Science.gov

Sample records for asymmetry-driven structure formation

  1. Geometric asymmetry driven Janus micromotors.

    PubMed

    Zhao, Guanjia; Pumera, Martin

    2014-10-01

    The production and application of nano-/micromotors is of great importance. In order for the motors to work, asymmetry in their chemical composition or physical geometry must be present if no external asymmetric field is applied. In this paper, we present a "coconut" micromotor made of platinum through the partial or complete etching of the silica templates. It was shown that although both the inner and outer surfaces are made of the same material (Pt), motion of the structure can be observed as the convex surface is capable of generating oxygen bubbles. This finding shows that not only the chemical asymmetry of the micromotor, but also its geometric asymmetry can lead to fast propulsion of the motor. Moreover, a considerably higher velocity can be seen for partially etched coconut structures than the velocities of Janus or fully etched, shell-like motors. These findings will have great importance on the design of future micromotors. PMID:25122607

  2. Geometric asymmetry driven Janus micromotors

    NASA Astrophysics Data System (ADS)

    Zhao, Guanjia; Pumera, Martin

    2014-09-01

    The production and application of nano-/micromotors is of great importance. In order for the motors to work, asymmetry in their chemical composition or physical geometry must be present if no external asymmetric field is applied. In this paper, we present a ``coconut'' micromotor made of platinum through the partial or complete etching of the silica templates. It was shown that although both the inner and outer surfaces are made of the same material (Pt), motion of the structure can be observed as the convex surface is capable of generating oxygen bubbles. This finding shows that not only the chemical asymmetry of the micromotor, but also its geometric asymmetry can lead to fast propulsion of the motor. Moreover, a considerably higher velocity can be seen for partially etched coconut structures than the velocities of Janus or fully etched, shell-like motors. These findings will have great importance on the design of future micromotors.The production and application of nano-/micromotors is of great importance. In order for the motors to work, asymmetry in their chemical composition or physical geometry must be present if no external asymmetric field is applied. In this paper, we present a ``coconut'' micromotor made of platinum through the partial or complete etching of the silica templates. It was shown that although both the inner and outer surfaces are made of the same material (Pt), motion of the structure can be observed as the convex surface is capable of generating oxygen bubbles. This finding shows that not only the chemical asymmetry of the micromotor, but also its geometric asymmetry can lead to fast propulsion of the motor. Moreover, a considerably higher velocity can be seen for partially etched coconut structures than the velocities of Janus or fully etched, shell-like motors. These findings will have great importance on the design of future micromotors. Electronic supplementary information (ESI) available: Additional SEM images, data analysis, Videos S

  3. Structure Formation in Astrophysics

    NASA Astrophysics Data System (ADS)

    Chabrier, Gilles

    2009-01-01

    Part I. Physical Processes and Numerical Methods Common to Structure Formations in Astrophysics: 1. The physics of turbulence E. Levêque; 2. The numerical simulation of turbulence W. Schmidt; 3. Numerical methods for radiation magnetohydrodynamics in astrophysics R. Klein and J. Stone; 4. The role of jets in the formation of planets, stars, and galaxies R. Banerjee, R. Pudritz and R. Ouyed; 5. Advanced numerical methods in astrophysical fluid dynamics A. Hujeirat and F. Heitsch; Part II. Structure and Star Formation in the Primordial Universe: 6. New frontiers in cosmology and galaxy formation challenges for the future R. Ellis and J. Silk; 7. Galaxy formation physics T. Abel, G. Bryan and R. Teyssier; 8. First stars formation, evolution, feedback effects V. Bromm, A. Ferrara and A. Heger; Part III. Contemporary Star and Brown Dwarf Formation: a) Cloud Formation and Fragmentation: 9. Diffuse interstellar medium and the formation of molecular clouds P. Hennebelle, M. Mac Low and E. Vazquez-Semadeni; 10. The formation of distributed and clustered stars in molecular clouds T. Megeath, Z. -Y. Li and A. Nordlund; b) Core Fragmentation and Star Formation: 11. The formation and evolution of prestellar cores P. André, S. Basu and S. Inutsuka; 12. Models for the formation of massive stars; Part IV. Protoplanetary Disks and Planet Formation M. Krumholz and I. Bonnell: 13. Observational properties of disks and young stellar objects G. Duchêne, F. Ménard, J. Muzzerolle and S. Mohanty; 14. Structure and dynamics of protoplanetary disks C. Dullemond, R. Durisen and J. Papaloizou; 15. Planet formation and evolution theory and observation Y. Alibert, I. Baraffe, W. Benz, G. Laughlin and S. Udry; 16. Planet formation assembling the puzzle G. Wurm and T. Guillot; Part V. Summary: 17. Open issues in small- and large-scale structure formation R. Klessen and M. Mac Low; 18. Final word E. Salpeter.

  4. Structure Formation in Astrophysics

    NASA Astrophysics Data System (ADS)

    Chabrier, Gilles

    2011-02-01

    Part I. Physical Processes and Numerical Methods Common to Structure Formations in Astrophysics: 1. The physics of turbulence E. Levêque; 2. The numerical simulation of turbulence W. Schmidt; 3. Numerical methods for radiation magnetohydrodynamics in astrophysics R. Klein and J. Stone; 4. The role of jets in the formation of planets, stars, and galaxies R. Banerjee, R. Pudritz and R. Ouyed; 5. Advanced numerical methods in astrophysical fluid dynamics A. Hujeirat and F. Heitsch; Part II. Structure and Star Formation in the Primordial Universe: 6. New frontiers in cosmology and galaxy formation challenges for the future R. Ellis and J. Silk; 7. Galaxy formation physics T. Abel, G. Bryan and R. Teyssier; 8. First stars formation, evolution, feedback effects V. Bromm, A. Ferrara and A. Heger; Part III. Contemporary Star and Brown Dwarf Formation: a) Cloud Formation and Fragmentation: 9. Diffuse interstellar medium and the formation of molecular clouds P. Hennebelle, M. Mac Low and E. Vazquez-Semadeni; 10. The formation of distributed and clustered stars in molecular clouds T. Megeath, Z. -Y. Li and A. Nordlund; b) Core Fragmentation and Star Formation: 11. The formation and evolution of prestellar cores P. André, S. Basu and S. Inutsuka; 12. Models for the formation of massive stars; Part IV. Protoplanetary Disks and Planet Formation M. Krumholz and I. Bonnell: 13. Observational properties of disks and young stellar objects G. Duchêne, F. Ménard, J. Muzzerolle and S. Mohanty; 14. Structure and dynamics of protoplanetary disks C. Dullemond, R. Durisen and J. Papaloizou; 15. Planet formation and evolution theory and observation Y. Alibert, I. Baraffe, W. Benz, G. Laughlin and S. Udry; 16. Planet formation assembling the puzzle G. Wurm and T. Guillot; Part V. Summary: 17. Open issues in small- and large-scale structure formation R. Klessen and M. Mac Low; 18. Final word E. Salpeter.

  5. Cosmological structure formation

    NASA Technical Reports Server (NTRS)

    Schramm, David N.

    1991-01-01

    A summary of the current forefront problem of physical cosmology, the formation of structures (galaxies, clusters, great walls, etc.) in the universe is presented. Solutions require two key ingredients: (1) matter; and (2) seeds. Regarding the matter, it now seems clear that both baryonic and non-baryonic matter are required. Whether the non-baryonic matter is hot or cold depends on the choice of seeds. Regarding the seeds, both density fluctuations and topological defects are discussed. The combination of isotropy of the microwave background and the recent observations indicating more power on large scales have severly constrained, if not eliminated, Gaussian fluctuations with equal power on all scales, regardless of the eventual resolution of both the matter and seed questions. It is important to note that all current structure formation ideas require new physics beyond SU(3) x SU(2) x U(1).

  6. Kinetically guided colloidal structure formation

    PubMed Central

    Hecht, Fabian M.; Bausch, Andreas R.

    2016-01-01

    The self-organization of colloidal particles is a promising approach to create novel structures and materials, with applications spanning from smart materials to optoelectronics to quantum computation. However, designing and producing mesoscale-sized structures remains a major challenge because at length scales of 10–100 μm equilibration times already become prohibitively long. Here, we extend the principle of rapid diffusion-limited cluster aggregation (DLCA) to a multicomponent system of spherical colloidal particles to enable the rational design and production of finite-sized anisotropic structures on the mesoscale. In stark contrast to equilibrium self-assembly techniques, kinetic traps are not avoided but exploited to control and guide mesoscopic structure formation. To this end the affinities, size, and stoichiometry of up to five different types of DNA-coated microspheres are adjusted to kinetically control a higher-order hierarchical aggregation process in time. We show that the aggregation process can be fully rationalized by considering an extended analytical DLCA model, allowing us to produce mesoscopic structures of up to 26 µm in diameter. This scale-free approach can easily be extended to any multicomponent system that allows for multiple orthogonal interactions, thus yielding a high potential of facilitating novel materials with tailored plasmonic excitation bands, scattering, biochemical, or mechanical behavior. PMID:27444018

  7. Unravelling lignin formation and structure

    SciTech Connect

    Lewis, N.G. . Inst. of Biological Chemistry)

    1991-01-01

    During this study, we established that the Fagaceae exclusively accumulate Z-monolignois/glucosides, and not the E-isomers. Evidence for the presence of a novel E{yields}Z isomerse has been obtained. Our pioneering work in lignin biosynthesis and structure in situ has also progressed smoothly. We established the bonding environments of a woody angiosperm, Leucanea leucocephala, as well as wheat (T. aestivum) and tobacco (N. tabacum). A cell culture system from Pinus taeda was developed which seems ideal for investigating the early stages of lignification. These cultures excrete peroxidase isozymes, considered to be specifically involved in lignin deposition. We also studied the effect of the putative lignin-degrading enzyme, lignin peroxidase, on monolignols and dehydropolymerisates therefrom. In all cases, polymerization was observed, and not degradation; these polymers are identical to that obtained with horseradish peroxidases/H{sub 2}O{sub 2}. It seems inconceivable that these enzymes can be considered as being primarily responsible for lignin biodegradation.

  8. Instabilities and structure formation in laser processing

    SciTech Connect

    Baeuerle, D.; Arenholz, E.; Arnold, N.; Heitz, J.; Kargl, P.B.

    1996-12-31

    This paper gives an overview on different types of instabilities and structure formation in various fields of laser processing. Among the examples discussed in detail are non-coherent structures observed in laser-induced chemical vapor deposition (LCVD), in laser-induced surface modifications, and in laser ablation of polymers.

  9. Structure formation in the quasispherical Szekeres model

    SciTech Connect

    Bolejko, Krzysztof

    2006-06-15

    Structure formation in the Szekeres model is investigated. Since the Szekeres model is an inhomogeneous model with no symmetries, it is possible to examine the interaction of neighboring structures and its impact on the growth of a density contrast. It has been found that the mass flow from voids to clusters enhances the growth of the density contrast. In the model presented here, the growth of the density contrast is almost 8 times faster than in the linear approach.

  10. Evolution of atomic structure during nanoparticle formation

    PubMed Central

    Tyrsted, Christoffer; Lock, Nina; Jensen, Kirsten M. Ø.; Christensen, Mogens; Bøjesen, Espen D.; Emerich, Hermann; Vaughan, Gavin; Billinge, Simon J. L.; Iversen, Bo B.

    2014-01-01

    Understanding the mechanism of nanoparticle formation during synthesis is a key prerequisite for the rational design and engineering of desirable materials properties, yet remains elusive due to the difficulty of studying structures at the nanoscale under real conditions. Here, the first comprehensive structural description of the formation of a nanoparticle, yttria-stabilized zirconia (YSZ), all the way from its ionic constituents in solution to the final crystal, is presented. The transformation is a complicated multi-step sequence of atomic reorganizations as the material follows the reaction pathway towards the equilibrium product. Prior to nanoparticle nucleation, reagents reorganize into polymeric species whose structure is incompatible with the final product. Instead of direct nucleation of clusters into the final product lattice, a highly disordered intermediate precipitate forms with a local bonding environment similar to the product yet lacking the correct topology. During maturation, bond reforming occurs by nucleation and growth of distinct domains within the amorphous intermediary. The present study moves beyond kinetic modeling by providing detailed real-time structural insight, and it is demonstrated that YSZ nanoparticle formation and growth is a more complex chemical process than accounted for in conventional models. This level of mechanistic understanding of the nanoparticle formation is the first step towards more rational control over nanoparticle synthesis through control of both solution precursors and reaction intermediaries. PMID:25075335

  11. Structure formation, backreaction and weak gravitational fields

    NASA Astrophysics Data System (ADS)

    Paranjape, Aseem; Singh, T. P.

    2008-03-01

    There is an ongoing debate in the literature as to whether the effects of averaging out inhomogeneities ('backreaction') in cosmology can be large enough to account for the acceleration of the scale factor in the Friedmann-Lemaître-Robertson-Walker (FLRW) models. In particular, some simple models of structure formation studied in the literature seem to indicate that this is indeed possible, and it has also been suggested that the perturbed FLRW framework is no longer a good approximation during structure formation, when the density contrast becomes non-linear. In this work we attempt to clarify the situation to some extent, using a fully relativistic model of pressureless spherical collapse. We find that whereas averaging during structure formation can lead to acceleration via a selective choice of averaging domains, the acceleration is not present when more generic domains are used for averaging. Further, we show that for most of the duration of the collapse, matter velocities remain small, and the perturbed FLRW form of the metric can be explicitly recovered, in the structure formation phase. We also discuss the fact that the magnitude of the average effects of inhomogeneities depends on the scale of averaging, and while it may not be completely negligible on intermediate scales, it is expected to remain small when averaging on suitably large scales.

  12. Evolution of atomic structure during nanoparticle formation.

    PubMed

    Tyrsted, Christoffer; Lock, Nina; Jensen, Kirsten M Ø; Christensen, Mogens; Bøjesen, Espen D; Emerich, Hermann; Vaughan, Gavin; Billinge, Simon J L; Iversen, Bo B

    2014-05-01

    Understanding the mechanism of nanoparticle formation during synthesis is a key prerequisite for the rational design and engineering of desirable materials properties, yet remains elusive due to the difficulty of studying structures at the nanoscale under real conditions. Here, the first comprehensive structural description of the formation of a nanoparticle, yttria-stabilized zirconia (YSZ), all the way from its ionic constituents in solution to the final crystal, is presented. The transformation is a complicated multi-step sequence of atomic reorganizations as the material follows the reaction pathway towards the equilibrium product. Prior to nanoparticle nucleation, reagents reorganize into polymeric species whose structure is incompatible with the final product. Instead of direct nucleation of clusters into the final product lattice, a highly disordered intermediate precipitate forms with a local bonding environment similar to the product yet lacking the correct topology. During maturation, bond reforming occurs by nucleation and growth of distinct domains within the amorphous intermediary. The present study moves beyond kinetic modeling by providing detailed real-time structural insight, and it is demonstrated that YSZ nanoparticle formation and growth is a more complex chemical process than accounted for in conventional models. This level of mechanistic understanding of the nanoparticle formation is the first step towards more rational control over nanoparticle synthesis through control of both solution precursors and reaction intermediaries. PMID:25075335

  13. Early structure formation from cosmic string loops

    SciTech Connect

    Shlaer, Benjamin; Vilenkin, Alexander; Loeb, Abraham E-mail: vilenkin@cosmos.phy.tufts.edu

    2012-05-01

    We examine the effects of cosmic strings on structure formation and on the ionization history of the universe. While Gaussian perturbations from inflation are known to provide the dominant contribution to the large scale structure of the universe, density perturbations due to strings are highly non-Gaussian and can produce nonlinear structures at very early times. This could lead to early star formation and reionization of the universe. We improve on earlier studies of these effects by accounting for high loop velocities and for the filamentary shape of the resulting halos. We find that for string energy scales Gμ∼>10{sup −7}, the effect of strings on the CMB temperature and polarization power spectra can be significant and is likely to be detectable by the Planck satellite. We mention shortcomings of the standard cosmological model of galaxy formation which may be remedied with the addition of cosmic strings, and comment on other possible observational implications of early structure formation by strings.

  14. The structure and formation of natural categories

    NASA Technical Reports Server (NTRS)

    Fisher, Douglas; Langley, Pat

    1990-01-01

    Categorization and concept formation are critical activities of intelligence. These processes and the conceptual structures that support them raise important issues at the interface of cognitive psychology and artificial intelligence. The work presumes that advances in these and other areas are best facilitated by research methodologies that reward interdisciplinary interaction. In particular, a computational model is described of concept formation and categorization that exploits a rational analysis of basic level effects by Gluck and Corter. Their work provides a clean prescription of human category preferences that is adapted to the task of concept learning. Also, their analysis was extended to account for typicality and fan effects, and speculate on how the concept formation strategies might be extended to other facets of intelligence, such as problem solving.

  15. Model of intermittent zonal flow structure formation

    SciTech Connect

    Anderson, Johan; Kim, Eun-jin

    2008-11-01

    We present a theory the PDF tails of the zonal flow formation by assuming that a modon (a bipolar vortex) drives a zonal flow through the generalized Reynolds stress. We show that the PDF tails of zonal flow formation have exponential behavior {approx_equal}e{sup -{xi}}{sup {phi}{sub Z}{sub F}{sup 3}}, with the overall amplitude {xi} severely quenched by strong flow shear. It is found that stronger zonal flows are generated in ITG turbulence than Hasegawa-Mima (HM) turbulence as well as further from marginal stability. This suggests that although ITG turbulence has a higher level of heat flux, it also more likely generates stronger zonal flows, leading to a self-regulating system. It is also shown that shear flows can significantly reduce the PDF tails of structure formation.

  16. Simulating the formation of cosmic structure.

    PubMed

    Frenk, C S

    2002-06-15

    A timely combination of new theoretical ideas and observational discoveries has brought about significant advances in our understanding of cosmic evolution. Computer simulations have played a key role in these developments by providing the means to interpret astronomical data in the context of physical and cosmological theory. In the current paradigm, our Universe has a flat geometry, is undergoing accelerated expansion and is gravitationally dominated by elementary particles that make up cold dark matter. Within this framework, it is possible to simulate in a computer the emergence of galaxies and other structures from small quantum fluctuations imprinted during an epoch of inflationary expansion shortly after the Big Bang. The simulations must take into account the evolution of the dark matter as well as the gaseous processes involved in the formation of stars and other visible components. Although many unresolved questions remain, a coherent picture for the formation of cosmic structure is now beginning to emerge. PMID:12804279

  17. General relativity and cosmic structure formation

    NASA Astrophysics Data System (ADS)

    Adamek, Julian; Daverio, David; Durrer, Ruth; Kunz, Martin

    2016-04-01

    Numerical simulations are a versatile tool for providing insight into the complicated process of structure formation in cosmology. This process is mainly governed by gravity, which is the dominant force on large scales. At present, a century after the formulation of general relativity, numerical codes for structure formation still employ Newton’s law of gravitation. This approximation relies on the two assumptions that gravitational fields are weak and that they originate from non-relativistic matter. Whereas the former seems well justified on cosmological scales, the latter imposes restrictions on the nature of the `dark’ components of the Universe (dark matter and dark energy), which are, however, poorly understood. Here we present the first simulations of cosmic structure formation using equations consistently derived from general relativity. We study in detail the small relativistic effects for a standard lambda cold dark matter cosmology that cannot be obtained within a purely Newtonian framework. Our particle-mesh N-body code computes all six degrees of freedom of the metric and consistently solves the geodesic equation for particles, taking into account the relativistic potentials and the frame-dragging force. This conceptually clean approach is very general and can be applied to various settings where the Newtonian approximation fails or becomes inaccurate, ranging from simulations of models with dynamical dark energy or warm/hot dark matter to core collapse supernova explosions.

  18. Stochastic structure formation in random media

    NASA Astrophysics Data System (ADS)

    Klyatskin, V. I.

    2016-01-01

    Stochastic structure formation in random media is considered using examples of elementary dynamical systems related to the two-dimensional geophysical fluid dynamics (Gaussian random fields) and to stochastically excited dynamical systems described by partial differential equations (lognormal random fields). In the latter case, spatial structures (clusters) may form with a probability of one in almost every system realization due to rare events happening with vanishing probability. Problems involving stochastic parametric excitation occur in fluid dynamics, magnetohydrodynamics, plasma physics, astrophysics, and radiophysics. A more complicated stochastic problem dealing with anomalous structures on the sea surface (rogue waves) is also considered, where the random Gaussian generation of sea surface roughness is accompanied by parametric excitation.

  19. Cerium Oxyhydroxide Clusters: Formation, Structure and Reactivity

    SciTech Connect

    Aubriet, F.; Gaumet, Jean-Jacques; De Jong, Wibe A.; Groenewold, G. S.; Gianotto, Anita K.; McIIwain, Michael E.; Van Stipdonk, Michael J.; Leavitt, Christopher M.

    2009-05-11

    Cerium oxyhydroxide cluster anions were produced by irradiating ceric oxide particles using 355 nm laser pulses that were synchronized with pulses of nitrogen gas admitted to the irradiation chamber. The gas pulse stabilized the nascent clusters that are largely anhydrous [CexOy] ions and neutrals. These initially-formed species react with water, principally forming closed-shell (c-s) oxohydroxy species that are described by the general formula [CexOy(OH)z]-. In general, the extent of hydroxylation varies from a value of 3 OH per Ce atom when x = 1 to a value slightly greater than 1 for x > 8. The Ce3 and Ce6 species deviate significantly from this trend: the x = 3 cluster accommodates more hydroxyl moieties compared to neighboring congeners at x = 2 and x = 4. Conversely, the x = 6 cluster is significantly less hydroxylated. Density functional theory (DFT) modeling of the cluster structures show that the hydrated clusters are hydrolyzed, and contain one-to-multiple hydroxide moieties, but not datively bound water. DFT also predicts an energetic preference for formation of highly symmetric structures as the size of the clusters increases. The calculated structures indicate that the ability of the Ce3 oxyhydroxide to accommodate more extensive hydroxylation is due to a more open, hexagonal structure in which the Ce atoms can participate in multiple hydrolysis reactions. Conversely the Ce6 oxyhydroxide has an octahedral structure that is not conducive to hydrolysis. In addition to the c-s clusters, open-shell (o-s) oxyhydroxides and superoxides are also formed, and they become more prominent as the size of the clusters increases, suggesting that the larger ceria clusters have an increased ability to stabilize a non-bonding electron. The overall intensity of the clusters tends to monotonically decrease as the cluster size increases, however this trend is interrupted at Ce13, which is significantly more stable compared to neighboring congeners, suggesting formation of

  20. Cerium Oxyhydroxide Clusters: Formation, Structure and Reactivity

    SciTech Connect

    Frederic Aubriet; Jean-Jacques Gaumet; Wibe A de Jong; Groenewold, Gary S; Gianotto, Anita K; McIlwain, Michael E; Michael J. Van Stipdonk; Christopher M. Leavitt

    2009-06-01

    Cerium oxyhydroxide cluster anions were produced by irradiating ceric oxide particles using 355 nm laser pulses that were synchronized with pulses of nitrogen gas admitted to the irradiation chamber. The gas pulse stabilized the nascent clusters that are largely anhydrous [CexOy] ions and neutrals. These initially-formed species react with water, principally forming closed-shell (c-s) oxohydroxy species that are described by the general formula [CexOy(OH)z]-. In general, the extent of hydroxylation varies from a value of 3 OH per Ce atom when x = 1 to a value slightly greater than 1 for x > 8. The Ce3 and Ce6 species deviate significantly from this trend: the x = 3 cluster accommodates more hydroxyl moieties compared to neighboring congeners at x = 2 and x = 4. Conversely, the x = 6 cluster is significantly less hydroxylated. Density functional theory (DFT) modeling of the cluster structures show that the hydrated clusters are hydrolyzed, and contain one-to-multiple hydroxide moieties, but not datively bound water. DFT also predicts an energetic preference for formation of highly symmetric structures as the size of the clusters increases. The calculated structures indicate that the ability of the Ce3 oxyhydroxide to accommodate more extensive hydroxylation is due to a more open, hexagonal structure in which the Ce atoms can participate in multiple hydrolysis reactions. Conversely the Ce6 oxyhydroxide has an octahedral structure that is not conducive to hydrolysis. In addition to the c-s clusters, open-shell (o-s) oxyhydroxides and superoxides are also formed, and they become more prominent as the size of the clusters increases, suggesting that the larger ceria clusters have an increased ability to stabilize a non-bonding electron. The overall intensity of the clusters tends to monotonically decrease as the cluster size increases, however this trend is interrupted at Ce13, which is significantly more stable compared to neighboring congeners, suggesting formation of

  1. Secondary structure formation in peptide amphiphile micelles

    NASA Astrophysics Data System (ADS)

    Tirrell, Matthew

    2012-02-01

    Peptide amphiphiles (PAs) are capable of self-assembly into micelles for use in the targeted delivery of peptide therapeutics and diagnostics. PA micelles exhibit a structural resemblance to proteins by having folded bioactive peptides displayed on the exterior of a hydrophobic core. We have studied two factors that influence PA secondary structure in micellar assemblies: the length of the peptide headgroup and amino acids closest to the micelle core. Peptide length was systematically varied using a heptad repeat PA. For all PAs the addition of a C12 tail induced micellization and secondary structure. PAs with 9 amino acids formed beta-sheet interactions upon aggregation, whereas the 23 and 30 residue peptides were displayed in an apha-helical conformation. The 16 amino acid PA experienced a structural transition from helix to sheet, indicating that kinetics play a role in secondary structure formation. A p53 peptide was conjugated to a C16 tail via various linkers to study the effect of linker chemistry on PA headgroup conformation. With no linker the p53 headgroup was predominantly alpha helix and a four alanine linker drastically changed the structure of the peptide headgroup to beta-sheet, highlighting the importance of hydrogen boding potential near the micelle core.

  2. Cosmological structure formation from soft topological defects

    NASA Technical Reports Server (NTRS)

    Hill, Christopher T.; Schramm, David N.; Fry, J. N.

    1988-01-01

    Some models have extremely low-mass pseudo-Goldstone bosons that can lead to vacuum phase transitions at late times, after the decoupling of the microwave background.. This can generate structure formation at redshifts z greater than or approx 10 on mass scales as large as M approx 10 to the 18th solar masses. Such low energy transitions can lead to large but phenomenologically acceptable density inhomogeneities in soft topological defects (e.g., domain walls) with minimal variations in the microwave anisotropy, as small as delta Y/T less than or approx 10 to the minus 6 power. This mechanism is independent of the existence of hot, cold, or baryonic dark matter. It is a novel alternative to both cosmic string and to inflationary quantum fluctuations as the origin of structure in the Universe.

  3. The formation and structure of Olympic gels

    NASA Astrophysics Data System (ADS)

    Fischer, J.; Lang, M.; Sommer, J.-U.

    2015-12-01

    Different methods for creating Olympic gels are analyzed using computer simulations. First ideal reference samples are obtained from freely interpenetrating semi-dilute solutions and melts of cyclic polymers. The distribution of pairwise concatenations per cyclic molecule is given by a Poisson-distribution and can be used to describe the elastic structure of the gels. Several batches of linear chains decorated with different selectively binding groups at their ends are mixed in the "DNA Origami" technique and network formation is realized. While the formation of cyclic molecules follows mean field predictions below overlap of the precursor molecules, an enhanced ring formation above overlap is found that is not explained by mean field arguments. The "progressive construction" method allows to create Olympic gels with a single reaction step from a concentrated mixture of large compressed rings with a low weight fraction of short chains that are below overlap concentration. This method, however, is limited by the difficulty to obtain a sufficiently high degree of polymerization of the large rings.

  4. Formation of Structure in the Universe

    NASA Technical Reports Server (NTRS)

    Bahcall, John; Fisher, Karl; Miralda-Escude, Jordi; Strauss, Michael; Weinberg, David

    1997-01-01

    This grant supported research by the investigators through summer salary support for Strauss and Weinberg, support for graduate students at Princeton University and Ohio State University, and travel, visitor, and publication support for the investigators. The grant originally had a duration of 1 year, and it was extended (without additional funding) for an additional year. The impact of the grant was considerable given its relatively modest duration and funding level, in part because it provided 'seed' funding to get Strauss and Weinberg started at new institutions, and in part because it was combined with support from subsequent grants. Here we summarize progress in the three general areas described in the grant proposal: Lyman alpha absorbers and the intergalactic medium, galaxy formation; and large scale structure.

  5. Electrically induced structure formation and pattern transfer

    NASA Astrophysics Data System (ADS)

    Schäffer, Erik; Thurn-Albrecht, Thomas; Russell, Thomas P.; Steiner, Ullrich

    2000-02-01

    The wavelength of light represents a fundamental technological barrier to the production of increasingly smaller features on integrated circuits. New technologies that allow the replication of patterns on scales less than 100nm need to be developed if increases in computing power are to continue at the present rate. Here we report a simple electrostatic technique that creates and replicates lateral structures in polymer films on a submicrometre length scale. Our method is based on the fact that dielectric media experience a force in an electric field gradient. Strong field gradients can produce forces that overcome the surface tension in thin liquid films, inducing an instability that features a characteristic hexagonal order. In our experiments, pattern formation takes place in polymer films at elevated temperatures, and is fixed by cooling the sample to room temperature. The application of a laterally varying electric field causes the instability to be focused in the direction of the highest electric field. This results in the replication of a topographically structured electrode. We report patterns with lateral dimensions of 140nm, but the extension of the technique to pattern replication on scales smaller than 100nm seems feasible.

  6. Diagnosing delayed ettringite formation in concrete structures

    SciTech Connect

    Thomas, Michael Folliard, Kevin Drimalas, Thano Ramlochan, Terry

    2008-06-15

    There has been a number of cases involving deteriorated concrete structures in North America where there has been considerable controversy surrounding the respective contributions of alkali-silica reaction (ASR) and delayed ettringite formation (DEF) to the observed damage. The problem arises because the macroscopic symptoms of distress are not unequivocal and microscopical examinations of field samples often reveal evidence of both processes making it difficult to separate the individual contributions. This paper presents the results of an investigation of a number of concrete columns carrying a raised expressway in North America; prior studies had implicated both DEF and ASR as possible causes of deterioration. Although the columns were not deliberately heat-cured, it is estimated that the peak internal temperature would have exceeded 70 deg. C and perhaps even 80 deg. C, in some cases. The forensic investigation included scanning electron microscopy with energy-dispersive X-ray analysis and expansion testing of cores extracted from the structure. Small-diameter cores stored in limewater expanded significantly (0.3 to 1.3%) and on the basis of supplementary tests on laboratory-produced concrete specimens it was concluded that expansion under such conditions is caused by DEF as the conditions of the test will not sustain ASR. In at least one column, DEF was diagnosed as the sole contributory cause of damage with no evidence of any contribution from ASR or any other deterioration process. In other cases, both ASR and DEF were observed to have contributed to the apparent damage. Of the columns examined, only concrete containing fly ash appeared to be undamaged. The results of this study confirm that, under certain conditions, the process of DEF (acting in isolation of other processes) can result in significant deterioration of cast-in-place reinforced concrete structures.

  7. Ultraviolet background radiation from cosmic structure formation

    NASA Astrophysics Data System (ADS)

    Miniati, Francesco; Ferrara, Andrea; White, Simon D. M.; Bianchi, Simone

    2004-03-01

    We calculate the contribution to the ultraviolet background (UVB) from thermal emission from gas shock heated during cosmic structure formation. Our main calculation is based on an updated version of Press-Schechter theory. It is consistent with a more empirical estimate based on the observed properties of galaxies and the observed cosmic star formation history. Thermal UVB emission is characterized by a hard spectrum extending well beyond 4 Ryd. The bulk of the radiation is produced by objects in the mass range 1011-1013 Msolar, i.e. large galaxies and small groups. We compute a composite UVB spectrum due to quasi-stellar object (QSO), stellar and thermal components. The ratio of the UVB intensities at the H and He Lyman limits increases from 60 at z= 2 to more than 300 at z= 6. A comparison of the resulting photoionization rates to the observed Gunn-Peterson effect at high redshifts constrains the escape fraction of ionizing photons from galaxies to be less than a few per cent. Near 1 Ryd, thermal and stellar emission are comparable, amounting to about 10, 20 and 35 per cent of the total flux at redshifts of 3, 4.5 and higher, respectively. However, near the ionization threshold for He II, the thermal contribution is much stronger. It is comparable to the QSO intensity already at redshift ~3 and dominates at redshifts above 4. Thermal photons alone are enough to produce and sustain He II reionization already at z~ 6. We discuss the possible implications of our results for the thermal history of the intergalactic medium, in particular for He II reionization.

  8. Structural control on karst collapse sinkhole formation

    NASA Astrophysics Data System (ADS)

    Santo, Antonio; Ascione, Alessandra; Mazzoli, Stefano; Santangelo, Nicoletta

    2013-04-01

    Collapse sinkholes owing their formation to erosion and deformation phenomena caused by subsurface karstification are widespread in the carbonate massifs of peninsular Italy. In contrast with solution dolines, which are densely distributed on the subplanar top surfaces of the carbonate massifs, the collapse sinkholes (hereinafter labelled karst collapse sinkholes) generally occur as isolated landforms and mostly affect the slopes and piedmont areas. In the latter instances, the sinkholes also affect alluvial fan conglomerates, or slope debris, overlying the carbonate rocks. We investigated the karst collapse sinkholes of the southern-central Apennines mountain belt (Italy), which is representative of a young orogenic system, characterised by recent tectonic activity and strong seismicity. The aim of the study is the identification of the causative factors which control the occurrence of such hazardous phenomena. The study was based on a regional scale analysis on sinkhole distribution in relation to the local geological-structural, geomorphological and hydrogeological contexts, and was paralleled with field analysis of some selected areas. The regional scale analysis indicates that the karst collapse sinkholes are not the mere response to the concurrence of the climatic and lithological conditions which commonly favour the development of karst processes, the occurrence of such landforms appearing strongly influenced by distinctive structural and hydrogeological conditions. In particular, a close relationship between the karst collapse sinkholes and the main extensional faults showing evidence of late Quaternary activity may be envisaged. This is inferred from the spatial distribution of the karst collapse sinkholes, which is strikingly uneven, the sinkholes generally occurring in alignments following large late Quaternary fault zones, or being clustered at the terminations of those faults. In addition, areas affected by the occurrence of groups of sinkholes, are

  9. Structure Formation of Block Copolymer Membranes

    NASA Astrophysics Data System (ADS)

    Abetz, Volker

    2013-03-01

    Isoporous membranes have received increasing attention during the last couple of years. The advantage of these materials is to give access to membranes with a very high number density of pores with controlled diameters, thus leading to ultrafiltration membranes with a very high permeability, and simultaneously also with a very high selectivity in terms of size exclusion. Different approaches have been reported, which typically involve the transfer of a thin block copolymer film from a solid to a porous support, eventually followed by an edging step. An alternative strategy is to form integral asymmetric membranes, where the thin top layer is continuously changing into a spongy support layer, thus avoiding the build-up of mechanical stresses. This happens by subjecting the cast polymer solution film into a precipitant, inducing the so-called phase inversion by exchange of solvent with the non-solvent. Here it is important to have a system where solvent and nonsolvent are fully miscible. This strategy also enables the direct formation of open pores without a subsequent edging step, if the solvents and nonsolvents are appropriately chosen. Different types of amphiphilic block copolymers based on styrene, 2- or 4-vinyl pyridine, and ethylene oxide with various compositions and molecular weights will be discussed. These block copolymers were dissolved at different concentrations in various solvent mixtures, and then cast on a non-woven support, which was either pretreated with a liquid, or not. Varying the time before the cast solution was subjected to phase inversion, as well as choosing the temperature of the precipitation bath, are further parameters having strong influence on the obtained membrane film structure. Membranes with pore forming blocks showing pH or temperature sensitive behaviour can be reversibly switched from an open state to a closed state. The size of the pores can be controlled by both molecular weight and composition of the block copolymers.

  10. Nonlinear structure formation in flat cosmological models

    NASA Technical Reports Server (NTRS)

    Martel, Hugo

    1995-01-01

    This paper describes the formation of nonlinear structure in flat (zero curvature) Friedmann cosmological models. We consider models with two components: the usual nonrelativistic component that evolves under gravity and eventually forms the large-scale structure of the universe, and a uniform dark matter component that does not clump under gravity, and whose energy density varies with the scale factor a(t) like a(t)(sup -n), where n is a free parameter. Each model is characterized by two parameters: the exponent n and the present density parameter Omega(sub 0) of the nonrelativistic component. The linear perturbation equations are derived and solved for these models, for the three different cases n = 3, n is greater than 3, and n is less than 3. The case n = 3 is relevant to model with massive neutrinos. The presence of the uniform component strongly reduces the growth of the perturbation compared with the Einstein-de Sitter model. We show that the Meszaros effect (suppression of growth at high redshift) holds not only for n = 4, radiation-dominated models, but for all models with n is greater than 3. This essentially rules out any such model. For the case n is less than 3, we numerically integrate the perturbation equations from the big bang to the present, for 620 different models with various values of Omega(sub 0) and n. Using these solutions, we show that the function f(Omega(sub 0), n) = (a/delta(sub +))d(delta)(sub +)/da, which enters in the relationship between the present density contrast delta(sub 0) and peculiar velocity field u(sub 0) is essentially independent of n. We derive approximate solutions for the second-order perturbation equations. These second-order solutions are tested against the exact solutions and the Zel'dovich approximation for spherically symmetric perturbations in the marginally nonlinear regime (the absolute value of delta is less than or approximately 1). The second-order and Zel'dovich solutions have comparable accuracy

  11. Structural Analysis of Dusty Plasma Formations Based on Spatial Spectra

    SciTech Connect

    Khakhaev, A. D.; Luizova, L. A.; Piskunov, A. A.; Podryadchikov, S. F.; Soloviev, A. V.

    2008-09-07

    Some advantages of studying the structure of dusty plasma formations using spatial spectra are illustrated by simulated experiments and by processing actual images of dusty structures in dc glow discharge in inert and molecular gases.

  12. Structure and formation of ant transportation networks

    PubMed Central

    Latty, Tanya; Ramsch, Kai; Ito, Kentaro; Nakagaki, Toshiyuki; Sumpter, David J. T.; Middendorf, Martin; Beekman, Madeleine

    2011-01-01

    Many biological systems use extensive networks for the transport of resources and information. Ants are no exception. How do biological systems achieve efficient transportation networks in the absence of centralized control and without global knowledge of the environment? Here, we address this question by studying the formation and properties of inter-nest transportation networks in the Argentine ant (Linepithema humile). We find that the formation of inter-nest networks depends on the number of ants involved in the construction process. When the number of ants is sufficient and networks do form, they tend to have short total length but a low level of robustness. These networks are topologically similar to either minimum spanning trees or Steiner networks. The process of network formation involves an initial construction of multiple links followed by a pruning process that reduces the number of trails. Our study thus illuminates the conditions under and the process by which minimal biological transport networks can be constructed. PMID:21288958

  13. Formation and structure of neutrino astronomical objects

    NASA Astrophysics Data System (ADS)

    Lu, Tan; Luo, Liao-fu; Yang, Gou-chen

    1981-12-01

    Neutrinos with non-zero mass could gather to form a new kind of astronomical bodies: the Neutrino Astronomical Objects (NAO). We have investigated the mechanism of their formation and the relation of this formation to that of the galaxies, ascertained their e, p, He 4 content, whose presence should produce a series of observable effects. NAOs are a peculiar kind of heavenly bodies with many new properties. They have a linear size of the order of 100 pc, a total neutrino content of the order of 10 14M⊙ and an e, p, He 4 content of the order of 10 9M⊙.

  14. Multilayer structure formation via homophily and homeostasis

    NASA Astrophysics Data System (ADS)

    Makarov, Vladimir V.; Koronovskii, Alexey A.; Maksimenko, Vladimir A.; Khramova, Marina V.; Hramov, Alexander E.; Pavlov, Alexey N.; Moskalenko, Olga I.; Buldú, Javier M.; Boccaletti, Stefano

    2016-03-01

    The competition of homophily and homeostasis mechanisms taking place in the multilayer network where several layers of connection topologies are simultaneously present as well as the interaction between layers is considered. We have shown that the competition of homophily and homeostasis leads in such networks to the formation of synchronous patterns within the different layers of the network, which may be both the distinct and identical.

  15. Formation of the structure of gold nanoclusters during crystallization

    SciTech Connect

    Gafner, Yu. Ya. Goloven'ko, Zh. V.; Gafner, S. L.

    2013-02-15

    The structure formation in gold nanoparticles 1.6-5.0 nm in diameter is studied by molecular dynamics simulation using a tight-binding potential. The simulation shows that the initial fcc phase in small Au clusters transforms into other structural modifications as temperature changes. As the cluster size increases, the transition temperature shifts toward the melting temperature of the cluster. The effect of various crystallization conditions on the formation of the internal structure of gold nanoclusters is studied in terms of microcanonical and canonical ensembles. The stability boundaries of various crystalline isomers are analyzed. The obtained dependences are compared with the corresponding data obtained for copper and nickel nanoparticles. The structure formation during crystallization is found to be characterized by a clear effect of the particle size on the stability of a certain isomer modification. Nickel and copper clusters are shown to exhibit common features in the formation of their structural properties, whereas gold clusters demonstrate much more complex behavior.

  16. Formation and structure of misfit dislocations

    NASA Astrophysics Data System (ADS)

    Nandedkar, A. S.; Srinivasan, G. R.; Murthy, C. S.

    1991-03-01

    We report here theoretical observations of the evolution of core structure of well-defined misfit dislocations arising from the spontaneous decomposition of highly strained coherent interfaces in a fcc bicrystal. We use a finely stepped energy-minimization technique and Lennard-Jones pair potential, which allowed Burgers-circuit construction and core-structure analysis. Simulations were made for (111) and (001) interfaces, which produced 60° and edge dislocations, respectively. The atomic configurations produced were consistent with those expected from the elasticity theory.

  17. Formation of bulk refractive index structures

    DOEpatents

    Potter, Jr., Barrett George; Potter, Kelly Simmons; Wheeler, David R.; Jamison, Gregory M.

    2003-07-15

    A method of making a stacked three-dimensional refractive index structure in photosensitive materials using photo-patterning where first determined is the wavelength at which a photosensitive material film exhibits a change in refractive index upon exposure to optical radiation, a portion of the surfaces of the photosensitive material film is optically irradiated, the film is marked to produce a registry mark. Multiple films are produced and aligned using the registry marks to form a stacked three-dimensional refractive index structure.

  18. Structure and Mechanism of a Pentameric Formate Channel

    SciTech Connect

    Waight, A.; Love, J; Wang, D

    2010-01-01

    Formate transport across the inner membrane is a critical step in anaerobic bacterial respiration. Members of the formate/nitrite transport protein family function to shuttle substrate across the cytoplasmic membrane. In bacterial pathogens, the nitrite transport protein is involved in protecting bacteria from peroxynitrite released by host macrophages. We have determined the 2.13-{angstrom} structure of the formate channel FocA from Vibrio cholerae, which reveals a pentamer in which each monomer possesses its own substrate translocation pore. Unexpectedly, the fold of the FocA monomer resembles that found in water and glycerol channels. The selectivity filter in FocA consists of a cytoplasmic slit and a central constriction ring. A 2.5-{angstrom} high-formate structure shows two formate ions bound to the cytoplasmic slit via both hydrogen bonding and van der Waals interactions, providing a structural basis for the substrate selectivity of the channel.

  19. G-triplex structure and formation propensity

    PubMed Central

    Cerofolini, Linda; Amato, Jussara; Giachetti, Andrea; Limongelli, Vittorio; Novellino, Ettore; Parrinello, Michele; Fragai, Marco; Randazzo, Antonio; Luchinat, Claudio

    2014-01-01

    The occurrence of a G-triplex folding intermediate of thrombin binding aptamer (TBA) has been recently predicted by metadynamics calculations, and experimentally supported by Nuclear Magnetic Resonance (NMR), Circular Dichroism (CD) and Differential Scanning Calorimetry (DSC) data collected on a 3′ end TBA-truncated 11-mer oligonucleotide (11-mer-3′-t-TBA). Here we present the solution structure of 11-mer-3′-t-TBA in the presence of potassium ions. This structure is the first experimental example of a G-triplex folding, where a network of Hoogsteen-like hydrogen bonds stabilizes six guanines to form two G:G:G triad planes. The G-triplex folding of 11-mer-3′-t-TBA is stabilized by the potassium ion and destabilized by increasing the temperature. The superimposition of the experimental structure with that predicted by metadynamics shows a great similarity, with only significant differences involving two loops. These new structural data show that 11-mer-3′-t-TBA assumes a G-triplex DNA conformation as its stable form, reinforcing the idea that G-triplex folding intermediates may occur in vivo in human guanine-rich sequences. NMR and CD screening of eight different constructs obtained by removing from one to four bases at either the 3′ and the 5′ ends show that only the 11-mer-3′-t-TBA yields a relatively stable G-triplex. PMID:25378342

  20. Selective formation of turbulent structures in magnetized cylindrical plasmas

    SciTech Connect

    Kasuya, Naohiro; Itoh, Kimitaka; Yagi, Masatoshi; Itoh, Sanae-I

    2008-05-15

    The mechanism of nonlinear structural formation has been studied with a three-field reduced fluid model, which is extended to describe the resistive drift wave turbulence in magnetized cylindrical plasmas. In this model, ion-neutral collisions strongly stabilize the resistive drift wave, and the formed structure depends on the collision frequency. If the collision frequency is small, modulational coupling of unstable modes generates a zonal flow. On the other hand, if the collision frequency is large, a streamer, which is a localized vortex in the azimuthal direction, is formed. The structure is generated by nonlinear wave coupling and is sustained for a much longer duration than the drift wave oscillation period. This is a minimal model for analyzing the turbulent structural formation mechanism by mode coupling in cylindrical plasmas, and the competitive nature of structural formation is revealed. These turbulent structures affect particle transport.

  1. Adolescent Identity Formation and the Organizational Structure of High Schools.

    ERIC Educational Resources Information Center

    Schmiedeck, Raoul A.

    1979-01-01

    The author describes aspects of the size and organizational structure of high schools which reduce human contact and have a negative influence on the sense of community, the development of relationships, and the formation of personal identity. (Author/SJL)

  2. The Temporal Structure of Scientific Consensus Formation

    PubMed Central

    Shwed, Uri; Bearman, Peter S.

    2011-01-01

    This article engages with problems that are usually opaque: What trajectories do scientific debates assume, when does a scientific community consider a proposition to be a fact, and how can we know that? We develop a strategy for evaluating the state of scientific contestation on issues. The analysis builds from Latour’s black box imagery, which we observe in scientific citation networks. We show that as consensus forms, the importance of internal divisions to the overall network structure declines. We consider substantive cases that are now considered facts, such as the carcinogenicity of smoking and the non-carcinogenicity of coffee. We then employ the same analysis to currently contested cases: the suspected carcinogenicity of cellular phones, and the relationship between vaccines and autism. Extracting meaning from the internal structure of scientific knowledge carves a niche for renewed sociological commentary on science, revealing a typology of trajectories that scientific propositions may experience en route to consensus. PMID:21886269

  3. Structure formation of thermally driven turbulence

    NASA Astrophysics Data System (ADS)

    Kawazura, Yohei; Yoshida, Zensho

    2013-10-01

    Self-organized structures in plasma turbulence, such as zonal flow and streamer, play important roles in terms of confinement in fusion devices. Recently thermodynamical approaches to dictate self-organization are proposed. Yoshida and Mahajan explained the bifurcation to ``High confinement mode'' in magnetically confined fusion device by using thermodynamic model. The nonexact term available to generate vorticity in equation of motion is baroclinicity (T∇S). Assuming circulation of the fluid element as cycle of heat engine, fluid mechanics and thermodynamic laws can be connected. In this study, by solving the fluid equation of motion as specific mechanical process, we investigate the connection between thermal driving of turbulence and self-organization of vortical structures. Grant-in-Aid for JSPS Fellows 241010.

  4. Formation of cosmic structure by Doppler instability

    NASA Technical Reports Server (NTRS)

    Hogan, Craig J.

    1991-01-01

    A new mechanism is described which can create an instability in homogeneous gaseous matter at very low density. When an isotropic background radiation field has, near an electronic resonance, a spectral feature for which photon occupation number increases with frequency, moving atoms increase their speed by taking energy from the photon distribution. In a cosmological setting, a sufficiently intense spectral feature can interact with neutral atomic gas, after recombination, to generate protogalactic perturbations of the scale and magnitude needed to explain large-scale cosmic structure.

  5. Structural template formation with discovery of subclasses

    NASA Astrophysics Data System (ADS)

    Long, Xiaojing; Wyatt, Chris

    2010-03-01

    A major focus of computational anatomy is to extract the most relevant information to identify and characterize anatomical variability within a group of subjects as well as between different groups. The construction of atlases is central to this effort. An atlas is a deterministic or probabilistic model with intensity variance, structural, functional or biochemical information over a population. To date most algorithms to construct atlases have been based on a single subject assuming that the population is best described by a single atlas. However, we believe that in a population with a wide range of subjects multiple atlases may be more representative since they reveal the anatomical differences and similarities within the group. In this work, we propose to use the K-means clustering algorithm to partition a set of images into several subclasses, based on a joint distance which is composed of a distance quantifying the deformation between images and a dissimilarity measured from the registration residual. During clustering, the spatial transformations are averaged rather than images to form cluster centers, to ensure a crisp reference. At the end of this algorithm, the updated centers of the k clusters are our atlases. We demonstrate this algorithm on a subset of a public available database with whole brain volumes of subjects aged 18-96 years. The atlases constructed by this method capture the significant structural differences across the group.

  6. Competing stability modes in vortex structure formation

    NASA Astrophysics Data System (ADS)

    Garrett, Stephen; Gostelow, J. Paul; Rona, Aldo; McMullan, W. Andrew

    2015-11-01

    Nose cones and turbine blades have rotating components and represent very practical geometries for which the behavior of vortex structures is not completely understood. These two different physical cases demonstrate a common theme of competition between mode and vortex types. The literature concerning boundary-layer transition over rotating cones presents clear evidence of an alternative instability mode leading to counter-rotating vortex pairs, consistent with a centrifugal instability. This is in contrast to co-rotating vortices present over rotating disks that arise from crossflow effects. It is demonstrated analytically that this mode competes with the crossflow mode and is dominant only over slender cones. Predictions are aligned with experimental measurements over slender cones. Concurrent experimental work on the flow over swept cylinders shows that organized fine-scale streamwise vorticity occurs more frequently on convex surfaces than is appreciated. The conventional view of purely two-dimensional laminar boundary layers following blunt leading edges is not realistic and such boundary layers need to be treated three-dimensionally, particularly when sweep is present. The vortical structures are counter-rotating for normal cylinders and co-rotating under high sweep conditions. Crossflow instabilities may have a major role to play in the transition process but the streamline curvature mode is still present, and seemingly unchanged, when the boundary layer becomes turbulent.

  7. Structural Basis for Glycyl Radical Formation By Pyruvate Formate-Lyase Activating Enzyme

    SciTech Connect

    Vey, J.L.; Yang, J.; Li, M.; Broderick, W.E.; Broderick, J.B.; Drennan, C.L.

    2009-05-26

    Pyruvate formate-lyase activating enzyme generates a stable and catalytically essential glycyl radical on G{sup 734} of pyruvate formate-lyase via the direct, stereospecific abstraction of a hydrogen atom from pyruvate formate-lyase. The activase performs this remarkable feat by using an iron-sulfur cluster and S-adenosylmethionine (AdoMet), thus placing it among the AdoMet radical superfamily of enzymes. We report here structures of the substrate-free and substrate-bound forms of pyruvate formate-lyase-activating enzyme, the first structures of an AdoMet radical activase. To obtain the substrate-bound structure, we have used a peptide substrate, the 7-mer RVSGYAV, which contains the sequence surrounding G{sup 734}. Our structures provide fundamental insights into the interactions between the activase and the G{sup 734} loop of pyruvate formate-lyase and provide a structural basis for direct and stereospecific H atom abstraction from the buried G{sup 734}4 of pyruvate formate-lyase.

  8. Nonlinear structure formation in nonlocal gravity

    SciTech Connect

    Barreira, Alexandre; Li, Baojiu; Hellwing, Wojciech A.; Baugh, Carlton M.; Pascoli, Silvia E-mail: baojiu.li@durham.ac.uk E-mail: c.m.baugh@durham.ac.uk

    2014-09-01

    We study the nonlinear growth of structure in nonlocal gravity models with the aid of N-body simulation and the spherical collapse and halo models. We focus on a model in which the inverse-squared of the d'Alembertian operator acts on the Ricci scalar in the action. For fixed cosmological parameters, this model differs from ΛCDM by having a lower late-time expansion rate and an enhanced and time-dependent gravitational strength ∼ 6% larger today). Compared to ΛCDM today, in the nonlocal model, massive haloes are slightly more abundant (by ∼ 10% at M ∼ 10{sup 14} M{sub ⊙}/h) and concentrated ≈ 8% enhancement over a range of mass scales), but their linear bias remains almost unchanged. We find that the Sheth-Tormen formalism describes the mass function and halo bias very well, with little need for recalibration of free parameters. The fitting of the halo concentrations is however essential to ensure the good performance of the halo model on small scales. For k ∼> 1 h/Mpc, the amplitude of the nonlinear matter and velocity divergence power spectra exhibits a modest enhancement of ∼ 12% to 15%, compared to ΛCDM today. This suggests that this model might only be distinguishable from ΛCDM by future observational missions. We point out that the absence of a screening mechanism may lead to tensions with Solar System tests due to local time variations of the gravitational strength, although this is subject to assumptions about the local time evolution of background averaged quantities.

  9. Femtosecond laser-induced periodic surface structure formation on tungsten

    SciTech Connect

    Vorobyev, A. Y.; Guo Chunlei

    2008-09-15

    In this paper, we demonstrate the generation of periodic surface structures on a technologically important material, tungsten, at both 400 and 800 nm, despite that the table values of dielectric constants for tungsten at these two wavelengths suggest the absence of surface plasmons, a wave necessary for forming periodic structures on metals. Furthermore, we find that the structure periods formed on tungsten are significantly less than the laser wavelengths. We believe that the dielectric constants of tungsten change significantly due to intense laser pulse heating and surface structuring and roughening at nanometer scales, permitting surface plasmon excitation and periodic structure formation.

