide variety of approaches to undergraduate research opportunities within and outside of class based on their departmental goals, faculty goals, and resources. Similarly, departments have a wide variety of strategies for developing productive synergies with campus-wide programs including those emphasizing writing skills, quantitative skills, and environmental studies. Mentoring and advising

  4. Interference Effects of Strongly Localized Electrons

    NASA Astrophysics Data System (ADS)

    Medina, Ernesto Antonio

    We explore the possible role of quantum interference phenomena in conduction in the Variable Range Hopping, or deep insulating regime. The critical resistors in the Miller-Abrahams network are regarded as the phase coherent units. We consider a simple model of forward scattering paths (disregard backscattering) on a diagonal lattice. The hopping probability for non-resonant tunneling between two impurity sites, is computed numerically by evolving all directed Feynman paths in a disordered matrix of elastically scattering sites (intermediate impurities). The whole probability distribution for two dimensional samples is very broad, well fitted to a log-normal form. The average of the distribution increases linearly with the hopping length t, determining a global contribution to the localization length, coming from the interference part. The fluctuations grow with the hopping length as a non-trivial power law of t^{1over 3} . The system has a bound state which gives rise to the properties of the model. The exponents found are the same as those for directed polymers (DP) in a random media. Next we consider the effects of a magnetic field applied perpendicularly to the plane of the sample. The probability distribution for hopping is preserved in the field. We also find a positive magnetoconductance (MC) for small fields due to an increased localization length, in agreement with recent experiments. The features observed numerically are explained on the basis of the moment analysis, which suggests a single governing parameter for the interference effects. The effects of spin-orbit (SO) scattering are also studied (strong scattering limit). The interference contribution to the localization length is field independent in presence of SO. A small positive MC is found due to changes in the amplitude. Finally we investigate the problem of the universality of high moments in the strongly localized regime, by studying directed paths on a hierarchical lattice. We find non

  5. Thermal infrared anomalies of several strong earthquakes.

    PubMed

    Wei, Congxin; Zhang, Yuansheng; Guo, Xiao; Hui, Shaoxing; Qin, Manzhong; Zhang, Ying

    2013-01-01

    In the history of earthquake thermal infrared research, it is undeniable that before and after strong earthquakes there are significant thermal infrared anomalies which have been interpreted as preseismic precursor in earthquake prediction and forecasting. In this paper, we studied the characteristics of thermal radiation observed before and after the 8 great earthquakes with magnitude up to Ms7.0 by using the satellite infrared remote sensing information. We used new types of data and method to extract the useful anomaly information. Based on the analyses of 8 earthquakes, we got the results as follows. (1) There are significant thermal radiation anomalies before and after earthquakes for all cases. The overall performance of anomalies includes two main stages: expanding first and narrowing later. We easily extracted and identified such seismic anomalies by method of "time-frequency relative power spectrum." (2) There exist evident and different characteristic periods and magnitudes of thermal abnormal radiation for each case. (3) Thermal radiation anomalies are closely related to the geological structure. (4) Thermal radiation has obvious characteristics in abnormal duration, range, and morphology. In summary, we should be sure that earthquake thermal infrared anomalies as useful earthquake precursor can be used in earthquake prediction and forecasting. PMID:24222728

  6. Strong Coulomb Coupling in the Todorov Equation

    NASA Astrophysics Data System (ADS)

    Bawin, M.; Cugnon, J.; Sazdjian, H.

    A positronium-like system with strong Coulomb coupling, considered in its pseudoscalar sector, is studied in the framework of relativistic quantum constraint dynamics with the Todorov choice for the potential. Case’s method of self-adjoint extension of singular potentials, which avoids explicit introduction of regularization cut-offs, is adopted. It is found that, as the coupling constant α increases, the bound state spectrum undergoes an abrupt change at the critical value α=αc=1/2. For α>αc, the mass spectrum displays, in addition to the existing states for α<αc, a new set of an infinite number of bound states concentrated in a narrow band starting at mass W=0; all the states have indefinitely oscillating wave functions near the origin. In the limit α→αc from above, the oscillations disappear and the narrow band of low-lying states shrinks to a single massless state with a mass gap with the rest of the spectrum. This state has the required properties to represent a Goldstone boson and to signal spontaneous breakdown of chiral symmetry.

  7. Emergent behavior in strongly correlated electron systems.

    PubMed

    Pines, David

    2016-09-01

    I describe early work on strongly correlated electron systems (SCES) from the perspective of a theoretical physicist who, while a participant in their reductionist top-down beginnings, is now part of the paradigm change to a bottom-up 'emergent' approach with its focus on using phenomenology to find the organizing principles responsible for their emergent behavior disclosed by experiment-and only then constructing microscopic models that incorporate these. After considering the organizing principles responsible for the emergence of plasmons, quasiparticles, and conventional superconductivity in SCES, I consider their application to three of SCES's sister systems, the helium liquids, nuclei, and the nuclear matter found in neutron stars. I note some recent applications of the random phase approximation and examine briefly the role that paradigm change is playing in two central problems in our field: understanding the emergence and subsequent behavior of heavy electrons in Kondo lattice materials; and finding the mechanism for the unconventional superconductivity found in heavy electron, organic, cuprate, and iron-based materials. PMID:27484183

  8. Binary Polymer Brushes of Strongly Immiscible Polymers.

    PubMed

    Chu, Elza; Babar, Tashnia; Bruist, Michael F; Sidorenko, Alexander

    2015-06-17

    The phenomenon of microphase separation is an example of self-assembly in soft matter and has been observed in block copolymers (BCPs) and similar materials (i.e., supramolecular assemblies (SMAs) and homo/block copolymer blends (HBCs)). In this study, we use microphase separation to construct responsive polymer brushes that collapse to generate periodic surfaces. This is achieved by a chemical reaction between the minor block (10%, poly(4-vinylpyridine)) of the block copolymer and a substrate. The major block of polystyrene (PS) forms mosaic-like arrays of grafted patches that are 10-20 nm in size. Depending on the nature of the assembly (SMA, HBC, or neat BCP) and annealing method (exposure to vapors of different solvents or heating above the glass transition temperature), a range of "mosaic" brushes with different parameters can be obtained. Successive grafting of a secondary polymer (polyacrylamide, PAAm) results in the fabrication of binary polymer brushes (BPBs). Upon being exposed to specific selective solvents, BPBs may adopt different conformations. The surface tension and adhesion of the binary brush are governed by the polymer occupying the top stratum. The "mosaic" brush approach allows for a combination of strongly immiscible polymers in one brush. This facilitates substantial contrast in the surface properties upon switching, previously only possible for substrates composed of predetermined nanostructures. We also demonstrate a possible application of such PS/PAAm brushes in a tunable bioadhesion-bioadhesive (PS on top) or nonbioadhesive (PAAm on top) surface as revealed by Escherichia coli bacterial seeding.

  9. Dispersion discontinuities of strong collisionless shocks

    NASA Technical Reports Server (NTRS)

    Coroniti, F. V.

    1970-01-01

    Linear fluid equations are used to estimate wave train properties of strong collisionless shocks. Fast shocks exhibit several dispersion changes with increasing Mach number. For perpendicular propagation into a finite-beta plasma, an ion cyclotron radius trailing wave train exists only for (M sub F)2 is smaller than 2. Oblique fast shocks have a leading ion inertia wave train if M sub A is smaller than root of M(+)/M(-) cos theta/2 and a trailing electron inertia train if M sub A is greater than root of M(+)/M(-) cos theta/2. If the downstream sound speed exceeds the flow speed, linear wave theory predicts a trailing ion acoustic structure which probably resides within the magnetic shock. For a turbulent shock model in which an effective electron-ion collision frequency exceeds the lower hybrid frequency, ions decouple from the magnetic field; the shock wave train now trails with electron inertia and electron gyroradius lengths. Comparisons of this turbulent model and observations on the earth's bow shock are made.

  10. Delineating parton distributions and the strong coupling

    SciTech Connect

    Jimenez-Delgado, P.; Reya, E.

    2014-04-29

    In this study, global fits for precision determinations of parton distributions, together with the highly correlated strong coupling αs, are presented up to next-to-next-to- leading order (NNLO) of QCD utilizing most world data (charm and jet production data are used where theoretically possible), except Tevatron gauge boson production data and LHC data which are left for genuine predictions. This is done within the 'dynamical' (valencelike input at Q02 = 0.8 GeV2 ) and 'standard' (input at Q02 = 2 GeV2) approach. The stability and reliability of the results are ensured by including nonperturbative higher-twist terms, nuclear corrections as well as target mass corrections, and by applying various (Q2, W2) cuts on available data. In addition, the Q02 dependence of the results is studied in detail. Predictions are given, in particular for LHC, on gauge and Higgs boson as well as for top-quark pair production. At NNLO the dynamical approach results in αs(MZ2) = 0.1136 ± 0.0004, whereas the somewhat less constrained standard fit gives αs(MZ2) = 0.1162 ± 0.0006.

  11. Emergent behavior in strongly correlated electron systems

    NASA Astrophysics Data System (ADS)

    Pines, David

    2016-09-01

    I describe early work on strongly correlated electron systems (SCES) from the perspective of a theoretical physicist who, while a participant in their reductionist top-down beginnings, is now part of the paradigm change to a bottom-up ‘emergent’ approach with its focus on using phenomenology to find the organizing principles responsible for their emergent behavior disclosed by experiment—and only then constructing microscopic models that incorporate these. After considering the organizing principles responsible for the emergence of plasmons, quasiparticles, and conventional superconductivity in SCES, I consider their application to three of SCES’s sister systems, the helium liquids, nuclei, and the nuclear matter found in neutron stars. I note some recent applications of the random phase approximation and examine briefly the role that paradigm change is playing in two central problems in our field: understanding the emergence and subsequent behavior of heavy electrons in Kondo lattice materials; and finding the mechanism for the unconventional superconductivity found in heavy electron, organic, cuprate, and iron-based materials.

  12. Allocentric neglect strongly associated with egocentric neglect

    PubMed Central

    Rorden, Christopher; Hjaltason, Haukur; Fillmore, Paul; Fridriksson, Julius; Kjartansson, Olafur; Magnusdottir, Sigridur; Karnath, Hans-Otto

    2012-01-01

    Following brain injury, many patients experience egocentric spatial neglect, where they fail to respond to stimuli on the contralesional side of their body. On the other hand, allocentric, object-based neglect refers to the symptom of ignoring the contralesional side of objects, regardless of the objects’ egocentric position. There is an established tradition for considering these two phenomena as both behaviorally and anatomically dissociable. However, several studies and some theoretical work have suggested that these rather reflect two aspects of a unitary underlying disorder. Furthermore, in a recent large study Yue et al. [Arch Phys Med Rehabil. 93 (2012) 156] reported that acute allocentric neglect is only observed in cases where substantial egocentric neglect is also present. In a new sample of right hemisphere stroke patients, we attempted to control for potential confounds by using a novel continuous measure for allocentric neglect (in addition to a recently developed continuous measure for egocentric neglect). Our findings suggest a strong association between egocentric and allocentric neglect. Consistent with the work of Yue et al. (2012), we found allocentric behavioral deficits only in conjunction with egocentric deficits as well as a large corresponding overlap for the anatomical regions associated with egocentric and with allocentric neglect. We discuss how different anatomical and behavioral findings can be explained in a unified physiologically plausible framework, whereby allocentric and egocentric effects interact. PMID:22608082

  13. The Multiply Imaged Strongly Lensed Supernova Refsdal

    NASA Astrophysics Data System (ADS)

    Kelly, Patrick

    2016-01-01

    In 1964, Sjur Refsdal first considered the possibility that the light from a background supernova could traverse multiple paths around a strong gravitational lens towards us. He showed that the arrival times of the supernova's light would depend on the cosmic expansion rate, as well as the distribution of matter in the lens. I will discuss the discovery of the first such multiply imaged supernova, which exploded behind the MACS J1149.6+2223 galaxy cluster. We have obtained Hubble Space Telescope grism and ground-based spectra of the four images of the supernova, which form an Einstein Cross configuration around an elliptical cluster member. These spectra as well as rest-frame optical light curves have allowed us to learn about the properties of the peculiar core-collapse supernova explosion, and contain information about the lenses' matter distribution as well as their stellar populations. A delayed image of the supernova is expected close to the galaxy cluster center as early as Fall 2015, and will serve as an unprecedented probe of the potential of a massive galaxy cluster.

  14. Strong anticipation: complexity matching in interpersonal coordination.

    PubMed

    Marmelat, Vivien; Delignières, Didier

    2012-10-01

    A subtle coordination occurs within complex systems, between multiple nested sub-systems. This intra-system coordination can be detected by the presence of 1/f fluctuations produced by the system. But coordination can occur also between systems. Interpersonal coordination has been studied from a local point of view until now, focusing on macroscopic interactions. But the recent concept of strong anticipation introduced by Dubois (Lect Notes Comput Sci 2684:110-132, 2003) suggests that interactions could occur on multiple levels between complex systems. The hypothesis is that time series in interpersonal synchronization present a matching of the complexity index (fractal exponent). Moreover, it is argued that this matching is not a consequence of short-term adaptations but reveals a global coordination between participants. Eleven pairs of participants oscillated a hand-held pendulum in the in-phase pattern for 11 min, in three conditions where the coupling strength was manipulated by the perceptual feedbacks. The results show a high correlation between fractal exponents irrespective of the coupling strength, and a very low percentage of local cross-correlations between time series appear at lag 0 and lag 1. These results suggest that interpersonal coordination, and more globally synchronization of participants with natural environments, is based on non-local time scales. PMID:22865163

  15. Grassy Silica Nanoribbons and Strong Blue Luminescence

    NASA Astrophysics Data System (ADS)

    Wang, Shengping; Xie, Shuang; Huang, Guowei; Guo, Hongxuan; Cho, Yujin; Chen, Jun; Fujita, Daisuke; Xu, Mingsheng

    2016-09-01

    Silicon dioxide (SiO2) is one of the key materials in many modern technological applications such as in metal oxide semiconductor transistors, photovoltaic solar cells, pollution removal, and biomedicine. We report the accidental discovery of free-standing grassy silica nanoribbons directly grown on SiO2/Si platform which is commonly used for field-effect transistors fabrication without other precursor. We investigate the formation mechanism of this novel silica nanostructure that has not been previously documented. The silica nanoribbons are flexible and can be manipulated by electron-beam. The silica nanoribbons exhibit strong blue emission at about 467 nm, together with UV and red emissions as investigated by cathodoluminescence technique. The origins of the luminescence are attributed to various defects in the silica nanoribbons; and the intensity change of the blue emission and green emission at about 550 nm is discussed in the frame of the defect density. Our study may lead to rational design of the new silica-based materials for a wide range of applications.

  16. Mars nightside electrons over strong crustal fields

    NASA Astrophysics Data System (ADS)

    Shane, Alexander D.; Xu, Shaosui; Liemohn, Michael W.; Mitchell, David L.

    2016-04-01

    We investigated 7 years worth of data from the electron reflectometer and magnetometer aboard Mars Global Surveyor to quantify the deposition of photoelectron and solar wind electron populations on the nightside of Mars, over the strong crustal field region located in the southern hemisphere. Just under 600,000 observations, each including energy and pitch angle distributions, were examined. For solar zenith angles (SZA) less than 110°, photoelectrons have the highest occurrence rate; beyond that, plasma voids occur most often. In addition, for SZA >110°, energy deposition of electrons mainly occurs on vertical field lines with median pitch angle averaged energy flux values on the order of 107-108 eV cm-2 s-1. The fraction of downward flux that is deposited at a given location was typically low (16% or smaller), implying that the majority of precipitated electrons are magnetically reflected or scattered back out. The average energy of the deposited electrons is found to be 20-30 eV, comparable to typical energies of photoelectrons and unaccelerated solar wind electrons. Median electron flux values, from near-vertical magnetic field lines past solar zenith angle of 110°, calculated in this study produced a total electron content of 4.2 × 1014 m-2 and a corresponding peak density of 4.2 × 103 cm-3.