  10. Internal Structure of Stellar Clusters: Geometry of Star Formation

    NASA Astrophysics Data System (ADS)

    Alfaro, Emilio J.; Sánchez, Néstor

    2011-04-01

    The study of the internal structure of star clusters provides important clues concerning their formation mechanism and dynamical evolution. There are both observational and numerical evidences indicating that open clusters evolve from an initial clumpy structure, presumably a direct consequence of the formation in a fractal medium, toward a centrally condensed state. This simple picture has, however, several drawbacks. There can be very young clusters exhibiting radial patterns maybe reflecting the early effect of gravity on primordial gas. There can be also very evolved clusters showing fractal patterns that either have survived through time or have been generated subsequently by some (unknown) mechanism. Additionally, the fractal structure of some open clusters is much clumpier than the average structure of the interstellar medium in the Milky Way, although in principle a very similar structure should be expected. Here we summarize and discuss observational and numerical results concerning this subject.

  11. Circulating Microparticles Alter Formation, Structure, and Properties of Fibrin Clots

    PubMed Central

    Zubairova, Laily D.; Nabiullina, Roza M.; Nagaswami, Chandrasekaran; Zuev, Yuriy F.; Mustafin, Ilshat G.; Litvinov, Rustem I.; Weisel, John W.

    2015-01-01

    Despite the importance of circulating microparticles in haemostasis and thrombosis, there is limited evidence for potential causative effects of naturally produced cell-derived microparticles on fibrin clot formation and its properties. We studied the significance of blood microparticles for fibrin formation, structure, and susceptibility to fibrinolysis by removing them from platelet-free plasma using filtration. Clots made in platelet-free and microparticle-depleted plasma samples from the same healthy donors were analyzed in parallel. Microparticles accelerate fibrin polymerisation and support formation of more compact clots that resist internal and external fibrinolysis. These variations correlate with faster thrombin generation, suggesting thrombin-mediated kinetic effects of microparticles on fibrin formation, structure, and properties. In addition, clots formed in the presence of microparticles, unlike clots from the microparticle-depleted plasma, contain 0.1–0.5-μm size granular and CD61-positive material on fibres, suggesting that platelet-derived microparticles attach to fibrin. Therefore, the blood of healthy individuals contains functional microparticles at the levels that have a procoagulant potential. They affect the structure and stability of fibrin clots indirectly through acceleration of thrombin generation and through direct physical incorporation into the fibrin network. Both mechanisms underlie a potential role of microparticles in haemostasis and thrombosis as modulators of fibrin formation, structure, and resistance to fibrinolysis. PMID:26635081

  12. Structure of tetracarbonylethyleneosmium: ethylene structure changes upon complex formation.

    PubMed

    Karunatilaka, Chandana; Tackett, Brandon S; Washington, John; Kukolich, Stephen G

    2007-08-29

    Rotational spectra of seven isotopomers of tetracarbonylethyleneosmium, Os(CO)4(eta2-C2H4), were measured in the 4-12 GHz range using a Flygare-Balle-type pulsed-beam Fourier transform microwave spectrometer system. Olefin-transition metal complexes of this type occur extensively in recent organic syntheses and serve as important models for transition states in the metal-mediated transformations of alkenes. Three osmium ((192)Os, (190)Os, and (188)Os) and three unique 13C isotopomers (13C in ethylene, axial, and equatorial positions) were observed in natural abundance. Additional spectra were measured for a perdeuterated sample, Os(CO)4(eta2-C2D4). The measured rotational constants for the main osmium isotopomer ((192)Os) are A = 929.3256(6), B = 755.1707(3), and C = 752.7446(3) MHz, indicating a near-prolate asymmetric top molecule. The approximately 140 assigned b-type transitions were fit using a Watson S-reduced Hamiltonian including A, B, C, and five centrifugal distortion constants. A near-complete r0 gas-phase structure has been determined from a least-squares structural fit using eight adjustable structural parameters to fit the 21 measured rotational constants. Changes in the structure of ethylene on coordination to Os(CO)4 are large and well-determined. For the complex, the experimental ethylene C-C bond length is 1.432(5) A, which falls between the free ethylene value of 1.3391(13) A and the ethane value of 1.534(2) A. The angle between the plane of the CH2 group and the extended ethylene C-C bond ( angleout-of-plane) is 26.0(3) degrees , indicating that this complex is better described as a metallacyclopropane than as a pi-bonded olefin-metal complex. The Os-C-C-H dihedral angle is 106.7(2) degrees , indicating that the ethylene carbon atoms have near sp3 character in the complex. Kraitchman analysis of the available rotational constants gave principal axis coordinates for the carbon and hydrogen atoms in excellent agreement with the least-squares fit

  13. The probabilistic mechanism of formation of block structures

    NASA Astrophysics Data System (ADS)

    Ivanov, V. I.

    2012-03-01

    Questions on the formation of block structures are considered. It is shown that the block structure is characteristic of bodies in a wide range of scales from microscopic to astronomic and from the bodies of nonliving nature to living organisms and communities. A scheme of the mechanism of the probabilistic formation of block structures is suggested. The characteristics general for structures of all scales are revealed. Evidence is presented that the hierarchical pattern of element sizes is characteristic of natural structures in which the ratio of linear sizes of elements neighboring by hierarchy is 2-5, while the characteristic scale coefficient is √ N , where N is the total number of elements of which the system is formed. The block-probabilistic approach ensures knowledge of rare catastrophic events, including earthquakes, market crashes, floods, and industrial catastrophes, or creative events such as the formation of hypercomplex systems similar to organisms and communities. The statistics of rare events follows the power distribution (the distribution with a "heavy tail") rather than the exponential one and especially the Poisson distribution, the Gaussian distribution, or the distributions with "light tails" close to them. The expression for the factor of increasing the formation probability of the systems, which is of many orders of magnitude even for the simplest systems, is acquired.

  14. Bifurcation of learning and structure formation in neuronal maps

    NASA Astrophysics Data System (ADS)

    Marschler, Christian; Faust-Ellsässer, Carmen; Starke, Jens; van Hemmen, J. Leo

    2014-11-01

    Most learning processes in neuronal networks happen on a much longer time scale than that of the underlying neuronal dynamics. It is therefore useful to analyze slowly varying macroscopic order parameters to explore a network's learning ability. We study the synaptic learning process giving rise to map formation in the laminar nucleus of the barn owl's auditory system. Using equation-free methods, we perform a bifurcation analysis of spatio-temporal structure formation in the associated synaptic-weight matrix. This enables us to analyze learning as a bifurcation process and follow the unstable states as well. A simple time translation of the learning window function shifts the bifurcation point of structure formation and goes along with traveling waves in the map, without changing the animal's sound localization performance.

  15. Food Composition Database Format and Structure: A User Focused Approach

    PubMed Central

    Clancy, Annabel K.; Woods, Kaitlyn; McMahon, Anne; Probst, Yasmine

    2015-01-01

    This study aimed to investigate the needs of Australian food composition database user’s regarding database format and relate this to the format of databases available globally. Three semi structured synchronous online focus groups (M = 3, F = 11) and n = 6 female key informant interviews were recorded. Beliefs surrounding the use, training, understanding, benefits and limitations of food composition data and databases were explored. Verbatim transcriptions underwent preliminary coding followed by thematic analysis with NVivo qualitative analysis software to extract the final themes. Schematic analysis was applied to the final themes related to database format. Desktop analysis also examined the format of six key globally available databases. 24 dominant themes were established, of which five related to format; database use, food classification, framework, accessibility and availability, and data derivation. Desktop analysis revealed that food classification systems varied considerably between databases. Microsoft Excel was a common file format used in all databases, and available software varied between countries. User’s also recognised that food composition databases format should ideally be designed specifically for the intended use, have a user-friendly food classification system, incorporate accurate data with clear explanation of data derivation and feature user input. However, such databases are limited by data availability and resources. Further exploration of data sharing options should be considered. Furthermore, user’s understanding of food composition data and databases limitations is inherent to the correct application of non-specific databases. Therefore, further exploration of user FCDB training should also be considered. PMID:26554836

  16. Family Structure: Its Effects on Adolescent Attachment and Identity Formation.

    ERIC Educational Resources Information Center

    Faber, Anthony J.; Edwards, Anne E.; Bauer, Karlin S.; Wetchler, Joseph L.

    2003-01-01

    Examines the association between family structure, attachment, and identity formation. Results partially support the hypotheses and indicate that unresolved spouse conflict is associated with low levels of attachment in adolescents and attachment to father is linked to identity achieved and the diffused identity status. Findings support a link…

  17. Formation of iron-rich shelled structures by microbial communities

    NASA Astrophysics Data System (ADS)

    Fernández-Remolar, David C.; Santamaría, Joan; Amils, Ricardo; Parro, Victor; Gómez-Ortíz, D.; Izawa, Matthew R. M.; Banerjee, Neil R.; Pérez Rodríguez, Raúl; Rodríguez, Nuria; López-Martínez, Nieves

    2015-01-01

    this paper, we describe the discovery and characterization of shelled structures that occur inside galleries of Pyrenees mines. The structures are formed by the mineralization of iron and zinc oxides, dominantly franklinite (ZnFe2O4) and poorly ordered goethite (α-FeO(OH)). Subsurface oxidation and hydration of polymetallic sulfide orebodies produce solutions rich in dissolved metal cations including Fe2+/3+ and Zn2+. The microbially precipitated shell-like structure grows by lateral or vertical stacking of thin laminae of iron oxide particles which are accreted mostly by fungal filaments. The resulting structures are composed of randomly oriented aggregates of needle-like, uniform-sized crystals, suggesting some biological control in the structure formation. Such structures are formed by the integration of two separated shells, following a complex process driven likely by different strategies of fungal microorganisms that produced the complex macrostructure.

  18. Orogenic structural inheritance and rifted passive margin formation

    NASA Astrophysics Data System (ADS)

    Salazar Mora, Claudio A.; Huismans, Ritske S.

    2016-04-01

    Structural inheritance is related to mechanical weaknesses in the lithosphere due to previous tectonic events, e.g. rifting, subduction and collision. The North and South Atlantic rifted passive margins that formed during the breakup of Western Gondwana, are parallel to the older Caledonide and the Brasiliano-Pan-African orogenic belts. In the South Atlantic, 'old' mantle lithospheric fabric resulting from crystallographic preferred orientation of olivine is suggested to play a role during rifted margin formation (Tommasi and Vauchez, 2001). Magnetometric and gravimetric mapping of onshore structures in the Camamu and Almada basins suggest that extensional faults are controlled by two different directions of inherited older Brasiliano structures in the upper lithosphere (Ferreira et al., 2009). In the South Atlantic Campos Basin, 3D seismic data indicate that inherited basement structures provide a first order control on basin structure (Fetter, 2009). Here we investigate the role of structural inheritance on the formation of rifted passive margins with high-resolution 2D thermo-mechanical numerical experiments. The numerical domain is 1200 km long and 600 km deep and represents the lithosphere and the sublithospheric mantle. Model experiments were carried out by creating self-consistent orogenic inheritance where a first phase of orogen formation is followed by extension. We focus in particular on the role of varying amount of orogenic shortening, crustal rheology, contrasting styles of orogen formation on rifted margin style, and the time delay between orogeny and subsequent rifted passive formation. Model results are compared to contrasting structural styles of rifted passive margin formation as observed in the South Atlantic. Ferreira, T.S., Caixeta, J.M., Lima, F.D., 2009. Basement control in Camamu and Almada rift basins. Boletim de Geociências da Petrobrás 17, 69-88. Fetter, M., 2009. The role of basement tectonic reactivation on the structural evolution

  19. Mechanisms underlying structural variant formation in genomic disorders

    PubMed Central

    Carvalho, Claudia M. B.; Lupski, James R.

    2016-01-01

    With the recent burst of technological developments in genomics, and the clinical implementation of genome-wide assays, our understanding of the molecular basis of genomic disorders, specifically the contribution of structural variation to disease burden, is evolving quickly. Ongoing studies have revealed a ubiquitous role for genome architecture in the formation of structural variants at a given locus, both in DNA recombination-based processes and in replication-based processes. These reports showcase the influence of repeat sequences on genomic stability and structural variant complexity and also highlight the tremendous plasticity and dynamic nature of our genome in evolution, health and disease susceptibility. PMID:26924765

  20. Hysteresis-driven structure formation in biochemical networks

    PubMed

    Klein

    1998-09-21

    A mechanism of structure formation, based on hysteresis behaviour is presented. A bisubstrate kinetic system with substrate inhibition, discussed previously in the context of Turing structure formation, may show hysteresis behaviour, when embedded in a metabolic network: the system may possess multiple steady states and may be switched from one stable fixpoint to the other. When cells containing this type of system are diffusively coupled, under certain conditions patterns result, which, as is demonstrated, are not of the Turing type. The main difference to diffusion-driven (Turing) structures is the fact that the hysteresis-driven patterns emerge under diffusive conditions, under which both the homogeneous and the asymmetrical steady state is stable. The resulting special properties and biological implications are discussed.Copyright 1998 Academic Press Limited PMID:9778438

  1. Connecting the density structure of molecular clouds and star formation.

    NASA Astrophysics Data System (ADS)

    Kainulainen, Jouni

    2015-08-01

    In the current paradigm of turbulence-regulated interstellar medium (ISM), star formation rates of entire galaxies are intricately linked to the density structure of the individual molecular clouds in the ISM. This density structure is essentially encapsulated in the probability distribution function of volume densities (rho-PDF), which directly affects the star formation rates predicted by analytic models. Contrasting its fundamental role, the rho-PDF function and its evolution have remained virtually unconstrained by observations. I describe in this contribution our recent progress in attaining observational constraints for the rho-PDFs of molecular clouds. Specifically, I review our first systematic determination of the rho-PDFs in Solar neighborhood molecular clouds. I will also present new evidence of the time evolution of the projected rho-PDFs, i.e., column density PDFs. These results together enable us to build the first observationally constrained link between the evolving density structure of molecular clouds and the star formation within. Finally, I discuss our work to expand the analysis into a Galactic context and to observationally connect the physical processes acting at the scale of molecular clouds with star formation at the scale of galaxies.

  2. Hierarchical Structure Formation of Nanoparticulate Spray-Dried Composite Aggregates.

    PubMed

    Zellmer, Sabrina; Garnweitner, Georg; Breinlinger, Thomas; Kraft, Torsten; Schilde, Carsten

    2015-11-24

    The design of hierarchically structured nano- and microparticles of different sizes, porosities, surface areas, compositions, and internal structures from nanoparticle building blocks is important for new or enhanced application properties of high-quality products in a variety of industries. Spray-drying processes are well-suited for the design of hierarchical structures of multicomponent products. This structure design using various nanoparticles as building blocks is one of the most important challenges for the future to create products with optimized or completely new properties. Furthermore, the transfer of designed nanomaterials to large-scale products with favorable handling and processing can be achieved. The resultant aggregate structure depends on the utilized nanoparticle building blocks as well as on a large number of process and formulation parameters. In this study, structure formation and segregation phenomena during the spray drying process were investigated to enable the synthesis of tailor-made nanostructures with defined properties. Moreover, a theoretical model of this segregation and structure formation in nanosuspensions is presented using a discrete element method simulation. PMID:26505280

  3. Formation, structure, and reactivity of palladium superoxo complexes

    SciTech Connect

    Talsi, E.P.; Babenko, V.P.; Shubin, A.A.; Chinakov, V.D.; Nekipelov, V.M.; Zamaraev, K.I.

    1987-11-18

    The mechanism of formation of palladium superoxo complexes, their structure, and their reactivity are discussed. The formation of the palladium superoxo complexes in the reaction of palladium(II) acetate, propionate, trifluororacetate, and bis(acetylacetonate) and palladium(0) tetrakis(triphenylphosphine) with hydrogen peroxide and potassium superoxide has been detected in solution by electron proton resonance. The oxidation of olefins and carbon monoxide by these complexes is considered. Reaction mechanisms and reaction kinetics for these oxidations are reported using the palladium superoxo complexes. 44 references, 8 figures, 2 tables.

  4. Excitonic gap formation and condensation in the bilayer graphene structure

    NASA Astrophysics Data System (ADS)

    Apinyan, V.; Kopeć, T. K.

    2016-09-01

    We have studied the excitonic gap formation in the Bernal Stacked, bilayer graphene (BLG) structures at half-filling. Considering the local Coulomb interaction between the layers, we calculate the excitonic gap parameter and we discuss the role of the interlayer and intralayer Coulomb interactions and the interlayer hopping on the excitonic pair formation in the BLG. Particularly, we predict the origin of excitonic gap formation and condensation, in relation to the furthermost interband optical transition spectrum. The general diagram of excitonic phase transition is given, explaining different interlayer correlation regimes. The temperature dependence of the excitonic gap parameter is shown and the role of the chemical potential, in the BLG, is discussed in details.

  5. Neural pattern formation in networks with dendritic structure

    NASA Astrophysics Data System (ADS)

    Bressloff, P. C.; De Souza, B.

    1998-04-01

    We present a detailed analysis of a recently proposed model of neural pattern formation that is based on the combined effect of diffusion along a neuron's dendritic tree and recurrent interactions along axo-dendritic synaptic connections. For concreteness, we consider a one-dimensional array of analog neurons with the dendritic tree idealized as a one-dimensional cable. Linear stability analysis and bifurcation theory together with numerical simulations are used to establish conditions for the onset of a Turing instability leading to the formation of stable spatial patterns of network output activity. It is shown that the presence of dendritic structure can induce dynamic (time-periodic) spatial pattern formation. Moreover, correlations between the dendritic location of a synapse and the relative positions of neurons in the network are shown to result in spatially oscillating patterns of activity along the dendrites of each neuron.

  6. Black Hole Mergers as Probes of Structure Formation

    NASA Technical Reports Server (NTRS)

    Alicea-Munoz, Emily

    2008-01-01

    Observations of gravitational waves from massive black hole (MBH) mergers can provide us with important clues about the era of structure formation in the early universe. Previous research in this field has been limited to calculating merger rates of MBHs using different models where many assumptions are made about the specific values of physical parameters of the mergers, resulting in merger rate estimates that span 5 to 6 orders of magnitude. We develop a semi-analytical, phenomenological model that includes plausible combinations of several physical parameters involved in the mergers. which we then turn around to determine how well LISA observations will be able to enhance our understanding of the universe during the critical z approximately equal to 5-30 structure formation era. We do this by generating synthetic LISA observable data (masses, redshifts, merger rates), which are then analyzed using a Markov Chain Monte Carlo (MCMC) method. This allows us to constrain the physical parameters of the mergers.

  7. Biased galaxy formation and large-scale structure

    NASA Astrophysics Data System (ADS)

    Berlind, Andreas Alan

    The biased relation between the galaxy and mass distributions lies at the intersection of large scale structure in the universe and the process of galaxy formation. I study the nature of galaxy bias and its connections to galaxy clustering and galaxy formation physics. Galaxy bias has traditionally been viewed as an obstacle to constraining cosmological parameters by studying galaxy clustering. I examine the effect of bias on measurements of the cosmological density parameter Wm by techniques that exploit the gravity-induced motions of galaxies. Using a variety of environmental bias models applied to N-body simulations, I find that, in most cases, the quantity estimated by these techniques is the value of W0.6m/bs , where bs is the ratio of rms galaxy fluctuations to rms mass fluctuations on large scales. Moreover, I find that different methods should, in principle, agree with each other and it is thus unlikely that non-linear or scale-dependent bias is responsible for the discrepancies that exist among current measurements. One can also view the influence of bias on galaxy clustering as a strength rather than a weakness, since it provides us with a potentially powerful way to constrain galaxy formation theories. With this goal in mind, I develop the "Halo Occupation Distribution" (HOD), a physically motivated and complete formulation of bias that is based on the distribution of galaxies within virialized dark matter halos. I explore the sensitivity of galaxy clustering statistics to features of the HOD and focus on how the HOD may be empirically constrained from galaxy clustering data. I make the connection to the physics of galaxy formation by studying the HOD predicted by the two main theoretical methods of modeling galaxy formation. I find that, despite many differences between them, the two methods predict the same HOD, suggesting that galaxy bias is determined by robust features of the hierarchical galaxy formation process rather than details of gas cooling

  8. Analysis of the Particle Formation Process of Structured Microparticles.

    PubMed

    Baldelli, Alberto; Boraey, Mohammed A; Nobes, David S; Vehring, Reinhard

    2015-08-01

    The particle formation process for microparticles of cellulose acetate butyrate dried from an acetone solution was investigated experimentally and theoretically. A monodisperse droplet chain was used to produce solution microdroplets in a size range of 55-70 μm with solution concentrations of 0.37 and 10 mg/mL. As the droplets dried in a laminar air flow with a temperature of 30, 40, or 55 °C, the particle formation process was recorded by two independent optical methods. Dried particles in a size range of 10-30 μm were collected for morphology analysis, showing hollow, elongated particles whose structure was dependent on the drying gas temperature and initial solution concentration. The setup allowed comprehensive measurements of the particle formation process to be made, including the period after initial shell formation. The early particle formation process for this system was controlled by the diffusion of cellulose acetate butyrate in the liquid phase, whereas later stages of the process were dominated by shell buckling and folding. PMID:25685865

  9. Cosmic string and formation of large scale structure.

    NASA Astrophysics Data System (ADS)

    Fang, L.-Z.; Xiang, S.-P.

    Cosmic string formed due to phase transition in the early universe may be the cause of galaxy formation and clustering. The advantage of string model is that it can give a consistent explanation of all observed results related to large scale structure, such as correlation functions of galaxies, clusters and superclusters, the existence of voids and/or bubbles, anisotropy of cosmic background radiation. A systematic review on string model has been done.

  10. Glass formation and local topological instability of atomic structure

    SciTech Connect

    Egami, T.

    1997-12-31

    A direct connection between the local topology of the atomic structure of liquids and glasses and thermodynamic quantities through the atomic level stresses is suggested for metallic alloys. In particular the role of local topological instability in the phase transformation involving liquid and glass will be discussed. It is pointed out that a single local geometrical criterion can explain various phase transformations, such as melting, glass transition, and glass formation by solid state reaction and liquid quenching.

  11. Nonlinear structure formation in gravity theories beyond general relativity

    NASA Astrophysics Data System (ADS)

    Mota, David F.

    2016-07-01

    We investigate the effects of modified gravity theories, in particular, the symmetron and f(R) gravity, on the nonlinear regime of structure formation. In particular, we investigate the velocity dispersion of galaxy clusters as a function of the halo masses, how the matter power spectra depend on the coupling, range and screening scale of the fifth force, and on possible ways of detecting violations of the equivalence principle using the mass inferred via lensing methods versus the mass inferred via dynamical methods.

  12. Band formation in coupled-resonator slow-wave structures.

    PubMed

    Möller, Björn M; Woggon, Ulrike; Artemyev, Mikhail V

    2007-12-10

    Sequences of coupled-resonator optical waveguides (CROWs) have been examined as slow-wave structures. The formation of photonic bands in finite systems is studied in the frame of a coupled oscillator model. Several types of resonator size tuning in the system are evaluated in a systematical manner. We show that aperiodicities in sequences of coupled microspheres provide an additional degree of freedom for the design of photonic bands. PMID:19551030

  13. Gravitationally induced particle production and its impact on structure formation

    NASA Astrophysics Data System (ADS)

    Nunes, Rafael C.

    2016-08-01

    In this paper we investigate the influence of a continuous particles creation processes on the linear and nonlinear matter clustering, and its consequences on the weak lensing effect induced by structure formation. We study the line of sight behavior of the contribution to the bispectrum signal at a given angular multipole l, showing that the scale where the nonlinear growth overcomes the linear effect depends strongly of particles creation rate.

  14. Horizontal shear zones: physical modeling of formation and structure

    NASA Astrophysics Data System (ADS)

    Bokun, A. N.

    2009-11-01

    On examples of ductile viscous materials (pastes), which demonstrated the deformational type of coagulation behavior and the reproduced zones of the horizontal shear of a brittle fracture, ductile flow, and intermediate types. The formation of coagulation agglomerates appeared well organized, both in terms of time and structurally. The found systems of fractures revealed a sequential course of the deformation process and the contribution of each system in the total structural transformation was established. By virtue of rheological analysis of coagulation structures, the basic parameters (yield strength, viscosity), and their input into the model of the deformational response (brittle, ductile), were determined. The substantial composition and its deformational properties of the material under question appeared to dictate the structure of shear zones and their general mutual organization. The rheological analysis of coagulation clusters of model materials allowed for the justified interpretation of experimental data to regulate deformation processes effectively and predict their results.

  15. Formation of coherent structures in kinetic simulations of collisionless turbulence

    NASA Astrophysics Data System (ADS)

    Roytershteyn, V.; Karimabadi, H.

    2014-12-01

    We discuss recent large-scale kinetic simulations of collisionless turbulence in two environments, the solar wind and the Earth's magnetosheath. Formation of copious coherent structures is observed in both cases, despite the facts that the geometry, characteristic plasma parameters, and driving mechanisms are drastically different between the two systems. In addition to the traditional planar current sheets, other types of coherent current structures have been observed in 3D fully kinetic simulations with initial conditions relevant to the solar wind. These structures are discussed in detail. In 3D global hybrid simulations of the interaction between solar wind and planetary magnetospheres, the foreshock dynamics driven by reflected ions is shown to have a significant impact on the structure of the bow shock, as well as on the magnetosheath turbulence. A complicated interaction between turbulence, bow shock, and global flow leads to global perturbations in the Earth's magnetosphere.

  16. Structure formation of surfactant membranes under shear flow

    NASA Astrophysics Data System (ADS)

    Shiba, Hayato; Noguchi, Hiroshi; Gompper, Gerhard

    2013-07-01

    Shear-flow-induced structure formation in surfactant-water mixtures is investigated numerically using a meshless-membrane model in combination with a particle-based hydrodynamics simulation approach for the solvent. At low shear rates, uni-lamellar vesicles and planar lamellae structures are formed at small and large membrane volume fractions, respectively. At high shear rates, lamellar states exhibit an undulation instability, leading to rolled or cylindrical membrane shapes oriented in the flow direction. The spatial symmetry and structure factor of this rolled state agree with those of intermediate states during lamellar-to-onion transition measured by time-resolved scatting experiments. Structural evolution in time exhibits a moderate dependence on the initial condition.

  17. Nonlinear Structure Formation, Backreaction and Weak Gravitational Fields

    NASA Astrophysics Data System (ADS)

    Paranjape, A.

    There is an ongoing debate in the literature concerning the effects of averaging out inhomogeneities (“backreaction”) in cosmology. In particular, some simple models of structure formation studied in the literature seem to indicate that the backreaction can play a significant role at late times, and it has also been suggested that the standard perturbed FLRW framework is no longer a good approximation during structure formation, when the density contrast becomes nonlinear. In this work we use Zalaletdinov's covariant averaging scheme (macroscopic gravity or MG) to show that as long as the metric of the Universe can be described by the perturbed FLRW form, the corrections due to averaging remain negligibly small. Further, using a fully relativistic and reasonably generic model of pressureless spherical collapse, we show that as long as matter velocities remain small (which is true in our model), the perturbed FLRW form of the metric can be explicitly recovered. Together, these results imply that the backreaction remains small even during nonlinear structure formation, and we confirm this within the toy model with a numerical calculation.

  18. Chinese lexical networks: The structure, function and formation

    NASA Astrophysics Data System (ADS)

    Li, Jianyu; Zhou, Jie; Luo, Xiaoyue; Yang, Zhanxin

    2012-11-01

    In this paper Chinese phrases are modeled using complex networks theory. We analyze statistical properties of the networks and find that phrase networks display some important features: not only small world and the power-law distribution, but also hierarchical structure and disassortative mixing. These statistical traits display the global organization of Chinese phrases. The origin and formation of such traits are analyzed from a macroscopic Chinese culture and philosophy perspective. It is interesting to find that Chinese culture and philosophy may shape the formation and structure of Chinese phrases. To uncover the structural design principles of networks, network motif patterns are studied. It is shown that they serve as basic building blocks to form the whole phrase networks, especially triad 38 (feed forward loop) plays a more important role in forming most of the phrases and other motifs. The distinct structure may not only keep the networks stable and robust, but also be helpful for information processing. The results of the paper can give some insight into Chinese language learning and language acquisition. It strengthens the idea that learning the phrases helps to understand Chinese culture. On the other side, understanding Chinese culture and philosophy does help to learn Chinese phrases. The hub nodes in the networks show the close relationship with Chinese culture and philosophy. Learning or teaching the hub characters, hub-linking phrases and phrases which are meaning related based on motif feature should be very useful and important for Chinese learning and acquisition.

  19. Electron microscopic examination of wastewater biofilm formation and structural components.

    PubMed Central

    Eighmy, T T; Maratea, D; Bishop, P L

    1983-01-01

    This research documents in situ wastewater biofilm formation, structure, and physiochemical properties as revealed by scanning and transmission electron microscopy. Cationized ferritin was used to label anionic sites of the biofilm glycocalyx for viewing in thin section. Wastewater biofilm formation paralleled the processes involved in marine biofilm formation. Scanning electron microscopy revealed a dramatic increase in cell colonization and growth over a 144-h period. Constituents included a variety of actively dividing morphological types. Many of the colonizing bacteria were flagellated. Filaments were seen after primary colonization of the surface. Transmission electron microscopy revealed a dominant gram-negative cell wall structure in the biofilm constituents. At least three types of glycocalyces were observed. The predominant glycocalyx possessed interstices and was densely labeled with cationized ferritin. Two of the glycocalyces appeared to mediate biofilm adhesion to the substratum. The results suggest that the predominant glycocalyx of this thin wastewater biofilm serves, in part, to: (i) enclose the bacteria in a matrix and anchor the biofilm to the substratum and (ii) provide an extensive surface area with polyanionic properties. Images PMID:6881965

  20. FORMATION OF COLD FILAMENTARY STRUCTURE FROM WIND-BLOWN SUPERBUBBLES

    SciTech Connect

    Ntormousi, Evangelia; Burkert, Andreas; Fierlinger, Katharina; Heitsch, Fabian

    2011-04-10

    The expansion and collision of two wind-blown superbubbles is investigated numerically. Our models go beyond previous simulations of molecular cloud formation from converging gas flows by exploring this process with realistic flow parameters, sizes, and timescales. The superbubbles are blown by time-dependent winds and supernova explosions, calculated from population synthesis models. They expand into a uniform or turbulent diffuse medium. We find that dense, cold gas clumps and filaments form naturally in the compressed collision zone of the two superbubbles. Their shapes resemble the elongated, irregular structure of observed cold, molecular gas filaments, and clumps. At the end of the simulations, between 65% and 80% of the total gas mass in our simulation box is contained in these structures. The clumps are found in a variety of physical states, ranging from pressure equilibrium with the surrounding medium to highly underpressured clumps with large irregular internal motions and structures which are rotationally supported.

  1. The effect of residual structure on hydrate formation

    SciTech Connect

    Lederhos, J.P.; Sloan, E.D.

    1995-12-01

    The combined statistical mechanics and classical thermodynamics approach of Parrish and Prausnitz (1972) was instrumental in providing the natural gas industry with a practical tool to predict hydrate formation. This extension of the van der Waals and Platteeuw model is perhaps the most prevalent use of statistical thermodynamics by the natural gas industry. In addition the Parrish and Prausnitz approach spawned many years of academic research in the laboratories of Kobayashi, Holder, and others. In the present work we present a continuation of Professor Prausnitz`s philosophy in bridging microscopic behavior with macroscopic observations. A microscopic model for hydrate kinetic formation is presented, together with experimental observations of residual structure which can explain phenomena from the laboratories of Bishnoi, Kobayashi, Makogon, and others. We also show how these microscopic phenomena can be used to generate a new (kinetic) type of hydrate inhibition.

  2. Formation and primary heating of the solar coronal structures

    NASA Astrophysics Data System (ADS)

    Mahajan, Swadesh M.; Shatashvili, N. L.; Miklaszewsk, R.; Nikol'Skaya, K. I.

    2010-05-01

    It is shown that the two-fluid formalism in which the bulk velocity field is treated at par with the magnetic field, has the potential of serving as an excellent model for investigating the observed coronal structures and dynamical phenomena in solar atmosphere. It is suggested that the interaction of the fluid and the magnetic aspects of a plasma may be a crucial element in creating the enormous diversity in the solar atmosphere - the structures which comprise the solar corona can be created by particle (plasma) flows observed near the Sun's surface-the primary heating of these structures is caused by the viscous dissipation of the flow kinetic energy. Explicit models (theory as well as simulation) for the formation and heating of coronal structures are worked out. Investigations show that for efficient loop formation, the primary up-flows of plasma in the chromospheres / transition region should be relatively cold and fast (as opposed to hot). It is during trapping and accumulation in closed field regions, that the flows thermalize (due to the dissipation of the short scale flow energy) leading to a bright and hot coronal structure. The formation and primary heating of a closed coronal structure (loop at the end) are simultaneous. The coronal loop, in fact, is created just when up-flows (whatever their initial temperature) enter the closed magnetic field region; heating will always take place due to the dissipation of short-scale flow energy. The heating caused by the dissipation of flow energy may, in addition, be augmented by one or several modes of secondary heating. In our model, the 'secondary heating' may occur to simply sustain (against, say, radiation losses) the hot bright loop. The emerging scenario, then, is not the filling of some hypothetical virtual loop with hot gas. The loop, in fact, is created by the interaction of the flow and the ambient field; its formation and heating are simultaneous and 'loop' has no ontological priority to the flow

  3. Structural and Kinetic Studies of Formate Dehydrogenase from Candida boidinii.

    PubMed

    Guo, Qi; Gakhar, Lokesh; Wickersham, Kyle; Francis, Kevin; Vardi-Kilshtain, Alexandra; Major, Dan T; Cheatum, Christopher M; Kohen, Amnon

    2016-05-17

    The structure of formate dehydrogenase from Candida boidinii (CbFDH) is of both academic and practical interests. First, this enzyme represents a unique model system for studies on the role of protein dynamics in catalysis, but so far these studies have been limited by the availability of structural information. Second, CbFDH and its mutants can be used in various industrial applications (e.g., CO2 fixation or nicotinamide recycling systems), and the lack of structural information has been a limiting factor in commercial development. Here, we report the crystallization and structural determination of both holo- and apo-CbFDH. The free-energy barrier for the catalyzed reaction was computed and indicates that this structure indeed represents a catalytically competent form of the enzyme. Complementing kinetic examinations demonstrate that the recombinant CbFDH has a well-organized reactive state. Finally, a fortuitous observation has been made: the apoenzyme crystal was obtained under cocrystallization conditions with a saturating concentration of both the cofactor (NAD(+)) and inhibitor (azide), which has a nanomolar dissociation constant. It was found that the fraction of the apoenzyme present in the solution is less than 1.7 × 10(-7) (i.e., the solution is 99.9999% holoenzyme). This is an extreme case where the crystal structure represents an insignificant fraction of the enzyme in solution, and a mechanism rationalizing this phenomenon is presented. PMID:27100912

  4. Improving the Factor Structure of Psychological Scales: The Expanded Format as an Alternative to the Likert Scale Format

    ERIC Educational Resources Information Center

    Zhang, Xijuan; Savalei, Victoria

    2016-01-01

    Many psychological scales written in the Likert format include reverse worded (RW) items in order to control acquiescence bias. However, studies have shown that RW items often contaminate the factor structure of the scale by creating one or more method factors. The present study examines an alternative scale format, called the Expanded format,…

  5. Gap formation following climatic events in spatially structured plant communities.

    PubMed

    Liao, Jinbao; De Boeck, Hans J; Li, Zhenqing; Nijs, Ivan

    2015-01-01

    Gaps play a crucial role in maintaining species diversity, yet how community structure and composition influence gap formation is still poorly understood. We apply a spatially structured community model to predict how species diversity and intraspecific aggregation shape gap patterns emerging after climatic events, based on species-specific mortality responses. In multispecies communities, average gap size and gap-size diversity increased rapidly with increasing mean mortality once a mortality threshold was exceeded, greatly promoting gap recolonization opportunity. This result was observed at all levels of species richness. Increasing interspecific difference likewise enhanced these metrics, which may promote not only diversity maintenance but also community invasibility, since more diverse niches for both local and exotic species are provided. The richness effects on gap size and gap-size diversity were positive, but only expressed when species were sufficiently different. Surprisingly, while intraspecific clumping strongly promoted gap-size diversity, it hardly influenced average gap size. Species evenness generally reduced gap metrics induced by climatic events, so the typical assumption of maximum evenness in many experiments and models may underestimate community diversity and invasibility. Overall, understanding the factors driving gap formation in spatially structured assemblages can help predict community secondary succession after climatic events. PMID:26114803

  6. Cosmological structure formation in Decaying Dark Matter models

    NASA Astrophysics Data System (ADS)

    Cheng, Dalong; Chu, M.-C.; Tang, Jiayu

    2015-07-01

    The standard cold dark matter (CDM) model predicts too many and too dense small structures. We consider an alternative model that the dark matter undergoes two-body decays with cosmological lifetime τ into only one type of massive daughters with non-relativistic recoil velocity Vk. This decaying dark matter model (DDM) can suppress the structure formation below its free-streaming scale at time scale comparable to τ. Comparing with warm dark matter (WDM), DDM can better reduce the small structures while being consistent with high redshfit observations. We study the cosmological structure formation in DDM by performing self-consistent N-body simulations and point out that cosmological simulations are necessary to understand the DDM structures especially on non-linear scales. We propose empirical fitting functions for the DDM suppression of the mass function and the concentration-mass relation, which depend on the decay parameters lifetime τ, recoil velocity Vk and redshift. The fitting functions lead to accurate reconstruction of the the non-linear power transfer function of DDM to CDM in the framework of halo model. Using these results, we set constraints on the DDM parameter space by demanding that DDM does not induce larger suppression than the Lyman-α constrained WDM models. We further generalize and constrain the DDM models to initial conditions with non-trivial mother fractions and show that the halo model predictions are still valid after considering a global decayed fraction. Finally, we point out that the DDM is unlikely to resolve the disagreement on cluster numbers between the Planck primary CMB prediction and the Sunyaev-Zeldovich (SZ) effect number count for τ ~ H0-1.

  7. Black Hole Mergers as Probes of Structure Formation

    NASA Technical Reports Server (NTRS)

    Alicea-Munoz, E.; Miller, M. Coleman

    2008-01-01

    Intense structure formation and reionization occur at high redshift, yet there is currently little observational information about this very important epoch. Observations of gravitational waves from massive black hole (MBH) mergers can provide us with important clues about the formation of structures in the early universe. Past efforts have been limited to calculating merger rates using different models in which many assumptions are made about the specific values of physical parameters of the mergers, resulting in merger rate estimates that span a very wide range (0.1 - 104 mergers/year). Here we develop a semi-analytical, phenomenological model of MBH mergers that includes plausible combinations of several physical parameters, which we then turn around to determine how well observations with the Laser Interferometer Space Antenna (LISA) will be able to enhance our understanding of the universe during the critical z 5 - 30 structure formation era. We do this by generating synthetic LISA observable data (total BH mass, BH mass ratio, redshift, merger rates), which are then analyzed using a Markov Chain Monte Carlo method. This allows us to constrain the physical parameters of the mergers. We find that our methodology works well at estimating merger parameters, consistently giving results within 1- of the input parameter values. We also discover that the number of merger events is a key discriminant among models. This helps our method be robust against observational uncertainties. Our approach, which at this stage constitutes a proof of principle, can be readily extended to physical models and to more general problems in cosmology and gravitational wave astrophysics.

  8. Star formation along the Hubble sequence. Radial structure of the star formation of CALIFA galaxies

    NASA Astrophysics Data System (ADS)

    González Delgado, R. M.; Cid Fernandes, R.; Pérez, E.; García-Benito, R.; López Fernández, R.; Lacerda, E. A. D.; Cortijo-Ferrero, C.; de Amorim, A. L.; Vale Asari, N.; Sánchez, S. F.; Walcher, C. J.; Wisotzki, L.; Mast, D.; Alves, J.; Ascasibar, Y.; Bland-Hawthorn, J.; Galbany, L.; Kennicutt, R. C.; Márquez, I.; Masegosa, J.; Mollá, M.; Sánchez-Blázquez, P.; Vílchez, J. M.

    2016-05-01

    The spatially resolved stellar population content of today's galaxies holds important information for understanding the different processes that contribute to the star formation and mass assembly histories of galaxies. The aim of this paper is to characterize the radial structure of the star formation rate (SFR) in galaxies in the nearby Universe as represented by a uniquely rich and diverse data set drawn from the CALIFA survey. The sample under study contains 416 galaxies observed with integral field spectroscopy, covering a wide range of Hubble types and stellar masses ranging from M⋆ ~ 109 to 7 × 1011 M⊙. Spectral synthesis techniques are applied to the datacubes to derive 2D maps and radial profiles of the intensity of the star formation rate in the recent past (ΣSFR), as well as related properties, such as the local specific star formation rate (sSFR), defined as the ratio between ΣSFR and the stellar mass surface density (μ⋆). To emphasize the behavior of these properties for galaxies that are on and off the main sequence of star formation (MSSF), we stack the individual radial profiles in seven bins of galaxy morphology (E, S0, Sa, Sb, Sbc, Sc, and Sd), and several stellar masses. Our main results are: (a) the intensity of the star formation rate shows declining profiles that exhibit very small differences between spirals with values at R = 1 half light radius (HLR) within a factor two of ΣSFR ~ 20 M⊙Gyr-1pc-2. The dispersion in the ΣSFR(R) profiles is significantly smaller in late type spirals (Sbc, Sc, Sd). This confirms that the MSSF is a sequence of galaxies with nearly constant ΣSFR. (b) sSFR values scale with Hubble type and increase radially outward with a steeper slope in the inner 1 HLR. This behavior suggests that galaxies are quenched inside-out and that this process is faster in the central, bulge-dominated part than in the disks. (c) As a whole and at all radii, E and S0 are off the MSSF with SFR much smaller than spirals of the

  9. Vortex Ring Structure at Late Stages of Formation

    NASA Astrophysics Data System (ADS)

    Fabris, Drazen; Liepmann, Dorian

    1996-11-01

    The development of a vortex ring as it moves several diameters from the generating nozzle is studied experimentally with DPIV. For longer piston strokes (L/D = 2) and for moderate Reynolds numbers (Γ / ν of several thousand) the vorticity distribution includes a region of rotational fluid near the front stagnation point of the ring. This region of fluid is a remnant of the shear layer rolling up to form the core of the ring and is a consequence of the stopping condition of the formation. This structure persists for at least several diameters of the ring advection.

  10. Influence factors analysis on the formation of silk I structure.

    PubMed

    Ming, Jinfa; Pan, Fukui; Zuo, Baoqi

    2015-04-01

    Regenerated silk fibroin aqueous solution was used to study the crystalline structure of Bombyx mori silk fibroin in vitro. By controlling environmental conditions and concentration of silk fibroin solution, it provided a means for the direct preparing silk I structure and understanding the details of silk fibroin molecules interactions in formation process. In this study, silk fibroin molecules were assembled to form random coil at low concentration of solution and then, as the concentration increases, were converted to silk I at 55% relative humidity (RH). At the same time, the structure of silk fibroin forming below 45 °C was mostly in silk I. A partial ternary phase diagram of temperature-humidity-concentration was constructed based on the results. The results showed silk I structure could be controlled by adjusting the external environmental conditions. The enhanced control over silk I structure, as embodied in phase diagram, could potentially be utilized to understand the molecular chain conformation of silk I in further research work. PMID:25677178

  11. Fractal structure formation from Ag nanoparticle films on insulating substrates.

    PubMed

    Tang, Jing; Li, Zhiyong; Xia, Qiangfei; Williams, R Stanley

    2009-07-01

    Two dimensional (2D) fractal structures were observed to form from fairly uniform Ag island films (equivalent mass thicknesses of 1.5 and 5 nm) on insulating silicon dioxide surfaces (thermally grown silicon oxide on Si or quartz) upon immersion in deionized water. This result is distinctly different from the previously observed three-dimensional (3D) growth of faceted Ag nanocrystals on conductive surfaces (ITO and graphite) as the result of an electrochemical Ostwald ripening process, which also occurs on native oxide covered silicon surfaces as reported here. The fractal structures formed by diffusion-limited aggregation (DLA) of Ag species on the insulating surfaces. We present the experimental observation of this phenomenon and discuss some possible mechanisms for the DLA formation. PMID:19496573

  12. Giant planet formation in radially structured protoplanetary discs

    NASA Astrophysics Data System (ADS)

    Coleman, Gavin A. L.; Nelson, Richard P.

    2016-08-01

    Our recent N-body simulations of planetary system formation, incorporating models for the main physical processes thought to be important during the building of planets (i.e. gas disc evolution, migration, planetesimal/boulder accretion, gas accretion onto cores, etc.), have been successful in reproducing some of the broad features of the observed exoplanet population (e.g. compact systems of low mass planets, hot Jupiters), but fail completely to form any surviving cold Jupiters. The primary reason for this failure is rapid inward migration of growing protoplanets during the gas accretion phase, resulting in the delivery of these bodies onto orbits close to the star. Here, we present the results of simulations that examine the formation of gas giant planets in protoplanetary discs that are radially structured due to spatial and temporal variations in the effective viscous stresses, and show that such a model results in the formation of a population of cold gas giants. Furthermore, when combined with models for disc photoevaporation and a central magnetospheric cavity, the simulations reproduce the well-known hot-Jupiter/cold-Jupiter dichotomy in the observed period distribution of giant exoplanets, with a period valley between 10-100 days.

  13. Giant planet formation in radially structured protoplanetary discs

    NASA Astrophysics Data System (ADS)

    Coleman, Gavin A. L.; Nelson, Richard P.

    2016-08-01

    Our recent N-body simulations of planetary system formation, incorporating models for the main physical processes thought to be important during the building of planets (i.e. gas disc evolution, migration, planetesimal/boulder accretion, gas accretion on to cores, etc.), have been successful in reproducing some of the broad features of the observed exoplanet population (e.g. compact systems of low-mass planets, hot Jupiters), but fail completely to form any surviving cold Jupiters. The primary reason for this failure is rapid inward migration of growing protoplanets during the gas accretion phase, resulting in the delivery of these bodies on to orbits close to the star. Here, we present the results of simulations that examine the formation of gas giant planets in protoplanetary discs that are radially structured due to spatial and temporal variations in the effective viscous stresses, and show that such a model results in the formation of a population of cold gas giants. Furthermore, when combined with models for disc photoevaporation and a central magnetospheric cavity, the simulations reproduce the well-known hot-Jupiter/cold-Jupiter dichotomy in the observed period distribution of giant exoplanets, with a period valley between 10 and 100 d.

  14. Correlations between Community Structure and Link Formation in Complex Networks

    PubMed Central

    Liu, Zhen; He, Jia-Lin; Kapoor, Komal; Srivastava, Jaideep

    2013-01-01

    Background Links in complex networks commonly represent specific ties between pairs of nodes, such as protein-protein interactions in biological networks or friendships in social networks. However, understanding the mechanism of link formation in complex networks is a long standing challenge for network analysis and data mining. Methodology/Principal Findings Links in complex networks have a tendency to cluster locally and form so-called communities. This widely existed phenomenon reflects some underlying mechanism of link formation. To study the correlations between community structure and link formation, we present a general computational framework including a theory for network partitioning and link probability estimation. Our approach enables us to accurately identify missing links in partially observed networks in an efficient way. The links having high connection likelihoods in the communities reveal that links are formed preferentially to create cliques and accordingly promote the clustering level of the communities. The experimental results verify that such a mechanism can be well captured by our approach. Conclusions/Significance Our findings provide a new insight into understanding how links are created in the communities. The computational framework opens a wide range of possibilities to develop new approaches and applications, such as community detection and missing link prediction. PMID:24039818

  15. HIERARCHICAL STRUCTURE FORMATION AND MODES OF STAR FORMATION IN HICKSON COMPACT GROUP 31

    SciTech Connect

    Gallagher, S. C.; Durrell, P. R.; Elmegreen, D. M.; Chandar, R.; English, J.; Charlton, J. C.; Gronwall, C.; Young, J.; Tzanavaris, P.; Hornschemeier, A. E.; Johnson, K. E.; Mendes de Oliveira, C.; Whitmore, B.; Maybhate, Aparna; Zabludoff, Ann

    2010-02-15

    The handful of low-mass, late-type galaxies that comprise Hickson Compact Group 31 (HCG 31) is in the midst of complex, ongoing gravitational interactions, evocative of the process of hierarchical structure formation at higher redshifts. With sensitive, multicolor Hubble Space Telescope imaging, we characterize the large population of < 10 Myr old star clusters (SCs) that suffuse the system. From the colors and luminosities of the young SCs, we find that the galaxies in HCG 31 follow the same universal scaling relations as actively star-forming galaxies in the local universe despite the unusual compact group environment. Furthermore, the specific frequency of the globular cluster system is consistent with the low end of galaxies of comparable masses locally. This, combined with the large mass of neutral hydrogen and tight constraints on the amount of intragroup light, indicate that the group is undergoing its first epoch of interaction-induced star formation. In both the main galaxies and the tidal-dwarf candidate, F, stellar complexes, which are sensitive to the magnitude of disk turbulence, have both sizes and masses more characteristic of z = 1-2 galaxies. After subtracting the light from compact sources, we find no evidence for an underlying old stellar population in F-it appears to be a truly new structure. The low-velocity dispersion of the system components, available reservoir of H I, and current star formation rate of {approx}10 M {sub sun} yr{sup -1} indicate that HCG 31 is likely to both exhaust its cold gas supply and merge within {approx}1 Gyr. We conclude that the end product will be an isolated, X-ray-faint, low-mass elliptical.

  16. Banded Electron Structure Formation in the Inner Magnetosphere

    NASA Technical Reports Server (NTRS)

    Liemohn, M. W.; Khazanov, G. V.

    1997-01-01

    Banded electron structures in energy-time spectrograms have been observed in the inner magnetosphere concurrent with a sudden relaxation of geomagnetic activity. In this study, the formation of these banded structures is considered with a global, bounce-averaged model of electron transport, and it is concluded that this structure is a natural occurrence when plasma sheet electrons are captured on closed drift paths near the Earth. These bands do not appear unless there is capture of plasma sheet electrons; convection along open drift paths making open pass around the Earth do not have time to develop this feature. The separation of high-energy bands from the injection population due to the preferential advection of the gradient-curvature drift creates spikes in the energy distribution, which overlap to form a series of bands in the energy spectrograms. The lowest band is the bulk of the injected population in the sub-key energy range. Using the Kp history for an observed banded structure event, a cloud of plasma sheet electrons is captured and the development of their distribution function is examined and discussed.

  17. Towards the mathematical model of rim structure formation

    NASA Astrophysics Data System (ADS)

    Kinoshita, M.

    1997-09-01

    The high burnup LWR UO 2 fuels show a notable micro-structural change around the pellet outer zone which is called the rim structure. It is observed at temperatures as low as 400°C so that fission track and cascade mixing could be the key mechanism. SEM observation revealed that the structure primarily appears on free surfaces of UO 2, indicating that strong sink for point defects may play a big role. And as generic observations, increase of lattice parameter indicates extensive amounts of vacancies are stored in high burnup fuel, which may induce the restructuring interacting with dislocations of high density at high burnup. Considering these observations a model of reaction-diffusion process of defects with irradiation induced transport is proposed. The equations are investigated numerically. The model indicates that an instability starts when the dislocation network starts intensive interaction with vacancy flux which is modified by interstitial diffusion between spatial segments. It appeared to be similar to the Turing type instability which indicates that the rim structure formation is one kind of the self-organizing processes of open reaction-diffusion systems.

  18. Structure formation and the end of the cosmic dark ages

    NASA Astrophysics Data System (ADS)

    Alvarez, Marcelo Alonso

    We present results on the evolution of dark matter halos and reionization. Dark matter halos enshroud galaxies, quasars and stars. As such, they are fundamentally important to structure formation. In studying reionization, we focus on photoionization by the first stars, the 21-cm and cosmic microwave backgrounds, and its large-scale structure. Several new and important results are presented. First, we analyze the evolution of dark matter haloes that result from collapse within cosmological pancakes. Their mass accretion history and concentration are very similar to those reported simulations of CDM. Thus, fundamental properties of virialized halo formation and evolution are generic and not limited to hierarchical clustering or Gaussian-random-noise initial conditions. We also find that a simple one dimensional fluid model can explain this universal behaviour, implying that the evolving structure of CDM halos can be well understood as the effect of a universal, time-varying rate of smooth and continuous mass infall on an isotropic, collisionless fluid. We discuss cosmological reionization, from small scales and early times, to large scales and late times. We have simulated ionization fronts (I-fronts) created by the first stars forming in "minihalos". We find that nearby minihalos trap the I-front, so their centers remain neutral, contrary to the suggestion that these stars would trigger a second generation by ionizing neighboring minihalos cores. We then turn to the cross-correlation of cosmic microwave background (CMB) and 21-cm maps. We find that its measurement can be used to reconstruct the reionization history of the universe. Afterwards, we discuss the three versus first-year data from the Wilkinson Microwave Anisotropy Probe (WMAP). Surprisingly, the delay of reionization from three-year data is matched by a similar delay in structure formation. These effects cancel to leave the source halo efficiency constraints unchanged. We conclude by analyzing the

  19. The Large-scale Structure of the Universe: Probes of Cosmology and Structure Formation

    NASA Astrophysics Data System (ADS)

    Noh, Yookyung

    The usefulness of large-scale structure as a probe of cosmology and structure formation is increasing as large deep surveys in multi-wavelength bands are becoming possible. The observational analysis of large-scale structure guided by large volume numerical simulations are beginning to offer us complementary information and crosschecks of cosmological parameters estimated from the anisotropies in Cosmic Microwave Background (CMB) radiation. Understanding structure formation and evolution and even galaxy formation history is also being aided by observations of different redshift snapshots of the Universe, using various tracers of large-scale structure. This dissertation work covers aspects of large-scale structure from the baryon acoustic oscillation scale, to that of large scale filaments and galaxy clusters. First, I discuss a large- scale structure use for high precision cosmology. I investigate the reconstruction of Baryon Acoustic Oscillation (BAO) peak within the context of Lagrangian perturbation theory, testing its validity in a large suite of cosmological volume N-body simulations. Then I consider galaxy clusters and the large scale filaments surrounding them in a high resolution N-body simulation. I investigate the geometrical properties of galaxy cluster neighborhoods, focusing on the filaments connected to clusters. Using mock observations of galaxy clusters, I explore the correlations of scatter in galaxy cluster mass estimates from multi-wavelength observations and different measurement techniques. I also examine the sources of the correlated scatter by considering the intrinsic and environmental properties of clusters.

  20. Formation of GaN porous structures with improved structural controllability by photoassisted electrochemical etching

    NASA Astrophysics Data System (ADS)

    Kumazaki, Yusuke; Yatabe, Zenji; Sato, Taketomo

    2016-04-01

    We aimed to develop a photoassisted electrochemical etching process for the formation of GaN porous structures. Pore linearity and depth controllability were strongly affected by the anode voltage. In addition, the use of light with an energy below the band gap played an important role in controlling the pore diameter. Spectro-electrochemical measurements revealed that the high electric field induced at the GaN/electrolyte interface caused a redshift of the photoabsorption edge. This specific phenomenon can be explained by a theoretical calculation based on the Franz-Keldysh effect. On the basis of the results of our experimental and theoretical analyze, we propose a formation model for GaN porous structures. We also note that the application of the Franz-Keldysh effect is useful in controlling the structural properties of GaN porous structures.

  1. Innovative design of composite structures: The use of curvilinear fiber format in composite structure design

    NASA Technical Reports Server (NTRS)

    Hyer, M. W.; Charette, R. F.

    1990-01-01

    The gains in structural efficiency are investigated that can be achieved by aligning the fibers in some or all of the layers in a laminate with the principal stress directions in those layers. The name curvilinear fiber format is given to this idea. The problem studied is a plate with a central circular hole subjected to a uniaxial tensile load. An iteration scheme is used to find the fiber directions at each point in the laminate. Two failure criteria are used to evaluate the tensile load capacity of the plates with a curvilinear format, and for comparison, counterpart plates with a conventional straightline fiber format. The curvilinear designs for improved tensile capacity are then checked for buckling resistance. It is concluded that gains in efficiency can be realized with the curvilinear format.

  2. Numerical models of sunspot formation and fine structure.

    PubMed

    Rempel, Matthias

    2012-07-13

    Sunspots are central to our understanding of solar (and stellar) magnetism in many respects. On the large scale, they link the magnetic field observable in the photosphere to the dynamo processes operating in the solar interior. Properly interpreting the constraints that sunspots impose on the dynamo process requires a detailed understanding of the processes involved in their formation, dynamical evolution and decay. On the small scale, they give an insight into how convective energy transport interacts with the magnetic field over a wide range of field strengths and inclination angles, leading to sunspot fine structure observed in the form of umbral dots and penumbral filaments. Over the past decade, substantial progress has been made on both observational and theoretical sides. Advanced ground- and space-based observations have resolved, for the first time, the details of umbral dots and penumbral filaments and discovered similarities in their substructures. Numerical models have advanced to the degree that simulations of entire sunspots with sufficient resolution to resolve sunspot fine structure are feasible. A combination of improved helioseismic inversion techniques with seismic forward modelling provides new views on the subsurface structure of sunspots. In this review, we summarize recent progress, with particular focus on numerical modelling. PMID:22665895

  3. Structural basis of complement membrane attack complex formation.

    PubMed

    Serna, Marina; Giles, Joanna L; Morgan, B Paul; Bubeck, Doryen

    2016-01-01

    In response to complement activation, the membrane attack complex (MAC) assembles from fluid-phase proteins to form pores in lipid bilayers. MAC directly lyses pathogens by a 'multi-hit' mechanism; however, sublytic MAC pores on host cells activate signalling pathways. Previous studies have described the structures of individual MAC components and subcomplexes; however, the molecular details of its assembly and mechanism of action remain unresolved. Here we report the electron cryo-microscopy structure of human MAC at subnanometre resolution. Structural analyses define the stoichiometry of the complete pore and identify a network of interaction interfaces that determine its assembly mechanism. MAC adopts a 'split-washer' configuration, in contrast to the predicted closed ring observed for perforin and cholesterol-dependent cytolysins. Assembly precursors partially penetrate the lipid bilayer, resulting in an irregular β-barrel pore. Our results demonstrate how differences in symmetric and asymmetric components of the MAC underpin a molecular basis for pore formation and suggest a mechanism of action that extends beyond membrane penetration. PMID:26841837

  4. Structural basis of complement membrane attack complex formation

    NASA Astrophysics Data System (ADS)

    Serna, Marina; Giles, Joanna L.; Morgan, B. Paul; Bubeck, Doryen

    2016-02-01

    In response to complement activation, the membrane attack complex (MAC) assembles from fluid-phase proteins to form pores in lipid bilayers. MAC directly lyses pathogens by a `multi-hit' mechanism; however, sublytic MAC pores on host cells activate signalling pathways. Previous studies have described the structures of individual MAC components and subcomplexes; however, the molecular details of its assembly and mechanism of action remain unresolved. Here we report the electron cryo-microscopy structure of human MAC at subnanometre resolution. Structural analyses define the stoichiometry of the complete pore and identify a network of interaction interfaces that determine its assembly mechanism. MAC adopts a `split-washer' configuration, in contrast to the predicted closed ring observed for perforin and cholesterol-dependent cytolysins. Assembly precursors partially penetrate the lipid bilayer, resulting in an irregular β-barrel pore. Our results demonstrate how differences in symmetric and asymmetric components of the MAC underpin a molecular basis for pore formation and suggest a mechanism of action that extends beyond membrane penetration.

  5. Structural basis of complement membrane attack complex formation

    PubMed Central

    Serna, Marina; Giles, Joanna L.; Morgan, B. Paul; Bubeck, Doryen

    2016-01-01

    In response to complement activation, the membrane attack complex (MAC) assembles from fluid-phase proteins to form pores in lipid bilayers. MAC directly lyses pathogens by a ‘multi-hit' mechanism; however, sublytic MAC pores on host cells activate signalling pathways. Previous studies have described the structures of individual MAC components and subcomplexes; however, the molecular details of its assembly and mechanism of action remain unresolved. Here we report the electron cryo-microscopy structure of human MAC at subnanometre resolution. Structural analyses define the stoichiometry of the complete pore and identify a network of interaction interfaces that determine its assembly mechanism. MAC adopts a ‘split-washer' configuration, in contrast to the predicted closed ring observed for perforin and cholesterol-dependent cytolysins. Assembly precursors partially penetrate the lipid bilayer, resulting in an irregular β-barrel pore. Our results demonstrate how differences in symmetric and asymmetric components of the MAC underpin a molecular basis for pore formation and suggest a mechanism of action that extends beyond membrane penetration. PMID:26841837

  6. Laser induced formation of micro-rough structures

    NASA Astrophysics Data System (ADS)

    Singh, Rajiv K.; Fitz-Gerald, James M.

    1997-01-01

    Laser induced micro-rough structures (LIMS) are a by-product of laser ablation process and are created during multiple pulse irradiation on the surface of the material. Although LIMS have been found to be deleterious for the thin film deposition process, these surfaces have wide variety of applications in synthesis of adherent coatings in thermal expansion mismatched systems. Earlier models, based on interference effects of the laser beam, to explain the evolution of LIMS, are not consistent with the experimental results. Experiments were conducted on a wide variety of materials (e.g. SiC, alumina, YBaCuO superconductor, etc.) to understand the mechanisms for generation of the micro-rough structures. A novel model was developed to explain the characteristics of LIMS such as (i) feature orientation (ii) evolution of surface structures as a function of pulses, (iii) formation of LIMS within a energy window near ablation threshold and (iv) periodicity which is independent of the laser wavelength and incident angle.

  7. Magnetic Structure and Formation of On-disk Coronal Plumes

    NASA Astrophysics Data System (ADS)

    Antonsson, S.; Tiwari, S. K.; Moore, R. L.; Winebarger, A. R.

    2015-12-01

    "Plumes" are feather-like features found on the solar disk, in the plage-like field concentrations of quiet regions. On-disk plumes are analogous to polar/coronal-hole plumes but have not been studied in detail in the past. We research their formation and characteristics, such as lifetime, intensity and magnetic setting at the feet. Atmospheric Imaging Assembly (AIA) images in the 171 Å filter and Helioseismic and Magnetic Imager (HMI) line-of-sight magnetograms, both from the Solar Dynamics Observatory (SDO), are analyzed with the IDL SolarSoftWare package and used to study the plumes. We find that on-disk plumes form at the places of converging magnetic fields, and disappear when those fields disperse. However, plumes disappear after nearby events, such as flares, or with the emergence of opposite polarity. The lifetime of each plume tends to be several days, although some appear and disappear within several hours. On-disk plumes outline magnetic fields close to the sun, allowing a better understanding of fine magnetic structures than before. Additionally, since plumes must be heated to around 600,000 K to be visible in 171 Å, their formation and characteristics could tell about how they, and therefore the corona, are heated.

  8. The Influence of Molecular Cooling in Pregalactic Structure Formation

    NASA Astrophysics Data System (ADS)

    Stancil, P. C.; Abel, T.; Lepp, S.; Dalgarno, A.

    1999-12-01

    The detailed chemistry and cooling in collapsing primordial clouds will be presented for total baryonic densities up to 106 cm-3. The model consists of 160 reactions of 23 species including H2, HD, HeH+, and LiH, and accounts for 8 different cooling and heating mechanisms. The hydrodynamic evolution of the gas is modeled under the assumptions of free-fall, isothermal, and isobaric collapse as well as for the central regions of 105 M⊙ objects in hierarchical scenarios. The latter being drawn from three-dimensional cosmological hydrodynamical simulations. The dominant processes in the reaction network are identified and a minimal model that accurately predicts the full chemistry will be presented. It is found that radiative cooling due to collisional excitation of HD can lower the temperature in a primordial cloud below that reachable through H2 cooling alone. Further, the temperature evolution is influenced by the choice of the adopted H2 radiative cooling function. Implications for globular cluster and primordial star formation, as well as structure formation on small scales and the importance of molecular cooling in general will be discussed. The work of P.C.S. was supported by the DoE ORNL LDRD Seed Money Fund. T.A. acknowledges support from NSF Grant ASC--9318185. The work of S.L. and A.D. was supported by NSF Cooperative Agreement OSR-9353227 and Astronomical Sciences Grant AST-93-01099, respectively.

  9. Structural modification in the formation of starch - silver nanocomposites

    NASA Astrophysics Data System (ADS)

    Begum, S. N. Suraiya; Aswal, V. K.; Ramasamy, Radha Perumal

    2016-05-01

    Polymer based nanocomposites have gained wide applications in field of battery technology. Starch is a naturally occurring polysaccharide with sustainable properties such as biodegradable, non toxic, excellent film forming capacity and it also act as reducing agent for the metal nanoparticles. In our research various concentration of silver nitrate (AgNO3) was added to the starch solution and films were obtained using solution casting method. Surface electron microscope (SEM) of the films shows modifications depending upon the concentration of AgNO3. Small angle neutron scattering (SANS) analysis showed that addition of silver nitrate modifies the starch to disc like structures and with increasing the AgNO3 concentration leads to the formation of fractals. This research could benefit battery technology where solid polymer membranes using starch is used.

  10. Halo formation and evolution: unification of structure and physical properties

    NASA Astrophysics Data System (ADS)

    Ernest, Allan D.; Collins, Matthew P.

    2016-08-01

    The assembly of matter in the universe proliferates a wide variety of halo structures, often with enigmatic consequences. Giant spiral galaxies, for example, contain both dark matter and hot gas, while dwarf spheroidal galaxies, with weaker gravity, contain much larger fractions of dark matter, but little gas. Globular clusters, superficially resembling these dwarf spheroidals, have little or no dark matter. Halo temperatures are also puzzling: hot cluster halos contain cooler galaxy halos; dwarf galaxies have no hot gas at all despite their similar internal processes. Another mystery is the origin of the gas that galaxies require to maintain their measured star formation rates (SFRs). We outline how gravitational quantum theory solves these problems, and enables baryons to function as weakly-interacting-massive-particles (WIMPs) in Lambda Cold Dark Matter (LCDM) theory. Significantly, these dark-baryon ensembles may also be consistent with primordial nucleosynthesis (BBN) and cosmic microwave background (CMB) anisotropies.

  11. Structure Formation Mechanisms and Electrical Properties of PVD Fluoropolymer Films

    NASA Astrophysics Data System (ADS)

    Luchnikov, P. A.

    2015-01-01

    The mechanisms of forming fluoropolymer coatings on silicon substrates via condensation from an active gas phase using directed flows of accelerated electrons and ions are studied. It is demonstrated that electrical properties of the resulting fluoropolymer films strongly depend on the technological parameters of the deposition process. Their most optimal properties are reported when condensation takes place at the temperatures within ~373-386 K. It is shown that thermal annealing of the films in vacuum at 430-470 K improves their electrophysical parameters by re-evaporating the low-molecular complexes from the structure and decreasing the concentration of defects and spin-radicals, while annealing in air gives rise to formation of additional polar groups.

  12. Structure formation in inhomogeneous Early Dark Energy models

    SciTech Connect

    Batista, R.C.; Pace, F. E-mail: francesco.pace@port.ac.uk

    2013-06-01

    We study the impact of Early Dark Energy fluctuations in the linear and non-linear regimes of structure formation. In these models the energy density of dark energy is non-negligible at high redshifts and the fluctuations in the dark energy component can have the same order of magnitude of dark matter fluctuations. Since two basic approximations usually taken in the standard scenario of quintessence models, that both dark energy density during the matter dominated period and dark energy fluctuations on small scales are negligible, are not valid in such models, we first study approximate analytical solutions for dark matter and dark energy perturbations in the linear regime. This study is helpful to find consistent initial conditions for the system of equations and to analytically understand the effects of Early Dark Energy and its fluctuations, which are also verified numerically. In the linear regime we compute the matter growth and variation of the gravitational potential associated with the Integrated Sachs-Wolf effect, showing that these observables present important modifications due to Early Dark Energy fluctuations, though making them more similar to the ΛCDM model. We also make use of the Spherical Collapse model to study the influence of Early Dark Energy fluctuations in the nonlinear regime of structure formation, especially on δ{sub c} parameter, and their contribution to the halo mass, which we show can be of the order of 10%. We finally compute how the number density of halos is modified in comparison to the ΛCDM model and address the problem of how to correct the mass function in order to take into account the contribution of clustered dark energy. We conclude that the inhomogeneous Early Dark Energy models are more similar to the ΛCDM model than its homogeneous counterparts.

  13. Halo formation and evolution: unifying physical properties with structure

    NASA Astrophysics Data System (ADS)

    Ernest, Alllan David; Collins, Matthew P.

    2015-08-01

    The assembly of matter in the universe proliferates a variety of structures with diverse properties. For example, massive halos of clusters of galaxies have temperatures often an order of magnitude or more higher than the individual galaxy halos within the cluster, or the temperatures of isolated galaxy halos. Giant spiral galaxies contain large quantities of both dark matter and hot gas while other structures like globular clusters appear to have little or no dark matter or gas. Still others, like the dwarf spheroidal galaxies have low gravity and little hot gas, but ironically contain some of the largest fractions of dark matter in the universe. Star forming rates (SFRs) also vary: compare for example the SFRs of giant elliptical galaxies, globular clusters, spiral and starburst galaxies. Furthermore there is evidence that the various structure types have existed over a large fraction of cosmic history. How can this array of variation in properties be reconciled with galaxy halo formation and evolution?We propose a model of halo formation [1] and evolution [2] that is consistent with both primordial nucleosynthesis (BBN) and the isotropies in the cosmic microwave background (CMB). The model uses two simple parameters, the total mass and size of a structure, to (1) explain why galaxies have the fractions of dark matter that they do (including why dwarf spheroidals are so dark matter dominated despite their weak gravity), (2) enable an understanding of the black hole-bulge/black hole-dark halo relations, (3) explain how fully formed massive galaxies can occur so early in cosmic history, (4) understand the connection between spiral and elliptical galaxies (5) unify the nature of globular clusters, dwarf spheroidal galaxies and bulges and (6) predict the temperatures of hot gas halos and understand how cool galaxy halos can remain stable in the hot environments of cluster-galaxy halos.[1] Ernest, A. D., 2012, in Prof. Ion Cotaescu (Ed) Advances in Quantum Theory, pp

  14. Linear and nonlinear effects in detonation wave structure formation

    NASA Astrophysics Data System (ADS)

    Borisov, S. P.; Kudryavtsev, A. N.

    2016-06-01

    The role of linear and nonlinear effects in the process of formation of detonation wave structure is investigated using linear stability analysis and direct numerical simulation. A simple model with a one-step irreversible chemical reaction is considered. For linear stability computations, both the local iterative shooting procedure and the global Chebyshev pseudospectral method are employed. Numerical simulations of 1D pulsating instability are performed using a shock fitting approach based on a 5th order upwind-biased compact-difference discretization and a shock acceleration equation deduced from the Rankine-Hugoniot conditions. A shock capturing WENO scheme of the 5th order is used to simulate propagation of detonation wave in a plane channel. It is shown that the linear analysis predicts correctly the mode dominating on early stages of flow evolution and the size of detonation cells which emerge during these stages. Later, however, when a developed self-reproducing cellular structure forms, the cell size is approximately doubled due to nonlinear effects.

  15. The Effective Field Theory of Dark Matter and Structure Formation

    NASA Astrophysics Data System (ADS)

    Hertzberg, Mark P

    2014-06-01

    We develop the effective field theory of cosmological large scale structure. We start from the collisionless Boltzmann equation and integrate out short modes of a dark matter/dark energy dominated universe (LambdaCDM) whose matter is comprised of massive particles as used in cosmological simulations. This establishes a long distance effective fluid, valid for length scales larger than the non-linear scale ~ 10 Mpc, and provides the complete description of large scale structure formation. Extracting the time dependence, we derive recursion relations that encode the perturbative solution. This is exact for the matter dominated era and quite accurate in LambdaCDM also. The effective fluid is characterized by physical parameters, including sound speed and viscosity. These two fluid parameters play a degenerate role with each other and lead to a relative correction from standard perturbation theory of the form ~ 10^{-6}c^2k^2/H^2. Starting from the linear theory, we calculate corrections to cosmological observables, such as the baryon-acoustic-oscillation peak, which we compute semi-analytically at one-loop order. Due to the non-zero fluid parameters, the predictions of the effective field theory agree with observation much more accurately than standard perturbation theory and we explain why. We also discuss corrections from treating dark matter as interacting or wave-like and other issues.

  16. Cosmological nonlinear structure formation in full general relativity

    NASA Astrophysics Data System (ADS)

    Torres, José M.; Alcubierre, Miguel; Diez-Tejedor, Alberto; Núñez, Darío

    2014-12-01

    We perform numerical evolutions of cosmological scenarios using a standard general relativistic code in spherical symmetry. We concentrate on two different situations: initial matter distributions that are homogeneous and isotropic, and perturbations to those that respect the spherical symmetry. As matter models we consider the case of a pressureless perfect fluid, i.e. dust, and the case of a real massive scalar field oscillating around the minimum of the potential. Both types of matter have been considered as possible dark matter candidates in the cosmology literature, dust being closely related to the standard cold dark matter paradigm. We confirm that in the linear regime the perturbations associated with these types of matter grow in essentially the same way, the main difference being that in the case of a scalar field the dynamics introduce a cutoff in the power spectrum of the density perturbations at scales comparable with the Compton wavelength of the field. We also follow the evolutions well beyond the linear regime showing that both models are able to form structure. In particular we find that, once in the nonlinear regime, perturbations collapse faster in a universe dominated by dust. This is expected to delay the formation of the first structures in the scalar field dark matter scenario with respect to the standard cold dark matter one.

  17. Turbulence driven by structure formation in the circumgalactic medium

    NASA Astrophysics Data System (ADS)

    Iapichino, L.; Viel, M.; Borgani, S.

    2013-07-01

    The injection of turbulence in the circumgalactic medium at redshift z = 2 is investigated using the mesh-based hydrodynamic code ENZO and a sub-grid-scale (SGS) model for unresolved turbulence. Radiative cooling and heating by a uniform Ultraviolet (UV) background are included in our runs and compared with the effect of turbulence modelling. Mechanisms of gas exchange between galaxies and the surrounding medium, as well as metal enrichment, are not taken into account, and turbulence is here driven solely by structure formation (mergers and shocks). We find that turbulence, both at resolved and SGS scales, impacts mostly the warm-hot intergalactic medium (WHIM), with temperature between 105 and 107 K, mainly located around collapsed and shock-heated structures, and in filaments. Typical values of the ratio of turbulent to thermal pressure is 0.1 in the WHIM, corresponding to a volume-weighted average of the SGS turbulent to thermal Doppler broadening bt/btherm = 0.26, on length scales below the grid resolution of 25 kpc h- 1. In the diffuse intergalactic medium, defined in a range of baryon overdensity δ between 1 and 50, the importance of turbulence is smaller, but grows as a function of gas density, and the Doppler broadening ratio is fitted by the function bt/btherm = 0.023 × δ0.58.

  18. Structure formation in cosmologies with oscillating dark energy

    NASA Astrophysics Data System (ADS)

    Pace, F.; Fedeli, C.; Moscardini, L.; Bartelmann, M.

    2012-05-01

    We study the imprints on the formation and evolution of cosmic structures of a particular class of dynamical dark energy models, characterized by an oscillating equation of state. This investigation complements earlier work on the topic that focused exclusively on the expansion history of the Universe for such models. Oscillating dark energy cosmologies were introduced in an attempt to solve the coincidence problem, since in the course of cosmic history matter and dark energy would have had periodically comparable energy densities. In this class of models the redshift evolution of the equation of state parameter w(z) for dark energy is characterized by two parameters, describing the amplitude and the frequency of the oscillations (the phase is usually set by the boundary condition that w(z) should be close to -1 at recent times). We consider six different oscillating dark energy models, each characterized by a different set of parameter values. For one of these models w(z) is lower than -1 at present and larger than -1 in the past, in agreement with some marginal evidence from recent Type Ia supernova studies. Under the common assumption that dark energy is not clustering on the scales of interest, we study different aspects of cosmic structure formation. In particular, we self-consistently solve the spherical collapse problem based on the Newtonian hydrodynamical approach, and compute the resulting spherical overdensity as a function of cosmic time. We then estimate the behaviour of several cosmological observables, such as the linear growth factor, the integrated Sachs-Wolfe effect, the number counts of massive structures and the matter and cosmic shear power spectra. We show that, independently of the amplitude and the frequency of the dark energy oscillations, none of the aforementioned observables shows an oscillating behaviour as a function of redshift. This is a consequence of the said observables' being integrals over some functions of the expansion rate

  19. Boundary Layer Dynamical Structure During Secondary Eyewall Formation

    NASA Astrophysics Data System (ADS)

    Abarca, S. F.; Montgomery, M. T.; McWilliams, J. C.

    2014-12-01

    Secondary eyewall formation (SEF) is widely recognized as an important research problem in the dynamics of mature tropical cyclones. It has been shown that the development of the wind maxima in SEF occurs within the boundary layer and that it follows a chain of events initiated by a substantial radial expansion of the tangential wind field. In this context, there is not yet a consensus on the phenomenon's essential physics. It has been proposed that the boundary-layer dynamics of a maturing hurricane vortex is an important controlling element in SEF. However, recent literature also argues that hurricane boundary layers and the related coupling with the interior flow can be described through an Ekman-like balance and that shock-like structures are relevant in the swirling boundary layer of the inner core of mature storms. We analyze the radial and vertical structure of the specific forces and accelerations in in the boundary layer in a mature hurricane that includes a canonical eyewall replacement cycle. The case occurred in a mesoscale, convection-permitting numerical simulation of a tropical cyclone, integrated from an initial weak mesoscale vortex in an idealized quiescent environment. The simulation has been studied extensively in the literature. We find that momentum advection is almost everywhere important (some of it is associated with asymmetric eddies). We discuss the implication of our findings on the proposed importance of Ekman-like balance dynamics during SEF. Finally, our analysis does not support the recently proposed idea that the radial advection of radial momentum, and shock-like structures, are closely related to the supergradient wind phenomena observed during SEF.

  20. FORMATION AND STRUCTURE OF LOW-DENSITY EXO-NEPTUNES

    SciTech Connect

    Rogers, Leslie A.; Seager, Sara; Bodenheimer, Peter

    2011-09-01

    Kepler has found hundreds of Neptune-size (2-6 R{sub +}) planet candidates within 0.5 AU of their stars. The nature of the vast majority of these planets is not known because their masses have not been measured. Using theoretical models of planet formation, evolution, and structure, we explore the range of minimum plausible masses for low-density exo-Neptunes. We focus on highly irradiated planets with T{sub eq} {>=} 500 K. We consider two separate formation pathways for low-mass planets with voluminous atmospheres of light gases: core-nucleated accretion and outgassing of hydrogen from dissociated ices. We show that Neptune-size planets at T{sub eq} = 500 K with masses as small as a few times that of Earth can plausibly be formed by core-nucleated accretion coupled with subsequent inward migration. We also derive a limiting low-density mass-radius relation for rocky planets with outgassed hydrogen envelopes but no surface water. Rocky planets with outgassed hydrogen envelopes typically have computed radii well below 3 R{sub +}. For both planets with H/He envelopes from core-nucleated accretion and planets with outgassed hydrogen envelopes, we employ planet interior models to map the range of planet mass-envelope mass-equilibrium temperature parameter space that is consistent with Neptune-size planet radii. Atmospheric mass loss mediates which corners of this parameter space are populated by actual planets and ultimately governs the minimum plausible mass at a specified transit radius. We find that Kepler's 2-6 R{sub +} planet candidates at T{sub eq} = 500-1000 K could potentially have masses {approx}< 4 M{sub +}. Although our quantitative results depend on several assumptions, our qualitative finding that warm Neptune-size planets can have masses substantially smaller than those given by interpolating the masses and radii of planets within our Solar System is robust.

  1. Formation mechanisms, structure, solution behavior, and reactivity of aminodiborane.

    PubMed

    Li, Huizhen; Ma, Nana; Meng, Wenjuan; Gallucci, Judith; Qiu, Yongqing; Li, Shujun; Zhao, Qianyi; Zhang, Jie; Zhao, Ji-Cheng; Chen, Xuenian

    2015-09-30

    A facile synthesis of cyclic aminodiborane (NH2B2H5, ADB) from ammonia borane (NH3·BH3, AB) and THF·BH3 has made it possible to determine its important characteristics. Ammonia diborane (NH3BH2(μ-H)BH3, AaDB) and aminoborane (NH2BH2, AoB) were identified as key intermediates in the formation of ADB. Elimination of molecular hydrogen occurred from an ion pair, [H2B(NH3) (THF)](+)[BH4](-). Protic-hydridic hydrogen scrambling was proved on the basis of analysis of the molecular hydrogen products, ADB and other reagents through (2)H NMR and MS, and it was proposed that the scrambling occurred as the ion pair reversibly formed a BH5-like intermediate, [(THF)BH2NH2](η(2)-H2)BH3. Loss of molecular hydrogen from the ion pair led to the formation of AoB, most of which was trapped by BH3 to form ADB with a small amount oligomerizing to (NH2BH2)n. Theoretical calculations showed the thermodynamic feasibility of the proposed intermediates and the activation processes. The structure of the ADB·THF complex was found from X-ray single crystal analysis to be a three-dimensional array of zigzag chains of ADB and THF, maintained by hydrogen and dihydrogen bonding. Room temperature exchange of terminal and bridge hydrogens in ADB was observed in THF solution, while such exchange was not observed in diethyl ether or toluene. Both experimental and theoretical results confirm that the B-H-B bridge in ADB is stronger than that in diborane (B2H6, DB). The B-H-B bridge is opened when ADB and NaH react to form sodium aminodiboronate, Na[NH2(BH3)2]. The structure of the sodium salt as its 18-crown-6 ether adduct was determined by X-ray single crystal analysis. PMID:26335760

  2. Formation and Internal Structure of Terrestrial Planets, and Atmospheric Escape

    NASA Astrophysics Data System (ADS)

    Jin, S.

    2014-11-01

    As of 2014 April 21, over 1490 confirmed exoplanets and 3705 Kepler candidates have been detected. This implies that exoplanets may be ubiquitous in the universe. In this paper, we focus on the formation, evolution, and internal structure of terrestrial planets, and the atmospheric escape of close-in planets. In chapter 2, we investigate the dynamical evolution of planetary system after the protoplanetary disk has dissipated. We find that in the final assembly stage, the occurrence of terrestrial planets is quite common and in 40% of our simulations finally at least one planet is formed in the habitable zone. We also find that if there is a highly-inclined giant planet in the system, a great many bodies will be either driven out of the system, or collide with the giant planet or the central star. This will lead to the difficulty in planetary accretion. Moreover, our results show that planetary migration can lead to the formation of close-in planets. Besides migration, close-in terrestrial planets can also be formed by a collision-merger mechanism, which means that planetary embryos can kick terrestrial planets directly into orbits that are extremely close to their parent stars. In chapter 3, we construct numerically an internal structure model for terrestrial planets, and provide three kinds of possible internal structures of Europa (Jupiter's moon) based on this model. Then, we calculate the radii of low-mass exoplanets for various mass combinations of core and mantle, and find that some of them are inconsistent with the observed radius of rocky planets. This phenomenon can be explained only if there exists a large amount of water in the core, or they own gaseous envelopes. In chapter 4, we improve our planetary evolution codes using the semi-gray model of Guillot (2010), which includes the incident flux from the host star as a heating source in planetary atmosphere. The updated codes can solve the structure of the top radiative zone of intensely irradiated

  3. Renormalizing a viscous fluid model for large scale structure formation

    NASA Astrophysics Data System (ADS)

    Führer, Florian; Rigopoulos, Gerasimos

    2016-02-01

    Using the Stochastic Adhesion Model (SAM) as a simple toy model for cosmic structure formation, we study renormalization and the removal of the cutoff dependence from loop integrals in perturbative calculations. SAM shares the same symmetry with the full system of continuity+Euler equations and includes a viscosity term and a stochastic noise term, similar to the effective theories recently put forward to model CDM clustering. We show in this context that if the viscosity and noise terms are treated as perturbative corrections to the standard eulerian perturbation theory, they are necessarily non-local in time. To ensure Galilean Invariance higher order vertices related to the viscosity and the noise must then be added and we explicitly show at one-loop that these terms act as counter terms for vertex diagrams. The Ward Identities ensure that the non-local-in-time theory can be renormalized consistently. Another possibility is to include the viscosity in the linear propagator, resulting in exponential damping at high wavenumber. The resulting local-in-time theory is then renormalizable to one loop, requiring less free parameters for its renormalization.

  4. Structure formation in the Dvali Gabadadze Porrati cosmological model

    NASA Astrophysics Data System (ADS)

    Koyama, Kazuya; Maartens, Roy

    2006-01-01

    The DGP brane-world model provides an alternative to the standard LCDM cosmology, in which the late universe accelerates due to a modification of gravity rather than vacuum energy. The cosmological constant Λ in LCDM is replaced by a single parameter, the crossover scale rc, in DGP. The supernova redshift observations can be fitted by both models, with Λ ~ H02 and rc ~ H0-1. This degeneracy is broken by structure formation, which is suppressed in different ways in the two models. There is some confusion in the literature about how the standard linear growth factor is modified in the DGP model. While the luminosity distance can be computed purely from the modified four-dimensional Friedman equation, the evolution of density perturbations requires an analysis of the five-dimensional gravitational field. We show that if the five-dimensional effects are inappropriately neglected, then the four-dimensional Bianchi identities are violated and the computed growth factor is incorrect. By using the five-dimensional equations, we derive the correct growth factor.

  5. The contribution of quasar outflows to cosmological structure formation

    NASA Astrophysics Data System (ADS)

    Arav, Nahum

    2011-10-01

    A vast new discovery space is opened up by the high sensitivity of COS in the far UV. These new capabilities are ushering a revolution in the study of AGN outflows. We now have the ability to obtain high quality data on objects up to a redshift of about 1, providing access to ten times more {and better} diagnostic absorption lines than was possible with STIS {which could only observe outflows at z<0.05 with sufficient S/N}. These diagnostics will allow us to quantify how much do quasar outflow contribute to AGN feedback. On the way to this lofty goal, we'll be able to resolve important questions in the study of these outflows: Where are they situated within the host galaxy? What is their ionization equilibrium and chemical abundances? Unlike ground-based observations, COS data can yield the answers to all these questions for the most ubiquitous outflows, and therefore connect them to our developing understanding of cosmological structure formation.Our analysis of recent archived COS observations gives a concrete example for the above claims; including the first determination of the distance from the central source for a high-ionization outflow. Here we propose an archive program to look through the 520 COS G130M and G160M orbits of AGN archive observations, identify quasar outflows and publish the analyses of the best cases.

  6. Using Black Hole Mergers to Explore Structure Formation

    NASA Technical Reports Server (NTRS)

    Alicea-Munoz, E.; Miller, M. Coleman

    2008-01-01

    Observations of gravitational waves from massive black hole mergers will open a new window into the era of structure formation in the early universe. Past efforts have concentrated on calculating merger rates using different physical assumptions, resulting in merger rate estimates that span a wide range (0.1 - 1 0A4 mergers/year). We develop a semi-analytical, phenomenological model of massive black hole mergers that includes plausible combinations of several physical parameters, which we then turn around to determine how well observations with the Laser Interferometer Space Antenna (LISA) will be able to enhance our understanding of the universe during the critical z approx. 5 - 30 epoch. Our approach involves generating synthetic LISA observable data (total BH masses, BH mass ratios, redshifts, merger rates), which are then analyzed using a Markov Chain Monte Carlo method, thus finding constraints for the physical parameters of the mergers. We find that our method works well at estimating merger parameters and that the number of merger events is a key discriminant among models, therefore making our method robust against observational uncertainties. Our approach can also be extended to more physically-driven models and more general problems in cosmology.

  7. Using Black Hole Mergers to Explore Structure Formation

    NASA Technical Reports Server (NTRS)

    Alicea-Munoz, E.; Miller, M. Coleman

    2009-01-01

    Observations of gravitational waves from massive black hole mergers will open a new window into the era of structure formation in the early universe. Past efforts have concentrated on calculating merger rates using different physical assumptions, resulting in merger rate estimates that span a wide range (0.1 - 10(exp 4) mergers/year). We develop a semi-analytical, phenomenological model of massive black hole mergers that includes plausible combinations of several physical parameters, which we then turn around to determine how well observations with the Laser Interferometer Space Antenna (LISA) will be able to enhance our understanding of the universe during the critical z approximately equal to 5-30 epoch. Our approach involves generating synthetic LISA observable data (total BH masses, BH mass ratios, redshifts, merger rates), which are then analyzed using a Markov Chain Monte Carlo method, thus finding constraints for the physical parameters of the mergers. We find that our method works well at estimating merger parameters and that the number of merger events is a key discriminant among models, therefore making our method robust against observational uncertainties. Our approach can also be extended to more physically-driven models and more general problems in cosmology. This work is supported in part by the Cooperative Education Program at NASA/GSFC.

  8. Generation of Hierarchically Ordered Structures on a Polymer Film by Electrohydrodynamic Structure Formation.

    PubMed

    Tian, Hongmiao; Shao, Jinyou; Hu, Hong; Wang, Li; Ding, Yucheng

    2016-06-29

    The extensive applications of hierarchical structures in optoelectronics, micro/nanofluidics, energy conservation, etc., have led to the development of a variety of approaches for their fabrication, which can be categorized as bottom-up or top-down strategies. Current bottom-up and top-down strategies bear a complementary relationship to each other due to their processing characteristics, i.e., the advantages of one method correspond to the disadvantages of the other, and vice versa. Here we propose a novel method based on electrohydrodynamic structure formation, aimed at combining the main advantages of the two strategies. The method allows the fabrication of a hierarchically ordered structure with well-defined geometry and high mechanical durability on a polymer film, through a simple and low-cost process also suitable for mass-production. In this approach, upon application of an electric field between a template and a substrate sandwiching an air gap and a polymer film, the polymer is pulled toward the template and further flows into the template cavities, resulting in a hierarchical structure with primary and secondary patterns determined by electrohydrodynamic instability and by the template features, respectively. In this work, the fabrication of a hierarchical structure by electrohydrodynamic structure formation is studied using numerical simulations and experimental tests. The proposed method is then employed for the one-step fabrication of a hierarchical structure exhibiting a gradual transition in the periodicity of the primary structure using a slant template and a flat polymer film, which presents an excellent performance on controllable wettability. PMID:27268135

  9. Crystal structures of complexes of NAD{sup +}-dependent formate dehydrogenase from methylotrophic bacterium Pseudomonas sp. 101 with formate

    SciTech Connect

    Filippova, E. V. Polyakov, K. M.; Tikhonova, T. V.; Stekhanova, T. N.; Boiko, K. M.; Sadykhov, I. G.; Tishkov, V. I.; Popov, V. O.; Labru, N.

    2006-07-15

    Formate dehydrogenase (FDH) from the methylotrophic bacterium Pseudomonas sp. 101 catalyzes oxidation of formate to NI{sub 2} with the coupled reduction of nicotinamide adenine dinucleotide (NAD{sup +}). The three-dimensional structures of the apo form (the free enzyme) and the holo form (the ternary FDH-NAD{sup +}-azide complex) of FDH have been established earlier. In the present study, the structures of FDH complexes with formate are solved at 2.19 and 2.28 A resolution by the molecular replacement method and refined to the R factors of 22.3 and 20.5%, respectively. Both crystal structures contain four protein molecules per asymmetric unit. These molecules form two dimers identical to the dimer of the apo form of FDH. Two possible formatebinding sites are found in the active site of the FDH structure. In the complexes the sulfur atom of residue Cys354 exists in the oxidized state.

  10. Innovative design of composite structures: Use of curvilinear fiber format to improve structural efficiency

    NASA Technical Reports Server (NTRS)

    Hyer, M. W.; Charette, R. F.

    1987-01-01

    To increase the effectiveness and efficiency of fiber-reinforced materials, the use of fibers in a curvilinear rather than the traditional straightline format is explored. The capacity of a laminated square plate with a central circular hole loaded in tension is investigated. The orientation of the fibers is chosen so that the fibers in a particular layer are aligned with the principle stress directions in that layer. Finite elements and an iteration scheme are used to find the fiber orientation. A noninteracting maximum strain criterion is used to predict load capacity. The load capacities of several plates with different curvilinear fibers format are compared with the capacities of more conventional straightline format designs. It is found that the most practical curvilinear design sandwiches a group of fibers in a curvilinear format between a pair of +/-45 degree layers. This design has a 60% greater load capacity than a conventional quasi-isotropic design with the same number of layers. The +/-45 degree layers are necessary to prevent matrix cracking in the curvilinear layers due to stresses perpendicular to the fibers in those layers. Greater efficiencies are achievable with composite structures than now realized.

  11. Hikurangi Plateau: Crustal structure, rifted formation, and Gondwana subduction history

    NASA Astrophysics Data System (ADS)

    Davy, Bryan; Hoernle, Kaj; Werner, Reinhard

    2008-07-01

    Seismic reflection profiles across the Hikurangi Plateau Large Igneous Province and adjacent margins reveal the faulted volcanic basement and overlying Mesozoic-Cenozoic sedimentary units as well as the structure of the paleoconvergent Gondwana margin at the southern plateau limit. The Hikurangi Plateau crust can be traced 50-100 km southward beneath the Chatham Rise where subduction cessation timing and geometry are interpreted to be variable along the margin. A model fit of the Hikurangi Plateau back against the Manihiki Plateau aligns the Manihiki Scarp with the eastern margin of the Rekohu Embayment. Extensional and rotated block faults which formed during the breakup of the combined Manihiki-Hikurangi plateau are interpreted in seismic sections of the Hikurangi Plateau basement. Guyots and ridge-like seamounts which are widely scattered across the Hikurangi Plateau are interpreted to have formed at 99-89 Ma immediately following Hikurangi Plateau jamming of the Gondwana convergent margin at ˜100 Ma. Volcanism from this period cannot be separately resolved in the seismic reflection data from basement volcanism; hence seamount formation during Manihiki-Hikurangi Plateau emplacement and breakup (125-120 Ma) cannot be ruled out. Seismic reflection data and gravity modeling suggest the 20-Ma-old Hikurangi Plateau choked the Cretaceous Gondwana convergent margin within 5 Ma of entry. Subsequent uplift of the Chatham Rise and slab detachment has led to the deposition of a Mesozoic sedimentary unit that thins from ˜1 km thickness northward across the plateau. The contrast with the present Hikurangi Plateau subduction beneath North Island, New Zealand, suggests a possible buoyancy cutoff range for LIP subduction consistent with earlier modeling.

  12. Structure and Soot Formation Properties of Laminar Flames

    NASA Technical Reports Server (NTRS)

    El-Leathy, A. M.; Xu, F.; Faeth, G. M.

    2001-01-01

    Soot formation within hydrocarbon-fueled flames is an important unresolved problem of combustion science for several reasons: soot emissions are responsible for more deaths than any other combustion-generated pollutant, thermal loads due to continuum radiation from soot limit the durability of combustors, thermal radiation from soot is mainly responsible for the growth and spread of unwanted fires, carbon monoxide emissions associated with soot emissions are responsible for most fire deaths, and limited understanding of soot processes in flames is a major impediment to the development of computational combustion. Motivated by these observations, soot processes within laminar premixed and nonpremixed (diffusion) flames are being studied during this investigation. The study is limited to laminar flames due to their experimental and computational tractability, noting the relevance of these results to practical flames through laminar flamelet concepts. Nonbuoyant flames are emphasized because buoyancy affects soot processes in laminar diffusion flames whereas effects of buoyancy are small for most practical flames. This study involves both ground- and space-based experiments, however, the following discussion will be limited to ground-based experiments because no space-based experiments were carried out during the report period. The objective of this work was to complete measurements in both premixed and nonpremixed flames in order to gain a better understanding of the structure of the soot-containing region and processes of soot nucleation and surface growth in these environments, with the latter information to be used to develop reliable ways of predicting soot properties in practical flames. The present discussion is brief, more details about the portions of the investigation considered here can be found in refs. 8-13.

  13. Topics in cosmology: Structure formation, dark energy and recombination

    NASA Astrophysics Data System (ADS)

    Alizadeh, Esfandiar

    The field of theoretical cosmology consists of numerous, inter-related branches, whose ambitious goal is to uncover the history of the universe from its beginning to its future. Achieving this, no doubt, requires a deep understanding of many areas of physics. In this thesis I touch upon a few of these areas in which I worked during my PhD studies. Chapter (2) describes our work in finding the accretion and merger history of dark matter halos. Dark matter halos are the collapsed dark matter structures in the late time evolution of the universe, whose existence is vital for the formation of galaxies in the Universe as they act as the potential wells where normal matter (collectively called Baryons) can accumulate, cool, and form stars. It is then no surprise that the properties of galaxies depends on the properties of the dark matter halo in which it resides, including its merger history, i.e. the number of times it merged with other halos. Even though these merger rates can be calculated theoretically for infinitesimal time steps, in order to find the merger history over an extended period of time one had to use either Monte-Carlo simulations to build up the total rates of merging and accreting from the infinitesimal rates or use N-body simulations. In chapter (2) we show how we used random walk formalism to write down an analytical (integral) equation for the merger history of halos. We have solved this equation numerically and find very good agreement with Monte-Carlo simulations. This work can be used in theories of galaxy formation and evolution. We then switch from the overdense regions of the Universe, halos, to the underdense ones, voids. These structures have not attracted as much attention from cosmologists as their overdense counterparts in probing the cosmological models. We show here that the shapes of voids as a probe can be of use for future surveys to pin down the equation of state of the dark energy, i.e. the ratio of its pressure to its energy

  14. Flexible Virtual Structure Consideration in Dynamic Modeling of Mobile Robots Formation

    NASA Astrophysics Data System (ADS)

    El Kamel, A. Essghaier; Beji, L.; Lerbet, J.; Abichou, A.

    2009-03-01

    In cooperative mobile robotics, we look for formation keeping and maintenance of a geometric configuration during movement. As a solution to these problems, the concept of a virtual structure is considered. Based on this idea, we have developed an efficient flexible virtual structure, describing the dynamic model of n vehicles in formation and where the whole formation is kept dependant. Notes that, for 2D and 3D space navigation, only a rigid virtual structure was proposed in the literature. Further, the problem was limited to a kinematic behavior of the structure. Hence, the flexible virtual structure in dynamic modeling of mobile robots formation presented in this paper, gives more capabilities to the formation to avoid obstacles in hostile environment while keeping formation and avoiding inter-agent collision.

  15. Formation, structure, and orientation of gold silicide on gold surfaces

    NASA Technical Reports Server (NTRS)

    Green, A. K.; Bauer, E.

    1976-01-01

    The formation of gold silicide on Au films evaporated onto Si(111) surfaces is studied by Auger electron spectroscopy (AES) and low-energy electron diffraction (LEED). Surface condition, film thickness, deposition temperature, annealing temperature, and heating rate during annealing are varied. Several oriented crystalline silicide layers are observed.

  16. STUDIES OF DUST CAKE FORMATION AND STRUCTURE IN FABRIC FILTRATION

    EPA Science Inventory

    Measurements with composite fabrics in which the upstream layer had a very low packing density (i.e., low fiber volume fraction) support the hypothesis that pressure drop reduction by means of electrical stimulation is due to preferential formation of the dust cake in the region ...

  17. Formation of copper porous structures under near-equilibrium chemical vapor deposition

    NASA Astrophysics Data System (ADS)

    Kornyushchenko, A. S.; Natalich, V. V.; Perekrestov, V. I.

    2016-05-01

    The mechanism of copper structure formation under near-equilibrium conditions in a chemically-active medium-condensate system has been investigated. The desired conditions have been implemented using CVD system. Copper chloride CuCl2 was used as a source material, and mixture of hydrogen with nitrogen served as a working gas. The influence of the evaporation temperature, condensation temperature and state of the growth surface on the porous structures formation has been investigated. It has been established, that the structure formation mechanism is determined by layer-by-layer or normal crystal growth, nucleation and growth of whiskers, and also by partial intergrowth of structural elements.

  18. Laser-induced structure formation on stretched polymer foils

    SciTech Connect

    Bityurin, Nikita; Arnold, Nikita; Baeuerle, Dieter; Arenholz, Enno

    2007-04-15

    Noncoherent structures that develop during UV laser ablation of stretched semicrystalline polymer foils are a very general phenomenon. A thermodynamic model based on stress relaxation within the modified layer of the polymer surface describes the main features of the observed phenomena, and, in particular, the dependence of the period of structures on laser wavelength, fluence, and number of laser pulses.

  19. BOOK REVIEW: Transport and Structural Formation in Plasmas

    NASA Astrophysics Data System (ADS)

    Thyagaraja, A.

    1999-06-01

    The book under review is one of a series of monographs on plasma physics published by the Institute of Physics under the editorship of Peter Stott and Hans Wilhelmsson. It is nicely produced and is aimed at research workers and advanced students of both laboratory (i.e. tokamak plasmas) and astrophysical plasma physics. The authors are prolific contributors to the subject of plasma turbulence and transport with a well-defined message: ``The authors' view is that the plasma structure, fluctuations and turbulent transport are continually regulating each other and, in addition, that the structural formation and structural transition of plasmas are typical of the physics of far from equilibrium systems. The book presents and explains why the plasma inhomogeneity is the ordering parameter governing transport and how self-sustained fluctuations can be driven through subcritical excitation even beyond linear instability''. This point of view is expounded in 24 chapters, including topics such as transport phenomena in toroidal plasmas (Chapters 2-4), low frequency modes and instabilities of confined systems (Chapters 5-7), renormalization (Chapter 8), self-sustained turbulence due to the current diffusive mode and resistive effects (Chapters 9-11), subcritical turbulence and numerical simulations (Chapters 12-14), scale invariance arguments (Chapter 15), electric field effects (Chapters 17-21) and self-organized dynamics (Chapter 22). The material is essentially drawn from the authors' many and varied original contributions to the plasma turbulence and transport literature. Whatever view one might have about the merits of this work, there is little doubt in this reviewer's mind that it is indeed thought-provoking and presents a worthy intellectual challenge to plasma theorists and experimentalists alike. The authors take a consistent stance and discuss the issues from their own standpoint. They observe that the plasmas one encounters in practice (for definiteness, the

  20. Structure and Formation of Kaonic Atoms and Kaonic Nuclei

    NASA Astrophysics Data System (ADS)

    Yamagata, Junko; Hirenzaki, Satoru; Nagahiro, Hideko; Jido, Daisuke

    We study theoretically the in-flight (K-, N) reactions for the formation of bar {K}NN systems using the microscopic chiral unitary s-wave bar {K}N amplitude to get deeper physical insights on the expected spectra, and to investigate the experimental feasibility of the reaction at J-PARC facility. We show the missing mass spectra of the (K-, N) reactions accompanied by the particle emissions due to bar {K} absorption in nucleus.

  1. Structural constraints regulating triple helix formation by A-tracts.

    PubMed

    Sen, A; Gräslund, A

    2000-12-15

    The study concerns the propensity of triple helix formation by different DNA oligonucleotides containing long A-tracts with and without flanking GxC base pairs in order to probe the role of length of the A-tract and the flanking sequences. From nuclear magnetic resonance (NMR) studies of imino proton spectra and circular dichroism (CD) spectroscopy of samples composed of potential triplex forming strand sequences in correct stoichiometries, we have concluded that 8-mer A-tracts flanked by GxC base pairs exert significant steric hindrance to triple helix formation. When as much as 50 mM Mg2+ was added, no triple helix formation was observed in these samples. In contrast, open-ended 8-mer A-tracts formed triplex with the corresponding two T8 strands under relatively mild ionic conditions (100 mM Na+). Moreover, the shorter the length of the A-tract, the less is the hindrance to form a triple helix. PMID:11152277

  2. Network formation: neighborhood structures, establishment costs, and distributed learning.

    PubMed

    Chasparis, Georgios C; Shamma, Jeff S

    2013-12-01

    We consider the problem of network formation in a distributed fashion. Network formation is modeled as a strategic-form game, where agents represent nodes that form and sever unidirectional links with other nodes and derive utilities from these links. Furthermore, agents can form links only with a limited set of neighbors. Agents trade off the benefit from links, which is determined by a distance-dependent reward function, and the cost of maintaining links. When each agent acts independently, trying to maximize its own utility function, we can characterize “stable” networks through the notion of Nash equilibrium. In fact, the introduced reward and cost functions lead to Nash equilibria (networks), which exhibit several desirable properties such as connectivity, bounded-hop diameter, and efficiency (i.e., minimum number of links). Since Nash networks may not necessarily be efficient, we also explore the possibility of “shaping” the set of Nash networks through the introduction of state-based utility functions. Such utility functions may represent dynamic phenomena such as establishment costs (either positive or negative). Finally, we show how Nash networks can be the outcome of a distributed learning process. In particular, we extend previous learning processes to so-called “state-based” weakly acyclic games, and we show that the proposed network formation games belong to this class of games. PMID:23757585

  3. FASTR: A novel data format for concomitant representation of RNA sequence and secondary structure information.

    PubMed

    Bose, Tungadri; Dutta, Anirban; Mh, Mohammed; Gandhi, Hemang; Mande, Sharmila S

    2015-09-01

    Given the importance of RNA secondary structures in defining their biological role, it would be convenient for researchers seeking RNA data if both sequence and structural information pertaining to RNA molecules are made available together. Current nucleotide data repositories archive only RNA sequence data. Furthermore, storage formats which can frugally represent RNA sequence as well as structure data in a single file, are currently unavailable. This article proposes a novel storage format, 'FASTR', for concomitant representation of RNA sequence and structure. The storage efficiency of the proposed FASTR format has been evaluated using RNA data from various microorganisms. Results indicate that the size of FASTR formatted files (containing both RNA sequence as well as structure information) are equivalent to that of FASTA-format files, which contain only RNA sequence information. RNA secondary structure is typically represented using a combination of a string of nucleotide characters along with the corresponding dot-bracket notation indicating structural attributes. 'FASTR' - the novel storage format proposed in the present study enables a frugal representation of both RNA sequence and structural information in the form of a single string. In spite of having a relatively smaller storage footprint, the resultant 'fastr' string(s) retain all sequence as well as secondary structural information that could be stored using a dot-bracket notation. An implementation of the 'FASTR' methodology is available for download at http://metagenomics.atc.tcs.com/compression/fastr. PMID:26333403

  4. Energy minimization for self-organized structure formation and actuation

    NASA Astrophysics Data System (ADS)

    Kofod, Guggi; Wirges, Werner; Paajanen, Mika; Bauer, Siegfried

    2007-02-01

    An approach for creating complex structures with embedded actuation in planar manufacturing steps is presented. Self-organization and energy minimization are central to this approach, illustrated with a model based on minimization of the hyperelastic free energy strain function of a stretched elastomer and the bending elastic energy of a plastic frame. A tulip-shaped gripper structure illustrates the technological potential of the approach. Advantages are simplicity of manufacture, complexity of final structures, and the ease with which any electroactive material can be exploited as means of actuation.

  5. Formation of Surface Corrosion-Resistant Nanocrystalline Structures on Steel

    NASA Astrophysics Data System (ADS)

    Nykyforchyn, Hryhoriy; Kyryliv, Volodymyr; Maksymiv, Olha; Slobodyan, Zvenomyra; Tsyrulnyk, Oleksandr

    2016-02-01

    Engineering materials with nanocrystalline structure could be exploited under simultaneous action of mechanical loading and corrosion environments; therefore, their corrosion resistance is important. Surface nanocrystalline structure was generated on middle carbon steels by severe plastic deformation using the method of mechanical pulse friction treatment. This treatment additionally includes high temperature phase transformation and alloying. Using a complex of the corrosive, electrochemical and physical investigations, it was established that nanocrystalline structures can be characterized by lower or increased corrosion resistance in comparison with the reference material. It is caused by the action of two confronting factors: arising energy level and anticorrosive alloying of the surface layer.