  17. Atmospheric dynamics on strongly irradiated Jovian planets

    NASA Astrophysics Data System (ADS)

    Langton, Jonathan

    In this dissertation, I examine the response of a Jovian atmosphere to time- dependent, spatially varying radiative forcing. Particular attention is give to those irradiation regimes appropriate to known extrasolar planets, with an emphasis on observationally verifiable predictions based upon known parameters, rather than exploration of a wide range of parameter space, of which only a small portion may be physically relevant. To this end, I have developed a two-dimensional radiative-hydrodynamic model appropriate to the simulation of the infrared photosphere of a strongly irradiated giant planet. The choice of a two-dimensional model is motivated by the fact that the infrared photosphere on these planets is expected to lie in the radiative zone, so that vertical flow is negligible. My model traces the evolution of atmospheric flow, temperature distribution, and emitted thermal radiation in response to the incident stellar radiation, and provides both the capability to produce photorealistic visualizations of extrasolar planets and the opportunity to compare predicted infrared emissions to those observed using space-based infrared telescopes. Despite the utility of a well-formed two-dimensional atmospheric model, a three-dimensional treatment is eventually necessary to obtain a full understanding of the behavior of exoplanetary atmospheres. While the full deployment of such a model is beyond the scope of this thesis, I partially develop the computational framework necessary for the treatment of irradiation in a three-dimensional atmosphere.

  18. Strong liquid-crystalline polymeric compositions

    DOEpatents

    Dowell, Flonnie

    1993-01-01

    Strong liquid-crystalline polymeric (LCP) compositions of matter. LCP backbones are combined with liquid crystalline (LC) side chains in a manner which maximizes molecular ordering through interdigitation of the side chains, thereby yielding materials which are predicted to have superior mechanical properties over existing LCPs. The theoretical design of LCPs having such characteristics includes consideration of the spacing distance between side chains along the backbone, the need for rigid sections in the backbone and in the side chains, the degree of polymerization, the length of the side chains, the regularity of the spacing of the side chains along the backbone, the interdigitation of side chains in sub-molecular strips, the packing of the side chains on one or two sides of the backbone to which they are attached, the symmetry of the side chains, the points of attachment of the side chains to the backbone, the flexibility and size of the chemical group connecting each side chain to the backbone, the effect of semiflexible sections in the backbone and the side chains, and the choice of types of dipolar and/or hydrogen bonding forces in the backbones and the side chains for easy alignment.

  19. Strong liquid-crystalline polymeric compositions

    DOEpatents

    Dowell, F.

    1993-12-07

    Strong liquid-crystalline polymeric (LCP) compositions of matter are described. LCP backbones are combined with liquid crystalline (LC) side chains in a manner which maximizes molecular ordering through interdigitation of the side chains, thereby yielding materials which are predicted to have superior mechanical properties over existing LCPs. The theoretical design of LCPs having such characteristics includes consideration of the spacing distance between side chains along the backbone, the need for rigid sections in the backbone and in the side chains, the degree of polymerization, the length of the side chains, the regularity of the spacing of the side chains along the backbone, the interdigitation of side chains in sub-molecular strips, the packing of the side chains on one or two sides of the backbone to which they are attached, the symmetry of the side chains, the points of attachment of the side chains to the backbone, the flexibility and size of the chemical group connecting each side chain to the backbone, the effect of semiflexible sections in the backbone and the side chains, and the choice of types of dipolar and/or hydrogen bonding forces in the backbones and the side chains for easy alignment. 27 figures.

  20. Grassy Silica Nanoribbons and Strong Blue Luminescence

    PubMed Central

    Wang, Shengping; Xie, Shuang; Huang, Guowei; Guo, Hongxuan; Cho, Yujin; Chen, Jun; Fujita, Daisuke; Xu, Mingsheng

    2016-01-01

    Silicon dioxide (SiO2) is one of the key materials in many modern technological applications such as in metal oxide semiconductor transistors, photovoltaic solar cells, pollution removal, and biomedicine. We report the accidental discovery of free-standing grassy silica nanoribbons directly grown on SiO2/Si platform which is commonly used for field-effect transistors fabrication without other precursor. We investigate the formation mechanism of this novel silica nanostructure that has not been previously documented. The silica nanoribbons are flexible and can be manipulated by electron-beam. The silica nanoribbons exhibit strong blue emission at about 467 nm, together with UV and red emissions as investigated by cathodoluminescence technique. The origins of the luminescence are attributed to various defects in the silica nanoribbons; and the intensity change of the blue emission and green emission at about 550 nm is discussed in the frame of the defect density. Our study may lead to rational design of the new silica-based materials for a wide range of applications. PMID:27666663

  1. Strong local passivity in finite quantum systems.

    PubMed

    Frey, Michael; Funo, Ken; Hotta, Masahiro

    2014-07-01

    Passive states of quantum systems are states from which no system energy can be extracted by any cyclic (unitary) process. Gibbs states of all temperatures are passive. Strong local (SL) passive states are defined to allow any general quantum operation, but the operation is required to be local, being applied only to a specific subsystem. Any mixture of eigenstates in a system-dependent neighborhood of a nondegenerate entangled ground state is found to be SL passive. In particular, Gibbs states are SL passive with respect to a subsystem only at or below a critical system-dependent temperature. SL passivity is associated in many-body systems with the presence of ground state entanglement in a way suggestive of collective quantum phenomena such as quantum phase transitions, superconductivity, and the quantum Hall effect. The presence of SL passivity is detailed for some simple spin systems where it is found that SL passivity is neither confined to systems of only a few particles nor limited to the near vicinity of the ground state.

  2. Efimov correlations in strongly interacting Bose gases

    NASA Astrophysics Data System (ADS)

    Barth, Marcus; Hofmann, Johannes

    2015-12-01

    We compute the virial coefficients, the contact parameters, and the momentum distribution of a strongly interacting three-dimensional Bose gas by means of a virial expansion up to third order in the fugacity, which takes into account three-body correlations exactly. Our results characterize the nondegenerate regime of the interacting Bose gas, where the thermal wavelength is smaller than the interparticle spacing but the scattering length may be arbitrarily large. We observe a rapid variation of the third virial coefficient as the scattering length is tuned across the three-atom and the atom-dimer thresholds. The momentum distribution at unitarity displays a universal high-momentum tail with a log-periodic momentum dependence, which is a direct signature of Efimov physics. We provide a quantitative description of the momentum distribution at high momentum as measured by P. Makotyn et al. [Nat. Phys. 10, 116 (2014), 10.1038/nphys2850], and our calculations indicate that the lowest trimer state might not be occupied in the experiment. Our results allow for a spectroscopy of Efimov states in the unitary limit.

  3. Strongly magnetized rotating dipole in general relativity

    NASA Astrophysics Data System (ADS)

    Pétri, J.

    2016-10-01

    Context. Electromagnetic waves arise in many areas of physics. Solutions are difficult to find in the general case. Aims: We numerically integrate Maxwell equations in a 3D spherical polar coordinate system. Methods: Straightforward finite difference methods would lead to a coordinate singularity along the polar axis. Spectral methods are better suited for such artificial singularities that are related to the choice of a coordinate system. When the radiating object rotates like a star, for example, special classes of solutions to Maxwell equations are worthwhile to study, such as quasi-stationary regimes. Moreover, in high-energy astrophysics, strong gravitational and magnetic fields are present especially around rotating neutron stars. Results: To study such systems, we designed an algorithm to solve the time-dependent Maxwell equations in spherical polar coordinates including general relativity and quantum electrodynamical corrections to leading order. As a diagnostic, we computed the spin-down luminosity expected for these stars and compared it to the classical or non-relativistic and non-quantum mechanical results. Conclusions: Quantum electrodynamics leads to an irrelevant change in the spin-down luminosity even for a magnetic field of about the critical value of 4.4 × 109 T. Therefore the braking index remains close to its value for a point dipole in vacuum, namely n = 3. The same conclusion holds for a general-relativistic quantum electrodynamically corrected force-free magnetosphere.

  4. Developments in strong shock wave position tracking

    NASA Astrophysics Data System (ADS)

    Rae, Philip; Glover, Brain; Perry, Lee; WX-6; WX-7 Team

    2011-06-01

    This poster will highlight several modified techniques to allow the position vs. time to be tracked in strong shock situations (such as detonation). Each is a modification or improvement of existing ideas either making use of advances in specialist materials availability or recent advances in electronics.) Shorting embedded mini-coaxial cable with a standing microwave pattern. This technique is a modified version of an old LANL method of shock position tracking making use of a traveling short imposed in an embedded coaxial cable. A high frequency standing wave (3-8GHz) is present in the cable and the moving short position can be tracked by monitoring the output voltage envelope as a function of time. A diode detector is used to allow the envelope voltage to be monitored on a regular low frequency digitizer significantly reducing the cost. The small and cheap high frequency voltage generators now available allow much greater spatial resolution than possible previously. 2) Very thin shorting resistance track gauges. Parallel tracks of constantan resistance material are etched on a thin dielectric substrate. The gauges are less than 0.2 mm thick. The ionized gas present in a detonation front sweeps up the tracks lowering the measured resistance. A potential divider circuit allows the shock position vs. time to be monitored on a regular digitizer after easy calibration. The novel feature is the thin section of the gauge producing minimal perturbation in the detonation front.

  5. Observed strong currents under global tropical cyclones

    NASA Astrophysics Data System (ADS)

    Chang, Yu-Chia; Tseng, Ruo-Shan; Chu, Peter C.; Chen, Jau-Ming; Centurioni, Luca R.

    2016-07-01

    Global data from drifters of the Surface Velocity Program (Niiler, 2001) and tropical cyclones (TCs) from the Joint Typhoon Warning Center and National Hurricane Center were analyzed to demonstrate strong ocean currents and their characteristics under various storm intensities in the Northern Hemisphere (NH) and in the Southern Hemisphere (SH). Mean TC's translation speed (Uh) is faster in the NH (~ 4.7 m s- 1) than in the SH (~ 4.0 m s- 1), owing to the fact that TCs are more intense in the NH than in the SH. The rightward (leftward) bias of ocean mixed-layer (OML) velocity occurs in the NH (SH). As a result of this slower Uh and thus a smaller Froude number in the SH, the flow patterns in the SH under the same intensity levels of TCs are more symmetric relative to the TC center and the OML velocities are stronger. This study provides the first characterization of the near-surface OML velocity response to all recorded TCs in the SH from direct velocity measurements.

  6. Thermal infrared anomalies of several strong earthquakes.

    PubMed

    Wei, Congxin; Zhang, Yuansheng; Guo, Xiao; Hui, Shaoxing; Qin, Manzhong; Zhang, Ying

    2013-01-01

    In the history of earthquake thermal infrared research, it is undeniable that before and after strong earthquakes there are significant thermal infrared anomalies which have been interpreted as preseismic precursor in earthquake prediction and forecasting. In this paper, we studied the characteristics of thermal radiation observed before and after the 8 great earthquakes with magnitude up to Ms7.0 by using the satellite infrared remote sensing information. We used new types of data and method to extract the useful anomaly information. Based on the analyses of 8 earthquakes, we got the results as follows. (1) There are significant thermal radiation anomalies before and after earthquakes for all cases. The overall performance of anomalies includes two main stages: expanding first and narrowing later. We easily extracted and identified such seismic anomalies by method of "time-frequency relative power spectrum." (2) There exist evident and different characteristic periods and magnitudes of thermal abnormal radiation for each case. (3) Thermal radiation anomalies are closely related to the geological structure. (4) Thermal radiation has obvious characteristics in abnormal duration, range, and morphology. In summary, we should be sure that earthquake thermal infrared anomalies as useful earthquake precursor can be used in earthquake prediction and forecasting.

  7. Polymer ejection from strong spherical confinement

    NASA Astrophysics Data System (ADS)

    Piili, J.; Linna, R. P.

    2015-12-01

    We examine the ejection of an initially strongly confined flexible polymer from a spherical capsid through a nanoscale pore. We use molecular dynamics for unprecedentedly high initial monomer densities. We show that the time for an individual monomer to eject grows exponentially with the number of ejected monomers. By measurements of the force at the pore we show this dependence to be a consequence of the excess free energy of the polymer due to confinement growing exponentially with the number of monomers initially inside the capsid. This growth relates closely to the divergence of mixing energy in the Flory-Huggins theory at large concentration. We show that the pressure inside the capsid driving the ejection dominates the process that is characterized by the ejection time growing linearly with the lengths of different polymers. Waiting time profiles would indicate that the superlinear dependence obtained for polymers amenable to computer simulations results from a finite-size effect due to the final retraction of polymers' tails from capsids.

  8. Collective phases of strongly interacting cavity photons

    NASA Astrophysics Data System (ADS)

    Wilson, Ryan M.; Mahmud, Khan W.; Hu, Anzi; Gorshkov, Alexey V.; Hafezi, Mohammad; Foss-Feig, Michael

    2016-09-01

    We study a coupled array of coherently driven photonic cavities, which maps onto a driven-dissipative XY spin-1/2 model with ferromagnetic couplings in the limit of strong optical nonlinearities. Using a site-decoupled mean-field approximation, we identify steady-state phases with canted antiferromagnetic order, in addition to limit cycle phases, where oscillatory dynamics persist indefinitely. We also identify collective bistable phases, where the system supports two steady states among spatially uniform, antiferromagnetic, and limit cycle phases. We compare these mean-field results to exact quantum trajectory simulations for finite one-dimensional arrays. The exact results exhibit short-range antiferromagnetic order for parameters that have significant overlap with the mean-field phase diagram. In the mean-field bistable regime, the exact quantum dynamics exhibits real-time collective switching between macroscopically distinguishable states. We present a clear physical picture for this dynamics and establish a simple relationship between the switching times and properties of the quantum Liouvillian.

  9. PARTICLE ACCELERATION IN SUPERLUMINAL STRONG WAVES

    SciTech Connect

    Teraki, Yuto; Ito, Hirotaka; Nagataki, Shigehiro

    2015-06-01

    We calculate the electron acceleration in random superluminal strong waves (SLSWs) and radiation from them using numerical methods in the context of the termination shocks of pulsar wind nebulae. We pursue the orbit of electrons by solving the equation of motion in the analytically expressed electromagnetic turbulences. These consist of a primary SLS and isotropically distributed secondary electromagnetic waves. Under the dominance of the secondary waves, all electrons gain nearly equal energy. On the other hand, when the primary wave is dominant, selective acceleration occurs. The phase of the primary wave for electrons moving nearly along the wavevector changes very slowly compared with the oscillation of the wave, which is “phase-locked,” and such electrons are continuously accelerated. This acceleration by SLSWs may play a crucial role in pre-shock acceleration. In general, the radiation from the phase-locked population is different from the synchro-Compton radiation. However, when the amplitude of the secondary waves is not extremely weaker than that of the primary wave, the typical frequency can be estimated from synchro-Compton theory using the secondary waves. The primary wave does not contribute to the radiation because the SLSW accelerates electrons almost linearly. This radiation can be observed as a radio knot at the upstream of the termination shocks of the pulsar wind nebulae without counterparts in higher frequency ranges.

  10. Strong Gravitational Lensing: Relativity in Action

    NASA Astrophysics Data System (ADS)

    Wambsganss, Joachim

    2009-05-01

    Deflection of light by gravity was predicted by Einstein's Theory of General Relativity and observationally confirmed in 1919. In the following decades, various aspects of the gravitational lens effect were explored theoretically, among them measuring the Hubble constant from multiple images of a background source, making use of the magnifying effect as a gravitational telescope, or the possibility of a "relativistic eclipse" as a perfect test of GR. Only in 1979, gravitational lensing became an observational science when the first doubly imaged quasar was discovered. Today lensing is a booming part of astrophysics and cosmology. A whole suite of strong lensing phenomena have been investigated since: multiple quasars, giant luminous arcs, Einstein rings, quasar microlensing, and galactic microlensing. The most recent lensing application is the detection of extrasolar planets. Lensing has contributed significant new results in areas as different as the cosmological distance scale, mass determination of galaxy clusters, physics of quasars, searches for dark matter in galaxy halos, structure of the Milky Way, stellar atmospheres and exoplanets. A guided tour through some of these applications -- with both photometric and astrometric signatures of lensing being discussed -- will illustrate how gravitational lensing has established itself as a very useful universal astrophysical tool.