  6. Formation of Surface Corrosion-Resistant Nanocrystalline Structures on Steel.

    PubMed

    Nykyforchyn, Hryhoriy; Kyryliv, Volodymyr; Maksymiv, Olha; Slobodyan, Zvenomyra; Tsyrulnyk, Oleksandr

    2016-12-01

    Engineering materials with nanocrystalline structure could be exploited under simultaneous action of mechanical loading and corrosion environments; therefore, their corrosion resistance is important. Surface nanocrystalline structure was generated on middle carbon steels by severe plastic deformation using the method of mechanical pulse friction treatment. This treatment additionally includes high temperature phase transformation and alloying. Using a complex of the corrosive, electrochemical and physical investigations, it was established that nanocrystalline structures can be characterized by lower or increased corrosion resistance in comparison with the reference material. It is caused by the action of two confronting factors: arising energy level and anticorrosive alloying of the surface layer. PMID:26831689

  7. Regulatory effects of cotranscriptional RNA structure formation and transitions.

    PubMed

    Liu, Sheng-Rui; Hu, Chun-Gen; Zhang, Jin-Zhi

    2016-09-01

    RNAs, which play significant roles in many fundamental biological processes of life, fold into sophisticated and precise structures. RNA folding is a dynamic and intricate process, which conformation transition of coding and noncoding RNAs form the primary elements of genetic regulation. The cellular environment contains various intrinsic and extrinsic factors that potentially affect RNA folding in vivo, and experimental and theoretical evidence increasingly indicates that the highly flexible features of the RNA structure are affected by these factors, which include the flanking sequence context, physiochemical conditions, cis RNA-RNA interactions, and RNA interactions with other molecules. Furthermore, distinct RNA structures have been identified that govern almost all steps of biological processes in cells, including transcriptional activation and termination, transcriptional mutagenesis, 5'-capping, splicing, 3'-polyadenylation, mRNA export and localization, and translation. Here, we briefly summarize the dynamic and complex features of RNA folding along with a wide variety of intrinsic and extrinsic factors that affect RNA folding. We then provide several examples to elaborate RNA structure-mediated regulation at the transcriptional and posttranscriptional levels. Finally, we illustrate the regulatory roles of RNA structure and discuss advances pertaining to RNA structure in plants. WIREs RNA 2016, 7:562-574. doi: 10.1002/wrna.1350 For further resources related to this article, please visit the WIREs website. PMID:27028291

  8. Block-copolymer-induced structure formation in microemulsions

    SciTech Connect

    Hilfiker, R.; Eicke, H.F.; Steeb, C.; Hofmeier, U. )

    1991-02-07

    Transient electric birefringence measurements were performed on water/AOT (sodium bis(2-ethylhexyl) sulfosuccinate)/isooctane microemulsions with various amounts of block-copoly(oxyethylene/isoprene/oxyethylene) added. The authors could show that addition of the copolymer leads to a formation of nanodroplet (ND)-copolymer-aggregates. The contributions of NDs and aggregates to the induced birefringence could easily be separated because the NDs exhibited a negative and the aggregates a positive induced birefringence and because the time scales corresponding to the two processes were different.

  9. Note on structure formation from cosmic string wakes

    SciTech Connect

    Duplessis, Francis; Brandenberger, Robert E-mail: rhb@physics.mcgill.ca

    2013-04-01

    The search for cosmic strings has been of renewed interest with the advent of precision cosmology. In this note we give a quantitative description of the nonlinear matter density fluctuations that can form from a scaling network of cosmic string wakes. Specifically, we compute the distribution of dark matter halos. These halos would possess strong correlations in position space that should have survived until today. We also discuss the challenges involved in their detection due to their small size and the complex dynamics of their formation.

  10. Learning the 3-D structure of objects from 2-D views depends on shape, not format

    PubMed Central

    Tian, Moqian; Yamins, Daniel; Grill-Spector, Kalanit

    2016-01-01

    Humans can learn to recognize new objects just from observing example views. However, it is unknown what structural information enables this learning. To address this question, we manipulated the amount of structural information given to subjects during unsupervised learning by varying the format of the trained views. We then tested how format affected participants' ability to discriminate similar objects across views that were rotated 90° apart. We found that, after training, participants' performance increased and generalized to new views in the same format. Surprisingly, the improvement was similar across line drawings, shape from shading, and shape from shading + stereo even though the latter two formats provide richer depth information compared to line drawings. In contrast, participants' improvement was significantly lower when training used silhouettes, suggesting that silhouettes do not have enough information to generate a robust 3-D structure. To test whether the learned object representations were format-specific or format-invariant, we examined if learning novel objects from example views transfers across formats. We found that learning objects from example line drawings transferred to shape from shading and vice versa. These results have important implications for theories of object recognition because they suggest that (a) learning the 3-D structure of objects does not require rich structural cues during training as long as shape information of internal and external features is provided and (b) learning generates shape-based object representations independent of the training format. PMID:27153196

  11. Learning the 3-D structure of objects from 2-D views depends on shape, not format.

    PubMed

    Tian, Moqian; Yamins, Daniel; Grill-Spector, Kalanit

    2016-05-01

    Humans can learn to recognize new objects just from observing example views. However, it is unknown what structural information enables this learning. To address this question, we manipulated the amount of structural information given to subjects during unsupervised learning by varying the format of the trained views. We then tested how format affected participants' ability to discriminate similar objects across views that were rotated 90° apart. We found that, after training, participants' performance increased and generalized to new views in the same format. Surprisingly, the improvement was similar across line drawings, shape from shading, and shape from shading + stereo even though the latter two formats provide richer depth information compared to line drawings. In contrast, participants' improvement was significantly lower when training used silhouettes, suggesting that silhouettes do not have enough information to generate a robust 3-D structure. To test whether the learned object representations were format-specific or format-invariant, we examined if learning novel objects from example views transfers across formats. We found that learning objects from example line drawings transferred to shape from shading and vice versa. These results have important implications for theories of object recognition because they suggest that (a) learning the 3-D structure of objects does not require rich structural cues during training as long as shape information of internal and external features is provided and (b) learning generates shape-based object representations independent of the training format. PMID:27153196

  12. Formation of core-shell structure in high entropy alloy coating by laser cladding

    NASA Astrophysics Data System (ADS)

    Zhang, Hui; Wu, Wanfei; He, Yizhu; Li, Mingxi; Guo, Sheng

    2016-02-01

    The formation of core-shell structure is an interesting phenomenon occurring during the solidification process, due to the liquid phase separation. The formation of core-shell structure in high-entropy alloys, a new class of advanced metallic materials, has not been reported previously, and thus constitutes an intriguing scientific question. Here, we firstly report the formation of core-shell structure in one laser cladded high-entropy alloy, where we show the nanosized-Y2O3 powder addition, serves as the catalyst for the liquid phase separation.

  13. Formation of structure in Au, Cu and Ni nanoclusters: MD simulations

    NASA Astrophysics Data System (ADS)

    Gafner, Yu Ya; Gafner, S. L.; Golonenko, Zh V.; Redel, L. V.; Khrustalev, V. I.

    2016-02-01

    The molecular dynamics method with the modified tight-binding (TB-SMA) potential has been used to study structure formation in gold nanoparticles 1.6-5.0 nm in diameter. The formation of the internal structure of gold nanoclusters is studied in terms of canonical ensembles. The stability boundaries of various crystalline isomers are analyzed. The obtained dependences are compared with the corresponding data obtained for copper and nickel nanoparticles. The structure formation during solidification is found to be characterized by a clear effect of the particle size on the stability of a crystalline modification.

  14. Formation and structural characteristics of thermosensitive multiblock copolymer vesicles.

    PubMed

    Ma, Shiying; Xiao, Mengying; Wang, Rong

    2013-12-23

    The spontaneous vesicle formation of ABABA-type amphiphilic multiblock copolymers bearing thermosensitive hydrophilic A-block in a selective solvent is studied using dissipative particle dynamics (DPD) approach. The formation process of vesicle through nucleation and growth pathway is observed by varying the temperature. The simulation results show that spherical micelle takes shape at high temperature. As temperature decreases, vesicles with small aqueous cavity appear and the cavity expands as well as the membrane thickness decreases with the temperature further decreasing. This finding is in agreement with the experimental observation. Furthermore, by continuously varying the temperature and the length of the hydrophobic block, a phase diagram is constructed, which can indicate the thermodynamically stable region for vesicles. The morphological phase diagram shows that vesicles can form in a larger parameter scope. The relationship between the hydrophilic and hydrophobic block length versus the aqueous cavity size and vesicle size are revealed. Simulation results demonstrate that the copolymers with shorter hydrophobic blocks length or the higher hydrophilicity are more likely to form vesicles with larger aqueous cavity size and vesicle size as well as thinner wall thickness. However, the increase in A-block length results to form vesicles with smaller aqueous cavity size and larger vesicle size. PMID:24304193

  15. Formation of Si structure in glass with a femtosecond laser

    NASA Astrophysics Data System (ADS)

    Miura, Kiyotaka; Hirao, Kazuyuki; Shimotsuma, Yasuhiko; Sakakura, Masaaki; Kanehira, Shingo

    2008-10-01

    Mixing metallic Al into the starting material for silicate glass is proposed as a means of forming Si structures in glass. We confirmed that Si nanocrystals are space-selectively deposited in silicate glass via a thermite reaction triggered by femtosecond laser pulses. Small Si particles were transformed into larger, but still micrometer sized, Si particles by laser irradiation. These structures grew to micro-size particles due to the thermite reaction promoted by heat treatment. We discuss what effect the irradiation of the focused laser pulse had on the Si deposition process in the laser-irradiated region. Localized high temperatures and pressures and generation of shock waves appear to be very important in forming Si-rich structures that contribute to the growth of Si particles. The diffusion of calcium ions by the generation of shock waves and the presence of Al-rich structures is important for forming Si-rich structures such as Si clusters, which is achieved by continuously breaking Si-O bonds using localized high temperatures.

  16. Processes of ordered structure formation in polypeptide thin film solutions.

    SciTech Connect

    Botiz, I.; Schlaad, H.; Reiter, G.

    2010-06-17

    An experimental study is presented on the hierarchical assembly of {alpha}-helical block copolymers polystyrene-poly({gamma}-benzyl-L-glutamate) into anisotropic ordered structures. We transformed thin solid films into solutions through exposure to solvent vapor and studied the nucleation and growth of ordered three-dimensional structures in such solutions, with emphasis on the dependence of these processes on supersaturation with respect to the solubility limit. Interestingly, polymer solubility could be significantly influenced via variation of humidity in the surrounding gas phase. It is concluded that the interfacial tension between the ordered structures and the solution increased with humidity. The same effect was observed for other protic non-solvents in the surrounding gas phase and is attributed to a complexation of poly({gamma}-benzyl-L-glutamate) by protic non-solvent molecules (via hydrogen-bonding interactions). This change of polymer solubility was demonstrated to be reversible by addition or removal of small amounts of protic non-solvent in the surrounding gas phase. At a constant polymer concentration, ordered ellipsoidal structures could be dissolved by removing water or methanol present in the solution. Such structures formed once again when water or methanol was reintroduced via the vapor phase.

  17. Structure Formation of Ultrathin PEO Films at Solid Interfaces—Complex Pattern Formation by Dewetting and Crystallization

    PubMed Central

    Braun, Hans-Georg; Meyer, Evelyn

    2013-01-01

    The direct contact of ultrathin polymer films with a solid substrate may result in thin film rupture caused by dewetting. With crystallisable polymers such as polyethyleneoxide (PEO), molecular self-assembly into partial ordered lamella structures is studied as an additional source of pattern formation. Morphological features in ultrathin PEO films (thickness < 10 nm) result from an interplay between dewetting patterns and diffusion limited growth pattern of ordered lamella growing within the dewetting areas. Besides structure formation of hydrophilic PEO molecules, n-alkylterminated (hydrophobic) PEO oligomers are investigated with respect to self-organization in ultrathin films. Morphological features characteristic for pure PEO are not changed by the presence of the n-alkylgroups. PMID:23385233

  18. Structural difference rule for amorphous alloy formation by ion mixing

    NASA Technical Reports Server (NTRS)

    Liu, B.-X.; Johnson, W. L.; Nicolet, M.A.; Lau, S. S.

    1983-01-01

    A rule is formulated which establishes a sufficient condition that an amorphous binary alloy will be formed by ion mixing of multilayered samples when the two constituent metals are of different crystalline structure, regardless of their atomic sizes and electronegativities. The rule is supported by the experimental results obtained on six selected binary metal systems, as well as by the previous data reported in the literature. The amorphization mechanism is discussed in terms of the competition between two different structures resulting in frustration of the crystallization process.

  19. How chemistry influences cloud structure, star formation, and the IMF

    NASA Astrophysics Data System (ADS)

    Hocuk, S.; Cazaux, S.; Spaans, M.; Caselli, P.

    2016-03-01

    In the earliest phases of star-forming clouds, stable molecular species, such as CO, are important coolants in the gas phase. Depletion of these molecules on dust surfaces affects the thermal balance of molecular clouds and with that their whole evolution. For the first time, we study the effect of grain surface chemistry (GSC) on star formation and its impact on the initial mass function (IMF). We follow a contracting translucent cloud in which we treat the gas-grain chemical interplay in detail, including the process of freeze-out. We perform 3D hydrodynamical simulations under three different conditions, a pure gas-phase model, a freeze-out model, and a complete chemistry model. The models display different thermal evolution during cloud collapse as also indicated in Hocuk, Cazaux & Spaans, but to a lesser degree because of a different dust temperature treatment, which is more accurate for cloud cores. The equation of state (EOS) of the gas becomes softer with CO freeze-out and the results show that at the onset of star formation, the cloud retains its evolution history such that the number of formed stars differ (by 7 per cent) between the three models. While the stellar mass distribution results in a different IMF when we consider pure freeze-out, with the complete treatment of the GSC, the divergence from a pure gas-phase model is minimal. We find that the impact of freeze-out is balanced by the non-thermal processes; chemical and photodesorption. We also find an average filament width of 0.12 pc (±0.03 pc), and speculate that this may be a result from the changes in the EOS caused by the gas-dust thermal coupling. We conclude that GSC plays a big role in the chemical composition of molecular clouds and that surface processes are needed to accurately interpret observations, however, that GSC does not have a significant impact as far as star formation and the IMF is concerned.

  20. Formative Influences in the Evolving Structure of American Postsecondary Education.

    ERIC Educational Resources Information Center

    Pfnister, Allan O.

    Three movements that have affected the structure of American postsecondary education are the development of governance by lay boards of control, the growth in power of state coordinating bodies, and the emergence of federal regulatory agency authority over postsecondary education. American postsecondary education has been characterized as…

  1. Formation of the internal structure of solids under severe load.

    PubMed

    Metlov, Leonid S

    2010-05-01

    An alternative form of kinetic equations, involving the internal and free energies symmetrically, has been derived in the framework of the theory of vacancies. Dynamical nature of irreversible phenomena during formation and motion of defects (dislocations) has been analyzed by a computer experiment. Results of this simulation are then extended into a thermodynamic identity, involving the law of conservation of energy at interaction with an environment (the first law of thermodynamics) and the law of energy transformation in the internal degrees of freedom (relaxation). This identity is compared to the analogous Jarzynski identity. The approach is illustrated by simulation of processes during severe plastic deformation; the Rybin kinetic equation for this case has been derived. PMID:20866199

  2. Structure and Formation of Elliptical and Spheroidal Galaxies

    NASA Astrophysics Data System (ADS)

    Kormendy, John; Fisher, David B.; Cornell, Mark E.; Bender, Ralf

    2009-05-01

    New surface photometry of all known elliptical galaxies in the Virgo cluster is combined with published data to derive composite profiles of brightness, ellipticity, position angle, isophote shape, and color over large radius ranges. These provide enough leverage to show that Sérsic log I vprop r 1/n functions fit the brightness profiles I(r) of nearly all ellipticals remarkably well over large dynamic ranges. Therefore, we can confidently identify departures from these profiles that are diagnostic of galaxy formation. Two kinds of departures are seen at small radii. All 10 of our ellipticals with total absolute magnitudes MVT <= -21.66 have cuspy cores—"missing light"—at small radii. Cores are well known and naturally scoured by binary black holes (BHs) formed in dissipationless ("dry") mergers. All 17 ellipticals with -21.54 <= MVT <= -15.53 do not have cores. We find a new distinct component in these galaxies: all coreless ellipticals in our sample have extra light at the center above the inward extrapolation of the outer Sérsic profile. In large ellipticals, the excess light is spatially resolved and resembles the central components predicted in numerical simulations of mergers of galaxies that contain gas. In the simulations, the gas dissipates, falls toward the center, undergoes a starburst, and builds a compact stellar component that, as in our observations, is distinct from the Sérsic-function main body of the elliptical. But ellipticals with extra light also contain supermassive BHs. We suggest that the starburst has swamped core scouring by binary BHs. That is, we interpret extra light components as a signature of formation in dissipative ("wet") mergers. Besides extra light, we find three new aspects to the ("E-E") dichotomy into two types of elliptical galaxies. Core galaxies are known to be slowly rotating, to have relatively anisotropic velocity distributions, and to have boxy isophotes. We show that they have Sérsic indices n > 4 uncorrelated

  3. Unconstrained Structure Formation in Coarse-Grained Protein Simulations

    NASA Astrophysics Data System (ADS)

    Bereau, Tristan

    The ability of proteins to fold into well-defined structures forms the basis of a wide variety of biochemical functions in and out of the cell membrane. Many of these processes, however, operate at time- and length-scales that are currently unattainable by all-atom computer simulations. To cope with this difficulty, increasingly more accurate and sophisticated coarse-grained models are currently being developed. In the present thesis, we introduce a solvent-free coarse-grained model for proteins. Proteins are modeled by four beads per amino acid, providing enough backbone resolution to allow for accurate sampling of local conformations. It relies on simple interactions that emphasize structure, such as hydrogen bonds and hydrophobicity. Realistic alpha/beta content is achieved by including an effective nearest-neighbor dipolar interaction. Parameters are tuned to reproduce both local conformations and tertiary structures. By studying both helical and extended conformations we make sure the force field is not biased towards any particular secondary structure. Without any further adjustments or bias a realistic oligopeptide aggregation scenario is observed. The model is subsequently applied to various biophysical problems: (i) kinetics of folding of two model peptides, (ii) large-scale amyloid-beta oligomerization, and (iii) protein folding cooperativity. The last topic---defined by the nature of the finite-size thermodynamic transition exhibited upon folding---was investigated from a microcanonical perspective: the accurate evaluation of the density of states can unambiguously characterize the nature of the transition, unlike its corresponding canonical analysis. Extending the results of lattice simulations and theoretical models, we find that it is the interplay between secondary structure and the loss of non-native tertiary contacts which determines the nature of the transition. Finally, we combine the peptide model with a high-resolution, solvent-free, lipid

  4. Structure formation in a nonlocally modified gravity model

    SciTech Connect

    Park, Sohyun; Dodelson, Scott

    2013-01-01

    We study a nonlocally modified gravity model proposed by Deser and Woodard which gives an explanation for current cosmic acceleration. By deriving and solving the equations governing the evolution of the structure in the Universe, we show that this model predicts a pattern of growth that differs from standard general relativity (+dark energy) at the 10-30% level. These differences will be easily probed by the next generation of galaxy surveys, so the model should be tested shortly.

  5. Investigation of hierarchical structure formation in ceramics with invar effect

    NASA Astrophysics Data System (ADS)

    Dedova, Elena S.; Shadrin, Vladimir S.; Shutilova, Ekaterina S.; Kulkov, Sergei N.

    2015-10-01

    The structure, phase composition and thermal properties of (Al2O3-20 wt % ZrO2)-ZrW2O8 ceramic composites obtained using nanosized, finely dispersed and coarse-grained initial powders were investigated. On the polished surface of composites homogeneously distributed white particles were observed. The chemical composition of the particles was determined. The phase composition of the composites was represented with corundum, monoclinic ZrO2 and two modifications of ZrW2O8 (tetragonal and cubic) regardless of initial powders morphology. Crystal structure parameters of the material obtained were determined. Linear thermal expansion coefficient values of the composites were determined and compared with those calculated using the mixture rule. The experimental data correlated well with the calculated values of CTE for Al2O3-20 wt % ZrO2 ceramics. The difference in thermal expansion values for composites obtained using initial components with different morphology may be attributed to phase transformations, features of hierarchical structures, internal stresses due to thermal expansion mismatch, which contribute significantly to thermal expansion of the ceramic composites.

  6. Dynamically-induced structures formation in congested magma

    NASA Astrophysics Data System (ADS)

    Petford, N.

    2008-12-01

    Crystal fabrics preserved in igneous rocks offer a glimpse into the magma emplacement process. Detailed field mapping, in combination with AMS studies, seem to provide the best available data for unravelling intrusion architecture on the decimetre scale. However, a full and proper understanding of the fluid dynamics of congested fluid-particle mixtures during shear remains elusive. This is a shame as without recourse to such fundamental understanding, the interpretation of structural field data in the context of magma flow remains problematic. One way to gain insight into the process is to treat flowing magma as a dynamic material with a rheology similar to sheared, congested slurries. The fancy that dense magma equates to a high temperature slurry is an attractive one, and opens up a way to examine the emplacement process that does not rely exclusively on equilibrium thermodynamics as a final explanation of commonly observed igneous structures. Instead, using examples from mafic rocks where cooling has been rapid, the idea is put forward that in high Peclet number suspensions (where particle diffusion is negligible), shearing and non- Newtonian behaviour imparts a rich diversity of structures including layering, grading and flow segregation. Key to understanding the rheology, hence flow dynamics of congested magma, is the particle microstructure, a still poorly known essence of suspension flows. Where magma transport is continental in scale and long lived (e.g. Large Igneous Provinces), rotation of the earth may in theory endow a small but potentially measurable imprint on the preserved flow fabric.

  7. Experimental formation of brittle structural assemblages in oblique divergence

    NASA Astrophysics Data System (ADS)

    Smith, J. V.; Durney, D. W.

    1992-12-01

    A series of experiments is reported in which brittle minor structures are initiated in narrow deformation zones in clay under conditions of kinematically controlled oblique divergent displacement. Nineteen settings of boundary displacement angle were used from pure wrench to pure divergence under conditions favouring either faults (dry experiments) or extension fractures (wet experiments). Pure wrench produced the well known assemblage of Riedel strike-slip faults whereas experiments in pure divergence produced conjugate arrays of normal faults and extension fractures with a dihedral angle of 30° bisected by the direction of the zone, as has been described in rift zones. Experiments with boundary displacements at intermediate settings show a continuum of structural orientations and dihedral angles between these two extremes. A boundary between assemblages dominated by strike-slip faults and extensional faults was found at a displacement angle of 45° from the deformation zone. These results are interpreted kinematically in terms of: (1) principal axes of infinitesimal incremental strain; (2) material dilatancy control on shear structure dihedral angles; and (3) whether the vertical strain in divergent wrench settings is a thickening (strike-slip assemblage) or a thinning (normal fault assemblage).

  8. Terasaki Ramps in the Endoplasmic Reticulum: Structure, Function and Formation

    NASA Astrophysics Data System (ADS)

    Huber, Greg; Guven, Jemal; Valencia, Dulce-Maria

    2015-03-01

    The endoplasmic reticulum (ER) has long been considered an exceedingly important and complex cellular organelle in eukaryotes (like you). It is a membrane structure, part folded lamellae, part tubular network, that both envelopes the nucleus and threads its way outward, all the way to the cell's periphery. Despite the elegant mechanics of bilayer membranes offered by the work of Helfrich and Canham, as far as the ER is concerned, theory has mostly sat on the sidelines. However, refined imaging of the ER has recently revealed beautiful and subtle geometrical forms - simple geometries, from the mathematical point of view - which some have called a ``parking garage for ribosomes.'' I'll review the discovery and physics of Terasaki ramps and discuss their relation to cell-biological questions, such as ER and nuclear-membrane re-organization during mitosis. Rather than being a footnote in a textbook on differential geometry, these structures suggest answers to a number of the ER's structure-function problems.

  9. Coupled and extended quintessence: Theoretical differences and structure formation

    NASA Astrophysics Data System (ADS)

    Pettorino, Valeria; Baccigalupi, Carlo

    2008-05-01

    The case of a coupling between dark energy and matter [coupled quintessence (CQ)] or gravity [extended quintessence (EQ)] has recently attracted a deep interest and has been widely investigated both in the Einstein and in the Jordan frames (EF, JF), within scalar-tensor theories. Focusing on the simplest models proposed so far, in this paper we study the relation existing between the two scenarios, isolating the Weyl scaling which allows one to express them in the EF and JF. Moreover, we perform a comparative study of the behavior of linear perturbations in both scenarios, which turn out to behave in a markedly different way. In particular, while the clustering is enhanced in the considered CQ models with respect to the corresponding quintessence ones where the coupling is absent and to the ordinary cosmologies with a cosmological constant and cold dark matter (ΛCDM), structures in EQ models may grow slower. This is likely to have direct consequences on the inner properties of nonlinear structures, like cluster concentration, as well as on the weak lensing shear on large scales. Finally, we specialize our study for interfacing linear dynamics and N-body simulations in these cosmologies, giving a recipe for the corrections to be included in N-body codes in order to take into account the modifications to the expansion rate, growth of structures, and strength of gravity.

  10. Structural ensembles of the north belt of Venus deformations and possible mechanisms of their formation

    NASA Technical Reports Server (NTRS)

    Markov, M. S.

    1986-01-01

    The author discusses structural formations in the northern deformation belt of Venus, studied according to the data of the radar pictures obtained with the Venera 15 and 16 probes. He shows that it consists of regions of compression with submeridional orientation, regions of displacement, extending in the sublatitudinal direction and individual slightly deformed blocks. He puts forward the hypothesis that the formation of these structures is related with horizontal movements in the mantle in the sublatitudinal direction.

  11. Linking the structural properties of galaxies and their star formation histories with STAGES

    NASA Astrophysics Data System (ADS)

    Hoyos, Carlos; Aragón-Salamanca, Alfonso; Gray, Meghan E.; Wolf, Christian; Maltby, David T.; Bell, Eric F.; Böhm, Asmus; Jogee, Shardha

    2016-01-01

    We study the links between star formation history and structure for a large mass-selected galaxy sample at 0.05 ≤ zphot ≤ 0.30. The galaxies inhabit a very broad range of environments, from cluster cores to the field. Using Hubble Space Telescope (HST) images, we quantify their structure following Hoyos et al., and divide them into disturbed and undisturbed. We also visually identify mergers. Additionally, we provide a quantitative measure of the degree of disturbance for each galaxy (`roughness'). The majority of elliptical and lenticular galaxies have relaxed structure, showing no signs of ongoing star formation. Structurally disturbed galaxies, which tend to avoid the lowest density regions, have higher star formation activity and younger stellar populations than undisturbed systems. Cluster spirals with reduced/quenched star formation have somewhat less disturbed morphologies than spirals with `normal' star formation activity, suggesting that these `passive' spirals have started their morphological transformation into S0s. Visually identified mergers and galaxies not identified as mergers but with similar roughness have similar specific star formation rates and stellar ages. The degree of enhanced star formation is thus linked to the degree of structural disturbance, regardless of whether it is caused by major mergers or not. This suggests that merging galaxies are not special in terms of their higher-than-normal star formation activity. Any physical process that produces `roughness', or regions of enhanced luminosity density, will increase the star formation activity in a galaxy with similar efficiency. An alternative explanation is that star formation episodes increase the galaxies' roughness similarly, regardless of whether they are merger induced or not.

  12. Disentangling Effects of Nuclear Structure in Heavy Element Formation

    SciTech Connect

    Hinde, D. J.; Thomas, R. G.; Rietz, R. du; Diaz-Torres, A.; Dasgupta, M.; Brown, M. L.; Evers, M.; Gasques, L. R.; Rafiei, R.; Rodriguez, M. D.

    2008-05-23

    Forming the same heavy compound nucleus with different isotopes of the projectile and target elements allows nuclear structure effects in the entrance channel (resulting in static deformation) and in the dinuclear system to be disentangled. Using three isotopes of Ti and W, forming {sup 232}Cm, with measurement spanning the capture barrier energies, alignment of the heavy prolate deformed nucleus is shown to be the main reason for the broadening of the mass distribution of the quasifission fragments as the beam energy is reduced. The complex, consistently evolving mass-angle correlations that are observed carry more information than the integrated mass or angular distributions, and should severely test models of quasifission.

  13. Foreign body impact event damage formation in composite structures

    NASA Technical Reports Server (NTRS)

    Bucinell, Ronald B.

    1994-01-01

    This report discusses a methodology that can be used to assess the effect of foreign body impacts on composite structural integrity. The described effort focuses on modeling the effect of a central impact on a 5 3/4 inch filament wound test article. The discussion will commence with details of the material modeling that was used to establish the input properties for the analytical model. This discussion is followed by an overview of the impact assessment methodology. The progress on this effort to date is reviewed along with a discussion of tasks that have yet to be completed.

  14. Formation and subdivision of deformation structures during plastic deformation.

    PubMed

    Jakobsen, Bo; Poulsen, Henning F; Lienert, Ulrich; Almer, Jonathan; Shastri, Sarvjit D; Sørensen, Henning O; Gundlach, Carsten; Pantleon, Wolfgang

    2006-05-12

    During plastic deformation of metals and alloys, dislocations arrange in ordered patterns. How and when these self-organization processes take place have remained elusive, because in situ observations have not been feasible. We present an x-ray diffraction method that provided data on the dynamics of individual, deeply embedded dislocation structures. During tensile deformation of pure copper, dislocation-free regions were identified. They showed an unexpected intermittent dynamics, for example, appearing and disappearing with proceeding deformation and even displaying transient splitting behavior. Insight into these processes is relevant for an understanding of the strength and work-hardening of deformed materials. PMID:16690859

  15. Dynamic Structure Formation at the Fronts of Volatile Liquid Drops

    NASA Astrophysics Data System (ADS)

    Gotkis, Y.; Ivanov, I.; Murisic, N.; Kondic, L.

    2006-11-01

    We report on instabilities during the spreading of volatile liquids, with emphasis on the novel instability observed when isopropyl alcohol is deposited on a monocrystalline Si wafer. This instability is characterized by emission of drops ahead of the expanding front, with each drop followed by smaller, satellite droplets, forming the structures which we nickname “octopi” due to their appearance. A less volatile liquid, or a substrate of larger heat conductivity, suppresses this instability. We formulate a theoretical model that reproduces the main features of the experiment.

  16. Features of formation concentration profile in structured materials

    NASA Astrophysics Data System (ADS)

    Pavlenko, T. S.; Lisenkov, A. A.; Babinov, N. A.

    2016-01-01

    The paper presents analysis of dependence of the penetration depth of the implanted aluminium ions in structured titanium. Ion implantation was performed repetitively pulsed particle beam ion source "MEVVA-V.RU". In the interpretation of the observed patterns of energy accounted for heterogeneous composition of the beam vacuum-arc source, is represented by three components. Within the simulation found that in samples with relatively fine grains (ultrafine samples) largely contribute to diffusion processes, in particular radiation- induced diffusion in comparison with fine-grained samples.

  17. Formation, structure, and decomposition of lanthanide basic carbonates

    SciTech Connect

    Akinc, M.; Sordelet, D.J.; Munson, M. )

    1988-05-01

    Precipitation, crystal structure, and thermal decomposition behavior of the rare-earth basic carbonates were investigated. Precipitates were produced from hydrolysis of rare-earth cations in hot urea solutions. The light rare earths formed were crystalline with regular geometric shapes, whereas heavy rare earths produced amorphous, spherical monodisperse particles. Crystalline phases belong to ancylite-type orthorhombic symmetry. Unit-cell volume was related to interatomic distance. Thermal decomposition of the crystalline precipitates occurred in two major distinct steps to produce oxide, whereas heavy rare earths decomposed continuously with several distinct effects to produce oxide powder.

  18. Simulations of the formation of large-scale structure

    NASA Astrophysics Data System (ADS)

    White, S. D. M.

    Numerical studies related to the simulation of structure growth are examined. The linear development of fluctuations in the early universe is studied. The research of Aarseth, Gott, and Turner (1979) based on N-body integrators that obtained particle accelerations by direct summation of the forces due to other objects is discussed. Consideration is given to the 'pancake theory' of Zel'dovich (1970) for the evolution from adiabatic initial fluctuation, the neutrino-dominated universe models of White, Frenk, and Davis (1983), and the simulations of Davis et al. (1985).

  19. Structural control of nonadiabatic bond formation: the photochemical formation and stability of substituted 4a,4b-dihydrotriphenylenes.

    PubMed

    Snyder, Joshua A; Bragg, Arthur E

    2015-04-30

    Nonadiabatic photocyclization makes bonds and is the first step in the photoinduced cyclodehydrogenation of ortho-arenes to yield polycyclic aromatic hydrocarbons. How molecular structure alters potential-energy landscapes, excited-state dynamics, and stabilities of reactants and intermediates underlies the feasibility of desirable photochemistry. In order to gain insight into these structure-dynamics relationships, we have used femtosecond transient absorption spectroscopy (TAS) to examine photoinduced dynamics of 1,2,3-triphenylbenzene (TPB) and ortho-quaterphenyl (OQTP), phenyl-subsituted analogues of ortho-terphenyl (OTP). Dynamics of TPB and OTP are quite similar: TPB exhibits fast (7.4 ps) excited-state decay with concomitant formation and vibrational relaxation of 9-phenyl-dihydrotriphenylene (9-phenyl DHT). In contrast, photoexcited OQTP exhibits multistate kinetics leading to formation of 1-phenyl DHT. Excited-state calculations reveal the existence of two distinct minima on the OQTP S1 surface and, together with photophysical data, support a mechanism involving both direct cyclization by way of an asymmetric structure and indirect cyclization by way of a symmetric quinoid-like minimum. Temperature-dependent nanosecond TAS was utilized to assess the relative stabilities of intermediates, substantiating the observed trend in photochemical reactivity OTP > OQTP > TPB. In total, this work demonstrates how specific structural variations alter the course of the excited-state dynamics and photoproduct stability that underlies desired photochemistry. PMID:25849258

  20. Co-crystal formation based on structural matching.

    PubMed

    Zhou, Liping; Dodd, Stephanie; Capacci-Daniel, Christina; Garad, Sudhakar; Panicucci, Riccardo; Sethuraman, Vijay

    2016-06-10

    A co-crystal is defined as a single crystalline structure composed of two or more components with no proton transfer which are solid at room temperature. Our group has come up with the following rationale selection of co-formers for initial co-crystal screening: 1) selection of co-formers with the highest potential for hydrogen bonding with the API and 2) selection of co-formers with diversity of secondary structural characteristics. We demonstrate the feasibility of this technique with a Novartis drug candidate A. In the first tier, 20 co-formers were screened and two hits were identified. By examining the two co-formers, which worked from the first round, a second round of screening was undertaken with more focused chemical matter. Nineteen co-crystal formers closely related to the two hits in the first screen were screened in the second tier. From this screen five hits were identified. All the hits were compared for their physical and chemical stability and dissolution profile. Based on the comparison 4-aminobenzoic co-crystal was chosen for in-vivo comparison with the free form. The co-crystal had 12 times higher exposure than the free form thus overcoming the solubility limited exposure. PMID:26948852

  1. Minimal continuum theories of structure formation in dense active fluids

    NASA Astrophysics Data System (ADS)

    Dunkel, Jörn; Heidenreich, Sebastian; Bär, Markus; Goldstein, Raymond E.

    2013-04-01

    Self-sustained dynamical phases of living matter can exhibit remarkable similarities over a wide range of scales, from mesoscopic vortex structures in microbial suspensions and motility assays of biopolymers to turbulent large-scale instabilities in flocks of birds or schools of fish. Here, we argue that, in many cases, the phenomenology of such active states can be efficiently described in terms of fourth- and higher-order partial differential equations. Structural transitions in these models can be interpreted as Landau-type kinematic transitions in Fourier (wavenumber) space, suggesting that microscopically different biological systems can share universal long-wavelength features. This general idea is illustrated through numerical simulations for two classes of continuum models for incompressible active fluids: a Swift-Hohenberg-type scalar field theory, and a minimal vector model that extends the classical Toner-Tu theory and appears to be a promising candidate for the quantitative description of dense bacterial suspensions. We discuss how microscopic symmetry-breaking mechanisms can enter macroscopic continuum descriptions of collective microbial motion near surfaces, and conclude by outlining future applications.

  2. Formation and structural properties of multi-block copolymer vesicles

    NASA Astrophysics Data System (ADS)

    Wang, Rong; Ma, Shiying

    2014-03-01

    Due to the unique structure, vesicles have attracted considerable attention for their potential applications, such as gene and drug delivery, microcapsules, nanoreactors, cell membrane mimetic, synthetic organelles, etc. By using dissipative particle dynamics, we studied the self-assembly of amphiphilic multi-block copolymer. The phase diagram was constructed by varying the interaction parameters and the composition of the block copolymers. The results show that the vesicles are stable in a large region which is different from the diblock copolymer or triblock copolymer. The structural properties of vesicles can be controlled by varying the interaction parameters and the length of the hydrophobic block. The relationship between the hydrophilic and hydrophobic block length vs the aqueous cavity size and vesicle size are revealed. The copolymers with shorter hydrophobic blocks length or the higher hydrophilicity are more likely to form vesicles with larger aqueous cavity size and vesicle size as well as thinner wall thickness. However, the increase in hydrophobic-block length results to form vesicles with smaller aqueous cavity size and larger vesicle size. Acknowledgments. This work has been supported by NNSFC (No. 21074053) and NBRPC (No. 2010CB923303).

  3. Dynamics versus structure: breaking the density degeneracy in star formation

    NASA Astrophysics Data System (ADS)

    Parker, Richard J.

    2014-12-01

    The initial density of individual star-forming regions (and by extension the birth environment of planetary systems) is difficult to constrain due to the `density degeneracy problem': an initially dense region expands faster than a more quiescent region due to two-body relaxation and so two regions with the same observed present-day density may have had very different initial densities. We constrain the initial densities of seven nearby star-forming regions by folding in information on their spatial structure from the {Q}-parameter and comparing the structure and present-day density to the results of N-body simulations. This in turn places strong constraints on the possible effects of dynamical interactions and radiation fields from massive stars on multiple systems and protoplanetary discs. We apply our method to constrain the initial binary population in each of these seven regions and show that the populations in only three - the Orion Nebula Cluster, ρ Oph, and Corona Australis - are consistent with having evolved from the Kroupa universal initial period distribution and a binary fraction of unity.

  4. Modelling the structural controls of primary kaolinite formation

    NASA Astrophysics Data System (ADS)

    Tierney, R. L.; Glass, H. J.

    2016-09-01

    An abundance of kaolinite was formed within the St. Austell outcrop of the Cornubian batholith in Cornwall, southwest England, by the hydrous dissolution of feldspar crystals. The permeability of Cornish granites is low and alteration acts pervasively from discontinuity features, with montmorillonite recognised as an intermediate assemblage in partially kaolinised material. Structural features allowed fluids to channel through the impermeable granite and pervade deep into the rock. Areas of high structural control are hypothesised to link well with areas of advanced alteration. As kaolinisation results in a loss of competence, we present a method of utilising discontinuity orientations from nearby unaltered granites alongside the local tectonic history to calculate strain rates and delineate a discrete fracture network. Simulation of the discrete fracture network is demonstrated through a case study at Higher Moor, where kaolinite is actively extracted from a pit. Reconciliation of fracture connectivity and permeability against measured subsurface data show that higher values of modelled properties match with advanced kaolinisation observed in the field. This suggests that the technique may be applicable across various industries and disciplines.

  5. Structural Control of Nonadiabatic Photochemical Bond Formation: Photocyclization in Structurally Modified ortho-Terphenyls.

    PubMed

    Molloy, Molly S; Snyder, Joshua A; DeFrancisco, Justin R; Bragg, Arthur E

    2016-06-16

    Understanding how molecular structure impacts the shapes of potential energy surfaces and prospects for nonadiabatic photochemical dynamics is critical for predicting and controlling the chemistry of molecular excited states. Ultrafast transient absorption spectroscopy was used to interrogate photoinduced, nonadiabatic 6π cyclization of a collection of ortho-terphenyls (OTP) modified with alkyl substituents of different sizes and electron-donating/withdrawing character positioned on its central and pendant phenyl rings. OTP alkylated at the 4,4″ and 4',5' positions of the pendant and central rings, respectively, exhibiting biphasic excited-state relaxation; this is qualitatively similar to relaxation of OTP itself, including a fast decrease in excited-state absorption (τ1 = 1-4 ps) followed by formation of metastable cyclized photoproducts (τ2 = 3-47 ps) that share common characteristic spectroscopic features for all substitutions despite variations in chemical nature of the substituents. By contrast, anomalous excited-state dynamics are observed for 3',6'dimethyl-OTP, in which the methyl substituents crowd the pendant rings sterically; time-resolved spectral dynamics and low photochemical reactivity with iodine reveal that methylation proximal to the pendant rings impedes nonadiabatic cyclization. Results from transient measurements and quantum-chemical calculations are used to decipher the nature of excited state relaxation mechanisms in these systems and how they are perturbed by mechanical, electronic, and steric interactions induced by substituents. PMID:27171560

  6. Formation of 2D nanoparticles with block structure in simultaneous electric explosion of conductors

    SciTech Connect

    Kryzhevich, Dmitrij S. E-mail: kost@ispms.ru; Zolnikov, Konstantin P. E-mail: kost@ispms.ru; Abdrashitov, Andrei V.; Lerner, Marat I.; Psakhie, Sergey G.

    2014-11-14

    A molecular dynamics simulation of nanoparticle formation in simultaneous electric explosion of conductors is performed. Interatomic interaction is described using potentials calculated in the framework of the embedded atom method. High-rate heating results in failure of the conductors with the formation of nanoparticles. The influence of the heating rate, temperature distribution over the specimen cross-section and the distance between simultaneously exploded conductors on the structure of formed nanoparticles is studied. The calculation results show that the electric explosion of conductors allows the formation of nanoparticles with block structure.

  7. Distributed attitude synchronization of formation flying via consensus-based virtual structure

    NASA Astrophysics Data System (ADS)

    Cong, Bing-Long; Liu, Xiang-Dong; Chen, Zhen

    2011-06-01

    This paper presents a general framework for synchronized multiple spacecraft rotations via consensus-based virtual structure. In this framework, attitude control systems for formation spacecrafts and virtual structure are designed separately. Both parametric uncertainty and external disturbance are taken into account. A time-varying sliding mode control (TVSMC) algorithm is designed to improve the robustness of the actual attitude control system. As for the virtual attitude control system, a behavioral consensus algorithm is presented to accomplish the attitude maneuver of the entire formation and guarantee a consistent attitude among the local virtual structure counterparts during the attitude maneuver. A multiple virtual sub-structures (MVSSs) system is introduced to enhance current virtual structure scheme when large amounts of spacecrafts are involved in the formation. The attitude of spacecraft is represented by modified Rodrigues parameter (MRP) for its non-redundancy. Finally, a numerical simulation with three synchronization situations is employed to illustrate the effectiveness of the proposed strategy.

  8. Cosmic expansion and structure formation in running vacuum cosmologies

    NASA Astrophysics Data System (ADS)

    Basilakos, Spyros

    2015-06-01

    We investigate the dynamics of the Friedmann-Lemaître-Robertson-Walker (FLRW) flat cosmological models in which the vacuum energy varies with redshift. A particularly well-motivated model of this type is the so-called quantum field vacuum, in which both kind of terms H2 and constant appear in the effective dark energy (DE) density affecting the evolution of the main cosmological functions at the background and perturbation levels. Specifically, it turns out that the functional form of the quantum vacuum endows the vacuum energy of a mild dynamical evolution which could be observed nowadays and appears as dynamical DE. Interestingly, the low-energy behavior is very close to the usual Lambda cold dark matter (ΛCDM) model, but it is by no means identical. Finally, within the framework of the quantum field vacuum we generalize the large scale structure properties, namely growth of matter perturbations, cluster number counts and spherical collapse model.

  9. Structural Basis of Vesicle Formation at the Inner Nuclear Membrane

    PubMed Central

    Hagen, Christoph; Dent, Kyle C.; Zeev-Ben-Mordehai, Tzviya; Grange, Michael; Bosse, Jens B.; Whittle, Cathy; Klupp, Barbara G.; Siebert, C. Alistair; Vasishtan, Daven; Bäuerlein, Felix J.B.; Cheleski, Juliana; Werner, Stephan; Guttmann, Peter; Rehbein, Stefan; Henzler, Katja; Demmerle, Justin; Adler, Barbara; Koszinowski, Ulrich; Schermelleh, Lothar; Schneider, Gerd; Enquist, Lynn W.; Plitzko, Jürgen M.; Mettenleiter, Thomas C.; Grünewald, Kay

    2015-01-01

    Summary Vesicular nucleo-cytoplasmic transport is becoming recognized as a general cellular mechanism for translocation of large cargoes across the nuclear envelope. Cargo is recruited, enveloped at the inner nuclear membrane (INM), and delivered by membrane fusion at the outer nuclear membrane. To understand the structural underpinning for this trafficking, we investigated nuclear egress of progeny herpesvirus capsids where capsid envelopment is mediated by two viral proteins, forming the nuclear egress complex (NEC). Using a multi-modal imaging approach, we visualized the NEC in situ forming coated vesicles of defined size. Cellular electron cryo-tomography revealed a protein layer showing two distinct hexagonal lattices at its membrane-proximal and membrane-distant faces, respectively. NEC coat architecture was determined by combining this information with integrative modeling using small-angle X-ray scattering data. The molecular arrangement of the NEC establishes the basic mechanism for budding and scission of tailored vesicles at the INM. PMID:26687357

  10. Structural characterization of a karstified limestone formation using GPR

    NASA Astrophysics Data System (ADS)

    Rousset, D.; Sénéchal, G.; Gaffet, S.

    2009-12-01

    The Laboratoire Souterrain à Bas Bruit (LSBB) at Rustrel - Pays d'Apt, France, is an Inter-disciplinary Underground Science and Technology Laboratory buried in a karstified limestone formation. A multidisciplinary program focused on water circulation monitoring is presently performed inside the tunnels. This program comprises the investigation of faults, fractures, karstification and stratigraphy ofthe limestone massif using GPR. We present the main results obtained from these data. The tunnel has been dug in lower cretaceous limestone which is characterized by a low clay content, high electrical resistivity which results in generally very low attenuation of electro-magnetic waves. 90% of the tunnels floor are made of concrete whereas other are made of bare limestone. This experimental site offers a unique opportunity of perfoming measurements within an unweathered limestone massif. The whole 3km long tunnel has been investigated using single offset shielded 250 MHz antennas in May 2009. Processing includes : DC and very low frequency removal, amplitude compensation preserving lateral variations, migration and time to depth conversion. When necessary predictive deconvolution has been applied to remove ringing effects. These data sets are characterized by good signal to noise ratio and a signal penetration down to 18 meters. These data allow us to accurately map the stratigraphy of the surrounding rocks across the concrete walls of the tunnel. Some 20 m deep vertical wells have been drilled inside the tunnel through observed reflectors. This is a strong validation of the GPR images. The estimated resolution is centimetric to decimetric and matches the required geologic accuracy. The GPR data set allows to extend previous geological results in depth, particularly in the concrete coated parts of the tunnel where conventional geological surveying is impossible. Thanks to the processing which preserves lateral amplitude variations, GPR sections exhibit prominent

  11. Observation of the Early Structural Changes Leading to the Formation of Protein Superstructures.

    PubMed

    Foderà, Vito; Vetri, Valeria; Wind, Thea S; Noppe, Wim; Cornett, Claus; Donald, Athene M; Morozova-Roche, Ludmilla A; Vestergaard, Bente

    2014-09-18

    Formation of superstructures in protein aggregation processes has been indicated as a general pathway for several proteins, possibly playing a role in human pathologies. There is a severe lack of knowledge on the origin of such species in terms of both mechanisms of formation and structural features. We use equine lysozyme as a model protein, and by combining spectroscopic techniques and microscopy with X-ray fiber diffraction and ab initio modeling of Small Angle X-ray Scattering data, we isolate the partially unfolded state from which one of these superstructures (i.e., particulate) originates. We reveal the low-resolution structure of the unfolded state and its mechanism of formation, highlighting the physicochemical features and the possible pathway of formation of the particulate structure. Our findings provide a novel detailed knowledge of such a general and alternative aggregation pathway for proteins, this being crucial for a basic and broader understanding of the aggregation phenomena. PMID:26276341

  12. Structure formation constraints on Sommerfeld-enhanced dark matter annihilation

    SciTech Connect

    Armendariz-Picon, Cristian; Neelakanta, Jayanth T. E-mail: jtneelak@syr.edu

    2012-12-01

    We study the growth of cosmic structure in a ΛCDM universe under the assumption that dark matter self-annihilates with an averaged cross section times relative velocity that grows with the scale factor, an increase known as Sommerfeld-enhancement. Such an evolution is expected in models in which a light force carrier in the dark sector enhances the annihilation cross section of dark matter particles, and has been invoked, for instance, to explain anomalies in cosmic ray spectra reported in the past. In order to make our results as general as possible, we assume that dark matter annihilates into a relativistic species that only interacts gravitationally with the standard model. This assumption also allows us to test whether the additional relativistic species mildly favored by cosmic-microwave background data could originate from dark matter annihilation. We do not find evidence for Sommerfeld-enhanced dark matter annihilation and derive the corresponding upper limits on the annihilation cross-section.

  13. Structural Basis of Clostridium perfringens Toxin Complex Formation

    SciTech Connect

    Adams,J.; Gregg, K.; Bayer, E.; Boraston, A.; Smith, S.

    2008-01-01

    The virulent properties of the common human and livestock pathogen Clostridium perfringens are attributable to a formidable battery of toxins. Among these are a number of large and highly modular carbohydrate-active enzymes, including the {mu}-toxin and sialidases, whose catalytic properties are consistent with degradation of the mucosal layer of the human gut, glycosaminoglycans, and other cellular glycans found throughout the body. The conservation of noncatalytic ancillary modules among these enzymes suggests they make significant contributions to the overall functionality of the toxins. Here, we describe the structural basis of an ultra-tight interaction (Ka = 1.44 x 1011 M-1) between the X82 and dockerin modules, which are found throughout numerous C. perfringens carbohydrate-active enzymes. Extensive hydrogen-bonding and van der Waals contacts between the X82 and dockerin modules give rise to the observed high affinity. The {mu}-toxin dockerin module in this complex is positioned {approx}180 relative to the orientation of the dockerin modules on the cohesin module surface within cellulolytic complexes. These observations represent a unique property of these clostridial toxins whereby they can associate into large, noncovalent multitoxin complexes that allow potentiation of the activities of the individual toxins by combining complementary toxin specificities.

  14. Formation and finite element analysis of tethered bilayer lipid structures.

    PubMed

    Kwak, Kwang Joo; Valincius, Gintaras; Liao, Wei-Ching; Hu, Xin; Wen, Xuejin; Lee, Andrew; Yu, Bo; Vanderah, David J; Lu, Wu; Lee, L James

    2010-12-01

    Rapid solvent exchange of an ethanolic solution of diphytanoyl phosphatidylcholine (DPhyPC) in the presence of a mixed self-assembled monolayer (SAM) [thiolipid/β-mercaptoethanol (βME) (3/7 mol/mol) on Au] shows a transition from densely packed tethered bilayer lipid membranes [(dp)tBLMs], to loosely packed tethered bilayer lipid membranes [(lp)tBLMs], and tethered bilayer liposome nanoparticles (tBLNs) with decreasing DPhyPC concentration. The tethered lipidic constructs in the aqueous medium were analyzed by atomic force microscopy (AFM) and electrochemical impedance spectroscopy (EIS). Finite element analysis (FEA) was applied to interpret spectral EIS features without referring to equivalent circuit modeling. Using structural data obtained earlier from neutron reflectometry and dielectric constants of lipid bilayers, we reproduced experimentally observed features of the electrochemical impedance (EI) spectra of complex surface constructs involving small pinhole defects, large membrane-free patches, and bound liposomes. We demonstrated by FEA that highly insulating (dp)tBLMs with low-defect density exhibit EI spectra in the shape of a perfect semicircle with or without low-frequency upward "tails" in the Cole-Cole representation. Such EI spectra were observed at DPhyPC concentrations of >5 × 10(-3) mol L(-1). While AFM was not able to visualize very small lateral defects in such films, EI spectra unambiguously signaled their presence by increased low frequency "tails". Using FEA we demonstrate that films with large diameter visible defects (>25 nm by AFM) produce EI spectral features consisting of two semicircles of comparable size. Such films were typically obtained at DPhyPC concentrations of <5 × 10(-3) mol L(-1). At DPhyPC concentrations of <1.0 × 10(-3) mol L(-1) the planar bilayer structures were replaced by ellipsoidal liposomes with diameters ranging from 50 to 500 nm as observed in AFM images. Despite the distinct surface morphology change, the EI

  15. Biological pattern formation: from basic mechanisms to complex structures

    SciTech Connect

    Koch, A.J.; Meinhardt, H. )

    1994-10-01

    The reliable development of highly complex organisms is an intriguing and fascinating problem. The genetic material is, as a rule, the same in each cell of an organism. How then do cells, under the influence of their common genes, produce spatial patterns Simple models are discussed that describe the generation of patterns out of an initially nearly homogeneous state. They are based on nonlinear interactions of at least two chemicals and on their diffusion. The concepts of local autocatalysis and of long-range inhibition play a fundamental role. Numerical simulations show that the models account for many basic biological observations such as the regeneration of a pattern after excision of tissue or the production of regular (or nearly regular) arrays of organs during (or after) completion of growth. Very complex patterns can be generated in a reproducible way by hierarchical coupling of several such elementary reactions. Applications to animal coats and to the generation of polygonally shaped patterns are provided. It is further shown how to generate a strictly periodic pattern of units that themselves exhibit a complex and polar fine structure. This is illustrated by two examples: the assembly of photoreceptor cells in the eye of [ital Drosophila] and the positioning of leaves and axillary buds in a growing shoot. In both cases, the substructures have to achieve an internal polarity under the influence of some primary pattern-forming system existing in the fly's eye or in the plant. The fact that similar models can describe essential steps in organisms as distantly related as animals and plants suggests that they reveal some universal mechanisms.

  16. Nonlinear structure formation in the cubic Galileon gravity model

    SciTech Connect

    Barreira, Alexandre; Li, Baojiu; Hellwing, Wojciech A.; Baugh, Carlton M.; Pascoli, Silvia E-mail: baojiu.li@durham.ac.uk E-mail: c.m.baugh@durham.ac.uk

    2013-10-01

    We model the linear and nonlinear growth of large scale structure in the Cubic Galileon gravity model, by running a suite of N-body cosmological simulations using the ECOSMOG code. Our simulations include the Vainshtein screening effect, which reconciles the Cubic Galileon model with local tests of gravity. In the linear regime, the amplitude of the matter power spectrum increases by ∼ 20% with respect to the standard ΛCDM model today. The modified expansion rate accounts for ∼ 15% of this enhancement, while the fifth force is responsible for only ∼ 5%. This is because the effective unscreened gravitational strength deviates from standard gravity only at late times, even though it can be twice as large today. In the nonlinear regime (k∼>0.1h Mpc{sup −1}), the fifth force leads to only a modest increase (∼<8%) in the clustering power on all scales due to the very efficient operation of the Vainshtein mechanism. Such a strong effect is typically not seen in other models with the same screening mechanism. The screening also results in the fifth force increasing the number density of halos by less than 10%, on all mass scales. Our results show that the screening does not ruin the validity of linear theory on large scales which anticipates very strong constraints from galaxy clustering data. We also show that, whilst the model gives an excellent match to CMB data on small angular scales (l∼>50), the predicted integrated Sachs-Wolfe effect is in tension with Planck/WMAP results.

  17. Family Structure History: Links to Relationship Formation Behaviors in Young Adulthood

    ERIC Educational Resources Information Center

    Ryan, Suzanne; Franzetta, Kerry; Schelar, Erin; Manlove, Jennifer

    2009-01-01

    Using data from three waves of the National Longitudinal Study of Adolescent Health (N = 4,667), we examined the intergenerational link between parental family structure history and relationship formation in young adulthood. We investigated (a) whether parental family structure history is associated with young adults' own relationship formation…

  18. Geometry and field dependence of the formation of magnetic antivortices in pound-key-like structures

    NASA Astrophysics Data System (ADS)

    Asmat-Uceda, Martin; Li, Lin; Haldar, Arabinda; Shaw, Brian; Buchanan, Kristen S.

    2015-05-01

    In this work, we assess the effects of field history and structure shape on the formation of magnetic antivortices. The magnetic reversal process was investigated for a series of patterned micron-sized permalloy pound-key structures with varying degrees of asymmetry using magneto-optical Kerr effect hysteresis measurements combined with magnetic force microscopy. The largest number of antivortices was observed in the structures with the highest level of structure asymmetry, which also show an intermediate state in the hysteresis loop. A significant enhancement of the antivortex formation rate—from 5% to almost 80%—was achieved by adjusting the structure dimensions. Images of the magnetic states obtained at various points in the hysteresis loop show that the highest rate of antivortex formation occurs near the coercive field, also the nucleation field, and that the antivortex formation is also sensitive to the angle of the applied field, where the highest antivortex formation rate is observed when the field is aligned along the structure diagonal. A comparison of the experimental results with micromagnetic simulations shows that the areas with lower shape anisotropy lead the reversal in the formation step and the upper field limit for the antivortex stability is related to the reversal of the regions with higher shape anisotropy, although the simulations suggest that the annihilation mechanism will change to one that involves domain wall propagation when the smallest structure dimensions are below ˜60 nm. These results demonstrate how shape anisotropy can be used to promote the formation of isolated magnetic antivortices, which will facilitate future investigations of this topological magnetic state.

  19. Formation and evolution of tweed structures on high-purity aluminum polycrystalline foils under cyclic tension

    SciTech Connect

    Kuznetsov, P. V.; Vlasov, I. V.; Sklyarova, E. A.; Smekalina, T. V.

    2015-10-27

    Peculiarities of formation and evolution of tweed structures on the surface of high-purity aluminum polycrystalline foils under cyclic tension were studied using an atom force microscope and a white light interferometer. Tweed structures of micron and submicron sizes were found on the foils at different number of cycles. In the range of 42,000 < N < 95,000 cycles destruction of tweed patterns is observed, which leads to their disappearance from the surface of the foils. Formation of tweed structures of various scales is discussed in terms of the Grinfeld instability.

  20. Structural requirements of glycosaminoglycans for facilitating amyloid fibril formation of human serum amyloid A.

    PubMed

    Takase, Hiroka; Tanaka, Masafumi; Yamamoto, Aki; Watanabe, Shiori; Takahashi, Sanae; Nadanaka, Satomi; Kitagawa, Hiroshi; Yamada, Toshiyuki; Mukai, Takahiro

    2016-06-01

    Serum amyloid A (SAA) is a precursor protein of amyloid fibrils. Given that heparan sulfate (HS), a glycosaminoglycan (GAG), is detected in amyloid deposits, it has been suggested that GAG is a key component of amyloid fibril formation. We previously reported that heparin (an analog of HS) facilitates the fibril formation of SAA, but the structural requirements remain unknown. In the present study, we investigated the structural requirements of GAGs for facilitating the amyloid fibril formation of SAA. Spectroscopic analyses using structurally diverse GAG analogs suggested that the fibril formation of SAA was facilitated irrespective of the backbone structure of GAGs; however, the facilitating effect was strongly correlated with the degree of sulfation. Microscopic analyses revealed that the morphologies of SAA aggregates were modulated by the GAGs. The HS molecule, which is less sulfated than heparin but contains highly sulfated domains, exhibited a relatively high potential to facilitate fibril formation compared to other GAGs. The length dependence of fragmented heparins on the facilitating effect suggested that a high density of sulfate groups is also required. These results indicate that not only the degree of sulfation but also the lengths of sulfated domains in GAG play important roles in fibril formation of SAA. PMID:27097047

  1. FORMATION OF A PROPELLER STRUCTURE BY A MOONLET IN A DENSE PLANETARY RING

    SciTech Connect

    Michikoshi, Shugo; Kokubo, Eiichiro E-mail: kokubo@th.nao.ac.jp

    2011-05-10

    The Cassini spacecraft discovered a propeller-shaped structure in Saturn's A. This propeller structure is thought to be formed by gravitational scattering of ring particles by an unseen embedded moonlet. Self-gravity wakes are prevalent in dense rings due to gravitational instability. Strong gravitational wakes affect the propeller structure. Here, we derive the condition for the formation of a propeller structure by a moonlet embedded in a dense ring with gravitational wakes. We find that a propeller structure is formed when the wavelength of the gravitational wakes is smaller than the Hill radius of the moonlet. We confirm this formation condition by performing numerical simulations. This condition is consistent with observations of propeller structures in Saturn's A.

  2. Solution NMR structure of CsgE: Structural insights into a chaperone and regulator protein important for functional amyloid formation.

    PubMed

    Shu, Qin; Krezel, Andrzej M; Cusumano, Zachary T; Pinkner, Jerome S; Klein, Roger; Hultgren, Scott J; Frieden, Carl

    2016-06-28

    Curli, consisting primarily of major structural subunit CsgA, are functional amyloids produced on the surface of Escherichia coli, as well as many other enteric bacteria, and are involved in cell colonization and biofilm formation. CsgE is a periplasmic accessory protein that plays a crucial role in curli biogenesis. CsgE binds to both CsgA and the nonameric pore protein CsgG. The CsgG-CsgE complex is the curli secretion channel and is essential for the formation of the curli fibril in vivo. To better understand the role of CsgE in curli formation, we have determined the solution NMR structure of a double mutant of CsgE (W48A/F79A) that appears to be similar to the wild-type (WT) protein in overall structure and function but does not form mixed oligomers at NMR concentrations similar to the WT. The well-converged structure of this mutant has a core scaffold composed of a layer of two α-helices and a layer of three-stranded antiparallel β-sheet with flexible N and C termini. The structure of CsgE fits well into the cryoelectron microscopy density map of the CsgG-CsgE complex. We highlight a striking feature of the electrostatic potential surface in CsgE structure and present an assembly model of the CsgG-CsgE complex. We suggest a structural mechanism of the interaction between CsgE and CsgA. Understanding curli formation can provide the information necessary to develop treatments and therapeutic agents for biofilm-related infections and may benefit the prevention and treatment of amyloid diseases. CsgE could establish a paradigm for the regulation of amyloidogenesis because of its unique role in curli formation. PMID:27298344

  3. Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation

    SciTech Connect

    Sievers, Stuart A.; Karanicolas, John; Chang, Howard W.; Zhao, Anni; Jiang, Lin; Zirafi, Onofrio; Stevens, Jason T.; Münch, Jan; Baker, David; Eisenberg, David

    2011-09-20

    Many globular and natively disordered proteins can convert into amyloid fibrils. These fibrils are associated with numerous pathologies as well as with normal cellular functions, and frequently form during protein denaturation. Inhibitors of pathological amyloid fibril formation could be useful in the development of therapeutics, provided that the inhibitors were specific enough to avoid interfering with normal processes. Here we show that computer-aided, structure-based design can yield highly specific peptide inhibitors of amyloid formation. Using known atomic structures of segments of amyloid fibrils as templates, we have designed and characterized an all-D-amino-acid inhibitor of the fibril formation of the tau protein associated with Alzheimer's disease, and a non-natural L-amino-acid inhibitor of an amyloid fibril that enhances sexual transmission of human immunodeficiency virus. Our results indicate that peptides from structure-based designs can disrupt the fibril formation of full-length proteins, including those, such as tau protein, that lack fully ordered native structures. Because the inhibiting peptides have been designed on structures of dual-{beta}-sheet 'steric zippers', the successful inhibition of amyloid fibril formation strengthens the hypothesis that amyloid spines contain steric zippers.

  4. The evolution of galaxies at constant number density: a less biased view of star formation, quenching, and structural formation

    NASA Astrophysics Data System (ADS)

    Ownsworth, Jamie R.; Conselice, Christopher J.; Mundy, Carl J.; Mortlock, Alice; Hartley, William G.; Duncan, Kenneth; Almaini, Omar

    2016-09-01

    Due to significant galaxy contamination and impurity in stellar mass selected samples (up to 95 per cent from z = 0-3), we examine the star formation history, quenching time-scales, and structural evolution of galaxies using a constant number density selection with data from the United Kingdom Infra-Red Deep Sky Survey Ultra-Deep Survey field. Using this methodology, we investigate the evolution of galaxies at a variety of number densities from z = 0-3. We find that samples chosen at number densities ranging from 3 × 10-4 to 10-5 galaxies Mpc-3 (corresponding to z ˜ 0.5 stellar masses of M* = 1010.95-11.6 M0) have a star-forming blue fraction of ˜50 per cent at z ˜ 2.5, which evolves to a nearly 100 per cent quenched red and dead population by z ˜ 1. We also see evidence for number density downsizing, such that the galaxies selected at the lowest densities (highest masses) become a homogeneous red population before those at higher number densities. Examining the evolution of the colours for these systems furthermore shows that the formation redshift of galaxies selected at these number densities is zform > 3. The structural evolution through size and Sérsic index fits reveal that while there remains evolution in terms of galaxies becoming larger and more concentrated in stellar mass at lower redshifts, the magnitude of the change is significantly smaller than for a mass-selected sample. We also find that changes in size and structure continues at z < 1, and is coupled strongly to passivity evolution. We conclude that galaxy structure is driving the quenching of galaxies, such that galaxies become concentrated before they become passive.

  5. Innovative design of composite structures: The use of curvilinear fiber format in structural design of composites

    NASA Technical Reports Server (NTRS)

    Charette, R. F.; Hyer, M. W.

    1990-01-01

    The influence is investigated of a curvilinear fiber format on load carrying capacity of a layered fiber reinforced plate with a centrally located hole. A curvilinear fiber format is descriptive of layers in a laminate having fibers which are aligned with the principal stress directions in those layers. Laminates of five curvilinear fiber format designs and four straightline fiber format designs are considered. A quasi-isotropic laminate having a straightline fiber format is used to define a baseline design for comparison with the other laminate designs. Four different plate geometries are considered and differentiated by two values of hole diameter/plate width equal to 1/6 and 1/3, and two values of plate length/plate width equal to 2 and 1. With the plates under uniaxial tensile loading on two opposing edges, alignment of fibers in the curvilinear layers with the principal stress directions is determined analytically by an iteration procedure. In-plane tensile load capacity is computed for all of the laminate designs using a finite element analysis method. A maximum strain failure criterion and the Tsai-Wu failure criterion are applied to determine failure loads and failure modes. Resistance to buckling of the laminate designs to uniaxial compressive loading is analyzed using the commercial code Engineering Analysis Language. Results indicate that the curvilinear fiber format laminates have higher in-plane tensile load capacity and comparable buckling resistance relative to the straightline fiber format laminates.

  6. Polyalanine and Abeta Aggregation Kinetics: Probing Intermediate Oligomer Formation and Structure Using Computer Simulations

    NASA Astrophysics Data System (ADS)

    Phelps, Erin Melissa

    2011-12-01

    The aggregation of proteins into stable, well-ordered structures known as amyloid fibrils has been associated with many neurodegenerative diseases. Amyloid fibrils are long straight, and un-branched structures containing several proto-filaments, each of which exhibits "cross beta structure," -- ribbon-like layers of large beta sheets whose strands run perpendicular to the fibril axis. It has been suggested in the literature that the pathway to fibril formation has the following steps: unfolded monomers associate into transient unstable oligomers, the oligomers undergo a rearrangement into the cross-beta structure and form into proto-filaments, these proto-filaments then associate and grow into fully formed fibrils. Recent experimental studies have determined that the unstable intermediate structures are toxic to cells and that their presence may play a key role in the pathogenesis of the amyloid diseases. Many efforts have been made to determine the structure of intermediate oligomer aggregates that form during the fibrillization process. The goal of this work is to provide details about the structure and formation kinetics of the unstable oligomers that appear in the fibril formation pathway. The specific aims of this work are to determine the steps in the fibril formation pathway and how the kinetics of fibrillization changes with variations in temperature and concentration. The method used is the application of discontinuous molecular dynamics to large systems of peptides represented with an intermediate resolution model, PRIME, that was previously developed in our group. Three different peptide sequences are simulated: polyalanine (KA14K), Abeta17-40, and Abeta17-42; the latter two are truncated sequences of the Alzheimer's peptide. We simulate the spontaneous assembly of these peptide chains from a random initial configuration of random coils. We investigate aggregation kinetics and oligomer formation of a system of 192 polyalanine (KA14K) chains over a

  7. Formation of chain structures in systems of charged grains interacting via isotropic pair potentials

    SciTech Connect

    Vaulina, O. S.; Lisina, I. I.; Koss, K. G.

    2013-05-15

    Conditions for the formation of chain structures of charged grains confined in the gravitational field by external electric fields are studied analytically and numerically. The relationships between the parameters of the pair interaction potential, the number of grains, and the electric field gradient in the trap are found. A criterion for the violation of stable equilibrium in a quasi-one-dimensional chain of grains and the formation of a new configuration in the system is proposed.

  8. Formation of large-scale structure from cosmic strings and massive neutrinos

    NASA Technical Reports Server (NTRS)

    Scherrer, Robert J.; Melott, Adrian L.; Bertschinger, Edmund

    1989-01-01

    Numerical simulations of large-scale structure formation from cosmic strings and massive neutrinos are described. The linear power spectrum in this model resembles the cold-dark-matter power spectrum. Galaxy formation begins early, and the final distribution consists of isolated density peaks embedded in a smooth background, leading to a natural bias in the distribution of luminous matter. The distribution of clustered matter has a filamentary appearance with large voids.

  9. Oligomerization reactions of deoxyribonucleotides on montmorillonite clay - The effect of mononucleotide structure on phosphodiester bond formation

    NASA Technical Reports Server (NTRS)

    Ferris, James P.; KAMALUDDIN

    1989-01-01

    The formation of oligomers from deoxynucleotides, catalyzed by Na(+)-montmorillonite, was investigated with special attention given to the effect of the monomer structure on the phosphodiester bond formation. It was found that adenine deoxynucleotides bind more strongly to montmorillonite than do the corresponding ribonucleotides and thymidine nucleotides. Tetramers of 2-prime-dpA were detected in the reaction of 2-prime-d-5-prime-AMP with a water-soluble carbodiimide EDAC in the presence of Na(+)-montmorillonite, illustrating the possible role of minerals in the formation of biopolymers on the primitive earth.

  10. Star formation, structure, and formation mechanism of cometary globules: near-infrared observations of CG 1 and CG 2

    NASA Astrophysics Data System (ADS)

    Mäkelä, M. M.; Haikala, L. K.

    2013-02-01

    Context. Cometary globule (CG) 1 and CG 2 are "classic" cometary globules in the Gum Nebula. They have compact heads and long dusty tails that point away from the centre of the Gum Nebula. Aims: We study the structure of CG 1 and CG 2 and the star formation in them to find clues to the CG formation mechanism. The two possible CG formation mechanisms, radiation-driven implosion (RDI) and a supernova blast wave, produce a characteristic mass distribution where the major part of the mass is situated in either the head (RDI) or the tail (supernova blast). Methods: CG 1 and CG 2 were imaged in the near infrared (NIR) JsHKs bands. NIR photometry was used to locate NIR excess objects and to create visual extinction maps of the CGs. The AV maps allow us to analyse the large-scale structure of CG 1 and CG 2. Archival images from the WISE and Spitzer satellites and HIRES-processed IRAS images were used to study the globule's small-scale structure. Fits were made to the spectral energy distribution plots of the NIR-excess stars to estimate their age and mass. Results: In addition to the previously known CG 1 IRS 1 we discovered three new NIR-excess objects in IR imaging, two in CG 1 and one in CG 2. CG 2 IRS 1 is the first detection of star formation in CG 2. The objects are young low-mass stars. CG 1 IRS 1 is probably a class I protostar in the head of CG 1. CG 1 IRS 1 drives a bipolar outflow, which is very weak in CO, but the cavity walls are seen in reflected light in our NIR and in the Spitzer 3.6 and 4.5 μm images. Strong emission from excited polycyclic aromatic hydrocarbon particles and very small grains were detected in the CG 1 tail. The total mass of CG 1 in the observed area is 41.9 M⊙ of which 16.8 M⊙ lies in the head. For CG 2 these values are 31.0 M⊙ total and 19.1 M⊙ in the head. The observed mass distribution does not offer a firm conclusion for the formation mechanism of the two CGs: CG 1 is in too evolved a state, and in CG 2 part of the globule

  11. Structural Complexities Influencing Biostratigraphic Interpretations of the Permian Nansen Formation type-section, Ellesmere Island, Canada

    NASA Astrophysics Data System (ADS)

    Hill, M.; Guest, B.

    2011-12-01

    The Carboniferous to Permian aged Nansen Formation is a cyclic carbonate shelf deposit and potential hydrocarbon reservoir. This formation is the thickest, most widespread carbonate sequence in the Sverdrup Basin. Deformed during the Eurekan Orogeny, the Nansen Fm. is topographically prominent and responsible for the rugged topography on Axel Heiburg and Ellesmere Island. The type-section for the Nansen Fm. is located on the north side of Hare Fiord, along Girty Creek. At this location there is an estimated stratigraphic thickness of 2 km. Due to easier access most of the stratigraphic work has been completed on nearby glacially exposed sections that traverse parallel to Girty Creek along glacial margins. Extensive biostratigraphy was completed on a glacier section to the west, however, in a glacier section to the east of Girty Creek, structural complexities appear to be repeating sections of the formation. Here, the Nansen formation is bounded by two regional reverse faults. This has produced duplex structures, with clearly exposed stacked horses, footwall synclines, and truncations. By projecting the structures observed along the eastern glacier section to the western glacier section that was used for biostratigraphic studies, it is clear that these structures would affect biostratigraphic interpretations. It was previously noted by biostratigraphers that thrust faults appear to be repeating sections of the Nansen formation. However by correlating all observed faults with the biostratigraphy, we can determine the extent to which the faulting has affected the interpretations, and whether all faults or stratigraphic repetitions are accounted for.

  12. Solution structure of eggcase silk protein and its implications for silk fiber formation

    PubMed Central

    Lin, Zhi; Huang, Weidong; Zhang, Jingfeng; Fan, Jing-Song; Yang, Daiwen

    2009-01-01

    Spider silks are renowned for their excellent mechanical properties and biomimetic and industrial potentials. They are formed from the natural refolding of water-soluble fibroins with α-helical and random coil structures in silk glands into insoluble fibers with mainly β-structures. The structures of the fibroins at atomic resolution and silk formation mechanism remain largely unknown. Here, we report the 3D structures of individual domains of a ≈366-kDa eggcase silk protein that consists of 20 identical type 1 repetitive domains, one type 2 repetitive domain, and conserved nonrepetitive N- and C-terminal domains. The structures of the individual domains in solution were determined by using NMR techniques. The domain interactions were investigated by NMR and dynamic light-scattering techniques. The formation of micelles and macroscopic fibers from the domains was examined by electron microscopy. We find that either of the terminal domains covalently linked with at least one repetitive domain spontaneously forms micelle-like structures and can be further transformed into fibers at ≥37 °C and a protein concentration of >0.1 wt%. Our biophysical and biochemical experiments indicate that the less hydrophilic terminal domains initiate the assembly of the proteins and form the outer layer of the micelles whereas the more hydrophilic repetitive domains are embedded inside to ensure the formation of the micelle-like structures that are the essential intermediates in silk formation. Our results establish the roles of individual silk protein domains in fiber formation and provide the basis for designing miniature fibroins for producing artificial silks. PMID:19458259

  13. Influence of surface modification on structure formation and micromechanical properties of spray-dried silica aggregates.

    PubMed

    Zellmer, Sabrina; Lindenau, Maylin; Michel, Stephanie; Garnweitner, Georg; Schilde, Carsten

    2016-02-15

    Spray drying processes were utilized for the production of hierarchical materials with defined structures. The structure formation during the spray drying process and the micromechanical properties of the obtained aggregates depend on the particle-particle interactions, the primary particle size and morphology as well as the process parameters of the spray drying process. Hence, the effect of different primary particle systems prepared as stable dispersions with various surface modifications were investigated on the colloidal structure formation and the micromechanical properties of silica particles as model aggregates and compared to theoretical considerations. The obtained results show that the structure formation of aggregates during the spray drying process for stable suspensions is almost independent on the functional groups present at the particle surface. Further, the mechanical properties of these aggregates differ considerably with the content of the bound ligand. This allows the defined adjustment of the aggregate properties, such as the strength and surface properties, as well as the formation of defined hierarchical aggregate structures. PMID:26619128

  14. Microsized structures assisted nanostructure formation on ZnSe wafer by femtosecond laser irradiation

    SciTech Connect

    Wang, Shutong; Feng, Guoying E-mail: zhoush@scu.edu.cn

    2014-12-22

    Micro/nano patterning of ZnSe wafer is demonstrated by femtosecond laser irradiation through a diffracting pinhole. The irradiation results obtained at fluences above the ablation threshold are characterized by scanning electron microscopy. The microsized structure with low spatial frequency has a good agreement with Fresnel diffraction theory. Laser induced periodic surface structures and laser-induced periodic curvelet surface structures with high spatial frequency have been found on the surfaces of microsized structures, such as spikes and valleys. We interpret its formation in terms of the interference between the reflected laser field on the surface of the valley and the incident laser pulse.

  15. Formation of ring structures in galactic disks during close passages of galaxies

    NASA Astrophysics Data System (ADS)

    Tutukov, A. V.; Fedorova, A. V.

    2016-01-01

    The formation of ring structures in galactic disks is investigated. It is shown that, in addition to the known mechanism of forming rings in "head-on" collisions between galaxies, ring structures can be formed during close passages of galaxies if the perturbing galaxy moves in a plane close to the equatorial plane of the perturbed disk galaxy, opposite to the direction of rotation of the disk. Numerical simulations of the formation of structures in the disk of a massive galaxy undergoing a passage with another galaxy are considered. The results of these cmputations show the formation of pronounced ring structures in the galactic disk when the initial inclination of the trajectory of the perturbing galaxy to the equatorial plane of the perturbed galaxy is no more than ~25°. However, the probability of close passages of galaxies with these parameters is small, as is the probability of head-on collisions. The characteristic time scale for the existence of pronounced rings is of order the dynamical time scale at the edge of the galaxy, 200-300 million years, close to the corresponding time for head-on collisions. The evolution of the rings has the same character in both cases: they gradually expand and move toward the periphery of the galaxy. The results of these simulations can also be applied to a close passage of one star by another star with a protoplanetary disk. According to the computation results, the characteristic time scale for the existence of pronounced rings in such a protoplanetary disk depends mainly on the size of the disk; this time scale can reach several tens of thousands of years for a disk radius of about 1000 AU. The formation of ring structures in such a disk could influence the formation and evolution of planetesimals, and possibly the character of the formation of planets and the distribution of their orbital semi-major axes.

  16. Probing Distinct Fullerene Formation Processes from Carbon Precursors of Different Sizes and Structures.

    PubMed

    Han, Jong Yoon; Choi, Tae Su; Kim, Soyoung; Lee, Jong Wha; Ha, Yoonhoo; Jeong, Kwang Seob; Kim, Hyungjun; Choi, Hee Cheul; Kim, Hugh I

    2016-08-16

    Fullerenes, cage-structured carbon allotropes, have been the subject of extensive research as new materials for diverse purposes. Yet, their formation process is still not clearly understood at the molecular level. In this study, we performed laser desorption ionization-ion mobility-mass spectrometry (LDI-IM-MS) of carbon substrates possessing different molecular sizes and structures to understand the formation process of fullerene. Our observations show that the formation process is strongly dependent on the size of the precursor used, with small precursors yielding small fullerenes and large graphitic precursors generally yielding larger fullerenes. These results clearly demonstrate that fullerene formation can proceed via both bottom-up and top-down processes, with the latter being favored for large precursors and more efficient at forming fullerenes. Furthermore, we observed that specific structures of carbon precursors could additionally affect the relative abundance of C60 fullerene. Overall, this study provides an advanced understanding of the mechanistic details underlying the formation processes of fullerene. PMID:27434606

  17. Geologic structure and altitude of the top of the Minnelusa Formation, northeastern Black Hills, South Dakota

    USGS Publications Warehouse

    Peter, Kathy D.; Kyllonen, David P.; Mills, Kathy R.

    1988-01-01

    This map shows the altitude of the top of the Permian--and Pennsylvanian age Minnelusa Formation, the deepest aquifer in the northeastern Black Hills for which there is sufficient data available to construct a structural map. The Minnelusa Formation outcrops in the western part of the map area and is more than 3 ,600 ft below land surface in the northeastern corner of the area. The formation consists of interbedded sandstone, sandy dolomite and limestone, shale, siltstone, gypsum, and anhydrite. The upper beds are an aquifer and the lower beds are a confining or semi-confining unit. Small anticlines and synclines parallel the Minnelusa outcrop. Domal structures and peaks in the study area are the result of Tertiary-age intrusions. (USGS)

  18. Simulation Study of the Non-Equilibrium Structure Formation In Magnetorheological Fluids.

    NASA Astrophysics Data System (ADS)

    Mohebi, M.; Jamasbi, N.; Liu, Jing

    1998-03-01

    A molecular dynamics model is presented to understand the structural formation of MR fluids which includes viscous drag of the surrounding liquid and the thermal motion of the particles. The simulation results indicate that the complexity of the lateral pattern as viewed in the direction of the applied field increases with the rate of application of the external magnetic field. We have also found that the maximum range for attractive interaction (escape distance) for two initially straight chains increases with temperature. Furthermore, we used our model to understand the role of volume fraction and cell thickness in the structural transition between column and bent wall formations. These results are relevant to understand the mechanisms and conditions for the formation of labyrinthine and columnar patterns experimentally observed in MR fluids.

  19. Dynamics of vortex structure formation during the evolution of modulation instability of dark solitons

    SciTech Connect

    Mironov, V. A.; Smirnov, A. I. Smirnov, L. A.

    2011-01-15

    The nonlinear stage of modulation instability of dark solitons is studied analytically and numerically. We propose an asymptotic description of the dynamics of these solitons in terms of their local velocity and the curvature of the lines at which solitons are concentrated. The features of the destruction of dark solitons (in particular, the formation of vortex structures from them) are analyzed.

  20. Molar tooth structures in calcareous nodules, early Neoproterozoic Burovaya Formation, Turukhansk region, Siberia

    NASA Astrophysics Data System (ADS)

    Pope, Michael C.; Bartley, Julie K.; Knoll, Andrew H.; Petrov, Peter Yu.

    2003-05-01

    Molar tooth structures are abundant in large (1-2 m diameter) carbonate nodules within fine-grained, subtidal carbonates of the early Neoproterozoic (lower Upper Riphean) Burovaya Formation along the Sukhaya Tunguska River, Turukhansk Uplift, northwestern Siberia. Although molar tooth structures are regionally abundant in this unit, here they occur only within the nodules. Stable isotopic compositions of molar-tooth-filling dolomicrospar cements and of thinly bedded dolomicrite within and surrounding the nodules are indistinguishable from one another. The carbon isotopic compositions (mean δ13C=+2.8‰ PDB±0.4) reflect mean average oceanic surface water composition during their formation; the light oxygen isotopic compositions (mean δ18O=-6.4‰ PDB±2.2) are generally similar to those of other little-altered Meso- to Neoproterozoic limestones and dolostones. These molar tooth structures have no features that would support a tectonic origin; they more likely formed through bacterial processes. Carbonate cement filling of these voids occurred soon after their formation, but the mechanism responsible for this carbonate precipitation is currently uncertain. Local restriction of molar tooth structures to early diagenetic nodules suggests that penecontemporaneous lithification was required for the formation, or at least preservation, of these widespread Mesoproterozoic to Neoproterozoic features.

  1. The magnetic field structure in high-mass star formation regions

    NASA Technical Reports Server (NTRS)

    Davidson, Jacqueline A.; Schleuning, D.; Dotson, J. L.; Dowell, C. Darren; Hildebrand, Roger H.

    1995-01-01

    We present a preliminary analysis of far-IR polarimetric observations, which were made to study the magnetic field structure in the high-mass star formation regions of M42, NGC2024, and W3. These observations were made from the Kuiper Airborne Observatory (KAO), using the University of Chicago far-IR polarimeter, Stokes.

  2. Structure elucidation of fungal beauveriolide III, a novel inhibitor of lipid droplet formation in mouse macrophages.

    PubMed

    Namatame, I; Tomoda, H; Tabata, N; Si, S; Omura, S

    1999-01-01

    The structure of fungal beauveriolide III, an inhibitor of lipid droplet formation in mouse macrophages, was elucidated to be cyclo-[(3S,4S)-3-hydroxy-4-methyloctanoyl-L-phenylalanyl-L-alanyl- D-allo-isoleucyl] by spectral analyses and chemical degradation. PMID:10092190

  3. Formation of pseudotachylitic breccias in the central uplifts of very large impact structures: Scaling the melt formation

    NASA Astrophysics Data System (ADS)

    Mohr-Westheide, Tanja; Reimold, Wolf Uwe

    2011-04-01

    The processes leading to formation of sometimes massive occurrences of pseudotachylitic breccia (PTB) in impact structures have been strongly debated for decades. Variably an origin of these pseudotachylite (friction melt)-like breccias by (1) shearing (friction melting); (2) so-called shock compression melting (with or without a shear component) immediately after shock propagation through the target; (3) decompression melting related to rapid uplift of crustal material due to central uplift formation; (4) combinations of these processes; or (5) intrusion of allochthonous impact melt from a coherent melt body has been advocated. Our investigations of these enigmatic breccias involve detailed multidisciplinary analysis of millimeter- to meter-sized occurrences from the type location, the Vredefort Dome. This complex Archean to early Proterozoic terrane constitutes the central uplift of the originally >250 km diameter Vredefort impact structure in South Africa. Previously, results of microstructural and microchemical investigations have indicated that formation of very small veinlets involved local melting, likely during the early shock compression phase. However, for larger veins and networks it was so far not possible to isolate a specific melt-forming mechanism. Macroscopic to microscopic evidence for friction melting is very limited, and so far chemical results have not directly supported PTB generation by intrusion of impact melt. On the other hand, evidence for filling of dilational sites with melt is abundant. Herein, we present a new approach to the mysterium of PTB formation based on volumetric melt breccia calculations. The foundation for this is the detailed analysis of a 1.5 × 3 × 0.04 m polished granite slab from a dimension-stone quarry in the core of the Vredefort Dome. This slab contains a 37.5 dm3 breccia zone. The pure melt volume in 0.1 m3 PTB-bearing granitic target rock outside of the several-decimeter-wide breccia zone in the granite slab was

  4. EGCG Inhibited Lipofuscin Formation Based on Intercepting Amyloidogenic β-Sheet-Rich Structure Conversion

    PubMed Central

    Cai, Shuxian; Yang, Heng; Zeng, Kewu; Zhang, Jing; Zhong, Ni; Wang, Yingzi; Ye, Jing; Tu, Pengfei; Liu, Zhonghua

    2016-01-01

    Background Lipofuscin (LF) is formed during lipid peroxidation and sugar glycosylation by carbonyl-amino crosslinks with biomacrolecules, and accumulates slowly within postmitotic cells. The environmental pollution, modern dietary culture and lifestyle changes have been found to be the major sources of reactive carbonyl compounds in vivo. Irreversible carbonyl-amino crosslinks induced by carbonyl stress are essentially toxiferous for aging-related functional losses in modern society. Results show that (-)-epigallocatechin gallate (EGCG), the main polyphenol in green tea, can neutralize the carbonyl-amino cross-linking reaction and inhibit LF formation, but the underlying mechanism is unknown. Methods and Results We explored the mechanism of the neutralization process from protein, cell, and animal levels using spectrofluorometry, infrared spectroscopy, conformation antibodies, and electron microscopy. LF demonstrated an amyloidogenic β-sheet-rich with antiparallel structure, which accelerated the carbonyl-amino crosslinks formation and disrupted proteolysis in both PC12 cells and D-galactose (D-gal)-induced brain aging mice models. Additionally, EGCG effectively inhibited the formation of the amyloidogenic β-sheet-rich structure of LF, and prevented its conversion into toxic and on-pathway aggregation intermediates, thereby cutting off the carbonyl-amino crosslinks. Conclusions Our study indicated that the amyloidogenic β-sheet structure of LF may be the core driving force for carbonyl-amino crosslinks further formation, which mediates the formation of amyloid fibrils from native state of biomacrolecules. That EGCG exhibits anti-amyloidogenic β-sheet-rich structure properties to prevent the LF formation represents a novel strategy to impede the development of degenerative processes caused by ageing or stress-induced premature senescence in modern environments. PMID:27030967

  5. Soft sediment deformation structures in the Maastrichtian Ajali Formation Western Flank of Anambra Basin, Southern Nigeria

    NASA Astrophysics Data System (ADS)

    Olabode, Solomon Ojo

    2014-01-01

    Soft sediment deformation structures were recognized in the Maastrichtian shallow marine wave to tide influenced regressive sediments of Ajali Formation in the western flank of Anambra basin, southern Nigerian. The soft sediment deformation structures were in association with cross bedded sands, clay and silt and show different morphological types. Two main types recognised are plastic deformations represented by different types of recumbent folds and injection structure represented by clastic dykes. Other structures in association with the plastic deformation structures include distorted convolute lamination, subsidence lobes, pillars, cusps and sand balls. These structures are interpreted to have been formed by liquefaction and fluidization mechanisms. The driving forces inferred include gravitational instabilities and hydraulic processes. Facies analysis, detailed morphologic study of the soft sediment deformation structures and previous tectonic history of the basin indicate that the main trigger agent for deformation is earthquake shock. The soft sediment deformation structures recognised in the western part of Anambra basin provide a continuous record of the tectonic processes that acted on the regressive Ajali Formation during the Maastrichtian.

  6. Pressure-dependent formation of i-motif and G-quadruplex DNA structures.

    PubMed

    Takahashi, S; Sugimoto, N

    2015-12-14

    Pressure is an important physical stimulus that can influence the fate of cells by causing structural changes in biomolecules such as DNA. We investigated the effect of high pressure on the folding of duplex, DNA i-motif, and G-quadruplex (G4) structures; the non-canonical structures may be modulators of expression of genes involved in cancer progression. The i-motif structure was stabilized by high pressure, whereas the G4 structure was destabilized. The melting temperature of an intramolecular i-motif formed by 5'-dCGG(CCT)10CGG-3' increased from 38.8 °C at atmospheric pressure to 61.5 °C at 400 MPa. This effect was also observed in the presence of 40 wt% ethylene glycol, a crowding agent. In the presence of 40 wt% ethylene glycol, the G4 structure was less destabilized than in the absence of the crowding agent. P-T stability diagrams of duplex DNA with a telomeric sequence indicated that the duplex is more stable than G4 and i-motif structures under low pressure, but the i-motif dominates the structural composition under high pressure. Under crowding conditions, the P-T diagrams indicated that the duplex does not form under high pressure, and i-motif and G4 structures dominate. Our findings imply that temperature regulates the formation of the duplex structure, whereas pressure triggers the formation of non-canonical DNA structures like i-motif and G4. These results suggest that pressure impacts the function of nucleic acids by stabilizing non-canonical structures; this may be relevant to deep sea organisms and during evolution under prebiotic conditions. PMID:26387909

  7. Soft-Sediment Deformation Structures Interpreted as Seismites in the Kolankaya Formation, Denizli Basin (SW Turkey)

    PubMed Central

    Topal, Savaş; Özkul, Mehmet

    2014-01-01

    The NW-trending Denizli basin of the SW Turkey is one of the neotectonic grabens in the Aegean extensional province. It is bounded by normal faults on both southern and northern margins. The basin is filled by Neogene and Quaternary terrestrial deposits. Late Miocene- Late Pliocene aged Kolankaya formation crops out along the NW trending Karakova uplift in the Denizli basin. It is a typical fluviolacustrine succession that thickens and coarsens upward, comprising poorly consolidated sand, gravelly sand, siltstone and marl. Various soft-sediment deformation structures occur in the formation, especially in fine- to medium grained sands, silts and marls: load structures, flame structures, clastic dikes (sand and gravely-sand dike), disturbed layers, laminated convolute beds, slumps and synsedimentary faulting. The deformation mechanism and driving force for the soft-sediment deformation are related essentially to gravitational instability, dewatering, liquefaction-liquidization, and brittle deformation. Field data and the wide lateral extent of the structures as well as regional geological data show that most of the deformation is related to seismicity and the structures are interpreted as seismites. The existence of seismites in the Kolankaya Formation is evidence for continuing tectonic activity in the study area during the Neogene and is consistent with the occurrence of the paleoearthquakes of magnitude >5. PMID:25152909

  8. Formation, molecular structure, and morphology of humins in biomass conversion: influence of feedstock and processing conditions.

    PubMed

    van Zandvoort, Ilona; Wang, Yuehu; Rasrendra, Carolus B; van Eck, Ernst R H; Bruijnincx, Pieter C A; Heeres, Hero J; Weckhuysen, Bert M

    2013-09-01

    Neither the routes through which humin byproducts are formed, nor their molecular structure have yet been unequivocally established. A better understanding of the formation and physicochemical properties of humins, however, would aid in making biomass conversion processes more efficient. Here, an extensive multiple-technique-based study of the formation, molecular structure, and morphology of humins is presented as a function of sugar feed, the presence of additives (e.g., 1,2,4-trihydroxybenzene), and the applied processing conditions. Elemental analyses indicate that humins are formed through a dehydration pathway, with humin formation and levulinic acid yields strongly depending on the processing parameters. The addition of implied intermediates to the feedstocks showed that furan and phenol compounds formed during the acid-catalyzed dehydration of sugars are indeed included in the humin structure. IR spectra, sheared sum projections of solid-state 2DPASS (13) C NMR spectra, and pyrolysis GC-MS data indicate that humins consist of a furan-rich polymer network containing different oxygen functional groups. The structure is furthermore found to strongly depend on the type of feedstock. A model for the molecular structure of humins is proposed based on the data presented. PMID:23836679

  9. Soft-sediment deformation structures interpreted as seismites in the Kolankaya Formation, Denizli Basin (SW Turkey).

    PubMed

    Topal, Savaş; Özkul, Mehmet

    2014-01-01

    The NW-trending Denizli basin of the SW Turkey is one of the neotectonic grabens in the Aegean extensional province. It is bounded by normal faults on both southern and northern margins. The basin is filled by Neogene and Quaternary terrestrial deposits. Late Miocene- Late Pliocene aged Kolankaya formation crops out along the NW trending Karakova uplift in the Denizli basin. It is a typical fluviolacustrine succession that thickens and coarsens upward, comprising poorly consolidated sand, gravelly sand, siltstone and marl. Various soft-sediment deformation structures occur in the formation, especially in fine- to medium grained sands, silts and marls: load structures, flame structures, clastic dikes (sand and gravely-sand dike), disturbed layers, laminated convolute beds, slumps and synsedimentary faulting. The deformation mechanism and driving force for the soft-sediment deformation are related essentially to gravitational instability, dewatering, liquefaction-liquidization, and brittle deformation. Field data and the wide lateral extent of the structures as well as regional geological data show that most of the deformation is related to seismicity and the structures are interpreted as seismites. The existence of seismites in the Kolankaya Formation is evidence for continuing tectonic activity in the study area during the Neogene and is consistent with the occurrence of the paleoearthquakes of magnitude >5. PMID:25152909

  10. Formation of periodic structures upon laser ablation of metal targets in liquids

    SciTech Connect

    Kazakevich, Pavel V; Simakin, Aleksandr V; Shafeev, Georgii A

    2005-09-30

    Experimental data on the formation of ordered microstructures produced upon ablation of metal targets in liquids irradiated by a copper vapour laser or a pulsed Nd:YAG laser are presented. The structures were obtained on brass, bronze, copper, and tungsten substrates immersed in distilled water or ethanol. As a result of multiple-pulse laser ablation by a scanning beam, ordered microcones with pointed vertexes are formed on the target surface. The structures are separated by deep narrow channels. The structure period was experimentally shown to increase linearly with diameter of the laser spot on the target surface. (interaction of laser radiation with matter)

  11. The formation mechanism of the periodic nanograting structure by the Weibel instability

    NASA Astrophysics Data System (ADS)

    Gouda, A. M.; Sakagami, H.; Ogata, T.; Hashida, M.; Sakabe, S.

    2016-04-01

    The two-dimensional particle in cell code has been used to demonstrated the formation mechanism for the periodic nanograting structure using 500-fs pulses of an ultra-fast laser with wavelength 800 nm, incidence angle 0°, linearly-polarized, and intensity 1018 W/cm2 µm2 in hydrogen plasma. The periodic nanograting structure has been clearly self-organized at the boundary between the preformed plasma and the dense plasma at t = 250 fs. By time evolution of the magnetic field and the current density in the dense plasma, it has been found that the Weibel instability plays a significant role to form the periodic nanograting structure.

  12. Formation of the structure of compositions with a furan binder during their thermal treatment

    SciTech Connect

    Kostikov, V.I.; Samsonova, L.S.; Butyrin, G.M.; Lukina, E.Yu.; Zimina, L.A.

    1981-01-01

    In the reported experiments, the influence of the conditions of thermal treatment on the nature of the shrinkage phenomena and the formation of a porous structure of a carbon material with a furan binder - an oligomer of difurfurylideneacetone - has been studied. A change in the rate of heating has a substantial influence on the porous structure and physicomechanical properties of the baked material. A material heat-treated under the conditins of chamber baking with a rate of rise of 10/degree/C/hr is characterized by the optimum porous structure and by high strength indices. 8 refs.

  13. Structure formation in fibrous materials based on poly-3-hydroxybutyrate for traumatology

    NASA Astrophysics Data System (ADS)

    Olkhov, A. A.; Sklyanchuk, E. D.; Staroverova, O. V.; Abbasov, T. A.; Guryev, V. V.; Akatov, V. S.; Fadeyeva, I. S.; Fesenko, N. I.; Filatov, Yu. N.; Iordanskii, A. L.

    2015-10-01

    The paper reviews the structure formation of fibrous materials based on poly-3-hydroxybutyrate depending on parameters of electrospinning and characteristics of polymer solution. Fiber structure was studied by DSC, ESR and SEM. The molecular weight affects the diameter and uniformity of the fiber. An electromechanical impact leads to an orientation of crystalline structure in the fiber. The design of an artificial bioresorbable implant based on nano- and microfibers of poly-3-hydroxybutyrate is created. Dynamics of growth of mesenchymal stem cells on poly-3-hydroxybutyrate scaffolds is studied. Successful field tests of implants of the Achilles tendon in Wistar rats are conducted.

  14. Using Structured e-Forum to Support the Legislation Formation Process

    NASA Astrophysics Data System (ADS)

    Xenakis, Alexandros; Loukis, Euripides

    Many public policy problems are 'wicked', being characterised by high complexity, many heterogeneous views and conflicts among various stakeholders, and also lack of mathematically 'optimal' solutions and predefined algorithms for calculating them. The best approach for addressing such problems is through consultation and argumentation among stakeholders. The e-participation research has investigated and suggested several ICT tools for this purpose, such as e-forum, e-petition and e-community tools. This paper investigates the use of an advanced ICT tool, the structured e-forum, for addressing such wicked problems associated with the legislation formation. For this purpose we designed, implemented and evaluated two pilot e-consultations on legislation under formation in the Parliaments of Austria and Greece using a structured e-forum tool based on the Issue Based Information Systems (IBIS) framework. The conclusions drawn reveal the advantages offered by the structured e-forum, but also its difficulties as well.

  15. Structural basis for proteasome formation controlled by an assembly chaperone nas2.

    PubMed

    Satoh, Tadashi; Saeki, Yasushi; Hiromoto, Takeshi; Wang, Ying-Hui; Uekusa, Yoshinori; Yagi, Hirokazu; Yoshihara, Hidehito; Yagi-Utsumi, Maho; Mizushima, Tsunehiro; Tanaka, Keiji; Kato, Koichi

    2014-05-01

    Proteasome formation does not occur due to spontaneous self-organization but results from a highly ordered process assisted by several assembly chaperones. The assembly of the proteasome ATPase subunits is assisted by four client-specific chaperones, of which three have been structurally resolved. Here, we provide the structural basis for the working mechanisms of the last, hereto structurally uncharacterized assembly chaperone, Nas2. We revealed that Nas2 binds to the Rpt5 subunit in a bivalent mode: the N-terminal helical domain of Nas2 masks the Rpt1-interacting surface of Rpt5, whereas its C-terminal PDZ domain caps the C-terminal proteasome-activating motif. Thus, Nas2 operates as a proteasome activation blocker, offering a checkpoint during the formation of the 19S ATPase prior to its docking onto the proteolytic 20S core particle. PMID:24685148

  16. Formation of the pore structure of brown coal upon thermolysis with potassium hydroxide

    SciTech Connect

    T.G. Shendrik; Y.V. Tamarkina; T.V. Khabarova; V.A. Kucherenko; N.V. Chesnokov; B.N. Kuznetsov

    2009-07-01

    The pore-structure characteristics of active carbons prepared by the thermolysis (800{sup o}C) of brown coal impregnated with potassium hydroxide were studied. The dependence of the specific surface area, total pore volume, micropore volume, micropore fraction, and micropore size distribution on the KOH/coal weight ratio R{sub KOH}{le} 1.0 g/g was found. Condensation processes with the formation of a low-porosity material were predominant at low ratios of R{sub KOH} {le} 0.1 g/g. The development of a micropore structure was observed at R{sub KOH} {ge} 0.1 g/g, and it increased as R{sub KOH} was increased to 1.0 g/g. It was hypothesized that pore formation was due to the thermally initiated reactions of the structural fragments of coal with KOH molecules, which occurred within the framework of coal.

  17. Galaxy Structure as a Driver of the Star Formation Sequence Slope and Scatter

    NASA Astrophysics Data System (ADS)

    Whitaker, Katherine E.; Franx, Marijn; Bezanson, Rachel; Brammer, Gabriel B.; van Dokkum, Pieter G.; Kriek, Mariska T.; Labbé, Ivo; Leja, Joel; Momcheva, Ivelina G.; Nelson, Erica J.; Rigby, Jane R.; Rix, Hans-Walter; Skelton, Rosalind E.; van der Wel, Arjen; Wuyts, Stijn

    2015-09-01

    It is well established that (1) star-forming galaxies follow a relation between their star formation rate (SFR) and stellar mass ({M}\\star ), the “star formation sequence,” and (2) the SFRs of galaxies correlate with their structure, where star-forming galaxies are less concentrated than quiescent galaxies at fixed mass. Here, we consider whether the scatter and slope of the star formation sequence is correlated with systematic variations in the Sérsic indices, n, of galaxies across the SFR-{M}\\star plane. We use a mass-complete sample of 23,848 galaxies at 0.5 < z < 2.5 selected from the 3D-HST photometric catalogs. Galaxy light profiles parameterized by n are based on Hubble Space Telescope Cosmic Assembly Near-IR Deep Extragalactic Legacy Survey near-infrared imaging. We use a single SFR indicator empirically calibrated from stacks of Spitzer/MIPS 24 μm imaging, adding the unobscured and obscured star formation. We find that the scatter of the star formation sequence is related in part to galaxy structure; the scatter due to variations in n at fixed mass for star-forming galaxies ranges from 0.14 ± 0.02 dex at z ˜ 2 to 0.30 ± 0.04 dex at z < 1. While the slope of the {log} {SFR}-{log} {M}\\star relation is of order unity for disk-like galaxies, galaxies with n > 2 (implying more dominant bulges) have significantly lower {SFR}/{M}\\star than the main ridgeline of the star formation sequence. These results suggest that bulges in massive z ˜ 2 galaxies are actively building up, where the stars in the central concentration are relatively young. At z < 1, the presence of older bulges within star-forming galaxies lowers global {SFR}/{M}\\star , decreasing the slope and contributing significantly to the scatter of the star formation sequence.

  18. Biofunctionalized Microfiber-Assisted Formation of Intrinsic Three-Dimensional Capillary-Like Structures

    PubMed Central

    Weinandy, Stefan; Laffar, Simone; Unger, Ronald E.; Flanagan, Thomas C.; Loesel, Robert; Kirkpatrick, C. James; van Zandvoort, Marc; Hermanns-Sachweh, Benita; Dreier, Agnieszka; Klee, Doris

    2014-01-01

    Objectives: A vascular supply network is essential in engineered tissues >100–200-μm thickness. To control vascular network formation in vitro, we hypothesize that capillarization can be achieved locally by using fibers to position and guide vessel-forming endothelial cells within a three-dimensional (3D) matrix. Materials and Methods: Biofunctionalization of poly-(L-lactic acid) (PLLA) fibers was performed by amino-functionalization and covalent binding of RGD peptides. Human foreskin fibroblasts (HFFs) and human umbilical vein endothelial cells (HUVECs) were seeded on the fibers in a mould and subsequently embedded in fibrin gel. After 9–21 days of coculture, constructs were fixed and immunostained (PECAM-1). Capillary-like structures with lumen in the 3D fibrin matrix were verified and quantified using two-photon microscopy and image analysis software. Results: Capillary-like networks with lumen formed adjacent to the PLLA fibers. Increased cell numbers were observed to attach to RGD-functionalized fibers, resulting in enhanced formation of capillary-like structures. Cocultivation of HFFs sufficiently supported HUVECs in the formation of capillary-like structures, which persisted for at least 21 days of coculture. Conclusions: The guidance of vessel growth within tissue-engineered constructs can be achieved using biofunctionalized PLLA microfibers. Further methods are warranted to perform specified spatial positioning of fibers within 3D formative scaffolds to enhance the applicability of the concept. PMID:24456033

  19. Control globular structure formation of a copolymer chain through inverse design.

    PubMed

    Yang, Xi; Lu, Zhong-Yuan

    2016-06-14

    A copolymer chain in dilute solution can exhibit various globular structures with characteristic morphologies, which makes it a potentially useful candidate for artificial materials design. However, the chain has a huge conformation space and may not naturally form the globular structure we desire. An ideal way to control globular structure formation should be inverse design, i.e., starting from the target structure and finding out what kind of polymers can effectively generate it. To accomplish this, we propose an inverse design procedure, which is combined with Wang-Landau Monte Carlo to fully and precisely explore the huge conformation space of the chain. Starting from a desired target structure, all the geometrically possible sequences are exactly enumerated. Interestingly, reasonable interaction strengths are obtained and found to be not specified for only one sequence. Instead, they can be combined with many other sequences and also achieve a relatively high yield for target structure, although these sequences may be rather different. These results confirm the possibility of controlling globular structure formation of a copolymer chain through inverse design and pave the way for targeted materials design. PMID:27306020

  20. Inverted micellar structures in bilayer membranes. Formation rates and half-lives.

    PubMed Central

    Siegel, D P

    1984-01-01

    Two sorts of inverted micellar structures have previously been proposed to explain morphological and 31P-NMR observations of bilayer systems. These structures only form in systems with components that can adopt the inverse hexagonal (HII) phase. LIP (lipidic particles) are intrabilayer structures, whereas IMI (inverted micellar intermediates) are structures that form between apposed bilayers. Here, we calculate the formation rates and half-lives of these structures to determine which (or if either) of these proposed structures is a likely explanation of the data. Calculations for the egg phosphatidylethanolamine and the Ca+-cardiolipin systems show that IMI form orders of magnitude faster than LIP, which should form slowly, if at all. This result is probably true in general, and indicates that "lipidic particle" electron micrograph images probably represent interbilayer structures, as some have previously proposed. It is shown here that IMI are likely intermediates in the lamellar----HII phase transitions and in the process of membrane fusion in some systems. The calculated formation rates, half-lives, and vesicle-vesicle fusion rates are in agreement with this observation. PMID:6365189

  1. Control globular structure formation of a copolymer chain through inverse design

    NASA Astrophysics Data System (ADS)

    Yang, Xi; Lu, Zhong-Yuan

    2016-06-01

    A copolymer chain in dilute solution can exhibit various globular structures with characteristic morphologies, which makes it a potentially useful candidate for artificial materials design. However, the chain has a huge conformation space and may not naturally form the globular structure we desire. An ideal way to control globular structure formation should be inverse design, i.e., starting from the target structure and finding out what kind of polymers can effectively generate it. To accomplish this, we propose an inverse design procedure, which is combined with Wang-Landau Monte Carlo to fully and precisely explore the huge conformation space of the chain. Starting from a desired target structure, all the geometrically possible sequences are exactly enumerated. Interestingly, reasonable interaction strengths are obtained and found to be not specified for only one sequence. Instead, they can be combined with many other sequences and also achieve a relatively high yield for target structure, although these sequences may be rather different. These results confirm the possibility of controlling globular structure formation of a copolymer chain through inverse design and pave the way for targeted materials design.

  2. Formation of 1D adsorbed water structures on CaO(001)

    NASA Astrophysics Data System (ADS)

    Zhao, Xunhua; Bhattacharya, Saswata; Ghiringhelli, Luca M.; Levchenko, Sergey V.; Scheffler, Matthias

    2015-03-01

    Understanding the interaction of water with oxide surfaces is of fundamental importance for basic and engineering sciences. Recently, a spontaneous formation of one-dimensional (1D) adsorbed water structures have been observed on CaO(001). Interestingly, at other alkaline earth metal oxides, in particular MgO(001) and SrO(001), such structures have not been found experimentally. We calculate the relative stability of adsorbed water structures on the three oxides using density-functional theory combined with the ab initio atomistic thermodynamics. Low-energy structures at different coverages are obtained with a first-principles genetic algorithm. Finite-temperature vibrational spectra are calculated using ab initio molecular dynamics. We find a range of (T, p) conditions where 1D structures are thermodynamically stable on CaO(001). The orientation and vibrational spectra of the 1D structures are in agreement with the experiments. The formation of the 1D structures is found to be actuated by a symmetry breaking in the adsorbed water tetramer, as well as by a balance between water-water and water-substrate interactions, determined by the lattice constant of the oxide.

  3. The small and the beautiful: how the star formation law affects galactic disc structure

    NASA Astrophysics Data System (ADS)

    Braun, H.; Schmidt, W.