  11. Strong gravitational lensing: relativity in action

    NASA Astrophysics Data System (ADS)

    Wambsganss, Joachim

    2010-01-01

    Deflection of light by gravity was predicted by Einstein's Theory of General Relativity and observationally confirmed in 1919. In the following decades, various aspects of the gravitational lens effect were explored theoretically, among them measuring the Hubble constant from multiple images of a background source, making use of the magnifying effect as a gravitational telescope, or the possibility of a “relativistic eclipse” as a perfect test of GR. Only in 1979, gravitational lensing became an observational science when the first doubly imaged quasar was discovered. Today lensing is a booming part of astrophysics and cosmology. A whole suite of strong lensing phenomena have been investigated: multiple quasars, giant luminous arcs, Einstein rings, quasar microlensing, and galactic microlensing. The most recent lensing application is the detection of extrasolar planets. Lensing has contributed significant new results in areas as different as the cosmological distance scale, mass determination of galaxy clusters, physics of quasars, searches for dark matter in galaxy halos, structure of the Milky Way, stellar atmospheres and exoplanets. A guided tour through some of these applications will illustrate how gravitational lensing has established itself as a very useful universal astrophysical tool.

  12. Parallel search of strongly ordered game trees

    SciTech Connect

    Marsland, T.A.; Campbell, M.

    1982-12-01

    The alpha-beta algorithm forms the basis of many programs that search game trees. A number of methods have been designed to improve the utility of the sequential version of this algorithm, especially for use in game-playing programs. These enhancements are based on the observation that alpha beta is most effective when the best move in each position is considered early in the search. Trees that have this so-called strong ordering property are not only of practical importance but possess characteristics that can be exploited in both sequential and parallel environments. This paper draws upon experiences gained during the development of programs which search chess game trees. Over the past decade major enhancements of the alpha beta algorithm have been developed by people building game-playing programs, and many of these methods will be surveyed and compared here. The balance of the paper contains a study of contemporary methods for searching chess game trees in parallel, using an arbitrary number of independent processors. To make efficient use of these processors, one must have a clear understanding of the basic properties of the trees actually traversed when alpha-beta cutoffs occur. This paper provides such insights and concludes with a brief description of a refinement to a standard parallel search algorithm for this problem. 33 references.

  13. Quark stars in strong magnetic fields

    NASA Astrophysics Data System (ADS)

    Chu, Peng-Cheng; Chen, Lie-Wen; Wang, Xin

    2014-09-01

    Within the confined isospin- and density-dependent mass model, we study the properties of strange quark matter (SQM) and quark stars (QSs) in strong magnetic fields. The equation of state of SQM under a constant magnetic field is obtained self-consistently and the pressure perpendicular to the magnetic field is shown to be larger than that parallel to the magnetic field, implying that the properties of magnetized QSs generally depend on both the strength and the orientation of the magnetic fields distributed inside the stars. Using a density-dependent magnetic field profile which is introduced to mimic the magnetic field strength distribution in a star, we study the properties of static spherical QSs by assuming two extreme cases for the magnetic field orientation in the stars, i.e., the radial orientation in which the local magnetic fields are along the radial direction, and the transverse orientation in which the local magnetic fields are randomly oriented but perpendicular to the radial direction. Our results indicate that including the magnetic fields with radial (transverse) orientation can significantly decrease (increase) the maximum mass of QSs, demonstrating the importance of the magnetic field orientation inside the magnetized compact stars.

  14. Delineating parton distributions and the strong coupling

    DOE PAGES

    Jimenez-Delgado, P.; Reya, E.

    2014-04-29

    In this study, global fits for precision determinations of parton distributions, together with the highly correlated strong coupling αs, are presented up to next-to-next-to- leading order (NNLO) of QCD utilizing most world data (charm and jet production data are used where theoretically possible), except Tevatron gauge boson production data and LHC data which are left for genuine predictions. This is done within the 'dynamical' (valencelike input at Q02 = 0.8 GeV2 ) and 'standard' (input at Q02 = 2 GeV2) approach. The stability and reliability of the results are ensured by including nonperturbative higher-twist terms, nuclear corrections as well asmore » target mass corrections, and by applying various (Q2, W2) cuts on available data. In addition, the Q02 dependence of the results is studied in detail. Predictions are given, in particular for LHC, on gauge and Higgs boson as well as for top-quark pair production. At NNLO the dynamical approach results in αs(MZ2) = 0.1136 ± 0.0004, whereas the somewhat less constrained standard fit gives αs(MZ2) = 0.1162 ± 0.0006.« less

  15. DYNAMICS OF STRONGLY TWISTED RELATIVISTIC MAGNETOSPHERES

    SciTech Connect

    Parfrey, Kyle; Beloborodov, Andrei M.; Hui, Lam

    2013-09-10

    Magnetar magnetospheres are believed to be strongly twisted due to shearing of the stellar crust by internal magnetic stresses. We present time-dependent axisymmetric simulations showing in detail the evolution of relativistic force-free magnetospheres subjected to slow twisting through large angles. When the twist amplitude is small, the magnetosphere moves quasi-statically through a sequence of equilibria of increasing free energy. At some twist amplitude the magnetosphere becomes tearing-mode unstable to forming a resistive current sheet, initiating large-scale magnetic reconnection in which a significant fraction of the magnetic free energy can be dissipated. This ''critical'' twist angle is insensitive to the resistive length scale. Rapid shearing temporarily stabilizes the magnetosphere beyond the critical angle, allowing the magnetosphere of a rapidly differentially rotating star to store and dissipate more free energy. In addition to these effects, shearing the surface of a rotating star increases the spindown torque applied to the star. If shearing is much slower than rotation, the resulting spikes in spindown rate can occur on timescales anywhere from the long twisting timescale to the stellar spin period or shorter, depending both on the stellar shear distribution and the existing distribution of magnetospheric twists. A model in which energy is stored in the magnetosphere and released by a magnetospheric instability therefore predicts large changes in the measured spindown rate before soft gamma repeater giant flares.

  16. Charge instabilities in strongly correlated bilayer systems

    NASA Astrophysics Data System (ADS)

    Seibold, G.

    2003-09-01

    We investigate the charge-instabilities of the Hubbard-Holstein model with two coupled layers. In this system the scattering processes naturally separate into contributions which are either symmetric or antisymmetric combinations with respect to exchange of the layers. It turns out that the short-range strong correlations suppress finite wave-vector nesting instabilities for both symmetries but favor the occurrence of phase separation in the symmetric channel. Inclusion of a sizeable long-range Coulomb (LRC) interaction frustrates the q=0 instabilities and supports the formation of incommensurate charge-density waves (CDW). Upon reducing doping from half-filling and for small electron-phonon coupling g the CDW instability first occurs in the antisymmetric channel but both instability lines merge with increasing g. While LRC forces always suppress the phase separation instability in the symmetric channel, the CDW period in the antisymmetric sector tends to infinity (q_cto 0) for sufficiently small Coulomb interaction. This feature allows for the possibility of singular scattering over the whole Fermi surface. We discuss possible implications of our results for the bilayer high- T c cuprates.

  17. Stochastic properties of strongly coupled plasmas.

    PubMed

    Morozov, I V; Norman, G E; Valuev, A A

    2001-03-01

    Stochastic properties of equilibrium strongly coupled plasmas are investigated by a molecular dynamics method. The Krylov-Kolmogorov entropy K and the dynamical memory time t(m) are calculated both for electrons and ions with mass ratios 10-10(5). Two values of K entropy for ions are discovered corresponding to electron and ion time scales. The dependence of the K entropy on the number of particles, the nonideality parameter, and the form of the interaction potential is investigated. The problem of the accuracy of molecular dynamics simulations is discussed. A universal relation between Kt(m) and the fluctuation of the total energy of the system is obtained. The relation does not depend on the numerical integration scheme, temperature, density, and the interparticle interaction potential, so that it may be applied to arbitrary dynamic systems. Transition from dynamic to stochastic correlation is treated for both electron and ion velocity autocorrelation functions, for Langmuir and ion-sound plasma wave dynamic structure factors. We point to quantum uncertainty as a physical reason which limits dynamic (Newton) correlation for times greater than t(m). PMID:11308773

  18. Controlling strongly correlated dust clusters with lasers

    NASA Astrophysics Data System (ADS)

    Thomsen, Hauke; Ludwig, Patrick; Bonitz, Michael; Schablinski, Jan; Block, Dietmar; Schella, André; Melzer, André

    2014-09-01

    Lasers have been used extensively to manipulate matter in a controlled way - from single atoms and molecules up to macroscopic materials. They are particularly valuable for the analysis and control of mesoscopic systems such as few-particle clusters. Here we report on recent work on finite size complex (dusty) plasma systems. These are unusual types of clusters with a very strong inter-particle interaction so that, at room temperature, they are practically in their ground state. Lasers are employed as a tool to achieve excited states and phase transitions. The most attractive feature of dusty plasmas is that they allow for a precise diagnostic with single-particle resolution. From such measurements, the structural properties of finite two-dimensional (2D) clusters and three-dimensional (3D) spherical crystals in nearly harmonic traps—so-called Yukawa balls—have been explored in great detail. Their structural features—the shell compositions and the order within the shells—have been investigated and good agreement to theoretical predictions was found. Open questions on the agenda are the excitation behaviour, the structural changes and phase transitions that occur at elevated temperature. Here we report on recent experimental results where laser heating methods were further improved and applied to finite 2D and 3D dust clusters. Comparing to simulations, we demonstrate that laser heating indeed allows to increase the temperature in a controlled manner. For the analysis of thermodynamic properties and phase transitions in these finite systems, we present theoretical and experimental results on the basis of the instantaneous normal modes, pair distribution function and the recently introduced centre-two-particle correlation function.

  19. Strong washout approximation to resonant leptogenesis

    SciTech Connect

    Garbrecht, Björn; Gautier, Florian; Klaric, Juraj E-mail: florian.gautier@tum.de

    2014-09-01

    We show that the effective decay asymmetry for resonant Leptogenesis in the strong washout regime with two sterile neutrinos and a single active flavour can in wide regions of parameter space be approximated by its late-time limit ε=Xsin(2φ)/(X{sup 2}+sin{sup 2}φ), where X=8πΔ/(|Y{sub 1}|{sup 2}+|Y{sub 2}|{sup 2}), Δ=4(M{sub 1}-M{sub 2})/(M{sub 1}+M{sub 2}), φ=arg(Y{sub 2}/Y{sub 1}), and M{sub 1,2}, Y{sub 1,2} are the masses and Yukawa couplings of the sterile neutrinos. This approximation in particular extends to parametric regions where |Y{sub 1,2}|{sup 2}>> Δ, i.e. where the width dominates the mass splitting. We generalise the formula for the effective decay asymmetry to the case of several flavours of active leptons and demonstrate how this quantity can be used to calculate the lepton asymmetry for phenomenological scenarios that are in agreement with the observed neutrino oscillations. We establish analytic criteria for the validity of the late-time approximation for the decay asymmetry and compare these with numerical results that are obtained by solving for the mixing and the oscillations of the sterile neutrinos. For phenomenologically viable models with two sterile neutrinos, we find that the flavoured effective late-time decay asymmetry can be applied throughout parameter space.

  20. The Strong Lensing Time Delay Challenge (2014)

    NASA Astrophysics Data System (ADS)

    Liao, Kai; Dobler, G.; Fassnacht, C. D.; Treu, T.; Marshall, P. J.; Rumbaugh, N.; Linder, E.; Hojjati, A.

    2014-01-01

    Time delays between multiple images in strong lensing systems are a powerful probe of cosmology. At the moment the application of this technique is limited by the number of lensed quasars with measured time delays. However, the number of such systems is expected to increase dramatically in the next few years. Hundred such systems are expected within this decade, while the Large Synoptic Survey Telescope (LSST) is expected to deliver of order 1000 time delays in the 2020 decade. In order to exploit this bounty of lenses we needed to make sure the time delay determination algorithms have sufficiently high precision and accuracy. As a first step to test current algorithms and identify potential areas for improvement we have started a "Time Delay Challenge" (TDC). An "evil" team has created realistic simulated light curves, to be analyzed blindly by "good" teams. The challenge is open to all interested parties. The initial challenge consists of two steps (TDC0 and TDC1). TDC0 consists of a small number of datasets to be used as a training template. The non-mandatory deadline is December 1 2013. The "good" teams that complete TDC0 will be given access to TDC1. TDC1 consists of thousands of lightcurves, a number sufficient to test precision and accuracy at the subpercent level, necessary for time-delay cosmography. The deadline for responding to TDC1 is July 1 2014. Submissions will be analyzed and compared in terms of predefined metrics to establish the goodness-of-fit, efficiency, precision and accuracy of current algorithms. This poster describes the challenge in detail and gives instructions for participation.

  1. 77 FR 16131 - Establishing a White House Council on Strong Cities, Strong Communities

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-03-20

    ... economic strategies to become more competitive, sustainable, and inclusive, it is hereby ordered as follows... communities strengthen their capacity to create jobs and more competitive business climates, and implement... implement their economic vision and strategies. Sec. 2. White House Council on Strong Cities,...

  2. Statics and dynamics of strongly charged soft matter

    NASA Astrophysics Data System (ADS)

    Boroudjerdi, H.; Kim, Y.-W.; Naji, A.; Netz, R. R.; Schlagberger, X.; Serr, A.

    2005-09-01

    Soft matter materials, such as polymers, membranes, proteins, are often electrically charged. This makes them water soluble, which is of great importance in technological application and a prerequisite for biological function. We discuss a few static and dynamic systems that are dominated by charge effects. One class comprises complexation between oppositely charged objects, for example the adsorption of charged ions or charged polymers on oppositely charged substrates of different geometry. Here the main questions are whether adsorption occurs and what the effective charge of the resulting complex is. We explicitly discuss the adsorption behavior of polyelectrolytes on substrates of planar, cylindrical and spherical geometry with specific reference to DNA adsorption on supported charged lipid layers, DNA adsorption on oppositely charged cylindrical dendro-polymers, and DNA binding on globular histone proteins, respectively. In all these systems salt plays a crucial role, and some of the important features can already be obtained on the linear Debye-Hückel level. The second class comprises effective interactions between similarly charged objects. Here the main theme is to understand the experimental finding that similarly and highly charged bodies attract each other in the presence of multi-valent counterions. This is demonstrated using field-theoretic arguments as well as Monte-Carlo simulations for the case of two homogeneously charged bodies. Realistic surfaces, on the other hand, are corrugated and also exhibit modulated charge distributions, which is important for static properties such as the counterion-density distribution, but has even more pronounced consequences for dynamic properties such as the counterion mobility. More pronounced dynamic effects are obtained with highly condensed charged systems in strong electric fields. Likewise, an electrostatically collapsed highly charged polymer is unfolded and oriented in strong electric fields. All charged

  3. A simplified strong ion model for acid-base equilibria: application to horse plasma.

    PubMed

    Constable, P D

    1997-07-01

    The Henderson-Hasselbalch equation and Stewart's strong ion model are currently used to describe mammalian acid-base equilibria. Anomalies exist when the Henderson-Hasselbalch equation is applied to plasma, whereas the strong ion model does not provide a practical method for determining the total plasma concentration of nonvolatile weak acids ([Atot]) and the effective dissociation constant for plasma weak acids (Ka). A simplified strong ion model, which was developed from the assumption that plasma ions act as strong ions, volatile buffer ions (HCO-3), or nonvolatile buffer ions, indicates that plasma pH is determined by five independent variables: PCO2, strong ion difference, concentration of individual nonvolatile plasma buffers (albumin, globulin, and phosphate), ionic strength, and temperature. The simplified strong ion model conveys on a fundamental level the mechanism for change in acid-base status, explains many of the anomalies when the Henderson-Hasselbalch equation is applied to plasma, is conceptually and algebraically simpler than Stewart's strong ion model, and provides a practical in vitro method for determining [Atot] and Ka of plasma. Application of the simplified strong ion model to CO2-tonometered horse plasma produced values for [Atot] (15.0 +/- 3.1 meq/l) and Ka (2.22 +/- 0.32 x 10(-7) eq/l) that were significantly different from the values commonly assumed for human plasma ([Atot] = 20.0 meq/l, Ka = 3.0 x 10(-7) eq/l). Moreover, application of the experimentally determined values for [Atot] and Ka to published data for the horse (known PCO2, strong ion difference, and plasma protein concentration) predicted plasma pH more accurately than the values for [Atot] and Ka commonly assumed for human plasma. Species-specific values for [Atot] and Ka should be experimentally determined when the simplified strong ion model (or strong ion model) is used to describe acid-base equilibria.

  4. Total protein

    MedlinePlus

    ... page: //medlineplus.gov/ency/article/003483.htm Total protein To use the sharing features on this page, please enable JavaScript. The total protein test measures the total amount of two classes ...

  5. Strong Coupling Gauge Theories in LHC ERA

    NASA Astrophysics Data System (ADS)

    Fukaya, H.; Harada, M.; Tanabashi, M.; Yamawaki, K.

    2011-01-01

    Higgs, or techni-dilaton - composite Higgs near conformality / Koichi Yamawaki -- Phase diagram of strongly interacting theories / Francesco Sannino -- Resizing conformal windows / O. Antipin and K. Tuominen -- Nearly conformal gauge theories on the lattice / Zoltan Fodor ... [et al.] -- Going beyond QCD in lattice gauge theory / G. T. Fleming -- Phases of QCD from small to large N[symbol]: (some) lattice results / A. Deuzeman, E. Pallante and M. P. Lombardo -- Lattice gauge theory and (quasi)-conformal technicolor / D. K. Sinclair and J. B. Kogut -- Study of the running coupling constant in 10-flavor QCD with the Schrodinger functional method / N. Yamada ... [et al.] -- Study of the running coupling in twisted Polyakov scheme / T. Aoyama ... [et al.].Running coupling in strong gauge theories via the lattice / Zoltan Fodor ... [et al.] -- Higgsinoless supersymmetry and hidden gravity / Michael L. Graesser, Ryuichiro Kitano and Masafumi Kurachi -- The latest status of LHC and the EWSB physics / S. Asai -- Continuum superpartners from supersymmetric unparticles / Hsin-Chia Cheng -- Review of minimal flavor constraints for technicolor / Hidenori S. Fukano and Francesco Sannino -- Standard model and high energy Lorentz violation / Damiano Anselmi -- Dynamical electroweak symmetry breaking and fourth family / Michio Hashimoto -- Holmorphic supersymmetric Nambu-Jona-Lasino model and dynamical electroweak symmetry breaking / Dong-Won Jung, Otto C. W. Kong and Jae Sik Lee -- Ratchet model of Baryogenesis / Tatsu Takeuchi, Azusa Minamizaki and Akio Sugamoto -- Classical solutions of field equations in Einstein Gauss-Bonnet gravity / P. Suranyi, C. Vaz and L. C. R. Wijewardhana -- Black holes constitute all dark matter / Paul H. Frampton -- Electroweak precision test and Z [symbol] in the three site Higgsless model / Tomohiro Abe -- Chiral symmetry and BRST symmetry breaking, quaternion reality and the lattice simulation / Sadataka Furui -- Holographic techni-dilaton, or

  6. Protein Microarrays

    NASA Astrophysics Data System (ADS)

    Ricard-Blum, S.

    Proteins are key actors in the life of the cell, involved in many physiological and pathological processes. Since variations in the expression of messenger RNA are not systematically correlated with variations in the protein levels, the latter better reflect the way a cell functions. Protein microarrays thus supply complementary information to DNA chips. They are used in particular to analyse protein expression profiles, to detect proteins within complex biological media, and to study protein-protein interactions, which give information about the functions of those proteins [3-9]. They have the same advantages as DNA microarrays for high-throughput analysis, miniaturisation, and the possibility of automation. Section 18.1 gives a brief overview of proteins. Following this, Sect. 18.2 describes how protein microarrays can be made on flat supports, explaining how proteins can be produced and immobilised on a solid support, and discussing the different kinds of substrate and detection method. Section 18.3 discusses the particular format of protein microarrays in suspension. The diversity of protein microarrays and their applications are then reported in Sect. 18.4, with applications to therapeutics (protein-drug interactions) and diagnostics. The prospects for future developments of protein microarrays are then outlined in the conclusion. The bibliography provides an extensive list of reviews and detailed references for those readers who wish to go further in this area. Indeed, the aim of the present chapter is not to give an exhaustive or detailed analysis of the state of the art, but rather to provide the reader with the basic elements needed to understand how proteins are designed and used.

  7. Aeolotopic interactions of globular proteins

    PubMed Central

    Lomakin, Aleksey; Asherie, Neer; Benedek, George B.

    1999-01-01

    Protein crystallization, aggregation, liquid–liquid phase separation, and self-assembly are important in protein structure determination in the industrial processing of proteins and in the inhibition of protein condensation diseases. To fully describe such phase transformations in globular protein solutions, it is necessary to account for the strong spatial variation of the interactions on the protein surface. One difficulty is that each globular protein has its own unique surface, which is crucial for its biological function. However, the similarities amongst the macroscopic properties of different protein solutions suggest that there may exist a generic model that is capable of describing the nonuniform interactions between globular proteins. In this paper we present such a model, which includes the short-range interactions that vary from place to place on the surface of the protein. We show that this aeolotopic model [from the Greek aiolos (“variable”) and topos (“place”)] describes the phase diagram of globular proteins and provides insight into protein aggregation and crystallization. PMID:10449715

  8. Dietary Proteins

    MedlinePlus

    ... meat, dairy products, nuts, and certain grains and beans. Proteins from meat and other animal products are complete proteins. This means they supply all of the amino acids the body can't make on its own. Most plant proteins are incomplete. You should eat different types ...

  9. Protein Structure

    ERIC Educational Resources Information Center

    Asmus, Elaine Garbarino

    2007-01-01

    Individual students model specific amino acids and then, through dehydration synthesis, a class of students models a protein. The students clearly learn amino acid structure, primary, secondary, tertiary, and quaternary structure in proteins and the nature of the bonds maintaining a protein's shape. This activity is fun, concrete, inexpensive and…

  10. Effective Theories Of The Strong Interaction

    SciTech Connect

    Dr. Ubirajara van Kolck

    2004-07-31

    This is the final report corresponding to the full funding period (08/01-07/04) in the Department of Energy Outstanding Junior Investigator Grant DE-FG03-01ER41196. The development of an understanding of the interplay between perturbative and non-perturbative effects in strong-interacting systems forms the broad context of this research. The main thrust is the application of effective theories to QCD. Topics included a new power counting in the pionful effective theory, low-energy Compton scattering, charge-symmetry breaking in pion production and in the two-nucleon potential, parity violation, coupled-channel scattering, shallow resonances and halo nuclei, chiral symmetry in the baryon spectrum, existence of a tetraquark state, and molecular meson states. DOE grant DE-FG03-01ER41196 was used to partially support in the period 08/01-07/04 the research activities of the Principal Investigator, Dr. Ubirajara van Kolck, one post-doctoral research associate, Dr. Boris A. Gelman, and one graduate student, Mr. Will Hockings. During the grant period the PI was first Assistant then Associate Professor of Physics at the University of Arizona (UA), and a RHIC Physics Fellow at the RIKEN-BNL Research Center (RBRC). The association with RBRC ended in the Summer of 2004. Since September of 2002 the PI has also been partially supported by a Sloan Research Fellowship. Dr. Boris Gelman was supported by the grant from September 2002 to May 2004. He joined the UA after receiving a Ph.D. from the University of Maryland in the Summer of 2002. He left to take a research associate position in the nuclear theory group of the State University of New York at Stony Brook. The support of a post-doctoral researcher on this grant for two years was only possible by carrying over first- and second-year funds to later years. In addition, Mr. William Hockings started doing research under the PI's guidance. Mr. Hockings took Independent Study courses with the PI, while working as a teaching

  11. The Commercial TREMOR Strong-Motion Seismograph

    NASA Astrophysics Data System (ADS)

    Evans, J. R.; Hamstra, R. H.; Kuendig, C.; Camina, P.

    2001-12-01

    The emergence of major seismological and earthquake-engineering problems requiring large, dense instrument arrays led several of us to investigate alternate solutions. Evans and Rogers (USGS Open File Report 95-555, 1995) and Evans (USGS Open File Report 98-109, 1998) demonstrated the efficacy of low-cost robust silicon accelerometers in strong-motion seismology, making possible a vast increase in the spatial density of such arrays. The 1998 design displays true 16-bit performance and excellent robustness and linearity---13 of these prototype near-real-time instruments are deployed in Oakland, California, and have recorded data from seven small events (up to 5.7 %g). Since this technology is a radical departure from past efforts, it was necessary for the USGS to develop the sensor and demonstrate its efficacy thoroughly. Since it is neither practical nor appropriate for the USGS to produce instrumentation beyond a demonstration phase, the US Geological Survey and GeoSIG Ltd undertook a collaborative effort (a ``CRAD'') to commercialize the new technology. This effort has resulted in a fully temperature-compensated 16-bit system, the GeoSIG GT-316, announced in April, 2001, combining the ICS-3028 TM-based USGS sensor, temperature compensation technique, and peak ground velocity (PGV) computation with a highly customized 16-bit GeoSIG recorder. The price has not been set but is likely to be around \\2000 in large quantities. The result is a near-real-time instrument telemetering peak ground acceleration (PGA) and PGV about 90 s after onset of the P wave, then minutes later transmitting the waveform. The receiving software, ``HomeBase()'', also computes spectral acceleration, S_{a}. PGA, PGV, S_{a}, and waveforms are forwarded immediately by HomeBase() for ShakeMap generation and other uses. Shaking metrics from the prototypes in Oakland are consistently among the first to arrive for the northern California ShakeMap. For telemetry we use a low-cost always

  12. OBSERVATION OF STRONG - STRONG AND OTHER BEAM - BEAM EFFECTS IN RHIC.

    SciTech Connect

    Fischer, W; Brennan, J M; Cameron, P; Connolly, R; Montag, C; Peggs, S; Pilat, F; Ptitsyn, V; Tepikian, S; Trbojevic, D; Van Zeijts, J

    2003-05-12

    RHIC is currently the only hadron collider in which strong-strong beam-beam effects can be seen. For the first time, coherent beam-beam modes were observed in a bunched beam hadron collider. Other beam-beam effects in RHIC were observed in operation and in dedicated experiments with gold ions, deuterons and protons. Observations include measurements of beam-beam induced tune shifts, lifetime and emittance growth measurements with and without beam-beam interaction, and background rates as a function of tunes. During ramps unequal radio frequencies in the two rings cause the crossing points to move longitudinally. Thus bunches experience beam-beam interactions only in intervals and the tunes are modulated. In this article we summarize the most important beam-beam observations made so far.

  13. Parallel Simulation Algorithms for the Three Dimensional Strong-Strong Beam-Beam Interaction

    SciTech Connect

    Kabel, A.C.; /SLAC

    2008-03-17

    The strong-strong beam-beam effect is one of the most important effects limiting the luminosity of ring colliders. Little is known about it analytically, so most studies utilize numeric simulations. The two-dimensional realm is readily accessible to workstation-class computers (cf.,e.g.,[1, 2]), while three dimensions, which add effects such as phase averaging and the hourglass effect, require vastly higher amounts of CPU time. Thus, parallelization of three-dimensional simulation techniques is imperative; in the following we discuss parallelization strategies and describe the algorithms used in our simulation code, which will reach almost linear scaling of performance vs. number of CPUs for typical setups.

  14. Inhomogeneities in a strongly correlated d-wave superconductors in the limit of strong disorder

    NASA Astrophysics Data System (ADS)

    Chakraborty, Debmalya; Sensarma, Rajdeep; Ghosal, Amit

    2015-03-01

    The complex interplay of the strong correlations and impurities in a high temperature superconductor is analyzed within a Hartree-Fock-Bogoliubov theory, augmented with Gutzwiller approximation for taking care of the strong electronic repulsion. The inclusion of such correlations is found to play a crucial role in reducing inhomogeneities in both qualitative and quantitative manner. This difference is comprehended by investigating the underlying one-particle ``normal states'' that includes the order parameters in the Hartree and Fock channels in the absence of superconductivity. This amounts to the renormalization of disorder both on the lattice sites and also on links. These two components of disorder turn out to be spatially anti-correlated through self-consistency. Interestingly, a simple pairing theory in terms of these normal states is found to describe the complex behaviors of dirty cuprates with reasonable accuracy. However, this framework needs modifications in the limit where disorder strengths are comparable to the band width. We will discuss appropriate updates in the formalism to describe physics of inhomogeneities with strong disorder.

  15. Improving experimental phases for strong reflections prior to density modification

    SciTech Connect

    Uervirojnangkoorn, Monarin; Hilgenfeld, Rolf; Terwilliger, Thomas C.; Read, Randy J.

    2013-09-20

    Experimental phasing of diffraction data from macromolecular crystals involves deriving phase probability distributions. These distributions are often bimodal, making their weighted average, the centroid phase, improbable, so that electron-density maps computed using centroid phases are often non-interpretable. Density modification brings in information about the characteristics of electron density in protein crystals. In successful cases, this allows a choice between the modes in the phase probability distributions, and the maps can cross the borderline between non-interpretable and interpretable. Based on the suggestions by Vekhter [Vekhter (2005), Acta Cryst. D61, 899–902], the impact of identifying optimized phases for a small number of strong reflections prior to the density-modification process was investigated while using the centroid phase as a starting point for the remaining reflections. A genetic algorithm was developed that optimizes the quality of such phases using the skewness of the density map as a target function. Phases optimized in this way are then used in density modification. In most of the tests, the resulting maps were of higher quality than maps generated from the original centroid phases. In one of the test cases, the new method sufficiently improved a marginal set of experimental SAD phases to enable successful map interpretation. Lastly, a computer program,SISA, has been developed to apply this method for phase improvement in macromolecular crystallography.

  16. Improving experimental phases for strong reflections prior to density modification

    DOE PAGES

    Uervirojnangkoorn, Monarin; Hilgenfeld, Rolf; Terwilliger, Thomas C.; Read, Randy J.

    2013-09-20

    Experimental phasing of diffraction data from macromolecular crystals involves deriving phase probability distributions. These distributions are often bimodal, making their weighted average, the centroid phase, improbable, so that electron-density maps computed using centroid phases are often non-interpretable. Density modification brings in information about the characteristics of electron density in protein crystals. In successful cases, this allows a choice between the modes in the phase probability distributions, and the maps can cross the borderline between non-interpretable and interpretable. Based on the suggestions by Vekhter [Vekhter (2005), Acta Cryst. D61, 899–902], the impact of identifying optimized phases for a small number ofmore » strong reflections prior to the density-modification process was investigated while using the centroid phase as a starting point for the remaining reflections. A genetic algorithm was developed that optimizes the quality of such phases using the skewness of the density map as a target function. Phases optimized in this way are then used in density modification. In most of the tests, the resulting maps were of higher quality than maps generated from the original centroid phases. In one of the test cases, the new method sufficiently improved a marginal set of experimental SAD phases to enable successful map interpretation. Lastly, a computer program,SISA, has been developed to apply this method for phase improvement in macromolecular crystallography.« less

  17. Correlated Fluctuations in Strongly Coupled Binary Networks Beyond Equilibrium

    NASA Astrophysics Data System (ADS)

    Dahmen, David; Bos, Hannah; Helias, Moritz

    2016-07-01

    Randomly coupled Ising spins constitute the classical model of collective phenomena in disordered systems, with applications covering glassy magnetism and frustration, combinatorial optimization, protein folding, stock market dynamics, and social dynamics. The phase diagram of these systems is obtained in the thermodynamic limit by averaging over the quenched randomness of the couplings. However, many applications require the statistics of activity for a single realization of the possibly asymmetric couplings in finite-sized networks. Examples include reconstruction of couplings from the observed dynamics, representation of probability distributions for sampling-based inference, and learning in the central nervous system based on the dynamic and correlation-dependent modification of synaptic connections. The systematic cumulant expansion for kinetic binary (Ising) threshold units with strong, random, and asymmetric couplings presented here goes beyond mean-field theory and is applicable outside thermodynamic equilibrium; a system of approximate nonlinear equations predicts average activities and pairwise covariances in quantitative agreement with full simulations down to hundreds of units. The linearized theory yields an expansion of the correlation and response functions in collective eigenmodes, leads to an efficient algorithm solving the inverse problem, and shows that correlations are invariant under scaling of the interaction strengths.

  18. Strong Seasonality and Interannual Recurrence in Marine Myovirus Communities

    PubMed Central

    Chow, C.-E. T.; Johannessen, T.; Fuhrman, J. A.; Thingstad, T. F.; Sandaa, R. A.