    2015-12-01

    We investigate the influence of different analytical parametrizations and fit functions for the local star formation rate in adaptive mesh refinement simulations of an isolated disc galaxy with the NYX code. Suchparametrizations express the star formation efficiency as function of the local turbulent Mach number and virial parameter. By employing the method of adaptively refined large eddy simulations, we are able to evaluate these physical parameters from the numerically unresolved turbulent energy associated with the grid scale. We consider both single and multi free-fall variants of star formation laws proposed by Padoan & Nordlund, Hennebelle & Chabrier, and Krumholz & McKee, summarized and tested recently with numerical simulations by Federrath & Klessen. We find that the global star formation rate and the relation between the local star formation rate and the gas column density is reproduced in agreement with observational constraints by all multi free-fall models of star formation. Some models with obsolete calibration or a single free-fall time-scale, however, result in an overly clumpy disc that does not resemble the structure of observed spirals.

  4. Formation of polycrystalline-silicon films with hemispherical grains for capacitor structures with increased capacitance

    SciTech Connect

    Novak, A. V.

    2014-12-15

    The effect of formation conditions on the morphology of silicon films with hemispherical grains (HSG-Si) obtained by the method of low-pressure chemical vapor deposition (LPCVD) is investigated by atomic-force microscopy. The formation conditions for HSG-Si films with a large surface area are found. The obtained HSG-Si films make it possible to fabricate capacitor structures, the electric capacitance of which is twice as large in comparison to that of capacitors with “smooth” electrodes from polycrystalline silicon.

  5. Chemical structure of vanadium-based contact formation on n-AlN

    SciTech Connect

    Pookpanratana, S.; France, R.; Blum, M.; Bell, A.; Bar, M.; Weinhardt, L.; Zhang, Y.; Hofmann, T.; Fuchs, O.; Yang, W.; Denlinger, J. D.; Mulcahy, S.; Moustakas, T. D.; Heske, Clemens

    2010-05-17

    We have investigated the chemical interaction between a Au/V/Al/V layer structure and n-type AlN epilayers using soft x-ray photoemission, x-ray emission spectroscopy, and atomic force microscopy. To understand the complex processes involved in this multicomponent system, we have studied the interface before and after a rapid thermal annealing step. We find the formation of a number of chemical phases at the interface, including VN, metallic vanadium, aluminum oxide, and metallic gold. An interaction mechanism for metal contact formation on the entire n-(Al,Ga)N system is proposed.

  6. Talking therapy groups on acute psychiatric wards: patients' experience of two structured group formats

    PubMed Central

    Radcliffe, Jonathan; Bird, Laura

    2016-01-01

    Aims and method We report the results of a clinical audit of patients' reactions to two types of talking therapy groups facilitated by assistant psychologists and psychology graduates on three acute wards. Patients' experiences of problem-solving and interpersonal group formats were explored via focus groups and structured interviews with 29 group participants. Results Both group formats generated high satisfaction ratings, with benefits related mostly to generic factors. Clinical implications Adequately trained and supported assistant psychologists and psychology graduates can provide supportive talking groups that patients find helpful. PMID:27512586

  7. Talking therapy groups on acute psychiatric wards: patients' experience of two structured group formats.

    PubMed

    Radcliffe, Jonathan; Bird, Laura

    2016-08-01

    Aims and method We report the results of a clinical audit of patients' reactions to two types of talking therapy groups facilitated by assistant psychologists and psychology graduates on three acute wards. Patients' experiences of problem-solving and interpersonal group formats were explored via focus groups and structured interviews with 29 group participants. Results Both group formats generated high satisfaction ratings, with benefits related mostly to generic factors. Clinical implications Adequately trained and supported assistant psychologists and psychology graduates can provide supportive talking groups that patients find helpful. PMID:27512586

  8. Large-Scale Structure Formation: From the First Non-linear Objects to Massive Galaxy Clusters

    NASA Astrophysics Data System (ADS)

    Planelles, S.; Schleicher, D. R. G.; Bykov, A. M.

    2015-05-01

    The large-scale structure of the Universe formed from initially small perturbations in the cosmic density field, leading to galaxy clusters with up to 1015 M⊙ at the present day. Here, we review the formation of structures in the Universe, considering the first primordial galaxies and the most massive galaxy clusters as extreme cases of structure formation where fundamental processes such as gravity, turbulence, cooling and feedback are particularly relevant. The first non-linear objects in the Universe formed in dark matter halos with 105-108 M⊙ at redshifts 10-30, leading to the first stars and massive black holes. At later stages, larger scales became non-linear, leading to the formation of galaxy clusters, the most massive objects in the Universe. We describe here their formation via gravitational processes, including the self-similar scaling relations, as well as the observed deviations from such self-similarity and the related non-gravitational physics (cooling, stellar feedback, AGN). While on intermediate cluster scales the self-similar model is in good agreement with the observations, deviations from such self-similarity are apparent in the core regions, where numerical simulations do not reproduce the current observational results. The latter indicates that the interaction of different feedback processes may not be correctly accounted for in current simulations. Both in the most massive clusters of galaxies as well as during the formation of the first objects in the Universe, turbulent structures and shock waves appear to be common, suggesting them to be ubiquitous in the non-linear regime.

  9. Development of structure in natural silk spinning and poly(vinyl alcohol) hydrogel formation

    NASA Astrophysics Data System (ADS)

    Willcox, Patricia Jeanene

    This research involves the characterization of structure and structure formation in aqueous systems. Particularly, these studies investigate the effect of various processing variables on the structure formation that occurs upon conversion from aqueous solution to fiber or hydrogel. The two processes studied include natural silk fiber spinning and physical gelation of poly(vinyl alcohol), PVOH, in water. The techniques employed combine cryogenic technology for sample preparation and direct observation by transmission electron microscopy with electron diffraction, atomic force microscopy, optical rheometry, X-ray scattering and optical microscopy. In order to explore the full range of structure formation in natural silk spinning, studies are conducted in vivo and in vitro. In vivo structural investigations are accomplished through the cryogenic quenching and subsequent microtoming of live silk-spinning animals, Nephila clavipes (spider) and Bombyx mori (silkworm). Observations made using transmission electron microscopy, electron diffraction and atomic force microscopy indicate a cholesteric liquid crystalline mesophase of aqueous silk fibroin in both species. The mechanism of structure formation in solution is studied in vitro using optical rheometry on aqueous solutions made from regenerated Bombyx mori cocoon silk. Concentrated solutions exhibit birefringence under flow, with a wormlike conformation of the silk molecules in concentrated salt solution. Changes in salt concentration and pH of the aqueous silk solutions result in differing degrees of alignment and aggregation. These results suggest that structural control in the natural silk spinning process is accomplished by chemical manipulation of the electrostatic interactions and hydrogen bonding between chains. Application of cryogenic methods in transmission electron microscopy also provides a unique look at hydration-dependent structures in gels of poly(vinyl alcohol) produced by freeze-thaw processing

  10. The formation, function and regulation of amyloids: insights from structural biology.

    PubMed

    Landreh, M; Sawaya, M R; Hipp, M S; Eisenberg, D S; Wüthrich, K; Hartl, F U

    2016-08-01

    Amyloid diseases are characterized by the accumulation of insoluble, β-strand-rich aggregates. The underlying structural conversions are closely associated with cellular toxicity, but can also drive the formation of functional protein assemblies. In recent years, studies in the field of structural studies have revealed astonishing insights into the origins, mechanisms and implications of amyloid formation. Notably, high-resolution crystal structures of peptides in amyloid-like fibrils and prefibrillar oligomers have become available despite their challenging chemical nature. Nuclear magnetic resonance spectroscopy has revealed that dynamic local polymorphisms in the benign form of the prion protein affect the transformation into amyloid fibrils and the transmissibility of prion diseases. Studies of the structures and interactions of chaperone proteins help us to understand how the cellular proteostasis network is able to recognize different stages of aberrant protein folding and prevent aggregation. In this review, we will focus on recent developments that connect the different aspects of amyloid biology and discuss how understanding the process of amyloid formation and the associated defence mechanisms can reveal targets for pharmacological intervention that may become the first steps towards clinically viable treatment strategies. PMID:27237473

  11. Graphite aerogels and the formation mechanism of unusual micron-size rod and helical structures

    NASA Astrophysics Data System (ADS)

    Wisner, Clarissa Ann

    Pyrolysis at 800 °C under argon has shown that polyimide (PI), polyacrylonitrile (PAN), polydicyclopentadiene (DCPD) and polybenzoxazine (PBO) aerogels are all viable alternatives to traditional resorcinol-formaldehyde (RF) aerogels as precursors to amorphous carbon aerogels. Subsequent high temperature pyrolysis at 2300 °C of such carbon aerogels under helium has shown that amorphous carbon from PI and PBO yields the highest degree of graphitization, whereas from RF aerogels yields the lowest. Those two types of graphite aerogels include also a high concentration of micron-size columnar and helical (screw-like) structures, whose formation is favored by macroporosity and high nitrogen retention in the 800 °C-carbonized samples. Control experiments were conducted with corannulene and bromo-corannulene in order to integrate cyclopentyl rings on surfaces of activated carbon, PBO-derived carbon aerogels, and carbon black. In most cases the concentration of rod and helical structures increased dramatically (over 50%). An idealized growth model was formulated for the formation of the rods and screw-like structures, whereas rapid grain growth leads to the formation of cyclopentyl rings and disclinations in the graphitic network. Trivalent nitrogen, when present, assists in the developed of cyclopentyl rings and subsequent growth of the columnar carbon structures.

  12. Structural aspects of glass-formation in Ni-Nb melts

    SciTech Connect

    Holland-Moritz, D.; Yang, F.; Gegner, J.; Meyer, A.; Hansen, T.; Ruiz-Martín, M. D.

    2014-05-28

    We report on investigations of the static structure factors of glass-forming Ni{sub 59.5}Nb{sub 40.5} alloy melts by combination of the containerless processing technique of electrostatic levitation with neutron diffraction. By application of the isotopic substitution method, the full set of partial structure factors was determined. The short-range order in liquid Ni{sub 59.5}Nb{sub 40.5} is characterized by a large nearest neighbor coordination number of Z{sub NN} = 14.3 and a chemical short-range order with an affinity for the formation of heterogeneous Nb-Ni nearest neighbors. The structure factors observed here in the liquid state closely resemble those reported for amorphous Nb-Ni solids. The comparison with earlier results on the short-range structure in Zr-based glass-forming melts suggests that a large local density of packing, chemical order, and structural frustration are, amongst others, common structural properties of these metallic glass-forming systems, which favor glass-formation.

  13. Structure formation in metal complex/polymer hybrid nanomaterials prepared by miniemulsion.

    PubMed

    Hauser, Christoph P; Jagielski, Nicole; Heller, Jeannine; Hinderberger, Dariush; Spiess, Hans W; Lieberwirth, Ingo; Weiss, Clemens K; Landfester, Katharina

    2011-11-01

    Polymer/complex hybrid nanostructures were prepared using a variety of hydrophobic metal β-diketonato complexes. The mechanism of structure formation was investigated by electron paramagnetic resonance (EPR) spectroscopy and small-angle X-ray scattering (SAXS) in the liquid phase. Structure formation is attributed to an interaction between free coordination sites of metal β-diketonato complexes and coordinating anionic surfactants. Lamellar structures are already present in the miniemulsion. By subsequent polymerization the lamellae can be embedded in a great variety of different polymeric matrices. The morphology of the lamellar structures, as elucidated by transmission electron microscopy (TEM), can be controlled by the choice of anionic surfactant. Using sodium alkylsulfates and sodium dodecylphosphate, "nano-onions" are formed, while sodium carboxylates lead to "kebab-like" structures. The composition of the hybrid nanostructures can be described as bilayer lamellae, embedded in a polymeric matrix. The metal complexes are separated by surfactant molecules which are arranged tail-to-tail; by increasing the carbon chain length of the surfactant the layer distance of the structured nanomaterial can be adjusted between 2 and 5 nm. PMID:21977909

  14. Whistler wave interaction with magnetic islands and electron scale structure formation

    NASA Astrophysics Data System (ADS)

    Pathak, Neha

    2016-07-01

    The present work aims to investigate the role of whistler waves in facilitating reconnection and to explore relationship between magnetic reconnection and turbulence. The key role of the whistler waves in the formation of coherent structures during their propagation in the pre-existing fully developed chain of magnetic islands has been investigated. For this scenario, the dynamical equation of whistler wave has been derived in the presence of magnetic islands and has been solved semi-analytically as well as numerically. Due to pre-existing magnetic islands, background field gets perturbed and localization of the whistler waves and formation of current sheets of electron scale takes place, contributing to the generation of magnetic turbulence. In this way whistler wave propagating through fully developed magnetic islands may provide a physical mechanism underlying the formation of electron scale current sheet.

  15. Polarization dependent formation of femtosecond laser-induced periodic surface structures near stepped features

    SciTech Connect

    Murphy, Ryan D.; Torralva, Ben; Adams, David P.; Yalisove, Steven M.

    2014-06-09

    Laser-induced periodic surface structures (LIPSS) are formed near 110 nm-tall Au microstructured edges on Si substrates after single-pulse femtosecond irradiation with a 150 fs pulse centered near a 780 nm wavelength. We investigate the contributions of Fresnel diffraction from step-edges and surface plasmon polariton (SPP) excitation to LIPSS formation on Au and Si surfaces. For certain laser polarization vector orientations, LIPSS formation is dominated by SPP excitation; however, when SPP excitation is minimized, Fresnel diffraction dominates. The LIPSS orientation and period distributions are shown to depend on which mechanism is activated. These results support previous observations of the laser polarization vector influencing LIPSS formation on bulk surfaces.

  16. Crystal structure of listeriolysin O reveals molecular details of oligomerization and pore formation

    NASA Astrophysics Data System (ADS)

    Köster, Stefan; van Pee, Katharina; Hudel, Martina; Leustik, Martin; Rhinow, Daniel; Kühlbrandt, Werner; Chakraborty, Trinad; Yildiz, Özkan

    2014-04-01

    Listeriolysin O (LLO) is an essential virulence factor of Listeria monocytogenes that causes listeriosis. Listeria monocytogenes owes its ability to live within cells to the pH- and temperature-dependent pore-forming activity of LLO, which is unique among cholesterol-dependent cytolysins. LLO enables the bacteria to cross the phagosomal membrane and is also involved in activation of cellular processes, including the modulation of gene expression or intracellular Ca2+ oscillations. Neither the pore-forming mechanism nor the mechanisms triggering the signalling processes in the host cell are known in detail. Here, we report the crystal structure of LLO, in which we identified regions important for oligomerization and pore formation. Mutants were characterized by determining their haemolytic and Ca2+ uptake activity. We analysed the pore formation of LLO and its variants on erythrocyte ghosts by electron microscopy and show that pore formation requires precise interface interactions during toxin oligomerization on the membrane.

  17. Crystal structure induced residue formation on 4H-SiC by reactive ion etching

    NASA Astrophysics Data System (ADS)

    Liu, Yi-hong; Sun, Yu-jun; Zhao, Gao-jie; Liao, Li-ming; Wang, Tao; Chen, Zhi-zhan

    2016-06-01

    The (000 1 ¯) C face of 4H-SiC wafer was etched by reactive ion etching in SF6/O2 plasma. The effect of etching parameters, such as work pressure, SF6:O2 ratio and etching time, on the residue formation were systematically investigated. The residue morphologies were observed by scanning electron microscopy and atomic force microscopy, respectively. The residues have spike shape and their facets are defined as { 1 1 ¯ 0 2 ¯ } crystal planes. They are formed at beginning of the etching and no new spikes are generated as prolonging etching time. Both work pressure and SF6:O2 ratio play significant role in the spike formation. The residues can be eliminated completely by increasing the SF6:O2 ratio and work pressure. On the basis of experimental results and of 4H-SiC crystal structure, the spike formation model is proposed.

  18. Formation of the molecular crystal structure during the vacuum sublimation of paracetamol

    NASA Astrophysics Data System (ADS)

    Belyaev, A. P.; Rubets, V. P.; Antipov, V. V.; Bordei, N. S.

    2015-04-01

    The results from structural and thermal studies on the formation of molecular crystals during the vacuum sublimation of paracetamol from its vapor phase are given. It is established that the vapor-crystal phase transition proceeds in a complicated way as the superposition of two phase transitions: a first-order phase transition with a change in density, and a second-order phase transition with a change in ordering. It is shown that the latter is a smeared phase transition that proceeds with the formation of a pretransitional phase that is irreversibly dissipated during phase transformation, leading to the formation of crystals of the rhombic syngony. Data from differential scanning calorimetry and X-ray diffraction analysis are presented along with microphotographs.

  19. Galaxy Structure as a Driver of the Star Formation Sequence Slope and Scatter

    NASA Astrophysics Data System (ADS)

    Whitaker, Katherine E.; 3D-HST Collaboration

    2016-01-01

    It is well established that (1) star-forming galaxies follow a relation between their star formation rate (SFR) and stellar mass (M*), the "star formation sequence," and (2) the SFRs of galaxies correlate with their structure, where star-forming galaxies are less concentrated than quiescent galaxies at fixed mass. In this talk, we consider whether the scatter and slope of the star formation sequence is correlated with systematic variations in the Sérsic indices, n, of galaxies across the SFR-M* plane. Using a mass-complete sample of 23,848 galaxies at 0.5 < z < 2.5 selected from the 3D-HST photometric catalogs, we find that the scatter of the star formation sequence is related in part to galaxy structure; the scatter due to variations in n at fixed mass for star-forming galaxies ranges from 0.14 ± 0.02 dex at z ˜ 2 to 0.30 ± 0.04 dex at z < 1. While the slope of the log(SFR)-log(M*) relation is of order unity for disk-like galaxies, galaxies with n > 2 (implying more dominant bulges) have significantly lower SFR/M* than the main ridgeline of the star formation sequence. These results suggest that bulges in massive z ˜ 2 galaxies are actively building up, where the stars in the central concentration are relatively young. At z < 1, the presence of older bulges within star-forming galaxies lowers global SFR/M*, decreasing the slope and contributing significantly to the scatter of the star formation sequence.

  20. Indole affects the formation of multicellular aggregate structures in Pantoea agglomerans YS19.

    PubMed

    Yu, Xuemei; Jiang, Jing; Liang, Chen; Zhang, Xiao; Wang, Jieru; Shen, Delong; Feng, Yongjun

    2016-01-01

    Pantoea agglomerans YS19 is an endophytic diazotrophic bacterium isolated from rice. As well as having the ability to form a biofilm, as do most bacteria, it is characterized by the formation of a unique multicellular aggregate structure called symplasmata. Indole is traditionally known as a metabolite of the amino acid tryptophan, which, however, has recently been shown to participate in various regulations of bacterial physiological processes, including stress resistance, quorum sensing and biofilm formation. Here, an indole signal was found to promote symplasmata formation, yet inhibit biofilm formation, indicating different regulatory pathways of indole in the construction of the two structures. However, symplasmata showed almost an equivalent stress-resistant capability, as compared with biofilms, for YS19 to confront acids, heavy metals (Cu(2+)), and UV treatments. Moreover, indole was tested to show a promoting effect on exopolysaccharides (EPS) production and an inhibition effect on the expression of an outer membrane protein OmpW. These results provide evidence for understanding the regulatory mechanisms of indole on such multicellular aggregates. PMID:26923129

  1. STAR FORMATION LAWS AND THRESHOLDS FROM INTERSTELLAR MEDIUM STRUCTURE AND TURBULENCE

    SciTech Connect

    Renaud, Florent; Kraljic, Katarina; Bournaud, Frederic

    2012-11-20

    We present an analytical model of the relation between the surface density of gas and star formation rate in galaxies and clouds, as a function of the presence of supersonic turbulence and the associated structure of the interstellar medium (ISM). The model predicts a power-law relation of index 3/2, flattened under the effects of stellar feedback at high densities or in very turbulent media, and a break at low surface densities when ISM turbulence becomes too weak to induce strong compression. This model explains the diversity of star formation laws and thresholds observed in nearby spirals and their resolved regions, the Small Magellanic Cloud, high-redshift disks and starbursting mergers, as well as Galactic molecular clouds. While other models have proposed interstellar dust content and molecule formation to be key ingredients to the observed variations of the star formation efficiency, we demonstrate instead that these variations can be explained by ISM turbulence and structure in various types of galaxies.

  2. Formation of Structured Water and Gas Hydrate by the Use of Xenon Gas in Vegetable Tissue

    NASA Astrophysics Data System (ADS)

    Ando, Hiroko; Suzuki, Toru; Kawagoe, Yoshinori; Makino, Yoshio; Oshita, Seiichi

    Freezing is a valuable technique for food preservation. However, vegetables are known to be softening remarkably after freezing and thawing process. It is expected to find alternative technique instead of freezing. Recently, the application of structured water and/or gas hydrate had been attempted to prolong the preservation of vegetable. In this study, the formation process of structure water and/or gas hydrate in pure water and carrot tissue was investigated by using NMR relaxation times, T1 and T2, of which applying condition was up to 0.4MPa and 0.8MPa at 5oC. Under the pressure of 0.4MPa, no gas hydrate was appeared, however, at 0.8MPa, formation of gas hydrate was recognized in both water and carrot tissue. Once the gas hydrate formation process in carrot tissue started, T1 and T2 increased remarkably. After that, as the gas hydrate developed, then T1 and T2 turned to decrease. Since this phenomenon was not observed in pure water, it is suggested that behavior of NMR relaxation time just after the formation of gas hydrate in carrot tissue may be peculiar to compartment system such as inter and intracellular spaces.

  3. Structural basis of human high-density lipoprotein formation and assembly at sub nanometer resolution.

    PubMed

    Sivashanmugam, Arun; Yang, Yunhuang; Murray, Victoria; McCullough, Christopher; Chen, Bin; Ren, Xuefeng; Li, Qianqian; Wang, Jianjun

    2008-01-01

    Human high-density lipoproteins (HDL) are protein/lipid particles of nanometer sizes. These nano particles are critical for transportation of the "bad cholesterol" from peripheral tissues back to the liver for clearance. An inverse correlation has been observed between the plasma HDL concentration and atherosclerosis. Furthermore, the HDL particle has also been utilized as a vehicle for drug delivery and for intracellular cell biology studies of membrane proteins. The structural basis of HDL formation and assembly, however, is poorly understood. Using high-resolution structural approaches, the formation and assembly of the HDL particle is being examined at atomic resolution, which is reviewed in this chapter. We will mainly focus on our own NMR studies of different apoAI conformations with a brief summary of previously published work by other laboratories. PMID:19195557

  4. Modeling the fusion of cylindrical bioink particles in post bioprinting structure formation

    NASA Astrophysics Data System (ADS)

    McCune, Matt; Shafiee, Ashkan; Forgacs, Gabor; Kosztin, Ioan

    2015-03-01

    Cellular Particle Dynamics (CPD) is an effective computational method to describe the shape evolution and biomechanical relaxation processes in multicellular systems. Thus, CPD is a useful tool to predict the outcome of post-printing structure formation in bioprinting. The predictive power of CPD has been demonstrated for multicellular systems composed of spherical bioink units. Experiments and computer simulations were related through an independently developed theoretical formalism based on continuum mechanics. Here we generalize the CPD formalism to (i) include cylindrical bioink particles often used in specific bioprinting applications, (ii) describe the more realistic experimental situation in which both the length and the volume of the cylindrical bioink units decrease during post-printing structure formation, and (iii) directly connect CPD simulations to the corresponding experiments without the need of the intermediate continuum theory inherently based on simplifying assumptions. Work supported by NSF [PHY-0957914]. Computer time provided by the University of Missouri Bioinformatics Consortium.

  5. Effect of the conditions of structure formation on the physicochemical properties of ozonated shungites

    NASA Astrophysics Data System (ADS)

    Emel'Yanova, G. I.; Gorlenko, L. E.; Rozhkova, N. N.; Rumyantseva, M. N.; Lunin, V. V.

    2010-08-01

    It was investigated the influence of ozone on the physicochemical properties of shungites (type 1) (75-98% C) from Nigozero and Chebolaksha deposits (Karelia) formed by hydrothermal (Nigozero) and high-temperature (Chebolaksha) processes. Ozonation was found to affect the specific surface and the total pore volume of shungites considerably. The pore size distribution pattern depends on the volume morphology (texture) of the sample. An increase in the temperature and pressure during the structure formation of shungite (Chebolaksha) led to a shift of the maximum on the distribution pattern towards the formation of mesopores. The size distribution of pores with the dominant contents of micro- and submesopores for both shungites correlated with the basic structural nanoelements of shungite carbon. The peculiarities of the ozonation of shungite nanocarbon found previously (the non-steady state vibrational kinetics of ozonation and the absence of carbon(II) oxide among the reaction products) were confirmed.

  6. [THROMBIN-MEDIATED EFFECTS OF BLOOD MICROPARTICLES ON FORMATION, STRUCTURE, AND STABILITY OF FIBRIN CLOTS].

    PubMed

    Nabiullina, R M; Mustafin, I G; Ataullakhanov, F I; Litvinov, R I; Zubairova, L D

    2015-07-01

    The effects of blood microparticles (MPs) on the dynamics of fibrin polymerization, clot structure and susceptibility to fibrinolysis were studied. Kinetics of fibrin polymerization, fibrinolysis, thrombin generation in platelet-free, microparticle-depleted and microparticle-depleted plasma replenished with cephalin, from healthy donors were analyzed in parallel. MPs have profound effects on all stages of fibrin formation, decrease its turbidity. All parameters obtained in the absence of MPs were recovered after reconstitution of phospholipids. Thrombin generation rates were reduced in the absence of MPs. In the presence of MPs the fibrin networks had less poro us structures with thinner fibers, while clots formed in the absence of MPs had larger pores and were built of thicker fibers. Clots formed in the presence of MPs were significantly more resistant to fibrinolysis. Results show that normally circulating MPs can support the formation of stable clots at the sites of vascular injury. PMID:26591054

  7. Indentation-induced formation of low-dimensional Si structures in KOH solution

    NASA Astrophysics Data System (ADS)

    Yang, Fuqian; Li, Ding

    2010-03-01

    Low-dimensional Si structures, including Si nanobelts and Si micropyramids, were formed on the surface of n-type silicon by microindentation and anisotropic etching in 30 wt% KOH solution at a temperature of 50 °C. The indentation was performed to create local plastic deformation and residual stresses. The residual stresses caused the formation of the Si nanobelts around the sites of indents on the surface of Si (1 1 1) and the Si micropyramids at the sites of indents on the surface of Si (1 0 0). The formation of the Si micropyramids was due to the local 'mask' created by the indentation and the residual stress around the indents. The residual hydrostatic stress at the tensile state increased the local etching rate, which resulted in a surface depression around the indents. The combination of indentation and wet etching process provides a maskless process to potentially produce low-dimensional Si structures in KOH solution at low temperatures.

  8. Kinetics of formation of holographic structure of a hologram mirror in dichromated gelatin

    NASA Astrophysics Data System (ADS)

    Kzuzhilin, Yu E.; Mel'nichenko, Yu. B.; Shilov, V. V.

    1991-02-01

    Optical spectrometry Xray diffraction and molecular light sea ttering were used to investigate the formation of holographic structure of a hologram mirx''or in a gelatin layer sensitized with ammo nium dichromate. It is shown that the intheed phase contrast of the holographic structure is formed due to rnicrophase separation o the system watergelatin-isopropanol into two polymerenrihed or sol ventenriched phases further polymer glass transition which results in the interruption of phase development and micropore formation caused by the removal of a solvent from the recording medium. Pore size distribution is determined by the density of crosslinks (mi tial and formed as a result of photochemical and dark reactions) in the bulk of the recording medium. t.

  9. Roles of hydrodynamic interactions in structure formation of soft matter: protein folding as an example

    NASA Astrophysics Data System (ADS)

    Tanaka, Hajime

    2005-08-01

    Soft matter usually contains a fluid as its component, but it is often treated as a minor component. This is primarily due to the fact that a fluid component does not play major roles in determining the static equilibrium properties in many cases. However, a fluid component can play a crucial role in the dynamic process of structure formation via long-range hydrodynamic interactions. Here we demonstrate a few examples of structure formation of soft matter, where hydrodynamic interactions drastically change the kinetic pathway. Using these examples as a guide, we consider how hydrodynamic interactions affect the kinetic process of protein folding. We speculate that hydrodynamic interactions play a key role in not only the selection of the kinetic pathway in the complex energy landscape, but also the selection of the final folded state itself.

  10. H5MD: A structured, efficient, and portable file format for molecular data

    NASA Astrophysics Data System (ADS)

    de Buyl, Pierre; Colberg, Peter H.; Höfling, Felix

    2014-06-01

    We propose a new file format named "H5MD" for storing molecular simulation data, such as trajectories of particle positions and velocities, along with thermodynamic observables that are monitored during the course of the simulation. H5MD files are HDF5 (Hierarchical Data Format) files with a specific hierarchy and naming scheme. Thus, H5MD inherits many benefits of HDF5, e.g., structured layout of multi-dimensional datasets, data compression, fast and parallel I/O, and portability across many programming languages and hardware platforms. H5MD files are self-contained, and foster the reproducibility of scientific data and the interchange of data between researchers using different simulation programs and analysis software. In addition, the H5MD specification can serve for other kinds of data (e.g. experimental data) and is extensible to supplemental data, or may be part of an enclosing file structure.

  11. Structure, Chirality, and Formation of Giant Icosahedral Fullerenes and Spherical Graphitic Onions

    SciTech Connect

    Terrones, Mauricio; Terrones, Guillermo ); Terrones, Humberto

    2001-12-01

    We describe the topology, structure, and stability of giant fullerenes exhibiting various symmetries (I, Ih, D2h, T). Our results demonstrate that it is also possible to create two new families of nested-chiral-icosahedral (I) fullerenes namely C260@ C560@ C980@ C1520@..and C140@ C380@ C740@ C1220@..., which exhibit interlayer separations of ca. 3.4. These chiral fullerenes are thought to possess non semiconducting properties. Finally, we study in detail the transformation of polyhedral graphitic particles into quasi-spherical nested giant fullerenes by reorganization of carbon atoms which result in the formation of additional pentagonal and heptagonal carbon rings. These spherical structures are metastable and we believe they could be formed if conditions during formation are extreme such as high energy electron irradiation. There is circumstantial experimental evidence for the presence of heptagonal rings within these spherical fullerenes.

  12. Colorimetric Method for Identifying Plant Essential Oil Components That Affect Biofilm Formation and Structure

    PubMed Central

    Niu, C.; Gilbert, E. S.

    2004-01-01

    The specific biofilm formation (SBF) assay, a technique based on crystal violet staining, was developed to locate plant essential oils and their components that affect biofilm formation. SBF analysis determined that cinnamon, cassia, and citronella oils differentially affected growth-normalized biofilm formation by Escherichia coli. Examination of the corresponding essential oil principal components by the SBF assay revealed that cinnamaldehyde decreased biofilm formation compared to biofilms grown in Luria-Bertani broth, eugenol did not result in a change, and citronellol increased the SBF. To evaluate these results, two microscopy-based assays were employed. First, confocal laser scanning microscopy (CLSM) was used to examine E. coli biofilms cultivated in flow cells, which were quantitatively analyzed by COMSTAT, an image analysis program. The overall trend for five parameters that characterize biofilm development corroborated the findings of the SBF assay. Second, the results of an assay measuring growth-normalized adhesion by direct microscopy concurred with the results of the SBF assay and CLSM imaging. Viability staining indicated that there was reduced toxicity of the essential oil components to cells in biofilms compared to the toxicity to planktonic cells but revealed morphological damage to E. coli after cinnamaldehyde exposure. Cinnamaldehyde also inhibited the swimming motility of E. coli. SBF analysis of three Pseudomonas species exposed to cinnamaldehyde, eugenol, or citronellol revealed diverse responses. The SBF assay could be useful as an initial step for finding plant essential oils and their components that affect biofilm formation and structure. PMID:15574886

  13. Local formation of a Heusler structure in CoFe-Al alloys

    NASA Astrophysics Data System (ADS)

    Wurmehl, S.; Jacobs, P. J.; Kohlhepp, J. T.; Swagten, H. J. M.; Koopmans, B.; Maat, S.; Carey, M. J.; Childress, J. R.

    2011-01-01

    We systematically study the changes in the local atomic environments of Co in CoFe-Al alloys as a function of Al content by means of nuclear magnetic resonance. We find that a Co2FeAl Heusler type structure is formed on a local scale. The observed formation of a highly spin-polarized Heusler compound may explain the improved magnetotransport properties in CoFe-Al based current-perpendicular-to-the-plane spin-valves.

  14. Role of "magic" numbers in structure formation in small silver nanoclusters

    NASA Astrophysics Data System (ADS)

    Redel', L. V.; Gafner, Yu. Ya.; Gafner, S. L.

    2015-10-01

    The molecular dynamics method with the modified tight-binding (TB-SMA) potential has been used to study thermal stability of the initial fcc phase in perfect silver clusters to 2 nm in diameter. Dimensional boundaries of nanoparticles, at which the internal atomic configuration changes upon heating, have been determined using the molecular dynamics simulation. It has been shown that the temperature factor can cause the transition from the initial fcc phase to other structural modifications, including those with pentagonal symmetry, in small Ag clusters. It has been demonstrated that "magic" numbers play an important role in the formation of the internal structure of silver clusters.

  15. [Formation of probabilistic structure of motor behavior in bottlenose dolphins in captivity].

    PubMed

    Chechina, O N; Kondrat'eva, N L

    2009-01-01

    A probabilistic structure of the motor behavior was analyzed in dolphin calves Tursiops truncatus in the prenatal period and adult dolphins in an oceanarium. Ethograms were recorded and subjected to a computer analysis. Ranking probabilities of transitions between behavioral acts revealed a highly determined sequence of operations underlying the newborn dolphins' behavior. The principle of formation of the variation ethologic structures providing a contact between a developing organism and the environment was determined. The results are discussed in terms of the concept of the informational brain-environment interaction. PMID:19947534

  16. Conformal Ni-silicide formation over three-dimensional device structures

    SciTech Connect

    Zhu Zhiwei; Zhang Shili; Gao Xindong; Kubart, Tomas; Zhang Zhibin; Wu Dongping

    2012-07-30

    This letter reports on conformal formation of ultrathin Ni-silicide films over a three-dimension structure relevant to the most advanced tri-gate transistor architecture. This is achieved by combining ionization of the sputtered Ni atoms with application of an appropriate bias to the Si substrate during the sputter-deposition of Ni films. In comparison, use of ordinary DC sputtering for Ni deposition results in thinner or less uniform silicide films on the vertical sidewalls than on the top surface of the three-dimensional structure. The roughened Si sidewall surface is ascribed to be responsible for a deteriorated thermal stability of the resultant silicide films.

  17. Low-temperature process of the formation of tubular and graphene carbon structures

    SciTech Connect

    Dubkov, S. V.; Gavrilov, S. A.; Gromov, D. G. Krasulin, G. A.

    2011-12-15

    The formation of carbon nanostructures by chemical vapor deposition enhanced by glow-discharge plasma is considered. The studies are conducted in the temperature range 300 to 700 Degree-Sign C. Dependences of the structure of the carbon deposit on the thickness of the Ni catalyst film and on the concentration of the carbon-containing component in the vapor phase are analyzed. The reproducible growth of arrays of homogeneous vertical nanotubes or graphene flakes is observed at a low temperature ({approx}350 Degree-Sign C). The electrical properties of the structures are studied.

  18. Spontaneous formation of complex structures made from elastic membranes in an aluminum-hydroxide-carbonate system

    NASA Astrophysics Data System (ADS)

    Kiehl, Micah; Kaminker, Vitaliy; Pantaleone, James; Nowak, Piotr; Dyonizy, Agnieszka; Maselko, Jerzy

    2015-06-01

    A popular playground for studying chemo-hydrodynamic patterns and instabilities is chemical gardens, also known as silicate gardens. In these systems, complex structures spontaneously form, driven by buoyant forces and either osmotic or mechanical pumps. Here, we report on systems that differ somewhat from classical chemical gardens in that the membranes are much more deformable and soluble. These properties lead to structures that self-construct and evolve in new ways. For example, they exhibit the formation of chemical balloons, a new growth mechanism for tubes, and also the homologous shrinking of these tubes. The stretching mechanism for the membranes is probably different than for other systems by involving membrane "self-healing." Other unusual properties are osmosis that sometimes occurs out of the structure and also small plumes that flow away from the structure, sometimes upwards, and sometimes downwards. Mathematical models are given that explain some of the observed phenomena.

  19. Chemical separation of primordial Li+ during structure formation caused by nanogauss magnetic field

    NASA Astrophysics Data System (ADS)

    Kusakabe, Motohiko; Kawasaki, Masahiro

    2015-01-01

    During the structure formation, charged and neutral chemical species may have separated from each other at the gravitational contraction in primordial magnetic field (PMF). A gradient in the PMF in a direction perpendicular to the field direction leads to the Lorentz force on the charged species. Resultantly, an ambipolar diffusion occurs, and charged species can move differently from neutral species, which collapses gravitationally during the structure formation. We assume a gravitational contraction of neutral matter in a spherically symmetric structure, and calculate fluid motions of charged and neutral species. It is shown that the charged fluid, i.e. proton, electron, and 7Li+, can significantly decouple from the neutral fluid depending on the field amplitude. The charged species can, therefore, escape from the gravitational collapse. We take the structure mass, the epoch of the gravitational collapse, and the comoving Lorenz force as parameters. We then identify a parameter region for an effective chemical separation. This type of chemical separation can reduce the abundance ratio of Li/H in early structures because of inefficient contraction of 7Li+ ion. Therefore, it may explain Li abundances of Galactic metal-poor stars which are smaller than the prediction in standard big bang nucleosynthesis model. Amplitudes of the PMFs are controlled by a magnetohydrodynamic turbulence. The upper limit on the field amplitude derived from the turbulence effect is close to the value required for the chemical separation.

  20. Formation of carbon nano- and micro-structures on C+1 irradiated copper surfaces

    NASA Astrophysics Data System (ADS)

    Ahmad, Shoaib

    2013-06-01

    A series of experiments has identified mechanisms of carbon nano- and micro-structure formation at room temperature, without catalyst and in the environment of immiscible metallic surroundings. The structures include threaded nano fibres, graphitic sheets and carbon onions. Copper as substrate was used due to its immiscibility with carbon. Energetic carbon ions (C+1) of 0.2-2.0 MeV irradiated Cu targets. Cu substrates, apertures and 3 mm dia TEM Cu grids were implanted with the carbon. We observed wide range of μm-size structures formed on Cu grids and along the edges of the irradiated apertures. These are shown to be threaded nano fibers (TNF) of few μm thicknesses with lengths varying from 10 to 3000 μm. Secondary electron microscopy (SEM) identifies the μm-size structures while Confocal microscopy was used to learn about the mechanisms by which C+1 irradiated Cu provides the growth environment. Huge carbon onions of diameters ranging from hundreds of nm to μm were observed in the as-grown and annealed samples. Transformations of the nanostructures were observed under prolonged electron irradiations of SEM and TEM. A mechanism for the formation of carbon nano- and micro-structures is proposed.

  1. Heat transfer and bubble formation on horizontal copper tubes with different diameters and roughness structures

    NASA Astrophysics Data System (ADS)

    Kotthoff, Stephan; Gorenflo, Dieter

    2009-05-01

    Heat transfer in flooded evaporators of the refrigeration, air conditioning or process industries is mainly enhanced by modifying the surface structure of evaporator tubes in the micro and/or macro range. To quantify the effect of such modifications, however, the influence of the basic roughness structure on the heated surface has to be separated. Starting from recent publications, experimental results of heat transfer and bubble formation from horizontal copper tubes with different outer diameters (8 or 25 mm) and roughness structures to various boiling liquids are analyzed in this paper to improve our knowledge of the specific events connected with the formation of bubbles at active nucleation sites and their effect on local heat transfer. It is shown that a single, standardized roughness parameter like the (integral) mean roughness height P a is not sufficient to explain the effect of the heating surface structure on nucleate boiling heat transfer. Instead, detailed information on characteristic roughness parameters of the heated surfaces is necessary for the analysis, making it possible to define the size and form of cavities included in the roughness structure and their positions on the surface. An analysis that aims in this direction is given in a separate contribution to this special issue by A. Luke, who prepared the surfaces and provided the basic data on the set of standardized roughness parameters, the probability distributions of which are used in this paper.

  2. Structural phase transitions in trigonal Selenium induce the formation of a disordered phase

    NASA Astrophysics Data System (ADS)

    Pal, Anirban; Gohil, Smita; Sengupta, Surajit; Poswal, H. K.; Sharma, Surinder M.; Ghosh, Shankar; Ayyub, Pushan

    2015-10-01

    Arguments based on the Mermin-Wagner theorem suggest that the quasi-1D trigonal phase of Se should be unstable against long wavelength perturbations. Consisting of parallel Se-Se chains, this essentially fragile solid undergoes a partial transition to a monoclinic structure (consisting of 8-membered rings) at low temperatures (≈50 K), and to a distorted trigonal phase at moderate pressures (≈3GPa). Experimental investigations on sub-millimeter-sized single crystals provide clear evidence that these transitions occur via a novel and counter-intuitive route. This involves the reversible formation of an intermediate, disordered structure that appears as a minority phase with increasing pressure as well as with decreasing temperature. The formation of the disordered state is indicated by: (a) a ‘Boson-peak’ that appears at low temperatures in the specific heat and resonance Raman data, and (b) a decrease in the intensity of Raman lines over a relatively narrow pressure range. We complement the experimental results with a phenomenological model that illustrates how a first order structural transition may lead to disorder. Interestingly, nanocrystals of trigonal Se do not undergo any structural transition in the parameter space studied; neither do they exhibit signs of disorder, further underlining the role of disorder in this type of structural transition.

  3. Spontaneous Formation of Surface Magnetic Structure from Large-scale Dynamo in Strongly Stratified Convection

    NASA Astrophysics Data System (ADS)

    Masada, Youhei; Sano, Takayoshi

    2016-05-01

    We report the first successful simulation of spontaneous formation of surface magnetic structures from a large-scale dynamo by strongly stratified thermal convection in Cartesian geometry. The large-scale dynamo observed in our strongly stratified model has physical properties similar to those in earlier weakly stratified convective dynamo simulations, indicating that the α 2-type mechanism is responsible for the dynamo. In addition to the large-scale dynamo, we find that large-scale structures of the vertical magnetic field are spontaneously formed in the convection zone (CZ) surface only in cases with a strongly stratified atmosphere. The organization of the vertical magnetic field proceeds in the upper CZ within tens of convective turnover time and band-like bipolar structures recurrently appear in the dynamo-saturated stage. We consider several candidates to be possibly be the origin of the surface magnetic structure formation, and then suggest the existence of an as-yet-unknown mechanism for the self-organization of the large-scale magnetic structure, which should be inherent in the strongly stratified convective atmosphere.

  4. Local structure of the metal-organic perovskite dimethylammonium manganese(ii) formate.

    PubMed

    Duncan, Helen D; Dove, Martin T; Keen, David A; Phillips, Anthony E

    2016-03-14

    We report total neutron scattering measurements on the metal-organic perovskite analogue dimethylammonium manganese(ii) formate, (CD3)2ND2[Mn(DCO2)3]. Reverse Monte Carlo modelling shows that, in both the disordered high-temperature and ordered low-temperature phases, the ammonium moiety forms substantially shorter hydrogen bonds (N...O = 2.4 Å and 2.6 Å) than are visible in the average crystal structures. These bonds result from a pincer-like motion of two adjacent formate ions about the dimethylammonium ion in such a way that the framework can adjust independently to the positions of nearest-neighbour dimethylammonium ions. At low temperatures the shortest hydrogen bond is less favourable, apparently because it involves a greater distortion of the framework. Furthermore, in the high-temperature phase, in addition to the three disordered nitrogen positions expected from the average crystal structure, there appear to be also smaller probability maxima between these positions, corresponding to orientations in which the dimethylammonium is hydrogen-bonded to the two oxygen atoms of a single formate ion. The spontaneous strain across the phase transition reveals a contraction of the framework about the dimethylammonium cation, continuing as the material is cooled below the transition temperature. These results provide direct evidence of the local atomic structure of the guest-framework hydrogen bonding, and in particular the distortions of the framework responsible for the phase transition in this system. PMID:26763144

  5. A model of social network formation under the impact of structural balance

    NASA Astrophysics Data System (ADS)

    Li, Pei; Cheng, Jiajun; Chen, Yingwen; Wang, Hui

    2016-03-01

    Social networks have attracted remarkable attention from both academic and industrial societies and it is of great importance to understand the formation of social networks. However, most existing research cannot be applied directly to investigate social networks, where relationships are heterogeneous and structural balance is a common phenomenon. In this paper, we take both positive and negative relationships into consideration and propose a model to characterize the process of social network formation under the impact of structural balance. In this model, a new node first establishes a link with an existing node and then tries to connect to each of the newly connected node’s neighbors. If a new link is established, the type of this link is determined by structural balance. Then we analyze the degree distribution of the generated network theoretically, and estimate the fractions of positive and negative links. All analysis results are verified by simulations. These results are of importance to understand the formation of social networks, and the model can be easily extended to consider more realistic situations.

  6. The link between galaxy structure and star formation across cosmic time

    NASA Astrophysics Data System (ADS)

    Fang, Jerome Joseph

    The processes that fuel and quench star formation in galaxies are expected to leave imprints on their structure. Moreover, these imprints can serve as signposts to identify galaxies at various stages of their evolution. In this dissertation, we describe our efforts to characterize changes in galaxy structure (1) as star formation is going out, (2) after star formation has ostensibly quenched, and (3) during active star formation, with the goal of elucidating the relevant processes that regulate star formation in each case. In Chapter 2, we use a local (z ˜ 0) sample of galaxies drawn from the Sloan Digital Sky Survey (SDSS) to investigate the first two cases. We find that, as galaxies quench, their outer stellar mass density profiles remain essentially constant. However, their inner stellar mass density (within 1 kpc) increases, even while galaxies are still star-forming, until it reaches a mass-dependent threshold, at which point quenching can occur. The existence of this threshold indicates that quenching is connected with processes that grow bulges. In Chapter 3, we then study the morphologies and color profiles of 19 z ˜ 0 early-type galaxies located in the green valley. Combining high-resolution Hubble ultraviolet images with SDSS optical photometry, we find that these objects harbor low-level star formation that is clearly detectable in the ultraviolet. Moreover, the recently formed stars are distributed in symmetric rings that often span the entire optical extent of the galaxy. The presence of an old underlying population in their outer parts suggests that star formation in these galaxies is either gradually fading out or possibly rejuvenated by smooth accretion from the intergalactic medium. Such galaxies comprise ≈13% of green valley galaxies of similar mass and color, and they may linger in the green valley for several Gyr. Finally, in Chapter 4, we focus on the evolution of star-forming galaxies since z = 2.5, leveraging the rich multi

  7. Formation of Asymmetrical Structured Silica Controlled by a Phase Separation Process and Implication for Biosilicification

    PubMed Central

    Shi, Jia-Yuan; Yao, Qi-Zhi; Li, Xi-Ming; Zhou, Gen-Tao; Fu, Sheng-Quan

    2013-01-01

    Biogenetic silica displays intricate patterns assembling from nano- to microsize level and interesting non-spherical structures differentiating in specific directions. Several model systems have been proposed to explain the formation of biosilica nanostructures. Of them, phase separation based on the physicochemical properties of organic amines was considered to be responsible for the pattern formation of biosilica. In this paper, using tetraethyl orthosilicate (TEOS, Si(OCH2CH3)4) as silica precursor, phospholipid (PL) and dodecylamine (DA) were introduced to initiate phase separation of organic components and influence silica precipitation. Morphology, structure and composition of the mineralized products were characterized using a range of techniques including field emission scanning electron microscopy (FESEM), transmission electron microscope (TEM), X-ray diffraction (XRD), thermogravimetric and differential thermal analysis (TG-DTA), infrared spectra (IR), and nitrogen physisorption. The results demonstrate that the phase separation process of the organic components leads to the formation of asymmetrically non-spherical silica structures, and the aspect ratios of the asymmetrical structures can be well controlled by varying the concentration of PL and DA. On the basis of the time-dependent experiments, a tentative mechanism is also proposed to illustrate the asymmetrical morphogenesis. Therefore, our results imply that in addition to explaining the hierarchical porous nanopatterning of biosilica, the phase separation process may also be responsible for the growth differentiation of siliceous structures in specific directions. Because organic amine (e.g., long-chair polyamines), phospholipids (e.g., silicalemma) and the phase separation process are associated with the biosilicification of diatoms, our results may provide a new insight into the mechanism of biosilicification. PMID:23585878

  8. Formation of asymmetrical structured silica controlled by a phase separation process and implication for biosilicification.

    PubMed

    Shi, Jia-Yuan; Yao, Qi-Zhi; Li, Xi-Ming; Zhou, Gen-Tao; Fu, Sheng-Quan

    2013-01-01

    Biogenetic silica displays intricate patterns assembling from nano- to microsize level and interesting non-spherical structures differentiating in specific directions. Several model systems have been proposed to explain the formation of biosilica nanostructures. Of them, phase separation based on the physicochemical properties of organic amines was considered to be responsible for the pattern formation of biosilica. In this paper, using tetraethyl orthosilicate (TEOS, Si(OCH2CH3)4) as silica precursor, phospholipid (PL) and dodecylamine (DA) were introduced to initiate phase separation of organic components and influence silica precipitation. Morphology, structure and composition of the mineralized products were characterized using a range of techniques including field emission scanning electron microscopy (FESEM), transmission electron microscope (TEM), X-ray diffraction (XRD), thermogravimetric and differential thermal analysis (TG-DTA), infrared spectra (IR), and nitrogen physisorption. The results demonstrate that the phase separation process of the organic components leads to the formation of asymmetrically non-spherical silica structures, and the aspect ratios of the asymmetrical structures can be well controlled by varying the concentration of PL and DA. On the basis of the time-dependent experiments, a tentative mechanism is also proposed to illustrate the asymmetrical morphogenesis. Therefore, our results imply that in addition to explaining the hierarchical porous nanopatterning of biosilica, the phase separation process may also be responsible for the growth differentiation of siliceous structures in specific directions. Because organic amine (e.g., long-chair polyamines), phospholipids (e.g., silicalemma) and the phase separation process are associated with the biosilicification of diatoms, our results may provide a new insight into the mechanism of biosilicification. PMID:23585878

  9. Formation of structures around HII regions: ionization feedback from massive stars

    NASA Astrophysics Data System (ADS)

    Tremblin, P.; Audit, E.; Minier, V.; Schmidt, W.; Schneider, N.

    2015-03-01

    We present a new model for the formation of dense clumps and pillars around HII regions based on shocks curvature at the interface between a HII region and a molecular cloud. UV radiation leads to the formation of an ionization front and of a shock ahead. The gas is compressed between them forming a dense shell at the interface. This shell may be curved due to initial interface or density modulation caused by the turbulence of the molecular cloud. Low curvature leads to instabilities in the shell that form dense clumps while sufficiently curved shells collapse on itself to form pillars. When turbulence is high compared to the ionized-gas pressure, bubbles of cold gas have sufficient kinetic energy to penetrate into the HII region and detach themselves from the parent cloud, forming cometary globules. Using computational simulations, we show that these new models are extremely efficient to form dense clumps and stable and growing elongated structures, pillars, in which star formation might occur (see Tremblin et al. 2012a). The inclusion of turbulence in the model shows its importance in the formation of cometary globules (see Tremblin et al. 2012b). Globally, the density enhancement in the simulations is of one or two orders of magnitude higher than the density enhancement of the classical ``collect and collapse`` scenario. The code used for the simulation is the HERACLES code, that comprises hydrodynamics with various equation of state, radiative transfer, gravity, cooling and heating. Our recent observations with Herschel (see Schneider et al. 2012a) and SOFIA (see Schneider et al. 2012b) and additional Spitzer data archives revealed many more of these structures in regions where OB stars have already formed such as the Rosette Nebula, Cygnus X, M16 and Vela, suggesting that the UV radiation from massive stars plays an important role in their formation. We present a first comparison between the simulations described above and recent observations of these regions.

  10. Geologic Observations and Numerical Modeling: A Combined Approach to Understanding Crater and Basin Formation and Structure

    NASA Astrophysics Data System (ADS)

    Potter, R. W. K.; Head, J. W., III

    2014-12-01

    Impact cratering is a fundamental geological process throughout the Solar System. The Moon is an ideal location to document the impact cratering process due to the number and excellent state of preservation of large craters and basins, and the wide range of geological, geophysical, topographic, mineralogic, remote sensing and returned sample data. Despite the number and excellent preservation state of many large complex craters and basins, their formation and the origin of their structural features and the stages in their evolution remain contentious. To more comprehensively document the final stage of lunar impact basin formation, we have compiled detailed topographic, geological and mineralogic maps of several type examples of peak-ring and multi-ring basins, including the Orientale basin. These data include the mineralogic characteristics of basin ring structures and assist in the interpretation of the target stratigraphy, and the depth of origin of basin rings. Data for the current structure of basins is compared to numerical model outputs of basin-forming impacts, which track formation to the conclusion of dynamic processes (2 to 3 hours after impact). We use the Orientale basin as an example and provide combined correlations and interpretations that assign rings to various stages in the numerical models, and compare these candidates to crustal stratigraphy, with the ultimate aim of producing a consistent model for large crater/basin formation. The shock physics code iSALE is used to numerically model the basin-scale impacts. Constitutive equations and equations of state for materials analogous to the lunar crust (gabbroic anorthosite) and mantle (dunite) are used. Aspects of the numerically-produced lunar basins (e.g., material distribution and accumulated stress) are compared and contrasted to remote observations and geological maps of the Orientale rings and geological units, including ejecta and impact melt deposits.

  11. Supramolecular structure formation of Langmuir-Blodgett films of comblike precursor and polyimide

    SciTech Connect

    Goloudina, S. I. Luchinin, V. V.; Rozanov, V. V.; Pasyuta, V. M.; Gofman, I. V.; Sklizkova, V. P.; Kudryavtsev, V. V.

    2013-03-15

    The surface structure of Langmuir-Blodgett films of a comblike polyimide precursor-a rigid-chain polyamic acid alkylamine salt bearing multichains of tertiary amine-and films of the corresponding polyimide were studied by atomic force microscopy (AFM). An analysis of the images of the surface of three-layer films revealed a domain structure. It was found that the Langmuir-Blodgett film formation of the precursor occurs as a result of the layer-by-layer deposition of two-dimensional domains (composed of polyamic acid salt molecules on the water surface) onto a substrate. The formation of domains in a monolayer is associated with the chemical structure of the precursor, to be more precise, with the rigidity of the main chain and the presence of closely spaced aliphatic side chains in the polymer chain, whose total cross-section area is close to the surface area of the projection onto the plane of the repeating unit of the main chain. Polyimide films inherit the domain structure of the precursor films; the inhomogeneity of the film thickness substantially decreases, whereas the domain size and character of their distribution in the film remain unchanged.