    2013-01-01

    The temporal community dynamics and persistence of different viral types in the marine environment are still mostly obscure. Polymorphism of the major capsid protein gene, g23, was used to investigate the community composition dynamics of T4-like myoviruses in a North Atlantic fjord for a period of 2 years. A total of 160 unique operational taxonomic units (OTUs) were identified by terminal restriction fragment length polymorphism (TRFLP) of the gene g23. Three major community profiles were identified (winter-spring, summer, and autumn), which resulted in a clear seasonal succession pattern. These seasonal transitions were recurrent over the 2 years and significantly correlated with progression of seawater temperature, Synechococcus abundance, and turbidity. The appearance of the autumn viral communities was concomitant with the occurrence of prominent Synechococcus blooms. As a whole, we found a highly dynamic T4-like viral community with strong seasonality and recurrence patterns. These communities were unexpectedly dominated by a group of persistently abundant viruses. PMID:23913432

  19. SARCS strong-lensing galaxy groups. II. Mass-concentration relation and strong-lensing bias

    NASA Astrophysics Data System (ADS)

    Foëx, G.; Motta, V.; Jullo, E.; Limousin, M.; Verdugo, T.

    2014-12-01

    Aims: Various studies have shown a lensing bias in the mass-concentration relation of cluster-scale structures that is the result of an alignment of the major axis and the line of sight. In this paper, we aim to study this lensing bias through the mass-concentration relation of galaxy groups, thus extending observational constraints to dark matter haloes of mass ~1013-1014 M⊙. Methods: Our work is based on the stacked weak-lensing analysis of a sample of 80 strong-lensing galaxy groups. By combining several lenses, we significantly increase the signal-to-noise ratio of the lensing signal, thus providing constraints on the mass profile that cannot be obtained for individual objects. The resulting shear profiles were fitted with various mass models, among them the Navarro-Frank-White (NFW) profile, which provides an estimate of the total mass and of the concentration of the composite galaxy groups. Results: The main results of our analysis are the following: (i) the lensing signal does not allow us to firmly distinguish between a simple singular isothermal sphere mass distribution and the expected NFW mass profile; (ii) we obtain an average concentration c200 = 8.6-1.3+2.1 that is much higher than the value expected from numerical simulations for the corresponding average mass M200 = 0.73-0.10+0.11 × 1014 M⊙; (iii) the combination of our results with those at larger mass scales gives a mass-concentration relation c(M) of more than two decades in mass, whose slope disagrees with predictions from numerical simulations using unbiased populations of dark matter haloes; (iv) our combined c(M) relation matches results from simulations that only used haloes with a large strong-lensing cross-section, that is, elongated with a major axis close to the line of sight; (v) for the simplest case of prolate haloes, we estimate a lower limit on the minor-to-major axis ratio a/c = 0.5 for the average SARCS galaxy group with a toy model. Conclusions: Our analysis based on galaxy

  20. Protein targeting to yeast peroxisomes.

    PubMed

    van der Klei, Ida; Veenhuis, Marten

    2007-01-01

    Peroxisomes are important organelles of eukaryote cells. Although these structures are of relatively small size, they display an unprecedented functional versatility. The principles of their biogenesis and function are strongly conserved from very simple eukaryotes to humans. Peroxisome-borne proteins are synthesized in the cytosol and posttranslationally incorporated into the organelle. The protein-sorting signal for matrix proteins, peroxisomal targeting signal (PTS), and for membrane proteins (mPTS), are also conserved. Several genes involved in peroxisomal matrix protein import have been identified (PEX genes), but the details of the molecular mechanisms of this translocation process are still unclear. Here we describe procedures to study the subcellular location of peroxisomal matrix and membrane proteins in yeast and fungi. Emphasis is placed on protocols developed for the methylotrophic yeast Hansenula polymorpha, but very similar protocols can be applied for other yeast species and filamentous fungi. The described methods include cell fractionation procedures and subcellular localization studies using fluorescence microscopy and immunolabeling techniques.

  1. Binding constants of membrane-anchored receptors and ligands depend strongly on the nanoscale roughness of membranes.

    PubMed

    Hu, Jinglei; Lipowsky, Reinhard; Weikl, Thomas R

    2013-09-17

    Cell adhesion and the adhesion of vesicles to the membranes of cells or organelles are pivotal for immune responses, tissue formation, and cell signaling. The adhesion processes depend sensitively on the binding constant of the membrane-anchored receptor and ligand proteins that mediate adhesion, but this constant is difficult to measure in experiments. We have investigated the binding of membrane-anchored receptor and ligand proteins with molecular dynamics simulations. We find that the binding constant of the anchored proteins strongly decreases with the membrane roughness caused by thermally excited membrane shape fluctuations on nanoscales. We present a theory that explains the roughness dependence of the binding constant for the anchored proteins from membrane confinement and that relates this constant to the binding constant of soluble proteins without membrane anchors. Because the binding constant of soluble proteins is readily accessible in experiments, our results provide a useful route to compute the binding constant of membrane-anchored receptor and ligand proteins.

  2. Cantharidin, a protein phosphatase inhibitor, strongly upregulates detoxification enzymes in the Arabidopsis proteome

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cantharidin is a potent natural herbicide. This work was conducted to probe its mode of action. We previously published its effect on transcription of plant genes (mRNA production) with transcriptomic methods. This paper follows up and looks at cantharidin effects translation of mRNA using proteom...

  3. Strong-field approximation for ionization of a diatomic molecule by a strong laser field

    SciTech Connect

    Milosevic, D. B.

    2006-12-15

    We present a theory of ionization of diatomic molecules by a strong laser field. A diatomic molecule is considered as a three-particle system, which consists of two heavy atomic (ionic) centers and an electron. After the separation of the center-of-mass coordinate, the dynamics of this system is reduced to the relative electronic and nuclear coordinates. The exact S-matrix element for ionization is presented in a form in which the laser-molecule interaction is emphasized. This form is useful for application of the molecular strong-field approximation (SFA). We introduced two forms of the molecular SFA, one with the field-free and the other with the field-dressed initial molecular bound state. We relate these two forms of our modified molecular SFA to the standard molecular SFAs, introduced previously using the length gauge and the velocity gauge. Numerical examples of the ionization rates of N{sub 2} and O{sub 2} molecules are shown and compared for all four versions of the molecular SFA and we suggest that our modified molecular SFA should be used instead of the standard molecular SFA.

  4. Transport proteins.

    PubMed

    Thatcher, Jack D

    2013-04-16

    This Teaching Resource provides and describes two animated lessons that illustrate general properties of transport proteins. The lesson called "transport protein classes" depicts major classes and subclasses of transport proteins. The "transporters, mechanism of action" lesson explains how transporters and P class ATPase (adenosine triphosphatase) pumps function. These animations serve as valuable resources for any collegiate-level course that describes these important factors. Courses that might use them include introductory biology, biochemistry, cell biology, physiology, and biophysics.

  5. Proteins wriggle.

    PubMed Central

    Cahill, Michael; Cahill, Sean; Cahill, Kevin

    2002-01-01

    We propose an algorithmic strategy for improving the efficiency of Monte Carlo searches for the low-energy states of proteins. Our strategy is motivated by a model of how proteins alter their shapes. In our model, when proteins fold under physiological conditions, their backbone dihedral angles change synchronously in groups of four or more to avoid steric clashes and respect the kinematic conservation laws. They wriggle; they do not thrash. We describe a simple algorithm that can be used to incorporate wriggling in Monte Carlo simulations of protein folding. We have tested this wriggling algorithm against a code in which the dihedral angles are varied independently (thrashing). Our standard of success is the average root-mean-square distance (rmsd) between the alpha-carbons of the folding protein and those of its native structure. After 100,000 Monte Carlo sweeps, the relative decrease in the mean rmsd, as one switches from thrashing to wriggling, rises from 11% for the protein 3LZM with 164 amino acids (aa) to 40% for the protein 1A1S with 313 aa and 47% for the protein 16PK with 415 aa. These results suggest that wriggling is useful and that its utility increases with the size of the protein. One may implement wriggling on a parallel computer or a computer farm. PMID:11964253

  6. On strongly GA-convex functions and stochastic processes

    SciTech Connect

    Bekar, Nurgül Okur; Akdemir, Hande Günay; İşcan, İmdat

    2014-08-20

    In this study, we introduce strongly GA-convex functions and stochastic processes. We provide related well-known Kuhn type results and Hermite-Hadamard type inequality for strongly GA-convex functions and stochastic processes.

  7. Is Peroxiredoxin II's peroxidase activity strongly inhibited in human erythrocytes?

    PubMed

    Benfeitas, Rui; Selvaggio, Gianluca; Antunes, Fernando; Coelho, Pedro; Salvador, Armindo

    2014-10-01

    H2O2 elimination in human erythrocytes is mainly carried out by catalase (Cat), glutathione peroxidase (GPx1) and the more recently discovered peroxiredoxin 2 (Prx2). However, the contribution of Prx2 to H2O2 consumption is still unclear. Prx2's high reactivity with H2O2 (kPrx2=10×10(7) M(-1)s(-1), kCat =7×10(7) M(-1)s(-1), kGPx1 =4×10(7) M(-1)s(-1)) and high abundance ([Prx2]= 570µM, [Cat]= 32µM, [GPx1]= 1µM) suggest that under low H2O2 supply rates it should consume >99% of the H2O2. However, extensive evidence indicates that in intact erythrocytes Prx2 contributes no more than Cat to H2O2 consumption. In order for this to be attained, Prx2's effective rate constant with H2O2would have to be just ~10(5) M(-1)s(-1), much lower than that determined in multiple experiments with the purified proteins. Nevertheless, nearly all Prx2 is oxidized within 1min of exposing erythrocytes to a H2O2 bolus, which is inconsistent with an irreversible inhibition. A mathematical model of the H2O2 metabolism in human erythrocytes [Benfeitas et al. (2014) Free Radic. Biol. Med.] where Prx2 either has a low kPrx2 or is subject to a strong (>99%) but readily reversible inhibition achieves quantitative agreement with detailed experimental observations of the responses of the redox status of Prx2 in human erythrocytes and suggests functional advantages of this design (see companion abstract). By contrast, a variant where Prx2 is fully active with kPrx2=10(8) M(-1)s(-1) shows important qualitative discrepancies. Altogether, these results suggest that Prx2's peroxidase activity is strongly inhibited in human erythrocytes. We acknowledge fellowship SFRH/BD/51199/2010, grants PEst-C/SAU/LA0001/2013-2014, PEst-OE/QUI/UI0612/2013, PEst-OE/QUI/UI0313/2014, and FCOMP-01-0124-FEDER-020978 (PTDC/QUI-BIQ/119657/2010) co-financed by FEDER through the COMPETE program and by FCT.

  8. Protein enriched pasta: structure and digestibility of its protein network.

    PubMed

    Laleg, Karima; Barron, Cécile; Santé-Lhoutellier, Véronique; Walrand, Stéphane; Micard, Valérie

    2016-02-01

    Wheat (W) pasta was enriched in 6% gluten (G), 35% faba (F) or 5% egg (E) to increase its protein content (13% to 17%). The impact of the enrichment on the multiscale structure of the pasta and on in vitro protein digestibility was studied. Increasing the protein content (W- vs. G-pasta) strengthened pasta structure at molecular and macroscopic scales but reduced its protein digestibility by 3% by forming a higher covalently linked protein network. Greater changes in the macroscopic and molecular structure of the pasta were obtained by varying the nature of protein used for enrichment. Proteins in G- and E-pasta were highly covalently linked (28-32%) resulting in a strong pasta structure. Conversely, F-protein (98% SDS-soluble) altered the pasta structure by diluting gluten and formed a weak protein network (18% covalent link). As a result, protein digestibility in F-pasta was significantly higher (46%) than in E- (44%) and G-pasta (39%). The effect of low (55 °C, LT) vs. very high temperature (90 °C, VHT) drying on the protein network structure and digestibility was shown to cause greater molecular changes than pasta formulation. Whatever the pasta, a general strengthening of its structure, a 33% to 47% increase in covalently linked proteins and a higher β-sheet structure were observed. However, these structural differences were evened out after the pasta was cooked, resulting in identical protein digestibility in LT and VHT pasta. Even after VHT drying, F-pasta had the best amino acid profile with the highest protein digestibility, proof of its nutritional interest.

  9. Protein enriched pasta: structure and digestibility of its protein network.

    PubMed

    Laleg, Karima; Barron, Cécile; Santé-Lhoutellier, Véronique; Walrand, Stéphane; Micard, Valérie

    2016-02-01

    Wheat (W) pasta was enriched in 6% gluten (G), 35% faba (F) or 5% egg (E) to increase its protein content (13% to 17%). The impact of the enrichment on the multiscale structure of the pasta and on in vitro protein digestibility was studied. Increasing the protein content (W- vs. G-pasta) strengthened pasta structure at molecular and macroscopic scales but reduced its protein digestibility by 3% by forming a higher covalently linked protein network. Greater changes in the macroscopic and molecular structure of the pasta were obtained by varying the nature of protein used for enrichment. Proteins in G- and E-pasta were highly covalently linked (28-32%) resulting in a strong pasta structure. Conversely, F-protein (98% SDS-soluble) altered the pasta structure by diluting gluten and formed a weak protein network (18% covalent link). As a result, protein digestibility in F-pasta was significantly higher (46%) than in E- (44%) and G-pasta (39%). The effect of low (55 °C, LT) vs. very high temperature (90 °C, VHT) drying on the protein network structure and digestibility was shown to cause greater molecular changes than pasta formulation. Whatever the pasta, a general strengthening of its structure, a 33% to 47% increase in covalently linked proteins and a higher β-sheet structure were observed. However, these structural differences were evened out after the pasta was cooked, resulting in identical protein digestibility in LT and VHT pasta. Even after VHT drying, F-pasta had the best amino acid profile with the highest protein digestibility, proof of its nutritional interest. PMID:26829164

  10. Flow behavior of mixed-protein incipient gels

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Strong protein gel networks may result from synergistic interactions with other proteins or food materials above that achievable with a single protein alone. We determined varying flow and viscoelastic behavior of calcium caseinate (CC) or whey protein isolate (WPI) mixed with egg albumin (EA), fish...

  11. Thermodynamic effects of the hydrophobic surfactant proteins on the early adsorption of pulmonary surfactant.

    PubMed

    Schram, V; Hall, S B

    2001-09-01

    We determined the influence of the two hydrophobic proteins, SP-B and SP-C, on the thermodynamic barriers that limit adsorption of pulmonary surfactant to the air-water interface. We compared the temperature and concentration dependence of adsorption, measured by monitoring surface tension, between calf lung surfactant extract (CLSE) and the complete set of neutral and phospholipids (N&PL) without the proteins. Three stages generally characterized the various adsorption isotherms: an initial delay during which surface tension remained constant, a fall in surface tension at decreasing rates, and, for experiments that reached approximately 40 mN/m, a late acceleration of the fall in surface tension to approximately 25 mN/m. For the initial change in surface tension, the surfactant proteins accelerated adsorption for CLSE relative to N&PL by more than ten-fold, reducing the Gibbs free energy of transition (DeltaG(O)) from 119 to 112 kJ/mole. For the lipids alone in N&PL, the enthalpy of transition (DeltaH(O), 54 kJ/mole) and entropy (-T. DeltaS, 65 kJ/mole at 37 degrees C) made roughly equal contributions to DeltaG(O). The proteins in CLSE had little effect on -T. DeltaS(O) (68 kJ/mole), but lowered DeltaG(O) for CLSE by reducing DeltaH(O) (44 kJ/mole). Models of the detailed mechanisms by which the proteins facilitate adsorption must meet these thermodynamic constraints.

  12. PPE Antigen Rv2430c of Mycobacterium tuberculosis Induces a Strong B-Cell Response

    PubMed Central

    Choudhary, Rakesh Kumar; Mukhopadhyay, Sangita; Chakhaiyar, Prachee; Sharma, Naresh; Murthy, K. J. R.; Katoch, V. M.; Hasnain, Seyed E.