  12. Molecular description of the formation and structure of plasticized globular protein films.

    PubMed

    Lefèvre, Thierry; Subirade, Muriel; Pézolet, Michel

    2005-01-01

    To optimize the properties of plasticized globular proteins films, a clear comprehension of the structure and molecular events occurring during film formation is required. In this work, the structural organization of beta-lactoglobulin (beta-lg) films plasticized with diethyelene glycol are investigated for the first time during the entire film formation process by attenuated total reflectance and transmission infrared spectroscopy. The films are made by a common two-step procedure consisting of a first heat treatment (80 degrees C/30 min) followed by the casting of the film-forming solution for dehydration. Heating at 80 degrees C leads to the self-aggregation of the proteins with a conversion of regular secondary structures into antiparallel beta-sheets. The kinetics of the conformational conversion shows that approximately 10% of the amino acids are involved in beta-sheets after the first step. Dehydration induces a further aggregation, with approximately 46% of the amino acids involved in beta-sheets in the final film. Water evaporation results in the association of the aggregates formed during the heating step. The presence of the plasticizer during water removal is essential as it allows specific conformational rearrangements into extended beta-sheets and ordering of the polypeptide chains. This work underlines that the assembly of building blocks is common in beta-lg networks and it emphasizes the widespread occurrence of beta-structures in synthetic and natural protein networks. PMID:16283748

  13. Recrystallized Impact Glasses of the Onaping Formation and the Sudbury Igneous Complex, Sudbury Structure, Ontario, Canada

    NASA Technical Reports Server (NTRS)

    Dressler, B. O.; Weiser, T.; Brockmeyer, P.

    1996-01-01

    The origin of the Sudbury Structure and of the associated heterolithic breccias of the Onaping Formation and the Sudbury Igneous Complex have been controversial. While an impact origin of the structure has gained wide acceptance over the last 15 years, the origin of the recrystallized Onaping Formation glasses and of the igneous complex is still being debated. Recently the interpretation of the breccias of the Onaping Formation as suevitic fall-back impact breccias has been challenged. The igneous complex is interpreted either as a differentiated impact melt sheet or as a combination of an upper impact melt represented by the granophyre, and a lower, impact-triggered magmatic body consisting of the norite-sublayer formations. The Onaping Formation contains glasses as fluidal and nonfluidal fragments of various shapes and sizes. They are recrystallized, and our research indicates that they are petrographically heterogeneous and span a wide range of chemical compositions. These characteristics are not known from glasses of volcanic deposits. This suggests an origin by shock vitrification, an interpretation consistent with their association with numerous and varied country rock clasts that exhibit microscopic shock metamorphic features. The recrystallized glass fragments represent individual solid-state and liquid-state vitrified rocks or relatively small melt pods. The basal member lies beneath the Gray and Black members of the Onaping Formation and, where not metamorphic, has an igneous matrix. Igneous-textured melt bodies occur in the upper two members and above the Basal Member. A comparison of the chemical compositions of recrystallized glasses and of the matrices of the Basal Member and the melt bodies with the components and the bulk composition of the igneous complex is inconclusive as to the origin of the igneous complex. Basal Member matrix and Melt Bodies, on average, are chemically similar to the granophyre of the Sudbury Igneous Complex, suggesting that

  14. The formation of Population III stars and their effect on cosmological structure in the early universe

    NASA Astrophysics Data System (ADS)

    O'Shea, Brian William

    2005-11-01

    The first generation of stars to form in the universe have a profound impact on their environment. These stars are responsible for beginning the universe's transition from a "cosmic dark age" where no sources of visible light existed; to the bright universe seen today. Additionally, these stars were believed to be the first sources of all elements heavier than lithium, which strongly affected the ability of gas to cool and permanently changed how star formation occurred. In this dissertation I present results from numerical simulations of the formation of the first generation of stars to form in the universe ("Population III" stars) and their effects on later structure formation. I compare Enzo, the adaptive mesh refinement cosmology code used to perform all of the simulations in this work, to GADGET, a smoothed particle hydrodynamics cosmology code. Nearly identical results can be obtained when using two extremely different numerical methods, which helps to verify the correctness of both codes and strengthen the confidence of predictions made with these tools. I perform high dynamical range calculations of the formation of an ensemble of Population III stars, varying multiple simulation parameters, in a standard cold dark matter cosmology as well as with a soft ultraviolet background and in a generic warm dark matter cosmology. I find that the accretion rates of primordial protostars have been systematically overestimated by previously published work, which has profound implications for later structure formation and the reionization of the universe. Additionally, the presence of a soft ultraviolet background and warm dark matter serves to delay the onset of star formation. I propose limits on the possible mass of a warm dark matter particle. I also present results of simulations which demonstrate the effects of the HII regions and metal enrichment from Population III stars. It appears that HII regions from these stars may hasten the formation of later generations

  15. Formation of Multicomponent Star Structures at the Liquid/Solid Interface.

    PubMed

    Tahara, Kazukuni; Kaneko, Kyohei; Katayama, Keisuke; Itano, Shintaro; Nguyen, Chi Huan; Amorim, Deborah D D; De Feyter, Steven; Tobe, Yoshito

    2015-06-30

    To demonstrate key roles of multiple interactions between multiple components and multiple phases in the formation of an uncommon self-assembling pattern, we present here the construction of a porous hexagonal star (h-star) structure using a trigonal molecular building block at the liquid/solid interface. For this purpose, self-assembly of hexaalkoxy-substituted dehydrobenzo[12]annulene derivatives DBA-OCns was investigated at the tetradecane/graphite interface by means of scanning tunneling microscopy (STM). Monolayer structures were significantly influenced by coadsorbed tetradecane molecules depending on the alkyl chains length (C13-C16) of DBA-OCn. However, none of DBA-OCn molecules formed the expected trigonal complexes, indicating that an additional driving force is necessary for the formation of the trigonal complex and its assembly into the h-star structure. As a first approach, we employed the "guest induced structural change" for the formation of the h-star structure. In the presence of two guest molecules, nonsubstituted DBA and hexakis(phenylethynyl)benzene which fit the respective pores, an h-star structure was formed by DBA-OC15 at the tetradecane/graphite interface. Moreover, a tetradecane molecule was coadsorbed between a pair of alkyl chains of DBA-OC15, thereby blocking the interdigitation of the alkyl chain pairs. Therefore, the h-star structure results from the self-assembly of the four molecular components including the solvent molecule. The second approach is based on aggregation of perfluoroalkyl chains via fluorophilicity of DBA-F, in which the perfluoroalkyl groups are substituted at the end of three alkyl chains of DBA-OCn via p-phenylene linkers. A trigonal complex consisting of DBA-F and three tetradecane molecules formed an h-star structure, in which the perfluoroalkyl groups that orient into the alkane solution phase aggregated at the hexagonal pore via fluorophilicity. The present result provides useful insight into the design and

  16. Formation of spacing pattern and morphogenesis of chick feather buds is regulated by cytoskeletal structures.

    PubMed

    Kim, Jae-Young; Cho, Sung-Won; Song, Wu-Chul; Lee, Min-Jung; Cai, Jinglei; Ohk, Seung-Ho; Song, Hee-Kyung; Degan, Alexander; Jung, Han-Sung

    2005-06-01

    Chick feather buds develop sequentially in a hexagonal array. Each feather bud develops with anterior posterior polarity, which is thought to develop in response to signals derived from specialized regions of mesenchymal condensation and epithelial thickening. These developmental processes are performed by cellular mechanisms, such as cell proliferation and migration, which occur during chick feather bud development. In order to understand the mechanisms regulating the formation of mesenchymal condensation and their role in feather bud development, we explanted chick dorsal skin at stage HH29+ with cytochalasin D, which inhibits cytoskeletal formation. We show that the aggregation of mesenchymal cells can be prevented by cytochalasin D treatment in a concentration-dependent manner. Subsequently, cytochalasin D disrupts the spacing pattern and inhibits feather bud axis formation as well. In addition, expression patterns of Bmp-4 and Msx-2, key molecules for early feather bud development, were disturbed by cytochalasin D treatment. Our results fully indicate that both the cytoskeletal structure and cell activity via gene regulation are of fundamental importance in mesenchymal condensation leading to proper morphogenesis of feather bud and spacing pattern formation. PMID:16026546

  17. Biological carbon precursor to diagenetic siderite with spherical structures in iron formations.

    PubMed

    Köhler, Inga; Konhauser, Kurt O; Papineau, Dominic; Bekker, Andrey; Kappler, Andreas

    2013-01-01

    During deposition of Precambrian iron formation, the combined sedimentation of ferrihydrite and phytoplankton biomass should have facilitated Fe(III) reduction during diagenesis. However, the only evidence for this reaction in iron formations is the iron and carbon isotope values preserved in the authigenic ferrous iron-containing minerals. Here we show experimentally that spheroidal siderite, which is preserved in many iron formation and could have been precursor to rhombohedral or massive siderite, forms by reacting ferrihydrite with glucose (a proxy for microbial biomass) at pressure and temperature conditions typical of diagenesis (170 °C and 1.2 kbar). Depending on the abundance of siderite, we found that it is also possible to draw conclusions about the Fe(III):C ratio of the initial ferrihydrite-biomass sediment. Our results suggest that spherical to rhombohedral siderite structures in deep-water, Fe-oxide iron formation can be used as a biosignature for photoferrotrophy, whereas massive siderite reflects high cyanobacterial biomass loading in highly productive shallow-waters. PMID:23612282

  18. Structure and dynamics of poly(T) single-strand DNA: implications toward CPD formation.

    PubMed

    Johnson, Andrew T; Wiest, Olaf

    2007-12-27

    The formation of cyclobutane pyrimidine dimers between adjacent thymines by UV radiation is thought to be the first event in a cascade leading to skin cancer. Recent studies showed that thymine dimers are fully formed within 1 ps of UV irradiation, suggesting that the conformation at the moment of excitation is the determining factor in whether a given base pair dimerizes. MD simulations on the 50 ns time scale are used to study the populations of reactive conformers that exist at any given time in T18 single-strand DNA. Trajectory analysis shows that only a small percentage of the conformations fulfill distance and dihedral requirements for thymine dimerization, in line with the experimentally observed quantum yield of 3%. Plots of the pairwise interactions in the structures predict hot spots of DNA damage where dimerization in the ssT18 is predicted to be most favored. The importance of hairpin formation by intra-strand base pairing for distinguishing reactive and unreactive base pairs is discussed in detail. The data presented thus explain the structural origin of the results from the ultrafast studies of thymine dimer formation. PMID:18052367

  19. Structural basis for receptor recognition and pore formation of a zebrafish aerolysin-like protein.

    PubMed

    Jia, Ning; Liu, Nan; Cheng, Wang; Jiang, Yong-Liang; Sun, Hui; Chen, Lan-Lan; Peng, Junhui; Zhang, Yonghui; Ding, Yue-He; Zhang, Zhi-Hui; Wang, Xuejuan; Cai, Gang; Wang, Junfeng; Dong, Meng-Qiu; Zhang, Zhiyong; Wu, Hui; Wang, Hong-Wei; Chen, Yuxing; Zhou, Cong-Zhao

    2016-02-01

    Various aerolysin-like pore-forming proteins have been identified from bacteria to vertebrates. However, the mechanism of receptor recognition and/or pore formation of the eukaryotic members remains unknown. Here, we present the first crystal and electron microscopy structures of a vertebrate aerolysin-like protein from Danio rerio, termed Dln1, before and after pore formation. Each subunit of Dln1 dimer comprises a β-prism lectin module followed by an aerolysin module. Specific binding of the lectin module toward high-mannose glycans triggers drastic conformational changes of the aerolysin module in a pH-dependent manner, ultimately resulting in the formation of a membrane-bound octameric pore. Structural analyses combined with computational simulations and biochemical assays suggest a pore-forming process with an activation mechanism distinct from the previously characterized bacterial members. Moreover, Dln1 and its homologs are ubiquitously distributed in bony fishes and lamprey, suggesting a novel fish-specific defense molecule. PMID:26711430

  20. Formation of secondary structures in heat-resistant steels under sliding friction

    NASA Astrophysics Data System (ADS)

    Lad'yanov, V. I.; Goncharov, O. Yu.; Malenko, P. I.; Nikonova, R. M.; Gilmutdinov, F. Z.; Mokrushina, M. I.; Tereshkina, S. A.; Leonov, A. Yu.; Relmasira, K. J.

    2015-12-01

    The formation of secondary structures in nicotrated layers on surfaces of complex-alloy heatresistant 25Kh3M3NBTsA and 30KhN2MFA structural steels under the effect of sliding friction with resource lubrication has been studied using metallography, X-ray diffraction, X-ray photoelectron spectroscopy, and thermodynamic modeling. It has been found that, under friction, the nicotrated layer on the steels oxidizes to produce iron oxides, which is substantially less pronounced for 25Kh3M3NBTsA steel than for 30KhN2MFA steel. It has been shown using thermodynamic modeling that, under equilibrium conditions, the heating of both steels to a temperature of ~300°C leads to the formation of an internal-oxidation layer, which consists of FeO with MoO2, Cr2O3, and carbon impurities, a Fe3O4 interlayer with MoO2 and Cr2O3 impurities, and a top layer of Fe2O3 with Cr2O3 impurity. The heating of steels to a temperature of ~700°C leads to the formation of an internal-oxidation layer, which consists of FeO with MoO2 and carbon impurities, a Fe3O4 interlayer with MoO2 impurity, and a top layer of Cr2O3 with Fe2MnO4 and SiO2 impurities.

  1. Nanoscale self-assembly of starch: Phase relations, formation, and structure

    NASA Astrophysics Data System (ADS)

    Creek, John A.

    This project has been undertaken to develop a fundamental understanding of the spherulitic self-assembly of starch polymers from aqueous solution, both as a model for starch granule initiation in vivo and as a biologically-inspired material with applications in the food and pharmaceutical industries. Botanical starches were observed to form semi-crystalline spherulites from aqueous solution when cooled after a high temperature treatment, and the processes resulting in spherulite formation were investigated. Based on the influence of cooling rate on spherulite formation from a botanical starch, liquid-liquid demixing in competition with crystallization was proposed as the mechanism leading to spherulite formation (summarized in a hypothetical phase diagram). Study of amylose and amylopectin self-assembly demonstrated that the linear polymer plays the primary role in forming spherulites. As a result, the roles of degree of polymerization, concentration, and thermal processing conditions on amylose self-assembly were explored. Thermal properties, final system morphology, and crystalline allomorph were characterized. In all cases the experimental findings supported the proposed phase diagram. Finally, the crystalline nanostructure of the spherulites was probed using atomic force microscopy (AFM), revealing a seemingly universal level of structure in crystalline starch materials. This was compared to an existing model of crystallization for synthetic polymers involving a transitional liquid crystalline-like ordering---a comparison that makes sense in light of the known helical structure of starch.

  2. Electrochemistry of surfactant-doped polypyrrole film(I): Formation of columnar structure by electropolymerization

    SciTech Connect

    Naoi, Katsuhiko; Oura, Yasushi; Maeda, Michiko; Nakamura, Sadako

    1995-02-01

    Electroactive polypyrrole (PPy) films have been studied widely in the field of applied material science for high energy/power storage applications. Perpendicularly oriented columnar structure was obtained for electropolymerized polypyrrole films formed from micellar solution of anionic surfactants. The surfactants used as dopants were a class of anionic surfactant, namely, Na salts of dodecyl sulfate (SDS) and dodecylbenzene sulfonate (SDBS). The formation process of polypyrrole films on electrode surfaces was studied with in situ atomic force microscopy (AFM) and electrochemical quartz crystal microbalance (EQCM) methods to monitor the structure of the grown polymers. In EQCM measurement, the frequency shift ({Delta}f) and the resonance resistance ({Delta}R) of the quartz crystal electrode were obtained simultaneously. An abrupt increase in {Delta}R was observed for both PPy/DS and PPy/DBS films at about 60--100mC/cm{sup 2}. Such a drastic change in {Delta}R, which may be associated with the emergence of the viscoelastic properties of the films, could be explained by the formation of columnar structure. In situ AFM observation clearly indicated that such a structure started to form around these critical charges. The cyclic voltammograms for the PPy/DS and PPy/DBS{sup {minus}} films showed sharp redox couples observed around {minus}0.5 to 0.6 V. The diffusion rate of cations for the resulting films was studied with ac impedance measurement as a function of the concentration of surfactant dopants. As the PPy film was prepared in higher concentration of the surfactant dopant, where the micelles are formed in solution, the resulting film showed a considerably higher (ca. 3 orders of magnitude) diffusion coefficient compared to ordinary PPy films so far reported. Such an enhanced diffusivity of ions could be attributed to a special formation process of polypyrrole in micelle solution: the mechanism is discussed here.

  3. Formylglycinamide Ribonucleotide Amidotransferase from Thermotoga maritima: Structural Insights into Complex Formation

    SciTech Connect

    Morar, Mariya; Hoskins, Aaron A.; Stubbe, JoAnne; Ealick, Steven E.

    2008-10-02

    In the fourth step of the purine biosynthetic pathway, formyl glycinamide ribonucleotide (FGAR) amidotransferase, also known as PurL, catalyzes the conversion of FGAR, ATP, and glutamine to formyl glycinamidine ribonucleotide (FGAM), ADP, P{sub i}, and glutamate. Two forms of PurL have been characterized, large and small. Large PurL, present in most Gram-negative bacteria and eukaryotes, consists of a single polypeptide chain and contains three major domains: the N-terminal domain, the FGAM synthetase domain, and the glutaminase domain, with a putative ammonia channel located between the active sites of the latter two. Small PurL, present in Gram-positive bacteria and archaea, is structurally homologous to the FGAM synthetase domain of large PurL, and forms a complex with two additional gene products, PurQ and PurS. The structure of the PurS dimer is homologous with the N-terminal domain of large PurL, while PurQ, whose structure has not been reported, contains the glutaminase activity. In Bacillus subtilis, the formation of the PurLQS complex is dependent on glutamine and ADP and has been demonstrated by size-exclusion chromatography. In this work, a structure of the PurLQS complex from Thermotoga maritima is described revealing a 2:1:1 stoichiometry of PurS:Q:L, respectively. The conformational changes observed in TmPurL upon complex formation elucidate the mechanism of metabolite-mediated recruitment of PurQ and PurS. The flexibility of the PurS dimer is proposed to play a role in the activation of the complex and the formation of the ammonia channel. A potential path for the ammonia channel is identified.

  4. Structures in material transference and vitelline envelope formation in Betta splendens follicles.

    PubMed

    Genta, H D

    1996-01-01

    Structures were found by transmission electron microscopy, they were located within follicular cells and the oocyte, and in the interspace between them in follicles of the teleost fish Betta splendens. Some structures with features characteristic or lamellar bodies were found in small follicles. The possible role of these structures in the formation of the vitelline envelope as well as in the material transference is discussed. Vacuoles, vesticles and particles intensely stained were found in the microvilli and the cortical cytoplasm of the oocyte at the onset of vitellogenesis. These results suggest that different substances present in the cellular components of the follicle might be transferred from cell to cell through the extracellular space and through the prolongations that cross the extracellular space. PMID:9369035

  5. Using laser radiation for the formation of capillary structure in flat ceramic heat pipes

    NASA Astrophysics Data System (ADS)

    Nikolaenko, Yu. E.; Rotner, S. M.

    2012-12-01

    The possibility of using laser radiation with a wavelength of 1.064 μm for the formation of a capillary structure in the evaporation zone of flat ceramic heat pipes has been experimentally confirmed. Using a technological regime with established parameters, a capillary structure was formed in AlN and Al2O3 ceramic plates with a thickness of 1-2 mm and lateral dimensions of 48 × 60 and 100 × 100 mm, which ensured absorption of heat-transfer fluids (distilled water, ethyl alcohol, acetone) to a height of 100 mm against gravity forces. The thermal resistance of flat ceramic heat pipes with this capillary structure reaches 0.07°C/W, which is quite acceptable for their use as heat sinks in systems of thermal regime control for electronic components and as heat exchange plates for large-size thermoelectric conversion units.

  6. Self-assembly structure formation during the digestion of human breast milk.

    PubMed

    Salentinig, Stefan; Phan, Stephanie; Hawley, Adrian; Boyd, Ben J

    2015-01-26

    An infant's complete diet, human breast milk, is the basis for its survival and development. It contains water-soluble and poorly water-soluble bioactive components, metabolic messages, and energy, all of which are made bioavailable during the digestion process in the infant's gastrointestinal tract. Reported is the first discovery of highly geometrically organized structures formed during the digestion of human breast milk under simulated in vivo conditions using small-angle X-ray scattering and cryogenic transmission electron microscopy. Time of digestion, pH, and bile salt concentration were found to have symbiotic effects gradually tuning the oil-based environment inside the breast milk globules to more water-like structures with high internal surface area. The structure formation is necessarily linked to its function as carriers for poorly water-soluble molecules in the digestive tract of the infant. PMID:25482918

  7. Relationship between chain collapse and secondary structure formation in a partially folded protein.

    PubMed

    Nakagawa, Kanako; Yamada, Yoshiteru; Matsumura, Yoshitaka; Tsukamoto, Seiichi; Yamamoto-Ohtomo, Mio; Ohtomo, Hideaki; Okabe, Takahiro; Fujiwara, Kazuo; Ikeguchi, Masamichi

    2014-06-01

    Chain collapse and secondary structure formation are frequently observed during the early stages of protein folding. Is the chain collapse brought about by interactions between secondary structure units or is it due to polymer behavior in a poor solvent (coil-globule transition)? To answer this question, we measured small-angle X-ray scattering for a series of β-lactoglobulin mutants under conditions in which they assume a partially folded state analogous to the folding intermediates. Mutants that were designed to disrupt the secondary structure units showed the gyration radii similar to that of the wild type protein, indicating that chain collapse is due to coil-globule transitions. PMID:25100622

  8. Formation, Structure and Properties of Amorphous Carbon Char from Polymer Materials in Extreme Atmospheric Reentry Environments

    NASA Technical Reports Server (NTRS)

    Lawson, John W.

    2010-01-01

    Amorphous carbonaceous char produced from the pyrolysis of polymer solids has many desirable properties for ablative heat shields for space vehicles. Molecular dynamics simulations are presented to study the transformation of the local atomic structure from virgin polymer to a dense, disordered char [1]. Release of polymer hydrogen is found to be critical to allow the system to collapse into a highly coordinated char structure. Mechanisms of the char formation process and the morphology of the resulting structures are elucidated. Thermal conductivity and mechanical response of the resulting char are evaluated [2]. During reenty, the optical response and oxidative reactivity of char are also important properties. Results of ab initio computations of char optical functions [3] and char reactivity [4] are also presented.

  9. Thermodynamics of Complex Sulfide Inclusion Formation in Ca-Treated Al-Killed Structural Steel

    NASA Astrophysics Data System (ADS)

    Guo, Yin-tao; He, Sheng-ping; Chen, Gu-jun; Wang, Qian

    2016-08-01

    Controlling the morphology of the sulfide inclusion is of vital importance in enhancing the properties of structural steel. Long strip-shaped sulfides in hot-rolled steel can spherize when, instead of the inclusion of pure single-phase MnS, the guest is a complex sulfide, such as an oxide-sulfide duplex and a solid-solution sulfide particle. In this study, the inclusions in a commercial rolled structural steel were investigated. Spherical and elongated oxide-sulfide duplex as well as single-phase (Mn,Ca)S solid solution inclusions were observed in the steel. A thermodynamic equilibrium between the oxide and sulfide inclusions was proposed to understand the oxide-sulfide duplex inclusion formation. Based on the equilibrium solidification principle, thermodynamic discussions on inclusion precipitation during the solidification process were performed for both general and resulfurized structural steel. The predicted results of the present study agreed well with the experimental ones.

  10. Thermodynamics of Complex Sulfide Inclusion Formation in Ca-Treated Al-Killed Structural Steel

    NASA Astrophysics Data System (ADS)

    Guo, Yin-tao; He, Sheng-ping; Chen, Gu-jun; Wang, Qian

    2016-05-01

    Controlling the morphology of the sulfide inclusion is of vital importance in enhancing the properties of structural steel. Long strip-shaped sulfides in hot-rolled steel can spherize when, instead of the inclusion of pure single-phase MnS, the guest is a complex sulfide, such as an oxide-sulfide duplex and a solid-solution sulfide particle. In this study, the inclusions in a commercial rolled structural steel were investigated. Spherical and elongated oxide-sulfide duplex as well as single-phase (Mn,Ca)S solid solution inclusions were observed in the steel. A thermodynamic equilibrium between the oxide and sulfide inclusions was proposed to understand the oxide-sulfide duplex inclusion formation. Based on the equilibrium solidification principle, thermodynamic discussions on inclusion precipitation during the solidification process were performed for both general and resulfurized structural steel. The predicted results of the present study agreed well with the experimental ones.

  11. Formation of Ordered Biomolecular Structures by the Self-assembly of Short Peptides

    PubMed Central

    Yuran, Sivan; Reches, Meital

    2013-01-01

    In nature, complex functional structures are formed by the self-assembly of biomolecules under mild conditions. Understanding the forces that control self-assembly and mimicking this process in vitro will bring about major advances in the areas of materials science and nanotechnology. Among the available biological building blocks, peptides have several advantages as they present substantial diversity, their synthesis in large scale is straightforward, and they can easily be modified with biological and chemical entities1,2. Several classes of designed peptides such as cyclic peptides, amphiphile peptides and peptide-conjugates self-assemble into ordered structures in solution. Homoaromatic dipeptides, are a class of short self-assembled peptides that contain all the molecular information needed to form ordered structures such as nanotubes, spheres and fibrils3-8. A large variety of these peptides is commercially available. This paper presents a procedure that leads to the formation of ordered structures by the self-assembly of homoaromatic peptides. The protocol requires only commercial reagents and basic laboratory equipment. In addition, the paper describes some of the methods available for the characterization of peptide-based assemblies. These methods include electron and atomic force microscopy and Fourier-Transform Infrared Spectroscopy (FT-IR). Moreover, the manuscript demonstrates the blending of peptides (coassembly) and the formation of a "beads on a string"-like structure by this process.9 The protocols presented here can be adapted to other classes of peptides or biological building blocks and can potentially lead to the discovery of new peptide-based structures and to better control of their assembly. PMID:24301009

  12. Formation of ordered biomolecular structures by the self-assembly of short peptides.

    PubMed

    Yuran, Sivan; Reches, Meital

    2013-01-01

    In nature, complex functional structures are formed by the self-assembly of biomolecules under mild conditions. Understanding the forces that control self-assembly and mimicking this process in vitro will bring about major advances in the areas of materials science and nanotechnology. Among the available biological building blocks, peptides have several advantages as they present substantial diversity, their synthesis in large scale is straightforward, and they can easily be modified with biological and chemical entities(1,2). Several classes of designed peptides such as cyclic peptides, amphiphile peptides and peptide-conjugates self-assemble into ordered structures in solution. Homoaromatic dipeptides, are a class of short self-assembled peptides that contain all the molecular information needed to form ordered structures such as nanotubes, spheres and fibrils(3-8). A large variety of these peptides is commercially available. This paper presents a procedure that leads to the formation of ordered structures by the self-assembly of homoaromatic peptides. The protocol requires only commercial reagents and basic laboratory equipment. In addition, the paper describes some of the methods available for the characterization of peptide-based assemblies. These methods include electron and atomic force microscopy and Fourier-Transform Infrared Spectroscopy (FT-IR). Moreover, the manuscript demonstrates the blending of peptides (coassembly) and the formation of a "beads on a string"-like structure by this process.(9) The protocols presented here can be adapted to other classes of peptides or biological building blocks and can potentially lead to the discovery of new peptide-based structures and to better control of their assembly. PMID:24301009

  13. Influence of crystal orientation on the formation of femtosecond laser-induced periodic surface structures and lattice defects accumulation

    SciTech Connect

    Sedao, Xxx; Garrelie, Florence Colombier, Jean-Philippe; Reynaud, Stéphanie; Pigeon, Florent; Maurice, Claire; Quey, Romain

    2014-04-28

    The influence of crystal orientation on the formation of femtosecond laser-induced periodic surface structures (LIPSS) has been investigated on a polycrystalline nickel sample. Electron Backscatter Diffraction characterization has been exploited to provide structural information within the laser spot on irradiated samples to determine the dependence of LIPSS formation and lattice defects (stacking faults, twins, dislocations) upon the crystal orientation. Significant differences are observed at low-to-medium number of laser pulses, outstandingly for (111)-oriented surface which favors lattice defects formation rather than LIPSS formation.

  14. Inert-Gas Condensed Co-W Nanoclusters: Formation, Structure and Magnetic Properties

    NASA Astrophysics Data System (ADS)

    Golkar-Fard, Farhad Reza

    Rare-earth permanent magnets are used extensively in numerous technical applications, e.g. wind turbines, audio speakers, and hybrid/electric vehicles. The demand and production of rare-earth permanent magnets in the world has in the past decades increased significantly. However, the decrease in export of rare-earth elements from China in recent time has led to a renewed interest in developing rare-earth free permanent magnets. Elements such as Fe and Co have potential, due to their high magnetization, to be used as hosts in rare-earth free permanent magnets but a major challenge is to increase their magnetocrystalline anisotropy constant, K1, which largely drives the coercivity. Theoretical calculations indicate that dissolving the 5d transition metal W in Fe or Co increases the magnetocrystalline anisotropy. The challenge, though, is in creating a solid solution in hcp Co or bcc Fe, which under equilibrium conditions have negligible solubility. In this dissertation, the formation, structure, and magnetic properties of sub-10 nm Co-W clusters with W content ranging from 4 to 24 atomic percent were studied. Co-W alloy clusters with extended solubility of W in hcp Co were produced by inert gas condensation. The different processing conditions such as the cooling scheme and sputtering power were found to control the structural state of the as-deposited Co-W clusters. For clusters formed in the water-cooled formation chamber, the mean size and the fraction crystalline clusters increased with increasing power, while the fraction of crystalline clusters formed in the liquid nitrogen-cooled formation chamber was not as affected by the sputtering power. For the low W content clusters, the structural characterization revealed clusters predominantly single crystalline hcp Co(W) structure, a significant extension of W solubility when compared to the equilibrium solubility, but fcc Co(W) and Co3W structures were observed in very small and large clusters, respectively. At high

  15. 3D structure and formation of hydrothermal vent complexes in the Møre Basin

    NASA Astrophysics Data System (ADS)

    Kjoberg, Sigurd; Schmiedel, Tobias; Planke, Sverre; Svensen, Henrik H.; Galland, Oliver; Jerram, Dougal A.

    2016-04-01

    The mid-Norwegian Møre margin is regarded as a type example of a volcanic rifted margin, with its formation usually related to the influence of the Icelandic plume activity. The area is characterized by the presence of voluminous basaltic complexes such as extrusive lava sequences, intrusive sills and dikes, and hydrothermal vent complexes within the Møre Basin. Emplacement of hydrothermal vent complexes is accommodated by deformation of the host rock. The edges of igneous intrusions mobilize fluids by heat transfer into the sedimentary host rock (aureoles). Fluid expansion may lead to formation of piercing structures due to upward fluid migration. Hydrothermal vent complexes induce bending of overlying strata, leading to the formation of dome structures at the paleo-surface. These dome structures are important as they indicate the accommodation created for the intrusions by deformation of the upper layers of the stratigraphy, and may form important structures in many volcanic margins. Both the morphological characteristics of the upper part and the underlying feeder-structure (conduit-zone) can be imaged and studied on 3D seismic data. Seismic data from the Tulipan prospect located in the western part of the Møre Basin have been used in this study. The investigation focusses on (1) the vent complex geometries, (2) the induced surface deformation patterns, (3) the relation to the intrusions (heat source), as well as (4) the emplacement depth of the hydrothermal vent complexes. We approach this by doing a detailed 3D seismic interpretation of the Tulipan seismic data cube. The complexes formed during the initial Eocene, and are believed to be a key factor behind the rapid warming event called the Paleocene-Eocene thermal maximum (PETM). The newly derived understanding of age, eruptive deposits, and formation of hydrothermal vent complexes in the Møre Basin enables us to contribute to the general understanding of the igneous plumbing system in volcanic basins and

  16. A structural view on the mechanism of the ribosome-catalyzed peptide bond formation

    PubMed Central

    Simonović, Miljan; Steitz, Thomas A.

    2009-01-01

    The ribosome is a large ribonucleoprotein particle that translates zgenetic information encoded in mRNA into specific proteins. Its highly conserved active site, the peptidyl-transferase center (PTC), is located on the large (50S) ribosomal subunit and is comprised solely of rRNA, which makes the ribosome the only natural ribozyme with polymerase activity. The last decade witnessed a rapid accumulation of atomic-resolution structural data on both ribosomal subunits as well as on the entire ribosome. This has allowed studies on the mechanism of peptide bond formation at a level of detail that surpasses that for the classical protein enzymes. A current understanding of the mechanism of the ribosome-catalyzed peptide bond formation is the focus of this review. Implications on the mechanism of peptide release are discussed as well. PMID:19595805

  17. Structure and formation conditions of paleogene coal-bearing deposits of Western Kamchatka

    SciTech Connect

    Polyanskii, B.V.

    1995-03-01

    Peculiarities of lithofacial composition and cyclic structure of the Lower-Middle Paleogene volcano-terrigenous coal-bearing deposits of the Western Kamchatka marginal sedimentary basin are discussed. Unstable sedimentation under delta progradation environments is shown to be prevalent. Such conditions were favorable for coal formation of deltaic and alluvial-estuarine types. Against a background of the marine-coastal high rate (avalanche) sedimentation, short-lived conditions for dominantly allochthonous coal formation in the environment of humid, warm temperature climate and high changeable sedimentation rates were distinguished. The clastic material in the basin originates from two provenances, represented by Pre-Paleogene, mainly Cretaceous rocks. The Central Range supplied mainly coarse-grained graywacke material. The western continental denudation areas, consisting of sedimentary and igneous rocks (including granites), supplied fine-grained terrigenous graywacke-arkosic material.

  18. Influence of dendrimer's structure on its activity against amyloid fibril formation

    SciTech Connect

    Klajnert, B. . E-mail: aklajn@biol.uni.lodz.pl; Cortijo-Arellano, M.; Cladera, J.; Bryszewska, M.

    2006-06-23

    Inhibition of fibril assembly is a potential therapeutic strategy in neurodegenerative disorders such as prion and Alzheimer's diseases. Highly branched, globular polymers-dendrimers-are novel promising inhibitors of fibril formation. In this study, the effect of polyamidoamine (PAMAM) dendrimers (generations 3rd, 4th, and 5th) on amyloid aggregation of the prion peptide PrP 185-208 and the Alzheimer's peptide A{beta} 1-28 was examined. Amyloid fibrils were produced in vitro and their formation was monitored using the dye thioflavin T (ThT). Fluorescence studies were complemented with electron microscopy. The results show that the higher the dendrimer generation, the larger the degree of inhibition of the amyloid aggregation process and the more effective are dendrimers in disrupting the already existing fibrils. A hypothesis on dendrimer-peptide interaction mechanism is presented based on the dendrimers' molecular structure.

  19. Predictive modeling of multicellular structure formation by using Cellular Particle Dynamics simulations

    NASA Astrophysics Data System (ADS)

    McCune, Matthew; Shafiee, Ashkan; Forgacs, Gabor; Kosztin, Ioan

    2014-03-01

    Cellular Particle Dynamics (CPD) is an effective computational method for describing and predicting the time evolution of biomechanical relaxation processes of multicellular systems. A typical example is the fusion of spheroidal bioink particles during post bioprinting structure formation. In CPD cells are modeled as an ensemble of cellular particles (CPs) that interact via short-range contact interactions, characterized by an attractive (adhesive interaction) and a repulsive (excluded volume interaction) component. The time evolution of the spatial conformation of the multicellular system is determined by following the trajectories of all CPs through integration of their equations of motion. CPD was successfully applied to describe and predict the fusion of 3D tissue construct involving identical spherical aggregates. Here, we demonstrate that CPD can also predict tissue formation involving uneven spherical aggregates whose volumes decrease during the fusion process. Work supported by NSF [PHY-0957914]. Computer time provided by the University of Missouri Bioinformatics Consortium.

  20. The Effects of Gravity on Combustion and Structure Formation During Combustion Synthesis in Gasless Systems

    NASA Technical Reports Server (NTRS)

    Varma, Arvind; Mukasyan, Alexander; Pelekh, Aleksey

    1997-01-01

    There have been relatively few publications examining the role of gravity during combustion synthesis (CS), mostly involving thermite systems. The main goal of this research was to study the influence of gravity on the combustion characteristics of heterogeneous gasless systems. In addition, some aspects of microstructure formation processes which occur during gasless CS were also studied. Four directions for experimental investigation have been explored: (1) the influence of gravity force on the characteristic features of heterogeneous combustion wave propagation (average velocity, instantaneous velocities, shape of combustion front); (2) the combustion of highly porous mixtures (with porosity greater than that for loose powders), which cannot be obtained in normal gravity; (3) the effect of gravity on sample expansion during combustion, in order to produce highly porous materials under microgravity conditions; and (4) the effect of gravity on the structure formation mechanism during the combustion synthesis of poreless composite materials.

  1. SrF{sub 2} hierarchical flowerlike structures: Solvothermal synthesis, formation mechanism, and optical properties

    SciTech Connect

    Quan Zewei; Yang Dongmei; Li Chunxia; Yang Piaoping; Cheng, Ziyong; Yang Jun; Kong Deyan; Lin Jun

    2009-05-06

    We present a solvothermal route to the synthesis of SrF{sub 2} hierarchical flowerlike structures based on thermal decomposition of single source precursor (SSP) of strontium trifluoroacetate in benzylamine solvent. These flowerlike superstructures are actually composed of numerous aggregated nanoplates, and the growth process involves the initial formation of spherical nanoparticles and subsequent transformation into nanoplates, which aggregated together to form microdisks and finally flowerlike superstructures. The results demonstrate the important role of benzylamine in the formation of well-defined SrF{sub 2} superstructures, not only providing size and shape control to form nanoplates but also contributing to the self-assembly behavior of nanoplates to build into flower-like superstructures. Additionally, the photoluminescence properties of the obtained SrF{sub 2} superstructures are studied.

  2. The role of Bni5 in the regulation of septin higher-order structure formation.

    PubMed

    Patasi, Csilla; Godočíková, Jana; Michlíková, Soňa; Nie, Yan; Káčeriková, Radka; Kválová, Katarína; Raunser, Stefan; Farkašovský, Marian

    2015-12-01

    Septins are a family of conserved cytoskeletal proteins playing an essential role in cytokinesis and in many other cellular processes in fungi and animals. In budding yeast Saccharomyces cerevisiae, septins form filaments and higher-order structures at the mother-bud neck depending on the particular stage of the cell cycle. Septin structures at the division plane serve as a scaffold to recruit the proteins required for particular cellular processes. The formation and localization of septin structures at particular stages of the cell cycle also determine functionality of these proteins. Many different proteins participate in regulating septin assembly. Despite recent developments, we are only beginning to understand how specific protein-protein interactions lead to changes in the polymerization of septin filaments or assembly of higher-order structures. Here, using fluorescence and electron microscopy, we found that Bni5 crosslinks septin filaments into networks by bridging pairs or multiple filaments, forming structures that resemble railways. Furthermore, Bni5 appears to be a substrate of the Elm1 protein kinase in vitro. Moreover, Elm1 induces in the presence of Bni5 disassembly of long septin filaments, suggesting that these proteins may participate in the hourglass to double ring transition. This work gives new insight into the regulatory role of Bni5 in the structural changes of septins. PMID:26351911

  3. The Deep Structure of Lunar Basins: Clues to the Understanding of Basin Formation and Modification

    NASA Technical Reports Server (NTRS)

    Bratt, S. R.; Solomon, S. C.; Head, J. W.; Thurber, C. H.

    1985-01-01

    Basin excavation has played a major role in shaping the surface and subsurface of the Moon. Though photogeologic observations provide estimates for the present volumes of lunar impact basins and their ejecta deposits, there is not sufficient information to describe completely either the geometry of the basins at the time of impact or their modification with time. Determination of the structure of the crust and upper mantle beneath large basins can provide important insight into the thermal and mechanical processes associated with basin formation and modification as well as the differences in these processes as functions of basin age and size. Using observed gravity and topography together with the seismically determined crustal thickness of the central nearside, a model for the structure of the crust and upper mantle of the nearside of the Moon is presented. With this model the deep structure of the largest lunar basins are compared. The implications for the processes of basin formation and modification at different stages in lunar history are explored.

  4. Extracellular environment modulates the formation and propagation of particular amyloid structures

    PubMed Central

    Westergard, Laura; True, Heather L.

    2016-01-01

    Summary Amyloidogenic proteins, including prions, assemble into multiple forms of structurally distinct fibres. The [PSI+] prion, endogenous to the yeast Saccharomyces cerevisiae, is a dominantly inherited, epigenetic modifier of phenotypes. [PSI+] formation relies on the coexistence of another prion, [RNQ+]. Here, in order to better define the role of amyloid diversity on cellular phenotypes, we investigated how physiological and environmental changes impact the generation and propagation of diverse protein conformations from a single polypeptide. Utilizing the yeast model system, we defined extracellular factors that influence the formation of a spectrum of alternative self-propagating amyloid structures of the Sup35 protein, called [PSI+] variants. Strikingly, exposure to specific stressful environments dramatically altered the variants of [PSI+] that formed de novo. Additionally, we found that stress also influenced the association between the [PSI+] and [RNQ+] prions in a way that it superceded their typical relationship. Furthermore, changing the growth environment modified both the biochemical properties and [PSI+]-inducing capabilities of the [RNQ+] template. These data suggest that the cellular environment contributes to both the generation and the selective propagation of specific amyloid structures, providing insight into a key feature that impacts phenotypic diversity in yeast and the cross-species transmission barriers characteristic of prion diseases. PMID:24628771

  5. From Globular Clusters to Tidal Dwarfs: Structure Formation in Tidal Tails

    NASA Astrophysics Data System (ADS)

    Knierman, K.; Hunsberger, S.; Gallagher, S.; Charlton, J.; Whitmore, B.; Hibbard, J.; Kundu, A.; Zaritsky, D.

    1999-12-01

    Galaxy interactions trigger star formation in tidal debris. How does this star formation depend on the local and global physical conditions? Using WFPC2/HST images, we investigate the range of structure within tidal tails of four classic ``Toomre Sequence'' mergers: NGC 4038/9 (``Antennae''), NGC 7252 (``Atoms for Peace''), NGC 3921, and NGC 3256. These tails contain a variety of stellar associations with sizes from globular clusters up to dwarf Irregulars. We explore whether there is a continuum between the two extremes. Our eight fields sample seven tidal tails at a variety of stages in the evolutionary sequence. Some of these tails are rich in HI while others are HI poor. Large tidal dwarfs are embedded in three of the tails. Using V and I WFPC2 images, we measure luminosities and colors of substructures within the tidal tails. The properties of globular cluster candidates in the tails will be contrasted with those of the hundreds of young clusters in the central regions of these mergers. We address whether globular clusters form and survive in the tidal tails and whether tidal dwarfs are composed of only young stars. By comparing the properties of structures in the tails of the four mergers with different ages, we examine systematic evolution of structure along the evolutionary sequence and as a function of HI content. We acknowledge support from NASA through STScI, and from NSF for an REU supplement for Karen Knierman.

  6. Structural and facies characterization of the Niobrara Formation in Goshen and Laramie counties, Wyoming

    NASA Astrophysics Data System (ADS)

    Kernan, Nicholas Devereux

    The Niobrara Formation is a fine-grained marine rock deposited in the Western Interior Seaway during the Late Cretaceous. It is composed of fossil-rich interlayered shale, marls, and chalks. Recent interest in the Niobrara has grown due to the advent of lateral drilling and multi-stage hydraulic fracturing. This technology allows operators to economically extract hydrocarbons from chalkier Niobrara facies. Yet two aspects of the Niobrara Formation have remained enigmatic. The first is the occurrence of abundant, randomly oriented, layer-bound, normal faults. The second is the large degree of vertical heterogeneity. This research aimed to increase understanding in both these aspects of the Niobrara Formation. Randomly oriented normal faults have been observed in Niobrara outcrops for nearly a hundred years. Recent high resolution 3D seismic in the Denver Basin has allowed investigators to interpret these faults as part of a polygonal fault system (PFS). PFS are layer bound extensional structures that typically occur in fine-grained marine sediments. Though their genesis and development is still poorly understood, their almost exclusive occurrence in fine-grained rocks indicates their origin is linked to lithology. Interpretation of a 3D seismic cube in Southeast Wyoming found a tier of polygonal faulting within the Greenhorn-Carlile formations and another tier of polygonal faulting within the Niobrara and Pierre formations. This research also found that underlying structural highs influence fault growth and geometries within both these tiers. Core data and thin sections best describe vertical heterogeneity in fine-grained rocks. This investigation interpreted core data and thin sections in a well in Southeast Wyoming and identified 10 different facies. Most of these facies fall within a carbonate/clay spectrum with clay-rich facies deposited during periods of lower sea level and carbonate-rich facies deposited during periods of higher sea level. Because the average

  7. Formation of the self-assembled structures by the ultrasonic cavitation erosion-corrosion effect on carbon steel

    NASA Astrophysics Data System (ADS)

    Yan, Dayun; Wang, Jiadao; Liu, Fengbin; Rajjoub, Kenan

    2015-11-01

    The cavitation erosion-corrosion effect on the metal surface always forms irregular oxide structures. In this study, we reported the formation of regular self-assembled structures of amorphous nanoparticles around the cavitation erosion pits on carbon steel upon the ultrasonic cavitation in methylene blue solution. Each self-assembled structure was composed of linearly aligned nanoparticles of about 100 nm. The formation of self-assembled structures might be due to the combined effect of corrosion, specific sonochemical reaction in methylene blue solution, and the magnetic domain structures on the carbon steel.

  8. The role of galaxy formation in the structure and dynamics of dark matter halos

    NASA Astrophysics Data System (ADS)

    Tonini, Chiara

    2009-02-01

    The structure and dynamics of dark matter halos, as predicted by the hierarchical clustering scenario, are at odds with the properties inferred from the observations at galactic scales. My Thesis addresses this problem by taking an evolutionary approach. I analysed in detail the many and different observational evidences of a discrepancy the predicted halo equilibrium state and the one inferred from the measurable properties of disk galaxies, as well as of the scaling relations existing between the angular momentum, geometry and mass distribution of the luminous and dark components, and realized that they all seem to point towards the same conclusion: the baryons hosted inside the halo, by collapsing and assembling to form the galaxy, perturb the halo equilibrium structure and made it evolve into new configurations. From the theoretical point of view, the behaviour of dark matter halos as collisionless systems of particles makes their equilibrium structure and mass distribution extremely sensitive to perturbations of their inner dynamics. The galaxy formation occurring inside the halos is a tremendous event, and the dynamical coupling between the baryons and the dark matter during the protogalaxy collapse represents a perturbation of the halo dynamical structure large enough to trigger a halo evolution, according to the relative mass and angular momentum of the two components. My conclusion is that the structure and dynamics of dark matter halos, as well as the origin of the connection between the halo and galaxy properties, are to be understood in in terms of a joint evolution of the baryonic and dark components, originating at the epoch of the collapse and formation of the galaxy.

  9. Equilibrium structure in the presence of internal rotation: A case study of cis-methyl formate

    NASA Astrophysics Data System (ADS)

    Demaison, J.; Margulès, L.; Kleiner, I.; Császár, A. G.

    2010-02-01

    The Born-Oppenheimer (BO) equilibrium molecular structure ( reBO) of cis-methyl formate has been determined at the CCSD(T) level of electronic structure theory using Gaussian basis sets of at least quadruple-ζ quality and a core correlation correction. The quadratic, cubic and semi-diagonal quartic force field in normal coordinates has also been computed at the MP2 level employing a basis set of triple-ζ quality. A semi-experimental equilibrium structure ( reSE) has been derived from experimental ground-state rotational constants and the lowest-order rovibrational interaction parameters calculated from the ab initio cubic force field. To determine reSE structures, it is important to start from accurate ground-state rotational constants. Different spectroscopic methods, applicable in the presence of internal rotation and used in the literature to obtain "unperturbed" rotational constants from the analysis and fitting of the spectrum, are reviewed and compared. They are shown to be compatible though their precision may be different. The reBO and reSE structures are in good agreement showing that, in the particular case of cis-methyl formate, the methyl torsion can still be treated as a small-amplitude vibration. The best equilibrium structure obtained for cis-methyl formate is: r(C m-O) = 1.434 Å, r(O-C c) = 1.335 Å, r(C m-H s) = 1.083 Å, r(C m-H a) = 1.087 Å, r(C c-H) = 1.093 Å, r(C dbnd O) = 1.201 Å, ∠(COC) = 114.4°, ∠(CCH s) = 105.6°, ∠(CCH a) = 110.2°, ∠(OCH) = 109.6°, ∠(OCO) = 125.5°, and τ(H aCOC) = 60.3°. The accuracy is believed to be about 0.001 Å for the bond lengths and 0.1° for the angles.

  10. Behavior of dust particles in cylindrical discharges: Structure formation, mixture and void, effect of gravity

    NASA Astrophysics Data System (ADS)

    Totsuji, Hiroo; Totsuji

    2014-12-01

    Theoretical and numerical works on dusty plasmas with cylindrical symmetry are presented. The main purpose has been to investigate behavior of dust particles in strongly coupled dusty plasmas which are expected to be realized in the planned experiments by PK-4 on the International Space Station and experiments by PK-4J, a similar apparatus constructed in Japan. The distribution of dust particles is analyzed on the basis of the drift-diffusion equations and, with the effect of discreteness taken into account, structure formations are numerically simulated.

  11. Formation of fractal-like structures driven by carbon nanotubes-based collapsed hollow capsules.

    PubMed

    Salgueiriño-Maceira, Verónica; Hoppe, Cristina E; Correa-Duarte, Miguel A

    2007-01-18

    Carbon nanotubes (CNTs) based hollow capsules were obtained by degradation under acidic conditions of core-shell nanocomposites build up upon adsorption of multilayers of CNTs (shell) onto melamine-formaldehyde (MF) spheres (core). By evaporation of the dispersions obtained, polymeric fractal patterns from the degradation products of the MF core were formed onto silicon wafers. The proposed mechanism for the formation of these structures is based on the role of the capsules as arrangements of heterogeneities that facilitate the dewetting of the liquid polymeric films. PMID:17214481

  12. Ultrafine-grained structure formation in Ti-6Al-4V alloy via warm swaging

    NASA Astrophysics Data System (ADS)

    Klimova, M.; Boeva, M.; Zherebtsov, S.; Salishchev, G.

    2014-08-01

    The influence of warm swaging on the structure and properties of Ti-6Al-4V alloy was studied. Warm swaging of the alloy in the interval 680-500°C with the total strain of ɛ=2.66 was found to be resulted in the formation of a homogeneous globular microstructure with a grain size of 0.4 μm in both longitudinal and transversal sections. Room temperature tensile strength and tensile elongation of the swaged alloy was 1315MPa and 10.5%, respectively. Ultrafine-grained Ti-6Al-4V alloy produced by swaging exhibited good workability at 600-700 °C.

  13. Influence of electrified surface of cementitious materials on structure formation of hardened cement paste

    NASA Astrophysics Data System (ADS)

    Alekseev, A.; Gusakov, A.

    2015-01-01

    To provide high strength and durability of concrete it is necessary to study the influence of physical and chemical and mechanical principles of dispersed cementitious systems. The experimental bench was developed to study the influence of electrified surface of cementitious materials on structure formation of hardened cement paste. The test bench allows accelerating the processes of dissolution of cementing materials in water due to influence of electric discharge on their surface. Cement activation with high-voltage corona discharge when AC current is applied allows increasing the ultimate compressive strength of hardened cement paste by 46% at the age of one day and by 20% at the age of 28 days.

  14. Formation of surface nano-structures by plasma expansion induced by highly charged ions

    SciTech Connect

    Moslem, W. M.; El-Said, A. S.

    2012-12-15

    Slow highly charged ions (HCIs) create surface nano-structures (nano-hillocks) on the quartz surface. The formation of hillocks was only possible by surpassing a potential energy threshold. By using the plasma expansion approach with suitable hydrodynamic equations, the creation mechanism of the nano-hillocks induced by HCIs is explained. Numerical analysis reveal that within the nanoscale created plasma region, the increase of the temperature causes an increase of the self-similar solution validity domain, and consequently the surface nano-hillocks become taller. Furthermore, the presence of the negative (positive) nano-dust particles would lead to increase (decrease) the nano-hillocks height.

  15. Structures Formation on the Y-TZP-AI2O3 Ceramic Composites Surface

    NASA Astrophysics Data System (ADS)

    Kulkov, Sergei; Sevostyanova, Irina; Sablina, Tatiana; Buyakova, Svetlana; Pshenichnyy, Artem; Savchenko, Nickolai

    2016-07-01

    The paper discusses the structure of Y-TZP-Al2O3 ceramics produced from nanopowders and friction surface, wear resistance, friction coefficient of Y-TZP-AEO3 composites rubbed against a steel disk counterface at a pressure of 5 MPa in a range of sliding speeds from 0.2 to 47 m/s. Analysis by X-ray diffraction, scanning electron microscopy showed that the high wear resistance of Y-TZP-Al2O3 composites at high sliding speeds is due to high-temperature phase transitions and protective film formation on the friction surface.

  16. Formation of Fragment Rich Pseudotachylite Zones During Central Uplift Formation in the Vredefort Impact Structure, South Africa

    NASA Astrophysics Data System (ADS)

    Lieger, D.; Riller, U.; Reimold, W. U.; Gibson, R. L.

    Field-based structural analysis of the Vredefort Dome focused on mapping of pre-impact planar mineral fabrics and structural properties of fragment-rich pseudotachylite zones, such as geometry, orientation, brecciation intensity of the zones.