    2003-01-01

    The variation in sequence and length in the C-terminal region among members of the unique PE (Pro-Glu) and PPE (Pro-Pro-Glu) protein families of Mycobacterium tuberculosis is a likely source of antigenic variation, giving rise to the speculation that these protein families could be immunologically important. Based on in silico analysis, we selected a hypothetical open reading frame (ORF) encoding a protein belonging to the PPE family and having epitopes with predictably higher antigenic indexes. Reverse transcriptase PCR using total RNA extracted from in vitro-cultured M. tuberculosis H37Rv generated an mRNA product corresponding to this gene, indicating the expression of this ORF (Rv2430c) at the mRNA level. Recombinant protein expressed in Escherichia coli was used to screen the sera of M. tuberculosis-infected patients, as well as those of clinically healthy controls (n = 10), by enzyme-linked immunosorbent assay. The panel of patient sera comprised sera from fresh infection cases (category 1; n = 32), patients with relapsed tuberculosis (category 2; n = 30), and extrapulmonary cases (category 3; n = 30). Category 2 and 3 sera had strong antibody responses to the PPE antigen, equal to or higher than those to other well-known antigens, such as Hsp10 or purified protein derivative (PPD). However, a higher percentage of patients belonging to category 1, as opposed to clinically healthy controls, showed stronger antibody response against the PPE protein when probed with anti-immunoglobulin M (IgM) (71 versus 37.5%) or anti-IgG (62.5 versus 28.12%). Our results reveal that this PPE ORF induces a strong B-cell response compared to that generated by M. tuberculosis Hsp10 or PPD, pointing to the immunodominant nature of the protein. PMID:14573653

  13. Ultrasensitivity of Cell Adhesion to the Presence of Mechanically Strong Ligands

    NASA Astrophysics Data System (ADS)

    Roein-Peikar, Mehdi; Xu, Qian; Wang, Xuefeng; Ha, Taekjip

    2016-01-01

    Integrins, a class of membrane proteins involved in cell adhesion, participate in the cell's sensing of the mechanical environments. We previously showed that, for the initial cell adhesion to occur, single integrins need to experience a threshold force of 40 pico-Newton (pN) through their bond with surface-bound ligands. This force requirement was determined using a series of double-stranded DNA tethers called tension gauge tethers (TGTs), each with a different rupture force, linked to the ligand. Here, we performed cell-adhesion experiments using surfaces coated with two different TGTs, one of a strong rupture force (around 54 pN) and the other of a weak rupture force (around 12 pN). When presented with one type of TGT only, cells adhered to the strong TGT-coated surface but not to the weak TGT-coated surface. However, when presented with both, the presence of the strong TGTs transforms the way cells respond to the weak TGTs such that cells treat both TGTs the same, as if the weak TGTs were strong. Furthermore, a subpopulation of cells can adhere to and spread on a surface displaying just a few molecules of the strong TGTs per cell if, and only if, they are presented along with many weak TGTs. This ultrasensitivity to just a few tethers that can withstand strong forces raises a question of how the cells can achieve such remarkable sensitivity to their mechanical environment without amplifying noise.

  14. Comparison of DPPC and DPPG environments in pulmonary surfactant models.

    PubMed

    Morrow, Michael R; Temple, Sara; Stewart, June; Keough, Kevin M W

    2007-07-01

    Deuterium nuclear magnetic resonance was used to monitor lipid acyl-chain orientational order in suspensions of dipalmitoylphosphatidylcholine (DPPC) and dipalmitoylphosphatidylglycerol (DPPG) containing Ca(2+) and the lung surfactant proteins SP-A and SP-B separately and together. To distinguish between protein-lipid interactions involving the PC and PG lipid headgroups and to examine whether such interactions might influence spatial distribution of lipids within the bilayer, acyl chains on either the DPPC or the DPPG component of the mixture were deuterated. The lipid components of the resulting mixtures were thus either DPPC-d(62)/DPPG (7:3) or DPPC/DPPG-d(62) (7:3), respectively. SP-A had little effect on DPPC-d(62) chain order but did narrow the temperature range over which DPPG-d(62) ordered at the liquid-crystal-to-gel transition. No segregation of lipid components was seen for temperatures above or below the transition. Near the transition, though, there was evidence that SP-A promoted preferential depletion of DPPG from liquid crystalline domains in the temperature range over which gel and liquid crystal domains coexist. SP-B lowered average chain order of both lipids both above and below the main transition. The perturbations of chain order by SP-A and SP-B together were smaller than by SP-B alone. This reduction in perturbation of the lipids by the additional presence of SP-A likely indicated a strong interaction between SP-A and SP-B. The competitive lipid-lipid, lipid-protein, and protein-protein interactions suggested by these observations presumably facilitate the reorganization of surfactant material inherent in the transformation from lamellar bodies to a functional surfactant layer.

  15. Improving experimental phases for strong reflections prior to density modification

    SciTech Connect

    Uervirojnangkoorn, Monarin; Hilgenfeld, Rolf; Terwilliger, Thomas C.; Read, Randy J.

    2013-10-01

    A genetic algorithm has been developed to optimize the phases of the strongest reflections in SIR/SAD data. This is shown to facilitate density modification and model building in several test cases. Experimental phasing of diffraction data from macromolecular crystals involves deriving phase probability distributions. These distributions are often bimodal, making their weighted average, the centroid phase, improbable, so that electron-density maps computed using centroid phases are often non-interpretable. Density modification brings in information about the characteristics of electron density in protein crystals. In successful cases, this allows a choice between the modes in the phase probability distributions, and the maps can cross the borderline between non-interpretable and interpretable. Based on the suggestions by Vekhter [Vekhter (2005 ▶), Acta Cryst. D61, 899–902], the impact of identifying optimized phases for a small number of strong reflections prior to the density-modification process was investigated while using the centroid phase as a starting point for the remaining reflections. A genetic algorithm was developed that optimizes the quality of such phases using the skewness of the density map as a target function. Phases optimized in this way are then used in density modification. In most of the tests, the resulting maps were of higher quality than maps generated from the original centroid phases. In one of the test cases, the new method sufficiently improved a marginal set of experimental SAD phases to enable successful map interpretation. A computer program, SISA, has been developed to apply this method for phase improvement in macromolecular crystallography.

  16. Protein Adsorption in Three Dimensions

    PubMed Central

    Vogler, Erwin A.

    2011-01-01

    initially-adsorbed protein. Interphase protein concentration CI increases as VI decreases, resulting in slow reduction in interfacial energetics. Steady-state is governed by a net partition coefficient P=(/CBCI). In the process of occupying space within the interphase, adsorbing protein molecules must displace an equivalent volume of interphase water. Interphase water is itself associated with surface-bound water through a network of transient hydrogen bonds. Displacement of interphase water thus requires an amount of energy that depends on the adsorbent surface chemistry/energy. This “adsorption-dehydration” step is the significant free-energy cost of adsorption that controls the maximum amount of protein that can be adsorbed at steady state to a unit adsorbent-surface area (the adsorbent capacity). As adsorbent hydrophilicity increases, protein adsorption monotonically decreases because the energetic cost of surface dehydration increases, ultimately leading to no protein adsorption near an adsorbent water wettability (surface energy) characterized by a water contact angle θ → 65°. Consequently, protein does not adsorb (accumulate at interphase concentrations greater than bulk solution) to more hydrophilic adsorbents exhibiting θ < 65° . For adsorbents bearing strong Lewis acid/base chemistry such as ion-exchange resins, protein/surface interactions can be highly favorable, causing protein to adsorb in multilayers in a relatively thick interphase. A straightforward, three-component free energy relationship captures salient features of protein adsorption to all surfaces predicting that the overall free energy of protein adsorption ΔGadso is a relatively small multiple of thermal energy for any surface chemistry (except perhaps for bioengineered surfaces bearing specific ligands for adsorbing protein) because a surface chemistry that interacts chemically with proteins must also interact with water through hydrogen bonding. In this way, water moderates protein

  17. A strong candidate for the breast and ovarian cancer susceptibility gene BRCA1

    SciTech Connect

    Miki, Y.; Swenson, J.; Yakumo, K.; Lewis, C.; Neuhausen, S.; Goldgar, D.; Shattuck-Eidens, D.; Harshman, K.; Tavtigian, S.; Liu, Q.

    1994-10-07

    A strong candidate for the 17q-linked BRCA1 gene, which influences susceptibility to breast and ovarian cancer, has been identified by positional cloning methods. Probable predisposing mutations have been detected in five of eight kindreds presumed to segregate BRCA1 susceptibility alleles. The mutations include an 11-base pair deletion, a 1-base pair insertion, a stop codon, a missense substitution, and an inferred regulatory mutation. The BRCA1 gene is expressed in numerous tissues, including breast and ovary, and encodes a predicted protein of 1863 amino acids. This protein contains a zinc finger domain in its amino-terminal region, but is otherwise unrelated to previously described proteins. Identification of BRCA1 should facilitate early diagnosis of breast and ovarian cancer susceptibility in some individuals as well as a better understanding of breast cancer biology.

  18. VAMP/synaptobrevin cleavage by tetanus and botulinum neurotoxins is strongly enhanced by acidic liposomes.

    PubMed

    Caccin, Paola; Rossetto, Ornella; Rigoni, Michela; Johnson, Eric; Schiavo, Giampietro; Montecucco, Cesare

    2003-05-01

    Tetanus and botulinum neurotoxins (TeNT and BoNTs) block neuroexocytosis via specific cleavage and inactivation of SNARE proteins. Such activity is exerted by the N-terminal 50 kDa light chain (L) domain, which is a zinc-dependent endopeptidase. TeNT, BoNT/B, /D, /F and /G cleave vesicle associated membrane protein (VAMP), a protein of the neurotransmitter-containing small synaptic vesicles, at different single peptide bonds. Since the proteolytic activity of these metalloproteases is higher on native VAMP inserted in synaptic vesicles than on recombinant VAMP, we have investigated the influence of liposomes of different lipid composition on this activity. We found that the rate of VAMP cleavage with all neurotoxins tested here is strongly enhanced by negatively charged lipid mixtures. This effect is at least partially due to the binding of the metalloprotease to the lipid membranes, with electrostatic interactions playing an important role.

  19. Acid-base assessment: when and how to apply the Henderson-Hasselbalch equation and strong ion difference theory.

    PubMed

    Constable, Peter D

    2014-07-01

    The Henderson-Hasselbalch equation is probably the most famous equation in biology but is more descriptive than mechanistic. The traditional approach to acid-base assessment using the Henderson-Hasselbalch equation provides a clinically useful and accurate method when plasma protein concentrations are within the reference range. The simplified strong ion approach is a mechanistic acid-base model that can provide new insight into complicated acid-base disturbances. The simplified strong ion approach should be used to evaluate acid-base balance whenever plasma protein concentrations are abnormal.

  20. Protein leverage and energy intake.

    PubMed

    Gosby, A K; Conigrave, A D; Raubenheimer, D; Simpson, S J

    2014-03-01

    Increased energy intakes are contributing to overweight and obesity. Growing evidence supports the role of protein appetite in driving excess intake when dietary protein is diluted (the protein leverage hypothesis). Understanding the interactions between dietary macronutrient balance and nutrient-specific appetite systems will be required for designing dietary interventions that work with, rather than against, basic regulatory physiology. Data were collected from 38 published experimental trials measuring ad libitum intake in subjects confined to menus differing in macronutrient composition. Collectively, these trials encompassed considerable variation in percent protein (spanning 8-54% of total energy), carbohydrate (1.6-72%) and fat (11-66%). The data provide an opportunity to describe the individual and interactive effects of dietary protein, carbohydrate and fat on the control of total energy intake. Percent dietary protein was negatively associated with total energy intake (F = 6.9, P < 0.0001) irrespective of whether carbohydrate (F = 0, P = 0.7) or fat (F = 0, P = 0.5) were the diluents of protein. The analysis strongly supports a role for protein leverage in lean, overweight and obese humans. A better appreciation of the targets and regulatory priorities for protein, carbohydrate and fat intake will inform the design of effective and health-promoting weight loss diets, food labelling policies, food production systems and regulatory frameworks.

  1. Conversion of high and low pollen protein diets into protein in worker honey bees (Hymenoptera: Apidae).

    PubMed

    Basualdo, M; Barragán, S; Vanagas, L; García, C; Solana, H; Rodríguez, E; Bedascarrasbure, E

    2013-08-01

    Adequate protein levels are necessary to maintain strong honey bee [Apis mellifera (L.)] colonies. The aim of this study was to quantify how pollens with different crude protein contents influence protein stores within individual honey bees. Caged bees were fed one of three diets, consisting of high-protein-content pollen, low-protein-content pollen, or protein-free diet as control; measurements were made based on protein content in hemolymph and fat body, fat body weight, and body weight. Vitellogenin in hemolymph was also measured. Bees fed with high crude protein diet had significantly higher levels of protein in hemolymph and fat bodies. Caged bees did not increase pollen consumption to compensate for the lower protein in the diet, and ingesting approximately 4 mg of protein per bee could achieve levels of 20 microg/microl protein in hemolymph. Worker bees fed with low crude protein diet took more time in reaching similar protein content of the bees that were fed with high crude protein diet. The data showed that fat bodies and body weight were not efficient methods of measuring the protein status of bees. The determination of total protein or vitellogenin concentration in the hemolymph from 13-d-old bees and protein concentration of fat bodies from 9-d-old bees could be good indicators of nutritional status of honey bees. PMID:24020265

  2. Conversion of high and low pollen protein diets into protein in worker honey bees (Hymenoptera: Apidae).

    PubMed

    Basualdo, M; Barragán, S; Vanagas, L; García, C; Solana, H; Rodríguez, E; Bedascarrasbure, E

    2013-08-01

    Adequate protein levels are necessary to maintain strong honey bee [Apis mellifera (L.)] colonies. The aim of this study was to quantify how pollens with different crude protein contents influence protein stores within individual honey bees. Caged bees were fed one of three diets, consisting of high-protein-content pollen, low-protein-content pollen, or protein-free diet as control; measurements were made based on protein content in hemolymph and fat body, fat body weight, and body weight. Vitellogenin in hemolymph was also measured. Bees fed with high crude protein diet had significantly higher levels of protein in hemolymph and fat bodies. Caged bees did not increase pollen consumption to compensate for the lower protein in the diet, and ingesting approximately 4 mg of protein per bee could achieve levels of 20 microg/microl protein in hemolymph. Worker bees fed with low crude protein diet took more time in reaching similar protein content of the bees that were fed with high crude protein diet. The data showed that fat bodies and body weight were not efficient methods of measuring the protein status of bees. The determination of total protein or vitellogenin concentration in the hemolymph from 13-d-old bees and protein concentration of fat bodies from 9-d-old bees could be good indicators of nutritional status of honey bees.

  3. Sucralose Destabilization of Protein Structure.

    PubMed

    Chen, Lee; Shukla, Nimesh; Cho, Inha; Cohn, Erin; Taylor, Erika A; Othon, Christina M

    2015-04-16

    Sucralose is a commonly employed artificial sweetener that behaves very differently than its natural disaccharide counterpart, sucrose, in terms of its interaction with biomolecules. The presence of sucralose in solution is found to destabilize the native structure of two model protein systems: the globular protein bovine serum albumin and an enzyme staphylococcal nuclease. The melting temperature of these proteins decreases as a linear function of sucralose concentration. We correlate this destabilization to the increased polarity of the molecule. The strongly polar nature is manifested as a large dielectric friction exerted on the excited-state rotational diffusion of tryptophan using time-resolved fluorescence anisotropy. Tryptophan exhibits rotational diffusion proportional to the measured bulk viscosity for sucrose solutions over a wide range of concentrations, consistent with a Stokes-Einstein model. For sucralose solutions, however, the diffusion is dependent on the concentration, strongly diverging from the viscosity predictions, and results in heterogeneous rotational diffusion. PMID:26263149

  4. Light steering in a strongly nonlocal nonlinear medium

    SciTech Connect

    Ouyang Shigen; Hu Wei; Guo Qi

    2007-11-15

    With a strongly nonlocal model, we present an analytical solution of the coherent interaction of two Gaussian beams with an arbitrary phase difference and arbitrary incident angles. Numerical simulations show that the analytical solution can describe the interaction of two Gaussian beams very well in the strongly nonlocal case. It is theoretically shown that one can steer lights in strongly nonlocal media by tuning the incident conditions of coherently interacting beams like the phase difference between beams and their relative amplitude.

  5. Review fifteen years of search for strong nucleosomes.

    PubMed

    Trifonov, Edward N; Nibhani, Reshma

    2015-08-01

    Don Crothers, Mikael Kubista, Jon Widom, and their teams have been first to look for strong nucleosomes, in a bid to reveal the nucleosome positioning pattern(s) carried by the nucleosome DNA sequences. They were first to demonstrate that the nucleosome stability correlates with 10-11 base sequence periodicity, and that the strong nucleosomes localize preferentially in centromeres. This review describes these findings and their connection to recent discovery of the strong nucleosomes (SNs) with visibly periodic nucleosome DNA sequences.

  6. Suppression of Rayleigh Taylor instability in strongly coupled plasmas

    SciTech Connect

    Das, Amita; Kaw, Predhiman

    2014-06-15

    The Rayleigh Taylor instability in a strongly coupled plasma medium has been investigated using the equations of generalized hydrodynamics. It is demonstrated that the visco-elasticity of the strongly coupled medium due to strong inter particle correlations leads to a suppression of the Rayleigh Taylor instability unless certain threshold conditions are met. The relevance of these results to experiments on laser compression of matter to high densities including those related to inertial confinement fusion using lasers has also been shown.

  7. Activation of macrophages by an exopolysaccharide isolated from Antarctic Psychrobacter sp. B-3

    NASA Astrophysics Data System (ADS)

    Yu, Leiye; Sun, Guojie; Wei, Jingfang; Wang, Yingze; Du, Chao; Li, Jiang

    2016-09-01

    An exopolysaccharide (EPS) was isolated and purified from an Antarctic psychrophilic bacterium B-3, identified as Psychrobacter sp., and the activation of RAW264.7 cells by B-3 EPS was investigated. The results show that B-3 EPS, over a certain concentration range, promoted cell viability, nitric oxide production, tumor necrosis factor (TNF)α secretion, and phagocytic ability. Furthermore, TAK-242, an inhibitor of the toll-like receptor 4 (TLR4) significantly reduced nitric oxide production by these cells after stimulation with B-3 EPS. Moreover, B-3 EPS induced p65 phosphorylation and IκBα degradation in these cells. In conclusion, B-3 EPS might have activated RAW264.7 cells by combining with TLR4 on cell surface and triggering activation of NF-κB signaling pathways, implying that this EPS could activate macrophages and regulate initial immune response.

  8. Electron Dynamics in Nanostructures in Strong Laser Fields

    SciTech Connect

    Kling, Matthias

    2014-09-11

    The goal of our research was to gain deeper insight into the collective electron dynamics in nanosystems in strong, ultrashort laser fields. The laser field strengths will be strong enough to extract and accelerate electrons from the nanoparticles and to transiently modify the materials electronic properties. We aimed to observe, with sub-cycle resolution reaching the attosecond time domain, how collective electronic excitations in nanoparticles are formed, how the strong field influences the optical and electrical properties of the nanomaterial, and how the excitations in the presence of strong fields decay.

  9. Energy Spectra of Strongly Stratified and Rotating Turbulence

    NASA Technical Reports Server (NTRS)

    Mahalov, Alex; Nicolaenko, Basil; Zhou, Ye

    1998-01-01

    Turbulence under strong stratification and rotation is usually characterized as quasi-two dimensional turbulence. We develop a "quasi-two dimensional" energy spectrum which changes smoothly between the Kolmogorov -5/3 law (no stratification), the -2 scalings of Zhou for the case of strong rotation, as well as the -2 scalings for the case of strong rotation and stratification. For strongly stratified turbulence, the model may give the -2 scaling predicted by Herring; and the -5/3 scaling indicated by some mesoscale observations.

  10. Protein Adsorption in Three Dimensions

    PubMed Central

    Vogler, Erwin A.

    2011-01-01

    initially-adsorbed protein. Interphase protein concentration CI increases as VI decreases, resulting in slow reduction in interfacial energetics. Steady-state is governed by a net partition coefficient P=(/CBCI). In the process of occupying space within the interphase, adsorbing protein molecules must displace an equivalent volume of interphase water. Interphase water is itself associated with surface-bound water through a network of transient hydrogen bonds. Displacement of interphase water thus requires an amount of energy that depends on the adsorbent surface chemistry/energy. This “adsorption-dehydration” step is the significant free-energy cost of adsorption that controls the maximum amount of protein that can be adsorbed at steady state to a unit adsorbent-surface area (the adsorbent capacity). As adsorbent hydrophilicity increases, protein adsorption monotonically decreases because the energetic cost of surface dehydration increases, ultimately leading to no protein adsorption near an adsorbent water wettability (surface energy) characterized by a water contact angle θ → 65°. Consequently, protein does not adsorb (accumulate at interphase concentrations greater than bulk solution) to more hydrophilic adsorbents exhibiting θ < 65° . For adsorbents bearing strong Lewis acid/base chemistry such as ion-exchange resins, protein/surface interactions can be highly favorable, causing protein to adsorb in multilayers in a relatively thick interphase. A straightforward, three-component free energy relationship captures salient features of protein adsorption to all surfaces predicting that the overall free energy of protein adsorption ΔGadso is a relatively small multiple of thermal energy for any surface chemistry (except perhaps for bioengineered surfaces bearing specific ligands for adsorbing protein) because a surface chemistry that interacts chemically with proteins must also interact with water through hydrogen bonding. In this way, water moderates protein

  11. Green fluorescent protein as a quantitative tool.

    PubMed

    Hack, N J; Billups, B; Guthrie, P B; Rogers, J H; Muir, E M; Parks, T N; Kater, S B

    2000-02-15

    Manipulating the expression of a protein can provide a powerful tool for understanding its function, provided that the protein is expressed at physiologically-significant concentrations. We have developed a simple method to measure (1) the concentration of an overexpressed protein in single cells and (2) the covariation of particular physiological properties with a protein's expression. As an example of how this method can be used, teratocarcinoma cells were transfected with the neuron-specific calcium binding protein calretinin (CR) tagged with green fluorescent protein (GFP). By measuring GFP fluorescence in microcapillaries, we created a standard curve for GFP fluorescence that permitted quantification of CR concentrations in individual cells. Fura-2 measurements in the same cells showed a strong positive correlation between CR-GFP fusion protein expression levels and calcium clearance capacity. This method should allow reliable quantitative analysis of GFP fusion protein expression.

  12. Protein imprinting in polyacrylamide-based gels

    PubMed Central

    Zayats, Maya; Brenner, Andrew J.; Searson, Peter C.

    2015-01-01

    Protein imprinting in hydrogels is a method to produce materials capable of selective recognition and capture of a target protein. Here we report on the imprinting of fluorescently-labeled maltose binding protein (MBP) in acrylamide (AAm)/N-isopropylacrylamide (NIPAm) hydrogels. The targeting efficiency and selectivity of protein recognition is usually characterized by the imprinting factor, which in the simplest case is the ratio of protein uptake in an imprinted film divided by the uptake by the corresponding non-imprinted film. Our objective in this work is to study the dynamics of protein binding and elution in imprinted and non-imprinted films to elucidate the processes that control protein recognition. Protein elution from imprinted and non-imprinted films suggests that imprinting results in sites with a distribution of binding energies, and that only a relatively small fraction of these sites exhibit strong binding. PMID:25034963

  13. Protein imprinting in polyacrylamide-based gels.

    PubMed

    Zayats, Maya; Brenner, Andrew J; Searson, Peter C

    2014-10-01

    Protein imprinting in hydrogels is a method to produce materials capable of selective recognition and capture of a target protein. Here we report on the imprinting of fluorescently-labeled maltose binding protein (MBP) in acrylamide (AAm)/N-isopropylacrylamide (NIPAm) hydrogels. The targeting efficiency and selectivity of protein recognition is usually characterized by the imprinting factor, which in the simplest case is the ratio of protein uptake in an imprinted film divided by the uptake by the corresponding non-imprinted film. Our objective in this work is to study the dynamics of protein binding and elution in imprinted and non-imprinted films to elucidate the processes that control protein recognition. Protein elution from imprinted and non-imprinted films suggests that imprinting results in sites with a distribution of binding energies, and that only a relatively small fraction of these sites exhibit strong binding.

  14. Protein imprinting in polyacrylamide-based gels.

    PubMed

    Zayats, Maya; Brenner, Andrew J; Searson, Peter C

    2014-10-01

    Protein imprinting in hydrogels is a method to produce materials capable of selective recognition and capture of a target protein. Here we report on the imprinting of fluorescently-labeled maltose binding protein (MBP) in acrylamide (AAm)/N-isopropylacrylamide (NIPAm) hydrogels. The targeting efficiency and selectivity of protein recognition is usually characterized by the imprinting factor, which in the simplest case is the ratio of protein uptake in an imprinted film divided by the uptake by the corresponding non-imprinted film. Our objective in this work is to study the dynamics of protein binding and elution in imprinted and non-imprinted films to elucidate the processes that control protein recognition. Protein elution from imprinted and non-imprinted films suggests that imprinting results in sites with a distribution of binding energies, and that only a relatively small fraction of these sites exhibit strong binding. PMID:25034963

  15. Solitary and Shock Waves in Strongly Nonlinear Metamaterials

    NASA Astrophysics Data System (ADS)

    Herbold, E. B.; Nesterenko, V. F.

    2007-12-01

    Strongly nonlinear laminar metamaterials can be assembled using rigid metal plates interacting through light deformable strongly nonlinear elements placed between them. They may consist of single toroidal polymer o-rings, combinations of o-rings with different stiffness or combinations of hardening and softening nonlinear elements including gaps between them. Solitary waves and shocks are investigated in these metamaterials numerically and experimentally.

  16. Strong reciprocity is not uncommon in the "wild".

    PubMed

    Runciman, W G

    2012-02-01

    Guala is right to draw attention to the difficulty of extrapolating from the experimental evidence for weak or strong reciprocity to what is observed in the "wild." However, there may be more strong reciprocity in real-world communities than he allows for, as strikingly illustrated in the example of the Mafia.

  17. Strong motion instrumentation of an RC building structure

    USGS Publications Warehouse

    Li, H.-J.; Celebi, M.

    2001-01-01

    The strong-motion instrumentation scheme of a reinforced concrete building observed by California Strong-Motion Instrumentation Program (CSMIP) is introduced in this paper. The instrumented building is also described and the recorded responses during 1994 Northridge earthquake are provided.

  18. The Strong-Inference Protocol: Not Just for Grant Proposals

    ERIC Educational Resources Information Center

    Hiebert, Sara M.

    2007-01-01

    The strong-inference protocol puts into action the important concepts in Platt's often-assigned, classic paper on the strong-inference method (10). Yet, perhaps because students are frequently performing experiments with known outcomes, the protocols they write as undergraduates are usually little more than step-by-step instructions for performing…

  19. Theory and Meaning in Counseling Research: Comment on Strong (1991).

    ERIC Educational Resources Information Center

    Patton, Michael J.; Jackson, Aaron P.

    1991-01-01

    Responds to previous article by Strong on theory-driven science and naive empiricism in counseling psychology. Questions distinction Strong makes between theory-driven science and naive empiricism. Argues that more relevant debate is between qualitative and quantitative approaches to counseling research. Presents some differences between the two…

  20. Quantum Liquid Crystal Phases in Strongly Correlated Fermionic Systems

    ERIC Educational Resources Information Center

    Sun, Kai

    2009-01-01

    This thesis is devoted to the investigation of the quantum liquid crystal phases in strongly correlated electronic systems. Such phases are characterized by their partially broken spatial symmetries and are observed in various strongly correlated systems as being summarized in Chapter 1. Although quantum liquid crystal phases often involve…

  1. Plasma transport theory spanning weak to strong coupling

    SciTech Connect

    Daligault, Jérôme; Baalrud, Scott D.

    2015-06-29

    We describe some of the most striking characteristics of particle transport in strongly coupled plasmas across a wide range of Coulomb coupling strength. We then discuss the effective potential theory, which is an approximation that was recently developed to extend conventional weakly coupled plasma transport theory into the strongly coupled regime in a manner that is practical to evaluate efficiently.

  2. Dynamics of symmetry breaking in strongly coupled QED

    SciTech Connect

    Bardeen, W.A.

    1988-10-01

    I review the dynamical structure of strong coupled QED in the quenched planar limit. The symmetry structure of this theory is examined with reference to the nature of both chiral and scale symmetry breaking. The renormalization structure of the strong coupled phase is analysed. The compatibility of spontaneous scale and chiral symmetry breaking is studied using effective lagrangian methods. 14 refs., 3 figs.

  3. Evolution of Robustness to Protein Mistranslation by Accelerated Protein Turnover

    PubMed Central

    Farkas, Zoltán; Horvath, Peter; Bódi, Zoltán; Daraba, Andreea; Szamecz, Béla; Gut, Ivo; Bayes, Mónica; Santos, Manuel A. S.; Pál, Csaba

    2015-01-01

    Translational errors occur at high rates, and they influence organism viability and the onset of genetic diseases. To investigate how organisms mitigate the deleterious effects of protein synthesis errors during evolution, a mutant yeast strain was engineered to translate a codon ambiguously (mistranslation). It thereby overloads the protein quality-control pathways and disrupts cellular protein homeostasis. This strain was used to study the capacity of the yeast genome to compensate the deleterious effects of protein mistranslation. Laboratory evolutionary experiments revealed that fitness loss due to mistranslation can rapidly be mitigated. Genomic analysis demonstrated that adaptation was primarily mediated by large-scale chromosomal duplication and deletion events, suggesting that errors during protein synthesis promote the evolution of genome architecture. By altering the dosages of numerous, functionally related proteins simultaneously, these genetic changes introduced large phenotypic leaps that enabled rapid adaptation to mistranslation. Evolution increased the level of tolerance to mistranslation through acceleration of ubiquitin-proteasome–mediated protein degradation and protein synthesis. As a consequence of rapid elimination of erroneous protein products, evolution reduced the extent of toxic protein aggregation in mistranslating cells. However, there was a strong evolutionary trade-off between adaptation to mistranslation and survival upon starvation: the evolved lines showed fitness defects and impaired capacity to degrade mature ribosomes upon nutrient limitation. Moreover, as a response to an enhanced energy demand of accelerated protein turnover, the evolved lines exhibited increased glucose uptake by selective duplication of hexose transporter genes. We conclude that adjustment of proteome homeostasis to mistranslation evolves rapidly, but this adaptation has several side effects on cellular physiology. Our work also indicates that

  4. Separating proteins with activated carbon.

    PubMed

    Stone, Matthew T; Kozlov, Mikhail

    2014-07-15

    Activated carbon is applied to separate proteins based on differences in their size and effective charge. Three guidelines are suggested for the efficient separation of proteins with activated carbon. (1) Activated carbon can be used to efficiently remove smaller proteinaceous impurities from larger proteins. (2) Smaller proteinaceous impurities are most efficiently removed at a solution pH close to the impurity's isoelectric point, where they have a minimal effective charge. (3) The most efficient recovery of a small protein from activated carbon occurs at a solution pH further away from the protein's isoelectric point, where it is strongly charged. Studies measuring the binding capacities of individual polymers and proteins were used to develop these three guidelines, and they were then applied to the separation of several different protein mixtures. The ability of activated carbon to separate proteins was demonstrated to be broadly applicable with three different types of activated carbon by both static treatment and by flowing through a packed column of activated carbon. PMID:24898563

  5. Equation of state in a strongly interacting relativistic system

    NASA Astrophysics Data System (ADS)

    Ferrer, Efrain J.; Keith, Jason P.

    2012-09-01

    We study the evolution of the equation of state of a strongly interacting quark system as a function of the diquark interaction strength. We show that for the system to avoid collapsing into a pressureless boson gas at sufficiently strong diquark coupling strength, the diquark-diquark repulsion has to be self-consistently taken into account. In particular, we find that the tendency at zero temperature of the strongly interacting diquark gas to condense into the system ground state is compensated by the repulsion between diquarks if the diquark-diquark coupling constant is higher than a critical value λC=7.65. Considering such diquark-diquark repulsion, a positive pressure with no significant variation along the whole strongly interacting region is obtained. A consequence of the diquark-diquark repulsion is that the system maintains its BCS character in the whole strongly interacting region.

  6. Mechanism of drag coefficient saturation at strong wind speeds

    NASA Astrophysics Data System (ADS)

    Takagaki, Naohisa; Komori, Satoru; Suzuki, Naoya; Iwano, Koji; Kurose, Ryoichi

    2016-09-01

    Previous studies have demonstrated the saturation of drag coefficients at strong wind speeds. But the mechanism behind this saturation has not yet been fully clarified. In this study, at normal and strong wind speeds, we use a wind-wave tank for investigating the peak enhancement factor of the wind-sea spectrum, which is an appropriate wave parameter for representing interfacial flatness. We measured the water-level fluctuation using wave gauges. At strong wind speeds, the result shows that the peak enhancement factor of the wind-sea spectrum decreases with decreasing inverse wave age and with increasing wind speed. This suggests that the distinctive wind-wave breaking occurs at strong wind speeds. It also suggests that this distinctive breaking of wind waves causes the saturation of drag coefficients at strong wind speeds.

  7. Formation of a Polycomb-Domain in the Absence of Strong Polycomb Response Elements

    PubMed Central

    De, Sandip; Mitra, Apratim; Cheng, Yuzhong; Pfeifer, Karl; Kassis, Judith A.

    2016-01-01

    Polycomb group response elements (PREs) in Drosophila are DNA-elements that recruit Polycomb proteins (PcG) to chromatin and regulate gene expression. PREs are easily recognizable in the Drosophila genome as strong peaks of PcG-protein binding over discrete DNA fragments; many small but statistically significant PcG peaks are also observed in PcG domains. Surprisingly, in vivo deletion of the four characterized strong PREs from the PcG regulated invected-engrailed (inv-en) gene complex did not disrupt the formation of the H3K27me3 domain and did not affect inv-en expression in embryos or larvae suggesting the presence of redundant PcG recruitment mechanism. Further, the 3D-structure of the inv-en domain was only minimally altered by the deletion of the strong PREs. A reporter construct containing a 7.5kb en fragment that contains three weak peaks but no large PcG peaks forms an H3K27me3 domain and is PcG-regulated. Our data suggests a model for the recruitment of PcG-complexes to Drosophila genes via interactions with multiple, weak PREs spread throughout an H3K27me3 domain. PMID:27466807

  8. Protein Crystallization

    NASA Technical Reports Server (NTRS)

    Chernov, Alexander A.

    2005-01-01

    Nucleation, growth and perfection of protein crystals will be overviewed along with crystal mechanical properties. The knowledge is based on experiments using optical and force crystals behave similar to inorganic crystals, though with a difference in orders of magnitude in growing parameters. For example, the low incorporation rate of large biomolecules requires up to 100 times larger supersaturation to grow protein, rather than inorganic crystals. Nucleation is often poorly reproducible, partly because of turbulence accompanying the mixing of precipitant with protein solution. Light scattering reveals fluctuations of molecular cluster size, its growth, surface energies and increased clustering as protein ages. Growth most often occurs layer-by-layer resulting in faceted crystals. New molecular layer on crystal face is terminated by a step where molecular incorporation occurs. Quantitative data on the incorporation rate will be discussed. Rounded crystals with molecularly disordered interfaces will be explained. Defects in crystals compromise the x-ray diffraction resolution crucially needed to find the 3D atomic structure of biomolecules. The defects are immobile so that birth defects stay forever. All lattice defects known for inorganics are revealed in protein crystals. Contribution of molecular conformations to lattice disorder is important, but not studied. This contribution may be enhanced by stress field from other defects. Homologous impurities (e.g., dimers, acetylated molecules) are trapped more willingly by a growing crystal than foreign protein impurities. The trapped impurities induce internal stress eliminated in crystals exceeding a critical size (part of mni for ferritin, lysozyme). Lesser impurities are trapped from stagnant, as compared to the flowing, solution. Freezing may induce much more defects unless quickly amorphysizing intracrystalline water.

  9. A psyllium fiber-enriched meal strongly attenuates postprandial gastrointestinal peptide release in healthy young adults.

    PubMed

    Karhunen, Leila J; Juvonen, Kristiina R; Flander, Sanna M; Liukkonen, Kirsi-Helena; Lähteenmäki, Liisa; Siloaho, Maritta; Laaksonen, David E; Herzig, Karl-Heinz; Uusitupa, Matti I; Poutanen, Kaisa S

    2010-04-01

    Dietary fiber (DF) and protein are essential constituents of a healthy diet and are well known for their high satiety impact. However, little is known about their influence on postprandial gastrointestinal (GI) peptide release. Our aim in this single-blind, randomized, cross-over study was to investigate the effects of DF and/or protein enrichments on satiety-related metabolic and hormonal responses. Sixteen healthy, nonobese volunteers participated in the study and ingested 1 of 5 isoenergetic test meals in a randomized order on separate days. The test meals were as follows: 1) low in protein (2.8 g) and fiber (7.6 g); 2) low in protein (2.6 g) and high in soluble fiber (psyllium, 23.0 g); 3) high in protein (soy, 19.7 g) and low in fiber (6.2 g); 4) high in protein (18.4 g) and fiber (23.0 g); and 5) white wheat bread. Serum insulin and plasma glucose, ghrelin, glucagon-like peptide 1 (GLP-1), and peptide YY (PYY) concentrations were determined for 2 h following the meals. In addition, hunger and satiety ratings were collected. Postprandial glucose, insulin, ghrelin, GLP-1, and PYY responses all differed among the meals (P protein-rich meal, in contrast to the initial increases following the other meals. However, postprandial ratings of appetite were mostly similar after the test meals. In conclusion, solid meals enriched with psyllium fiber strongly modified postprandial signals arising from the GI tract. PMID:20147463

  10. A novel Arometic compound acts synergistically with a naturally occurring monoterpene to elicit strong behavioral responses in Asian citrus psyllid

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Inscent, Inc. has developed methodologies for rapidly screening potential ligands of chemosensory proteins (CSPs) isolated from the antennae of target insects. These novel ligands, referred to as Arometics, mimic naturally-occurring odorants and may function as super-stimuli because of their strong ...

  11. Self-Assembling Multi-Component Nanofibers for Strong Bioinspired Underwater Adhesives

    PubMed Central

    Zhong, Chao; Gurry, Thomas; Cheng, Allen A; Downey, Jordan; Deng, Zhengtao; Stultz, Collin M.; Lu, Timothy K

    2014-01-01

    Many natural underwater adhesives harness hierarchically assembled amyloid nanostructures to achieve strong and robust interfacial adhesion under dynamic and turbulent environments. Despite recent advances, our understanding of the molecular design, self-assembly, and structure-function relationship of those natural amyloid fibers remains limited. Thus, designing biomimetic amyloid-based adhesives remains challenging. Here, we report strong and multi-functional underwater adhesives obtained from fusing mussel foot proteins (Mfps) of Mytilus galloprovincialis with CsgA proteins, the major subunit of Escherichia coli amyloid curli fibers. These hybrid molecular materials hierarchically self-assemble into higher-order structures, in which, according to molecular dynamics simulations, disordered adhesive Mfp domains are exposed on the exterior of amyloid cores formed by CsgA. Our fibers have an underwater adhesion energy approaching 20.9 mJ/m2, which is 1.5 times greater than the maximum of bio-inspired and bio-derived protein-based underwater adhesives reported thus far. Moreover, they outperform Mfps or curli fibers taken on their own at all pHs and exhibit better tolerance to auto-oxidation than Mfps at pH ≥7.0. This work establishes a platform for engineering multi-component self-assembling materials inspired by nature. PMID:25240674

  12. Towards an integrated European strong motion data distribution

    NASA Astrophysics Data System (ADS)

    Luzi, Lucia; Clinton, John; Cauzzi, Carlo; Puglia, Rodolfo; Michelini, Alberto; Van Eck, Torild; Sleeman, Reinhoud; Akkar, Sinan

    2013-04-01

    Recent decades have seen a significant increase in the quality and quantity of strong motion data collected in Europe, as dense and often real-time and continuously monitored broadband strong motion networks have been constructed in many nations. There has been a concurrent increase in demand for access to strong motion data not only from researchers for engineering and seismological studies, but also from civil authorities and seismic networks for the rapid assessment of ground motion and shaking intensity following significant earthquakes (e.g. ShakeMaps). Aside from a few notable exceptions on the national scale, databases providing access to strong motion data has not appeared to keep pace with these developments. In the framework of the EC infrastructure project NERA (2010 - 2014), that integrates key research infrastructures in Europe for monitoring earthquakes and assessing their hazard and risk, the network activity NA3 deals with the networking of acceleration networks and SM data. Within the NA3 activity two infrastructures are being constructed: i) a Rapid Response Strong Motion (RRSM) database, that following a strong event, automatically parameterises all available on-scale waveform data within the European Integrated waveform Data Archives (EIDA) and makes the waveforms easily available to the seismological community within minutes of an event; and ii) a European Strong Motion (ESM) database of accelerometric records, with associated metadata relevant to earthquake engineering and seismology research communities, using standard, manual processing that reflects the state of the art and research needs in these fields. These two separate repositories form the core infrastructures being built to distribute strong motion data in Europe in order to guarantee rapid and long-term availability of high quality waveform data to both the international scientific community and the hazard mitigation communities. These infrastructures will provide the access to

  13. Combined effect of synthetic protein, Mini-B, and cholesterol on a model lung surfactant mixture at the air-water interface.

    PubMed

    Chakraborty, Aishik; Hui, Erica; Waring, Alan J; Dhar, Prajnaparamita

    2016-04-01

    The overall goal of this work is to study the combined effects of Mini-B, a 34 residue synthetic analog of the lung surfactant protein SP-B, and cholesterol, a neutral lipid, on a model binary lipid mixture containing dipalmitolphosphatidylcholine (DPPC) and palmitoyl-oleoyl-phosphatidylglycerol (POPG), that is often used to mimic the primary phospholipid composition of lung surfactants. Using surface pressure vs. mean molecular area isotherms, fluorescence imaging and analysis of lipid domain size distributions; we report on changes in the structure, function and stability of the model lipid-protein films in the presence and absence of varying composition of cholesterol. Our results indicate that at low cholesterol concentrations, Mini-B can prevent cholesterol's tendency to lower the line tension between lipid domain boundaries, while maintaining Mini-B's ability to cause reversible collapse resulting in the formation of surface associated reservoirs. Our results also show that lowering the line tension between domains can adversely impact monolayer folding mechanisms. We propose that small amounts of cholesterol and synthetic protein Mini-B can together achieve the seemingly opposing requirements of efficient LS: fluid enough to flow at the air-water interface, while being rigid enough to oppose irreversible collapse at ultra-low surface tensions. PMID:26775740

  14. Combined effect of synthetic protein, Mini-B, and cholesterol on a model lung surfactant mixture at the air-water interface.

    PubMed

    Chakraborty, Aishik; Hui, Erica; Waring, Alan J; Dhar, Prajnaparamita

    2016-04-01

    The overall goal of this work is to study the combined effects of Mini-B, a 34 residue synthetic analog of the lung surfactant protein SP-B, and cholesterol, a neutral lipid, on a model binary lipid mixture containing dipalmitolphosphatidylcholine (DPPC) and palmitoyl-oleoyl-phosphatidylglycerol (POPG), that is often used to mimic the primary phospholipid composition of lung surfactants. Using surface pressure vs. mean molecular area isotherms, fluorescence imaging and analysis of lipid domain size distributions; we report on changes in the structure, function and stability of the model lipid-protein films in the presence and absence of varying composition of cholesterol. Our results indicate that at low cholesterol concentrations, Mini-B can prevent cholesterol's tendency to lower the line tension between lipid domain boundaries, while maintaining Mini-B's ability to cause reversible collapse resulting in the formation of surface associated reservoirs. Our results also show that lowering the line tension between domains can adversely impact monolayer folding mechanisms. We propose that small amounts of cholesterol and synthetic protein Mini-B can together achieve the seemingly opposing requirements of efficient LS: fluid enough to flow at the air-water interface, while being rigid enough to oppose irreversible collapse at ultra-low surface tensions.

  15. Globular and disordered—the non-identical twins in protein-protein interactions

    PubMed Central

    Teilum, Kaare; Olsen, Johan G.; Kragelund, Birthe B.

    2015-01-01

    In biology proteins from different structural classes interact across and within classes in ways that are optimized to achieve balanced functional outputs. The interactions between intrinsically disordered proteins (IDPs) and other proteins rely on changes in flexibility and this is seen as a strong determinant for their function. This has fostered the notion that IDP's bind with low affinity but high specificity. Here we have analyzed available detailed thermodynamic data for protein-protein interactions to put to the test if the thermodynamic profiles of IDP interactions differ from those of other protein-protein interactions. We find that ordered proteins and the disordered ones act as non-identical twins operating by similar principles but where the disordered proteins complexes are on average less stable by 2.5 kcal mol−1. PMID:26217672

  16. Characterization of an outer membrane protein of Pasteurella multocida belonging to the OmpA family.

    PubMed

    Marandi, M; Mittal, K R

    1996-12-01

    The outer membrane vesicle and N-lauroylsarcosine-insoluble protein preparations of Pasteurella multocida 656 were analyzed by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. A major outer membrane protein (OMP) was found to be heat-modifiable, having a molecular mass of 28 kDa when the OMP preparation was solubilized at 60 degrees C and a molecular mass of 37 kDa when it was solubilized at 100 degrees C. A monoclonal antibody, designated mAb MT4.1, was generated against heat-modifiable OMP of P. multocida. This mAb reacted with the heat-modifiable OMP irrespective of the temperature at which it was solubilized, as demonstrated by immunoblot results. The heat-modifiable OMP of P. multocida showed a significant N-terminal amino acid sequence homology with OmpA family. Immunoelectron microscopic study revealed that the mAb Mt4.1 epitope was not surface exposed on the intact bacterium. The mAb MT4.1 reacted with all the reference strains of 5 capsular and 16 somatic serotypes, as well as with 75 field strains of P. multocida in immunoblot assay. This mAb MT4.1 also reacted with strains of various other Pasteurella species such as P. stomatis, P. aerogenes P. gallinarum, P. betti, P. sp, B, P. SP-g and P. canis, but not with strains of 12 other Gram-negative bacteria. These results indicated that this protein carried a genus-specific epitope and mAb MT4.1 may be useful for identification of Pasteurella species. This is the first report in which a major heat-modifiable OMP has been identified and characterized using a mAb, and has been shown belonging to the OmpA family. PMID:9008341

  17. Combined reconstruction of weak and strong lensing data with WSLAP

    NASA Astrophysics Data System (ADS)

    Diego, J. M.; Tegmark, M.; Protopapas, P.; Sandvik, H. B.

    2007-03-01

    We describe a method to estimate the mass distribution of a gravitational lens and the position of the sources from combined strong and weak lensing data. The algorithm combines weak and strong lensing data in a unified way producing a solution which is valid in both the weak and the strong lensing regimes. The method is non-parametric, allowing the mass to be located anywhere in the field of view. We study how the solution depends on the choice of basis used to represent the mass distribution. We find that combining weak and strong lensing information has two major advantages: it alleviates the need for priors and/or regularization schemes for the intrinsic size of the background galaxies (this assumption was needed in previous strong lensing algorithms) and it reduces (although does not remove) biases in the recovered mass in the outer regions where the strong lensing data are less sensitive. The code is implemented into a software package called Weak & Strong Lensing Analysis Package (WSLAP) which is publicly available at http://darwin.cfa.harvard.edu/SLAP/.

  18. Strong CP problem with 10(32) standard model copies.

    PubMed

    Dvali, Gia; Farrar, Glennys R

    2008-07-01

    We show that a recently proposed solution to the hierarchy problem simultaneously solves the strong CP problem, without requiring an axion or any further new physics. Consistency of black hole physics implies a nontrivial relation between the number of particle species and particle masses, so that with approximately 10(32) copies of the standard model, the TeV scale is naturally explained. At the same time, as shown here, this setup predicts a typical expected value of the strong-CP parameter in QCD of theta approximately 10(-9). This strongly motivates a more sensitive measurement of the neutron electric dipole moment. PMID:18764102

  19. A strong visible line in the spectrum of W11+

    NASA Astrophysics Data System (ADS)

    Li, M.; Qiu, M.; Xiao, J.; Yao, K.; Brage, T.; Hutton, R.; Zou, Y.

    2016-10-01

    We have investigated the visible spectrum of W11+ and found a very strong line at the wave length of 527.61 nm from the 4f135s25p2 (2F7/2-2F5/2) transition. We show that this line is strong since the excitation energy of the upper level opens up the possibility to capture a large population. We discuss the possibility that this strong line could be the unknown line seen in charge exchange spectra recorded at the JET fusion facility.

  20. Strong drive compression of a gas-cooled positron plasma

    SciTech Connect

    Cassidy, D. B.; Mills, A. P. Jr.; Greaves, R. G.; Meligne, V. E.

    2010-03-08

    The use of rotating electric fields to control plasmas has found numerous applications in the manipulation and storage of antimatter. When used in strong magnetic fields plasma heating caused by the applied field is mitigated by cyclotron cooling, leading to an efficient broadband mode of compression known as the strong drive regime. We have found that it is possible to access the strong drive regime in a low field trap where cyclotron cooling is negligible and a gas is used for cooling, and we have been able to compress positron plasmas to more than 10% of the Brillouin density limit.