  17. Spontaneous Formation of Eutectic Crystal Structures in Binary and Ternary Charged Colloids due to Depletion Attraction

    NASA Astrophysics Data System (ADS)

    Toyotama, Akiko; Okuzono, Tohru; Yamanaka, Junpei

    2016-03-01

    Crystallization of colloids has extensively been studied for past few decades as models to study phase transition in general. Recently, complex crystal structures in multi-component colloids, including alloy and eutectic structures, have attracted considerable attention. However, the fabrication of 2D area-filling colloidal eutectics has not been reported till date. Here, we report formation of eutectic structures in binary and ternary aqueous colloids due to depletion attraction. We used charged particles + linear polyelectrolyte systems, in which the interparticle interaction could be represented as a sum of the electrostatic, depletion, and van der Waals forces. The interaction was tunable at a lengthscale accessible to direct observation by optical microscopy. The eutectic structures were formed because of interplay of crystallization of constituent components and accompanying fractionation. An observed binary phase diagram, defined by a mixing ratio and inverse area fraction of the particles, was analogous to that for atomic and molecular eutectic systems. This new method also allows the adjustment of both the number and wavelengths of Bragg diffraction peaks. Furthermore, these eutectic structures could be immobilized in polymer gel to produce self-standing materials. The present findings will be useful in the design of the optical properties of colloidal crystals.

  18. Heteroepitaxial formation of aligned mesostructured silica films with large structural periodicities from mixed surfactant systems.

    PubMed

    Hayase, Saeko; Kanno, Yosuke; Watanabe, Masatoshi; Takahashi, Masahiko; Kuroda, Kazuyuki; Miyata, Hirokatsu

    2013-06-11

    Liquid-crystal phases consisting of cylindrical micelles of amphiphilic block copolymers and silica precursors are epitaxially built up on aligned surface micelles formed by an alkyl-PEO surfactant, Brij56, irrespective of the large difference in the intrinsic structural periodicities resulting in the formation of fully aligned mesostructured silica films with large lattice constants. Brij56 works as an alignment controlling agent on rubbing-treated polyimide through selective adsorption from a precursor solution containing the two surfactants, a block copolymer and Brij56, through strong hydrophobic interactions to form an anisotropic surface micelle structure. Aligned mesostructured silica layers with larger periodicities, which dominantly consist of block copolymers, form on these aligned surface micelles by gradually changing the vertical periodicity keeping the lateral intermicelle distance constant. This can be regarded as a kind of heteroepitaxy because the lattice constant at the surface is different from that of the bulk of the film. On the basis of this new concept, highly aligned mesostructured silica films with structural periodicities as large as 10 nm are successfully formed, which has never been achieved when the block copolymers are used alone as the structure-directing agent. The periodicity of the aligned films can precisely be controlled by an appropriate choice of block copolymers and the mixing ratio of the two surfactants, which increases the opportunity for applications of these films with highly anisotropic mesoscale structure. PMID:23721098

  19. Spontaneous Formation of Eutectic Crystal Structures in Binary and Ternary Charged Colloids due to Depletion Attraction.

    PubMed

    Toyotama, Akiko; Okuzono, Tohru; Yamanaka, Junpei

    2016-01-01

    Crystallization of colloids has extensively been studied for past few decades as models to study phase transition in general. Recently, complex crystal structures in multi-component colloids, including alloy and eutectic structures, have attracted considerable attention. However, the fabrication of 2D area-filling colloidal eutectics has not been reported till date. Here, we report formation of eutectic structures in binary and ternary aqueous colloids due to depletion attraction. We used charged particles + linear polyelectrolyte systems, in which the interparticle interaction could be represented as a sum of the electrostatic, depletion, and van der Waals forces. The interaction was tunable at a lengthscale accessible to direct observation by optical microscopy. The eutectic structures were formed because of interplay of crystallization of constituent components and accompanying fractionation. An observed binary phase diagram, defined by a mixing ratio and inverse area fraction of the particles, was analogous to that for atomic and molecular eutectic systems. This new method also allows the adjustment of both the number and wavelengths of Bragg diffraction peaks. Furthermore, these eutectic structures could be immobilized in polymer gel to produce self-standing materials. The present findings will be useful in the design of the optical properties of colloidal crystals. PMID:26984298

  20. Structural formation of huntingtin-like aggregates probed by small-angle neutron scattering

    SciTech Connect

    Stanley, Christopher B; Perevozchikova, Tatiana; Berthelier-Jung, Valerie M

    2011-01-01

    In several neurodegenerative disorders, including Huntington s disease (HD), aspects concerning the earliest of protein structures that form along the aggregation pathway have increasingly gained attention since these particular species are likely to be neurotoxic. We used time-resolved small-angle neutron scattering (SANS) to probe in solution these transient structures formed by peptides having the N-terminal sequence context of mutant huntingtin (Htt) exon 1. We obtained snapshots of the formed aggregates as the kinetic reaction ensued to yield quantitative information on their size and mass. At the early stage, small precursor species with an initial radius of gyration (Rg) of 16.1 5.9 and average mass of a dimer to trimer were monitored. Structural growth was treated as two modes with a transition from three-dimensional early aggregate formation to two-dimensional fibril growth and association. Our SANS results on the internal structure of the mature fibrils demonstrate loose packing with about 1 peptide per 4.75 -sheet repeat distance, which is shown to be quantitatively consistent with a -helix model. This research provides new insights into the structures forming along the pathway of Htt exon 1 aggregation and should assist in determining the role that precursors play in neuronal toxicity.

  1. Exoelectrogenic biofilm as a template for sustainable formation of a catalytic mesoporous structure.

    PubMed

    Yates, Matthew D; Cusick, Roland D; Ivanov, Ivan; Logan, Bruce E

    2014-11-01

    Mesoporous structures can increase catalytic activity by maximizing the ratio of surface area to volume, but current synthesis techniques utilize expensive polymers and toxic chemicals. A Geobacter sulfurreducens biofilm was used as a sustainable template to form mesoporous Pd structures while eliminating the need for synthetic chemicals. The bulk of the biofilm material was removed by thermal treatments after nanoparticle formation, producing a catalytic Pd mesoporous (pore size 9.7 ± 0.1 nm) structure attached to the graphite electrode with a 1.5-2 µm thick backbone composed of nanoparticles (∼200 nm). A control electrode electrochemically plated with Pd in the absence of a biofilm exhibited a variable planar Pd base (∼0.5-3 µm thick) with sporadic Pd extrusions (∼2 µm across, 1-5 µm tall) from the surface. The biotemplated mesoporous structure produced 15-20% higher stable current densities during H2 oxidation tests than the electrochemically plated control electrode, even though 30% less Pd was present in the biotemplated catalyst. These results indicate that electroactive biofilms can be used as a sustainable base material to produce nanoporous structures without the need for synthetic polymers. Biotechnol. Bioeng. 2014;111: 2349-2354. © 2014 Wiley Periodicals, Inc. PMID:24771104

  2. Formation of granular structures in trapped Bose-Einstein condensates under oscillatory excitations

    NASA Astrophysics Data System (ADS)

    Yukalov, V. I.; Novikov, A. N.; Bagnato, V. S.

    2014-09-01

    We present experimental observations and numerical simulations of nonequilibrium spatial structures in a trapped Bose-Einstein condensate subject to oscillatory perturbations. In experiment, first, there appear collective excitations, followed by quantum vortices. Increasing the amount of the injected energy leads to the formation of vortex tangles representing quantum turbulence. We study what happens after the regime of quantum turbulence, with increasing further the amount of injected energy. In such a strongly nonequilibrium Bose-condensed system of trapped atoms, vortices become destroyed and there develops a new kind of spatial structure exhibiting essentially heterogeneous spatial density. The structure is reminiscent of fog consisting of high-density droplets, or grains, surrounded by the regions of low density. The grains are randomly distributed in space, where they move. They live for a sufficiently long time to be treated as a type of metastable object. Such structures have been observed in nonequilibrium trapped Bose gases of 87Rb, subject to the action of alternating fields. Here we present experimental results and support them by numerical simulation. The granular, or fog structure is essentially different from the state of wave turbulence that develops after increasing further the amount of injected energy.

  3. Spontaneous Formation of Eutectic Crystal Structures in Binary and Ternary Charged Colloids due to Depletion Attraction

    PubMed Central

    Toyotama, Akiko; Okuzono, Tohru; Yamanaka, Junpei

    2016-01-01

    Crystallization of colloids has extensively been studied for past few decades as models to study phase transition in general. Recently, complex crystal structures in multi-component colloids, including alloy and eutectic structures, have attracted considerable attention. However, the fabrication of 2D area-filling colloidal eutectics has not been reported till date. Here, we report formation of eutectic structures in binary and ternary aqueous colloids due to depletion attraction. We used charged particles + linear polyelectrolyte systems, in which the interparticle interaction could be represented as a sum of the electrostatic, depletion, and van der Waals forces. The interaction was tunable at a lengthscale accessible to direct observation by optical microscopy. The eutectic structures were formed because of interplay of crystallization of constituent components and accompanying fractionation. An observed binary phase diagram, defined by a mixing ratio and inverse area fraction of the particles, was analogous to that for atomic and molecular eutectic systems. This new method also allows the adjustment of both the number and wavelengths of Bragg diffraction peaks. Furthermore, these eutectic structures could be immobilized in polymer gel to produce self-standing materials. The present findings will be useful in the design of the optical properties of colloidal crystals. PMID:26984298

  4. Stochastic formation of magnetic vortex structures in asymmetric disks triggered by chaotic dynamics

    DOE PAGESBeta

    Im, Mi-Young; Lee, Ki-Suk; Vogel, Andreas; Hong, Jung-Il; Meier, Guido; Fischer, Peter

    2014-12-17

    The non-trivial spin configuration in a magnetic vortex is a prototype for fundamental studies of nanoscale spin behaviour with potential applications in magnetic information technologies. Arrays of magnetic vortices interfacing with perpendicular thin films have recently been proposed as enabler for skyrmionic structures at room temperature, which has opened exciting perspectives on practical applications of skyrmions. An important milestone for achieving not only such skyrmion materials but also general applications of magnetic vortices is a reliable control of vortex structures. However, controlling magnetic processes is hampered by stochastic behaviour, which is associated with thermal fluctuations in general. Here we showmore » that the dynamics in the initial stages of vortex formation on an ultrafast timescale plays a dominating role for the stochastic behaviour observed at steady state. Our results show that the intrinsic stochastic nature of vortex creation can be controlled by adjusting the interdisk distance in asymmetric disk arrays.« less

  5. Structural Formation Process of Microphase Separated Films with Liquid Crystalline Phase Transition

    NASA Astrophysics Data System (ADS)

    Komura, Motonori; Iyoda, Tomokazu

    2008-03-01

    Ordered nanostructures arising from the microphase separation of block copolymers have driven one to fabricate nanofunctional materials as fundamental technology of the coming electronic and photonic materials. Thin films of a series of newly designed amphiphilic block copolymer consisting of hydrophilic polyethylene oxide (PEO) and hydrophobic polymethacrylate with azobenzene-mesogen in side-chain (PMA(Az)) show highly ordered microphase separation with PEO cylinders perpendicularly oriented to the film surface. In the present report, we investigated a structural formation process of the microphase separated films by temperature controlled atomic force microscopy (AFM) and grazing incidence small angle X-ray scattering (GISAXS). These measurements revealed that homeotropic alignments of Az liquid crystalline layers predominated the cylinder orientation, which corresponded to a <110> direction of body centered cubic structure under annealing condition, in disagreement with cylinder orientation of order-order transition of traditional block copolymers.

  6. Formation of Structured Dayside Boundary Layers under Different Solar Wind Conditions: THEMIS Observations

    NASA Technical Reports Server (NTRS)

    Avanov, Levon A.; Chandler, Michael O.

    2008-01-01

    We have begun an investigation of the formation of the dayside low latitude boundary layer under different solar wind conditions using data from the THEMIS spacecraft. We present two cases of magnetopause/LLBL interface crossings made by the five spacecraft; one under long lasting northward IMF and a second for a period of southward IMF. All spacecraft during these observations traversed the dayside magnetosphere in a string-of-pearls configuration with the farthest distance between spacecraft less than approx.2 R(sub E). The sequence of observations from spacecraft, as they crossed the magnetopause, shows the development of a highly structured boundary layer regardless of the polarity of the IMF. We discuss possible scenarios for the development of such structured boundary layers, including low latitude reconnection under northward IMF as well as double reconnection in opposite hemispheres.

  7. Molecular simulations of the formation of semi-crystalline structure from supercooled polyethylene melt

    NASA Astrophysics Data System (ADS)

    Yi, Peng

    Formation of semi-crystalline structure is important for industrial processing, but it is scientifically poorly understood due to the strong anisotropy and the conformational flexibility of polymer chains. In this work we report the results of molecular dynamics simulations of homogeneous crystallization from polyethylene melts. A realistic united atom model was used. At room temperature (~30% supercooling), the crystal nucleation and growth lead to a stable semi-crystalline structure, with crystal lamellae separated by amorphous regions. Entanglement in the amorphous region prevents further crystal growth. The crystal-amorphous interface migrates with changing annealing temperature. Chain segments in the amorphous region adopt loop, bridge and tail conformations. Their populations and lengths were calculated and analyzed.

  8. Stochastic formation of magnetic vortex structures in asymmetric disks triggered by chaotic dynamics

    SciTech Connect

    Im, Mi-Young; Lee, Ki-Suk; Vogel, Andreas; Hong, Jung-Il; Meier, Guido; Fischer, Peter

    2014-12-17

    The non-trivial spin configuration in a magnetic vortex is a prototype for fundamental studies of nanoscale spin behaviour with potential applications in magnetic information technologies. Arrays of magnetic vortices interfacing with perpendicular thin films have recently been proposed as enabler for skyrmionic structures at room temperature, which has opened exciting perspectives on practical applications of skyrmions. An important milestone for achieving not only such skyrmion materials but also general applications of magnetic vortices is a reliable control of vortex structures. However, controlling magnetic processes is hampered by stochastic behaviour, which is associated with thermal fluctuations in general. Here we show that the dynamics in the initial stages of vortex formation on an ultrafast timescale plays a dominating role for the stochastic behaviour observed at steady state. Our results show that the intrinsic stochastic nature of vortex creation can be controlled by adjusting the interdisk distance in asymmetric disk arrays.

  9. Formation of large-scale structure from cosmic-string loops and cold dark matter

    NASA Technical Reports Server (NTRS)

    Melott, Adrian L.; Scherrer, Robert J.

    1987-01-01

    Some results from a numerical simulation of the formation of large-scale structure from cosmic-string loops are presented. It is found that even though G x mu is required to be lower than 2 x 10 to the -6th (where mu is the mass per unit length of the string) to give a low enough autocorrelation amplitude, there is excessive power on smaller scales, so that galaxies would be more dense than observed. The large-scale structure does not include a filamentary or connected appearance and shares with more conventional models based on Gaussian perturbations the lack of cluster-cluster correlation at the mean cluster separation scale as well as excessively small bulk velocities at these scales.

  10. Interaction of dislocations in UO2 during high burn-up structure formation

    NASA Astrophysics Data System (ADS)

    Baranov, V. G.; Lunev, A. V.; Tenishev, A. V.; Khlunov, A. V.

    2014-01-01

    Dislocation dynamics is used to investigate the distribution of dislocations in oxide nuclear fuel under irradiation using the values of dislocation density from experiments. A model is constructed to account for the effects of irradiation on dislocation movement and for the brittle behavior of the material. Results show that the ground state of interacting dislocations in UO2 during irradiation is a periodic structure with spacing between walls equal to 100-300 nm at experimental dislocation densities. These regions adorned by dislocation walls are called sub-grains and represent the result of polygonization. The threshold of polygonization is shown to depend on the fluctuations of the stress field produced by interaction of many dislocations. These fluctuations reach a critical value when a critical dislocation density is reached (˜4 × 1014 m-2). The calculated value matches experimental data on dislocation density measurement of irradiated uranium dioxide at burn-up corresponding to the formation of high burn-up structure.

  11. SIMULATIONS OF EARLY BARYONIC STRUCTURE FORMATION WITH STREAM VELOCITY. II. THE GAS FRACTION

    SciTech Connect

    Naoz, Smadar; Yoshida, Naoki; Gnedin, Nickolay Y.

    2013-01-20

    Understanding the gas content of high-redshift halos is crucial for studying the formation of the first generation of galaxies and reionization. Recently, Tseliakhovich and Hirata showed that the relative 'stream' velocity between the dark matter and baryons at the time of recombination-formally a second-order effect, but an unusually large one-can influence the later structure formation history of the universe. We quantify the effect of the stream velocity on the so-called characteristic mass-the minimum mass of a dark matter halo capable of retaining most of its baryons throughout its formation epoch-using three different high-resolution sets of cosmological simulations (with separate transfer functions for baryons and dark matter) that vary in box size, particle number, and the value of the relative velocity between the dark matter and baryons. In order to understand this effect theoretically, we generalize the linear theory filtering mass to properly account for the difference between the dark matter and baryonic density fluctuation evolution induced by the stream velocity. We show that the new filtering mass provides an accurate estimate for the characteristic mass, while other theoretical ansatzes for the characteristic mass are substantially less precise.

  12. Tuning the formation and stability of microcapsules by environmental conditions and chitosan structure.

    PubMed

    Ren, Ying; Xie, Hongguo; Liu, Xiaocen; Yang, Fan; Yu, Weiting; Ma, Xiaojun

    2016-10-01

    The goal of this work is to tune the formation and stability of the alginate-chitosan (AC) polyelectrolyte complexes (PECs) and microcapsules. Particularly, we explore the role of the conformation of chitosan on its interaction with alginate to understand the mechanism underpinning their interactions at the molecular level. Reducing the charge density by increasing pH will increase the compactness of chitosan, the values of the enthalpy (H) and stoichiometry (N) of binding between chitosan and alginate. Consequently, chitosan has advantage in being adsorbed on alginate beads to form microcapsules, including the binding rate and binding amount. Though the total heat release remain similar in the range of ionic strength, chitosan diffuses much easier into alginate hydrogels when in higher ionic strength. Increasing pH and ionic strength both help AC microcapsules to have higher stability. The results indicate that the formation and stability of AC microcapsules are related to the rigidity and conformations of chitosan molecules. After increasing acetylation degree (DA) of chitosan, the binding rate of chitosan and mechanical strength of AC microcapsules are both reduced. This work demonstrates the versatility and feasibility of tuning the formation and stability of polysaccharide microcapsules by physical factors and chitosan chemical structures. PMID:27344950

  13. Formation and structural organization of the egg-sperm bundle of the scleractinian coral Montipora capitata

    NASA Astrophysics Data System (ADS)

    Padilla-Gamiño, J. L.; Weatherby, T. M.; Waller, R. G.; Gates, R. D.

    2011-06-01

    The majority of scleractinian corals are hermaphrodites that broadcast spawn their gametes separately or packaged as egg-sperm bundles during spawning events that are timed to the lunar cycle. The egg-sperm bundle is an efficient way of transporting gametes to the ocean surface where fertilization takes place, while minimizing sperm dilution and maximizing the opportunity for gamete encounters during a spawning event. To date, there are few studies that focus on the formation and structure of egg-sperm bundle. This study explores formation, ultrastructure, and longevity of the egg-sperm bundle in Montipora capitata, a major reef building coral in Hawai`i. Our results show that the egg-sperm bundle is formed by a mucus layer secreted by the oocytes. The sperm package is located at the center of each bundle, possibly reflecting the development of male and female gametes in different mesenteries. Once the egg-sperm bundle has reached the ocean surface, it breaks open within 10-35 min, depending on the environmental conditions (i.e., wind, water turbulence). Although the bundle has an ephemeral life span, the formation of an egg-sperm bundle is a fundamental part of the reproductive process that could be strongly influenced by climate change and deterioration of water quality (due to anthropogenic effects) and thus requires further investigation.

  14. Structure and mechanism of formation of an important ion in doping control

    NASA Astrophysics Data System (ADS)

    Borges, Chad R.; Taccogno, James; Crouch, Dennis J.; Le, Ly; Truong, Thanh N.

    2005-12-01

    An ion with m/z 143 serves as a biomarker that is often continuously monitored in urine samples undergoing screening by electron ionization gas chromatography/mass spectrometry (EI GC/MS) for banned anabolic agents. The ion is known to arise from trimethylsilyl (TMS)-derivatized synthetic 17-hydroxy, 17-methyl steroids. The purpose of this work was to characterize, in detail, the origin(s), structure(s), and mechanism(s) of formation of such ions with m/z 143. High resolution mass spectrometry (HRMS) data revealed the elemental composition of the D-ring derived m/z 143 ion to be C7H15OSi. Analysis of dihydrotestosterone (DHT) and its 2-methyl substituted analog dromostanolone by HRMS revealed that an elementally equivalent ion of m/z 143 could be derived from the A-ring of TMS-derivatized 3-keto-enol steroids demonstrating that an abnormally intense peak in the m/z 143 extracted ion chromatogram of urine samples undergoing screening for banned anabolic agents does not necessarily indicate the presence of a 17-hydroxy, 17-methyl steroid. To gain information on ion structure, breakdown curves for the most abundant product ions of the m/z 143 ion were generated using both native and perdeutero-TMS derivatives, providing structures for second, third, and fourth generation product ions. An EI-mass spectrum of [16,16,17-2H3]-DHT (DHT-d3) demonstrated that one of the C-16 hydrogen atoms is removed prior to the formation of an ion that is highly analogous to the ion with m/z 143 strongly suggesting, in accord with all other evidence, one particular fragmentation pathway and resulting product: a resonance stabilized 3-(O-trimethylsilyl)but-1-ene ion.

  15. A DEEPER LOOK AT LEO IV: STAR FORMATION HISTORY AND EXTENDED STRUCTURE

    SciTech Connect

    Sand, David J.; Seth, Anil; Olszewski, Edward W.; Zaritsky, Dennis; Willman, Beth; Kallivayalil, Nitya

    2010-07-20

    We present MMT/Megacam imaging of the Leo IV dwarf galaxy in order to investigate its structure and star formation history, and to search for signs of association with the recently discovered Leo V satellite. Based on parameterized fits, we find that Leo IV is round, with {epsilon} < 0.23 (at the 68% confidence limit) and a half-light radius of r{sub h} {approx_equal} 130 pc. Additionally, we perform a thorough search for extended structures in the plane of the sky and along the line of sight. We derive our surface brightness detection limit by implanting fake structures into our catalog with stellar populations identical to that of Leo IV. We show that we are sensitive to stream-like structures with surface brightness {mu}{sub r} {approx}< 29.6 mag arcsec{sup -2}, and at this limit we find no stellar bridge between Leo IV (out to a radius of {approx}0.5 kpc) and the recently discovered, nearby satellite Leo V. Using the color-magnitude fitting package StarFISH, we determine that Leo IV is consistent with a single age ({approx}14 Gyr), single metallicity ([Fe/H] {approx} -2.3) stellar population, although we cannot rule out a significant spread in these values. We derive a luminosity of M{sub V} = -5.5 {+-} 0.3. Studying both the spatial distribution and frequency of Leo IV's 'blue plume' stars reveals evidence for a young ({approx}2 Gyr) stellar population which makes up {approx}2% of its stellar mass. This sprinkling of star formation, only detectable in this deep study, highlights the need for further imaging of the new Milky Way satellites along with theoretical work on the expected, detailed properties of these possible 'reionization fossils'.

  16. Effective stiffness and formation of secondary structures in a protein-like model.

    PubMed

    Škrbić, Tatjana; Hoang, Trinh X; Giacometti, Achille

    2016-08-28

    We use Wang-Landau and replica exchange techniques to study the effect of an increasing stiffness on the formation of secondary structures in protein-like systems. Two possible models are considered. In both models, a polymer chain is formed by tethered beads where non-consecutive backbone beads attract each other via a square-well potential representing the tendency of the chain to fold. In addition, smaller hard spheres are attached to each non-terminal backbone bead along the direction normal to the chain to mimic the steric hindrance of side chains in real proteins. The two models, however, differ in the way bending rigidity is enforced. In the first model, partial overlap between consecutive beads is allowed. This reduces the possible bending angle between consecutive bonds thus producing an effective entropic stiffness that competes with a short-range attraction, and leads to the formation of secondary structures characteristic of proteins. We discuss the low-temperature phase diagram as a function of increasing interpenetration and find a transition from a planar, beta-like structure, to helical shape. In the second model, an energetic stiffness is explicitly introduced by imposing an infinitely large energy penalty for bending above a critical angle between consecutive bonds, and no penalty below it. The low-temperature phase of this model does not show any sign of protein-like secondary structures. At intermediate temperatures, however, where the chain is still in the coil conformation but stiffness is significant, we find the two models to predict a quite similar dependence of the persistence length as a function of the stiffness. This behaviour is rationalized in terms of a simple geometrical mapping between the two models. Finally, we discuss the effect of shrinking side chains to zero and find the above mapping to still hold true. PMID:27586943

  17. Self-regulation in flow-induced structure formation of polypropylene.

    PubMed

    Roozemond, Peter C; van Drongelen, Martin; Ma, Zhe; Spoelstra, Anne B; Hermida-Merino, Daniel; Peters, Gerrit W M

    2015-02-01

    Flow-induced structure formation is investigated with in situ wide-angle X-ray diffraction with high acquisition rate (30 Hz) using isotactic polypropylene in a piston-driven slit flow with high wall shear rates (up to ≈900 s(-1) ). We focus on crystallization within the shear layers that form in the high shear rate regions near the walls. Remarkably, the kinetics of the crystallization process show no dependence on either flow rate or flow time; the crystallization progresses identically regardless. Stronger or longer flows only increase the thickness of the layers. A conceptual model is proposed to explain the phenomenon. Above a certain threshold, the number of shish-kebabs formed affects the rheology such that further structure formation is halted. The critical amount is reached already within 0.1 s under the current flow conditions. The change in rheology is hypothesized to be a consequence of the "hairy" nature of shish. Our results have large implications for process modelling, since they suggest that for injection molding type flows, crystallization kinetics can be considered independent of deformation history. PMID:25522201

  18. Modeling the influence of alkane molecular structure on secondary organic aerosol formation.

    PubMed

    Aumont, Bernard; Camredon, Marie; Mouchel-Vallon, Camille; La, Stéphanie; Ouzebidour, Farida; Valorso, Richard; Lee-Taylor, Julia; Madronich, Sasha

    2013-01-01

    Secondary Organic Aerosols (SOA) production and ageing is a multigenerational oxidation process involving the formation of successive organic compounds with higher oxidation degree and lower vapor pressure. Intermediate Volatility Organic Compounds (IVOC) emitted to the atmosphere are expected to be a substantial source of SOA. These emitted IVOC constitute a complex mixture including linear, branched and cyclic alkanes. The explicit gas-phase oxidation mechanisms are here generated for various linear and branched C10-C22 alkanes using the GECKO-A (Generator for Explicit Chemistry and Kinetics of Organics in the Atmosphere) and SOA formation is investigated for various homologous series. Simulation results show that both the size and the branching of the carbon skeleton are dominant factors driving the SOA yield. However, branching appears to be of secondary importance for the particle oxidation state and composition. The effect of alkane molecular structure on SOA yields appears to be consistent with recent laboratory observations. The simulated SOA composition shows, however, an unexpected major contribution from multifunctional organic nitrates. Most SOA contributors simulated for the oxidation of the various homologous series are far too reduced to be categorized as highly oxygenated organic aerosols (OOA). On a carbon basis, the OOA yields never exceeded 10% regardless of carbon chain length, molecular structure or ageing time. This version of the model appears clearly unable to explain a large production of OOA from alkane precursors. PMID:24600999

  19. Influence of transport mechanisms on nucleation and grain structure formation in DC cast aluminium alloy ingots

    NASA Astrophysics Data System (ADS)

    Bedel, M.; Založnik, M.; Kumar, A.; Combeau, H.; Jarry, P.; Waz, E.

    2012-01-01

    The grain structure formation in direct chill (DC) casting is directly linked to nucleation, which is generally promoted by inoculation. Inoculation prevents defects, but also modifies the physical properties by changing the microstructure. We studied the coupling of the nucleation on inoculant particles and the grain growth in the presence of melt flow induced by thermosolutal convection and of the transport of free-floating equiaxed grains. We used a volume-averaged two-phase multiscale model with a fully coupled description of phenomena on the grain scale (nucleation on grain refiner particles and grain growth) and on the product scale (macroscopic transport). The transport of inoculant particles is also modeled, which accounts for the inhomogeneous distribution of inoculant particles in the melt. The model was applied to an industrial sized (350mm thick) DC cast aluminium alloy ingot. A discretised nuclei size distribution was defined and the impact of different macroscopic phenomena on the grain structure formation was studied: the zone and intensity of nucleation and the resulting grain size distribution. It is shown that nucleation in the presence of macroscopic transport cannot be explained only in terms of cooling rate, but variations of composition, nuclei density and grain density, all affected by transport, must be accounted for.

  20. Architecture of the Sierra Ladrones Formation, central New Mexico. Depositional controls on the permeability correlation structure

    SciTech Connect

    Davis, J.M.; Lohmann, R.C.; Phillips, F.M.; Wilson, J.L. ); Love, D.W. )

    1993-08-01

    Statistical models of hydrogeological heterogeneity are often used in aquifer and reservoir characterization. The number of data required to estimate objectively the spatial correlation structure of permeability, however, is often prohibitive. The objective of this study was to develop a better understanding of how information about depositional processes can be used to characterize hydrogeological heterogeneity. An outcrop of the fluvial/interfluvial Sierra Ladrones Formation of New Mexico was studied for this purpose. On the basis of previous studies of paleogeography and our own field observations, deposits of the Sierra Ladrones Formation are interpreted as marginal ancestral Rio Grande flood-plain and tributary deposits. Architectural elements were mapped over a 0.16-km[sup 2] peninsular outcrop of Pliocene-Pleistocene deposits of the central Albuquerque Basin. Geostatistical analysis of the architectural-element map data indicates non-orthogonal anisotropy in the horizontal direction. The orientations of the strongest (N30[degree]W) and weakest (N90[degree]E) correlation correspond to the orientation of the tributary system and the ancestral Rio Grande flood plain, respectively. In the vertical direction, the correlation structure exhibits exponential behavior corresponding to the average-element thicknesses. The results demonstrate that information about depositional environment can be used to help to quantify statistically subsurface heterogeneity. 28 refs., 9 figs., 1 tab.

  1. Insights regarding the normal and abnormal formation of the atrial and ventricular septal structures.

    PubMed

    Anderson, Robert H; Brown, Nigel A; Mohun, Timothy J

    2016-04-01

    Knowledge of cardiac development can provide the basis for understanding the morphogenesis of congenital cardiac malformations. Only recently, however, has the quality of information regarding cardiac embryology been sufficient to justify this approach. In this review, we show how such knowledge of development of the normal atrial and ventricular septal structures underscores the interpretation of the lesions that provide the basis for interatrial and interventricular shunting of blood. We show that current concepts of atrial septation, which frequently depend on a suggested formation of an extensive secondary septum, are simplistic. There are additional contributions beyond growth of the primary septum, but the new tissue is added to form the ventral buttress of the definitive atrial septum, rather than its cranial margin, as is usually depicted. We show that the ventricular septum possesses muscular and membranous components, with the entirety of the muscular septum produced concomitant with the so-called ballooning of the apical ventricular component. It is expansion of the atrioventricular canal that creates the inlet of the right ventricle, with no separate formation of an "inlet" septum. The proximal parts of the outflow cushions initially form a septal structure between the developing ventricular outlets, but this becomes converted into the free-standing muscular subpulmonary infundibulum as the aortic outlet is transferred to the left ventricle. These features of normal development are then shown to provide the basis for understanding of the channels that provide the means for interatrial and interventricular shunting. PMID:26378977

  2. Formation of nanoporous structures in metallic materials by pulse-periodic laser treatment

    NASA Astrophysics Data System (ADS)

    Murzin, Serguei P.

    2015-09-01

    A method of the formation of nanoporous structures in metallic materials by pulse-periodic laser treatment was developed. In this study, the multicomponent aluminum-iron brass was considered and the nanoporous structure across the entire cross section of the material with a thickness of 50 μm was formed. The method was implemented using a CO2 laser processing unit. The pulse-periodic laser treatment of the Cu-Zn-Al-Fe alloy with pulse frequency of 5 Hz has led to the formation of nanosized cavities due to accumulation of internal stresses during cyclic heating and cooling at high speeds. It was determined that the pores of a channel type with average widths of 80-100 nm are formed in the central region of the heat-affected zone during laser action with thermocycling. When implementing the chosen conditions of the pulse-periodic laser processing, the localness in depth and area of the physical processes occurring in the heat-affected zone is ensured, while maintaining the original properties of the material and the absence of significant deformations in the rest of the volume. This patented process is perspective for the production not only catalysts for chemical reactions, but for ultrafiltration and microfiltration membranes as well.

  3. The past and the future fate of the universe and the formation of structure in it.

    PubMed

    Rix, H W

    1999-07-20

    The history and the ultimate future fate of the universe as a whole depend on how much the expansion of the universe is decelerated by its own mass. In particular, whether the expansion of the universe will ever come to a halt can be determined from the past expansion. However, the mass density in the universe does not only govern the expansion history and the curvature of space, but in parallel also regulates the growth of hierarchical structure, including the collapse of material into the dense, virialized regions that we identify with galaxies. Hence, the formation of galaxies and their clustered distribution in space depend not only on the detailed physics of how stars are formed but also on the overall structure of the universe. Recent observational efforts, fueled by new large, ground-based telescopes and the Hubble Space Telescope, combined with theoretical progress, have brought us to the verge of determining the expansion history of the universe and space curvature from direct observation and to linking this to the formation history of galaxies. PMID:10411874

  4. The past and the future fate of the universe and the formation of structure in it

    PubMed Central

    Rix, Hans-Walter

    1999-01-01

    The history and the ultimate future fate of the universe as a whole depend on how much the expansion of the universe is decelerated by its own mass. In particular, whether the expansion of the universe will ever come to a halt can be determined from the past expansion. However, the mass density in the universe does not only govern the expansion history and the curvature of space, but in parallel also regulates the growth of hierarchical structure, including the collapse of material into the dense, virialized regions that we identify with galaxies. Hence, the formation of galaxies and their clustered distribution in space depend not only on the detailed physics of how stars are formed but also on the overall structure of the universe. Recent observational efforts, fueled by new large, ground-based telescopes and the Hubble Space Telescope, combined with theoretical progress, have brought us to the verge of determining the expansion history of the universe and space curvature from direct observation and to linking this to the formation history of galaxies. PMID:10411874

  5. Influence of structural features of carrageenan on the formation of polyelectrolyte complexes with chitosan.

    PubMed

    Volod'ko, A V; Davydova, V N; Glazunov, V P; Likhatskaya, G N; Yermak, I M

    2016-03-01

    The polyelectrolyte complexes (PEC) of carrageenans (CG)-κ-, κ/β-, λ-and x-CG with chitosan were obtained. The formation of PEC was detected by Fourier-transform infrared (FTIR) spectroscopy and by centrifugation in a Percoll gradient. The influence of the structural peculiarities of CG on its interaction with chitosan was studied. The results of centrifugation showed that x-CG with a high degree of sulphation (SD) was completely bound to chitosan, unlike low SD κ-CG and κ/β-CG. Binding constant values showed there was a high affinity of CG for chitosan. CG with flexible macromolecule conformation and high SD exhibited the greatest binding affinity for chitosan. The full-atomic 3D-structures of the PEC κ-CG: chitosan in solution have been obtained by the experiments in silico for the first time. The amino groups of chitosan make the largest contribution to the energy of the complex formation by means of hydrogen and ionic bonds. The most probable complexes have stoichiometries of 1:1 and 1:1.5. PMID:26712704

  6. Three-Coordinate Terminal Imidoiron(III) Complexes: Structure, Spectroscopy, and Mechanism of Formation

    PubMed Central

    Cowley, Ryan E.; DeYonker, Nathan J.; Eckert, Nathan A.; Cundari, Thomas R.; DeBeer, Serena; Bill, Eckhard; Ottenwaelder, Xavier; Flaschenriem, Christine; Holland, Patrick L.

    2010-01-01

    Reaction of 1-adamantyl azide with iron(I) diketiminate precursors gives metastable but isolable imidoiron(III) complexes LFe=NAd (L = bulky β-diketiminate ligand; Ad = 1-adamantyl). This paper addresses: (1) the spectroscopic and structural characterization of the Fe=N multiple bond in these interesting three-coordinate iron imido complexes, and (2) the mechanism through which the imido complexes form. The iron(III) imido complexes have been examined by 1H NMR and EPR spectroscopies and temperature-dependent magnetic susceptibility (SQUID), and structurally characterized by crystallography and/or X-ray absorption (EXAFS) measurements. These data show that the imido complexes have quartet ground states and short (1.68 ± 0.01 Å) iron-nitrogen bonds. The formation of the imido complexes proceeds through unobserved iron–RN3 intermediates, which are indicated by QM/MM computations to be best described as iron(II) with an RN3 radical anion. The radical character on the organoazide bends its NNN linkage to enable easy N2 loss and imido complex formation. The product distribution between imidoiron(III) products and hexazene-bridged diiron(II) products is solvent-dependent, and the solvent dependence can be explained by coordination of certain solvents to the iron(I) precursor prior to interaction with the organoazide. PMID:20524625

  7. EBSD analysis of magnesium addition on inclusion formation in SS400 structural steel

    SciTech Connect

    Luo, Sin-Jie; Su, Yen-Hao Frank; Lu, Muh-Jung; Kuo, Jui-Chao

    2013-08-15

    In this study, the effect of magnesium addition on the inclusion formation in SS400 steel was investigated. The experimental specimens with and without Mg addition treatment were compared. The microstructure was observed using optical microscopy after etching with 3% nital. The morphology and chemical composition of the inclusions were analyzed via scanning electron microscopy and energy dispersive spectrometry. The lattice structure and orientation of the inclusions were identified by electron backscattering diffraction. The average size of inclusions in SS400 was between 0.67 and 0.75 μm, and between 0.65 and 0.68 μm in SS400 + Mg. The 2 ppm Mg addition resulted in the oxide formation change from Al{sub 2}O{sub 3} to MgO·Al{sub 2}O{sub 3} and in the inclusion formation change from Al{sub 2}O{sub 3}–MnS to MgO·Al{sub 2}O{sub 3}–MnS. Moreover, a simple-phase MnS with an average grain size of 1 μm to 2 μm was observed in rod-like, globular, and polyhedron forms. - Highlights: • The effect of magnesium addition was investigated for SS400 steel. • 2 ppm Mg addition changes the inclusion formation from Al2O3-MnS to MgO·Al2O3-MnS. • MnS observed in inclusions exhibits rod-like, globular, and polyhedron forms.

  8. Structural, thermal, dielectric and phonon properties of perovskite-like imidazolium magnesium formate.

    PubMed

    Mączka, Mirosław; Marinho Costa, Nathalia Leal; Gągor, Anna; Paraguassu, Waldeci; Sieradzki, Adam; Hanuza, Jerzy

    2016-05-18

    We report the synthesis and characterisation of a magnesium formate framework templated by protonated imidazole. Single-crystal X-ray diffraction data showed that this compound crystallizes in the monoclinic structure in the P21/n space group with lattice parameters a = 12.1246(4) Å, b = 12.2087(5) Å, c = 12.4991(4) Å and β = 91.39(1)°. The antiparallel arrangement of the dipole moments associated with imidazolium cations suggests the antiferroelectric character of the room-temperature phase. The studied compound undergoes a structural phase transition at 451 K associated with a halving of the c lattice parameter and the disappearance of the antiferroelectric order. The monoclinic symmetry is preserved and the new metrics are a = 12.261(7) Å, b = 12.290(4) Å, c = 6.280(4) Å, and β = 90.62(5)°. Raman and IR data are consistent with the X-ray diffraction data. They also indicate that the disorder of imidazolium cations plays a significant role in the mechanism of the phase transition. Dielectric data show that the phase transition is associated with a relaxor nature of electric ordering. We also report high-pressure Raman scattering studies of this compound that revealed the presence of two pressure-induced phase transitions near 3 and 7 GPa. The first transition is most likely associated with a rearrangement of the imidazolium cations without any significant distortion of these cations and the magnesium formate framework, whereas the second transition leads to strong distortion of both the framework and imidazolium cations. High-pressure data also show that imidazolium magnesium formate does not show any signs of amorphization up to 11.4 GPa. PMID:27150209

  9. Structural insight into the role of Streptococcus parasanguinis Fap1 within oral biofilm formation

    SciTech Connect

    Garnett, James A.; Simpson, Peter J.; Taylor, Jonathan; Benjamin, Stefi V.; Tagliaferri, Camille; Cota, Ernesto; Chen, Yi-Ywan M.; Wu, Hui; Matthews, Stephen

    2012-01-06

    Highlights: Black-Right-Pointing-Pointer Crystal structure of Streptococcus parasanguinis Fap1-NR{sub {alpha}} at pH 5.0. Black-Right-Pointing-Pointer pH-dependent conformational changes mediated through electrostatic potential of Fap1-NR{sub {alpha}}. Black-Right-Pointing-Pointer Fap1 facilitates pH-dependent biofilms. Black-Right-Pointing-Pointer We model inter-Fap1 biofilm interactions. -- Abstract: The fimbriae-associated protein 1 (Fap1) is a major adhesin of Streptococcus parasanguinis, a primary colonizer of the oral cavity that plays an important role in the formation of dental plaque. Fap1 is an extracellular adhesive surface fibre belonging to the serine-rich repeat protein (SRRP) family, which plays a central role in the pathogenesis of streptococci and staphylococci. The N-terminal adhesive region of Fap1 (Fap1-NR) is composed of two domains (Fap1-NR{sub {alpha}} and Fap1-NR{sub {beta}}) and is projected away from the bacterial surface via the extensive serine-rich repeat region, for adhesion to the salivary pellicle. The adhesive properties of Fap1 are modulated through a pH switch in which a reduction in pH results in a rearrangement between the Fap1-NR{sub {alpha}} and Fap1-NR{sub {beta}} domains, which assists in the survival of S. parasanguinis in acidic environments. We have solved the structure of Fap1-NR{sub {alpha}} at pH 5.0 at 3.0 A resolution and reveal how subtle rearrangements of the 3-helix bundle combined with a change in electrostatic potential mediates 'opening' and activation of the adhesive region. Further, we show that pH-dependent changes are critical for biofilm formation and present an atomic model for the inter-Fap1-NR interactions which have been assigned an important role in the biofilm formation.

  10. Decameric SelA•tRNA(Sec) ring structure reveals mechanism of bacterial selenocysteine formation.

    PubMed

    Itoh, Yuzuru; Bröcker, Markus J; Sekine, Shun-ichi; Hammond, Gifty; Suetsugu, Shiro; Söll, Dieter; Yokoyama, Shigeyuki

    2013-04-01

    The 21st amino acid, selenocysteine (Sec), is synthesized on its cognate transfer RNA (tRNA(Sec)). In bacteria, SelA synthesizes Sec from Ser-tRNA(Sec), whereas in archaea and eukaryotes SepSecS forms Sec from phosphoserine (Sep) acylated to tRNA(Sec). We determined the crystal structures of Aquifex aeolicus SelA complexes, which revealed a ring-shaped homodecamer that binds 10 tRNA(Sec) molecules, each interacting with four SelA subunits. The SelA N-terminal domain binds the tRNA(Sec)-specific D-arm structure, thereby discriminating Ser-tRNA(Sec) from Ser-tRNA(Ser). A large cleft is created between two subunits and accommodates the 3'-terminal region of Ser-tRNA(Sec). The SelA structures together with in vivo and in vitro enzyme assays show decamerization to be essential for SelA function. SelA catalyzes pyridoxal 5'-phosphate-dependent Sec formation involving Arg residues nonhomologous to those in SepSecS. Different protein architecture and substrate coordination of the bacterial enzyme provide structural evidence for independent evolution of the two Sec synthesis systems present in nature. PMID:23559248

  11. Formation and structure of 360 and 540 degree domain walls in thin magnetic stripes

    NASA Astrophysics Data System (ADS)

    Mascaro, Mark; Jang, Youngman; Bowden, S. R.; Unguris, J.; Ross, C. A.

    2012-02-01

    A method is presented for forming a 360^o domain wall (DW) and more complex structures such as a 540^o DW in a wire attached to an injection pad by applying an alternating in-plane field perpendicular to the wire. SEMPA, MFM measurements and OOMMF micromagnetic simulations give a consistent picture of the magnetic structure and stray field distribution of the 360^o DW. Equilibrium 360^o DWs in wires have a well-defined structure and size, persist over a wide field range, and can be distinguished from configurations consisting of two 180^o DWs pinned near each other. The formation and stability of these complex walls has implications in memory and logic devices based on field- or current-induced DW motion, where impingement of adjacent 180^o DWs can produce composite DWs whose behavior and stray field distribution differ significantly from that of a 180^o DW, and these structures could also be used to examine intriguing resonant behavior as predicted by modeling. [Phys. Rev. B 82, 214411; Phys. Rev. B 82, 134411

  12. Formation of mixed-layer structures in smectites intercalated with tryptone

    NASA Astrophysics Data System (ADS)

    Block, K. A.; Trusiak, A.; Steiner, J. C.; Katz, A.; Gottlieb, P.; Alimova, A.

    2012-12-01

    Stable clay-protein complexes are fundamental to studies of the critical zone, terrestrial ecosystems, pharmacology, and industrial applications such as bioremediation. Two sets of montmorillonite clays were purified and made homoionic for Na and Mg. Mg-montmorillonite and Na-montmorillonite were mixed with tryptone (casein digest) in a 9:1 and 18:1 clay:tryptone ratio, resulting in the formation of reversible intercalated structures. X-ray diffraction analysis of the protein-clay complexes produced profiles consisting of two peaks associated with the smectite 001 reflection and a related tryptone-packet peak similar to that produced by a mixed layer clay structure. Shifts in the 002, 003, and 004 diffraction maxima are attributed to disorder caused by the interaction with the protein. Line broadening in the smectite-tryptone XRD spectra is interpreted to be the result of interlayer absorption. Adsorption produces coherent crystalline packets of regularly interbedded tryptone and smectite platelets. SEM images reveal clay platelets with upwardly rolled edges that tend toward cylindrical structures with the production of occasional tubes in the smaller platelet size range as noted for organic compound-kaolinite intercalation reported by Fenoll Hach-Ali and Weiss (1969). Reference: Fenoll Hach-Ali, P.F., Weiss, A., 1969. Estudio de la reaccion de caolinita y N-metilform- amida. Quimica LXV, 769-790. Scanning electron micrograph of tryptone-intercalated clay platelets exhibiting rolled edge structure.

  13. Phenomenological thermodynamics and the structure formation mechanism of the CuTi₂S₄ rhombohedral phase.

    PubMed

    Talanov, Michail V; Shirokov, Vladimir B; Talanov, Valery M

    2016-04-21

    The theory of structural phase transition in CuTi2S4 is proposed. The symmetry of order parameters, thermodynamics and the mechanism of the atomic structure formation of the rhombohedral Cu-Ti-thiospinel have been studied. The critical order parameter inducing the phase transition has been found. Within the Landau theory of phase transitions, it is shown that the phase state may change from the high-symmetry cubic disordered Fd3[combining macron]m phase to the low-symmetry ordered rhombohedral R3[combining macron]m phase as a result of phase transition of the first order close to the second order. It is shown that the rhombohedral structure of CuTi2S4 is formed as a result of the displacements of all types of atoms and the ordering of Cu-atoms (1 : 1 order type in tetrahedral spinel sites), Ti-atoms (1 : 1 : 6 order type in octahedral spinel sites), and S-atoms (1 : 1 : 3 : 3 order type). The Cu- and Ti-atoms form metal nanoclusters which are named a "bunch" of dimers. The "bunch" of dimers in CuTi2S4 is a new type of self-organization of atoms in frustrated spinel-like structures. It is shown that Ti-atoms also form other types of metal nanoclusters: trimers and tetrahedra. PMID:27035866

  14. From Globular Clusters to Tidal Dwarfs: Structure Formation in the Tidal Tails of Merging Galaxies

    NASA Astrophysics Data System (ADS)

    Knierman, Karen A.; Gallagher, Sarah C.; Charlton, Jane C.; Hunsberger, Sally D.; Whitmore, Bradley; Kundu, Arunav; Hibbard, J. E.; Zaritsky, Dennis

    2003-09-01

    Using V and I images obtained with the Wide Field Planetary Camera 2 (WFPC2) of the Hubble Space Telescope, we investigate compact stellar structures within tidal tails. Six regions of tidal debris in the four classic ``Toomre sequence'' mergers: NGC 4038/39 (``Antennae''), NGC 3256, NGC 3921, and NGC 7252 (``Atoms for Peace'') have been studied in order to explore how the star formation depends on the local and global physical conditions. These mergers sample a range of stages in the evolutionary sequence and tails with and without embedded tidal dwarf galaxies. The six tails are found to contain a variety of stellar structures, with sizes ranging from those of globular clusters up to those of dwarf galaxies. From V and I WFPC2 images, we measure the luminosities and colors of the star clusters. NGC 3256 is found to have a large population of blue clusters (0.2<~V-I<~0.9), particularly in its western tail, similar to those found in the inner region of the merger. In contrast, NGC 4038/39 has no clusters in the observed region of the tail, only less luminous point sources likely to be individual stars. NGC 3921 and NGC 7252 have small populations of clusters along their tails. A significant cluster population is clearly associated with the prominent tidal dwarf candidates in the eastern and western tails of NGC 7252. The cluster-rich western tail of NGC 3256 is not distinguished from the others by its dynamical age or by its total H I mass. However, the mergers that have few clusters in the tail all have tidal dwarf galaxies, while NGC 3256 does not have prominent tidal dwarfs. We speculate that star formation in tidal tails may manifest itself either in small structures like clusters along the tail or in large structures such as dwarf galaxies, but not in both. Also, NGC 3256 has the highest star formation rate of the four mergers studied, which may contribute to the high number of star clusters in its tidal tails. Based in part on observations obtained with the

  15. ETHOS—an effective theory of structure formation: From dark particle physics to the matter distribution of the Universe

    NASA Astrophysics Data System (ADS)

    Cyr-Racine, Francis-Yan; Sigurdson, Kris; Zavala, Jesús; Bringmann, Torsten; Vogelsberger, Mark; Pfrommer, Christoph

    2016-06-01

    We formulate an effective theory of structure formation (ETHOS) that enables cosmological structure formation to be computed in almost any microphysical model of dark matter physics. This framework maps the detailed microphysical theories of particle dark matter interactions into the physical effective parameters that shape the linear matter power spectrum and the self-interaction transfer cross section of nonrelativistic dark matter. These are the input to structure formation simulations, which follow the evolution of the cosmological and galactic dark matter distributions. Models with similar effective parameters in ETHOS but with different dark particle physics would nevertheless result in similar dark matter distributions. We present a general method to map an ultraviolet complete or effective field theory of low-energy dark matter physics into parameters that affect the linear matter power spectrum and carry out this mapping for several representative particle models. We further propose a simple but useful choice for characterizing the dark matter self-interaction transfer cross section that parametrizes self-scattering in structure formation simulations. Taken together, these effective parameters in ETHOS allow the classification of dark matter theories according to their structure formation properties rather than their intrinsic particle properties, paving the way for future simulations to span the space of viable dark matter physics relevant for structure formation.

  16. Crystal structures and phase formation thermodynamics of iron-gold nanoclusters

    NASA Astrophysics Data System (ADS)

    Mukherjee, Pinaki

    Alloy nanoparticles are being increasingly used in wide variety of applications (catalysis, contrast enhancement in magnetic resonance imaging, etc.). Knowledge of crystal structure and phase formation of the alloy nanoparticles is critical for these applications. Anomalous thermodynamic behavior and unusual phase formation have been reported for nanoparticles with size below 10 nm. In the present work, inert gas condensation (IGC) has been used to produce Au-Fe nanoclusters of varied compositions with a mean size between 5-10 nm. Here, the nanoclusters below 10 nm display complete solubility between Fe and Au in Fex Au1-x (0.3 < x < 0.8) alloys. The as-deposited clusters are single-crystalline but crystallinity is poor with significant disorder. New structural phases have been obtained for as-deposited clusters that are inconsistent with the equilibrium phase diagram. The as-deposited structures were either bcc for x > 0.65 and fcc for x < 0.65, with lattice parameters expanded relative to elemental and rule-of mixtures values, suggesting the presence of self-interstitials. The as-deposited clusters were ferromagnetic at room temperature. Heat treatment at 600°C for 15 minutes followed by furnace cooling resulted in the size-dependent transformation of the clusters into additional, non-equilibrium structures that depended on cluster composition, while larger clusters followed bulk behavior. At about 65 atom % Fe, clusters transformed to a well-ordered, single fcc phase with a lattice parameter of 0.363 nm, whereas the phase diagram predicted two-phase equilibrium. The stabilization of a single fcc phase was explained by a thermodynamic analysis. This analysis suggests that the single phase stability in the Fe-Au nanoparticles arises from the fact that the introduction of a phase boundary is energetically opposed. Heat treatment of as-deposited particles results in L12 and L1 0ordered structures near 1:3, 3:1 and 1:1 (Fe:Au) stoichiometries respectively

  17. HOT X-RAY CORONAE AROUND MASSIVE SPIRAL GALAXIES: A UNIQUE PROBE OF STRUCTURE FORMATION MODELS

    SciTech Connect

    Bogdan, Akos; Forman, William R.; Vogelsberger, Mark; Sijacki, Debora; Mazzotta, Pasquale; Kraft, Ralph P.; Jones, Christine; David, Laurence P.; Bourdin, Herve; Gilfanov, Marat; Churazov, Eugene

    2013-08-01

    Luminous X-ray gas coronae in the dark matter halos of massive spiral galaxies are a fundamental prediction of structure formation models, yet only a few such coronae have been detected so far. In this paper, we study the hot X-ray coronae beyond the optical disks of two 'normal' massive spirals, NGC 1961 and NGC 6753. Based on XMM-Newton X-ray observations, hot gaseous emission is detected to {approx}60 kpc-well beyond their optical radii. The hot gas has a best-fit temperature of kT {approx} 0.6 keV and an abundance of {approx}0.1 Solar, and exhibits a fairly uniform distribution, suggesting that the quasi-static gas resides in hydrostatic equilibrium in the potential well of the galaxies. The bolometric luminosity of the gas in the (0.05-0.15)r{sub 200} region (r{sub 200} is the virial radius) is {approx}6 Multiplication-Sign 10{sup 40} erg s{sup -1} for both galaxies. The baryon mass fractions of NGC 1961 and NGC 6753 are f{sub b,NGC1961} {approx} 0.11 and f{sub b,NGC6753} {approx} 0.09, which values fall short of the cosmic baryon fraction. The hot coronae around NGC 1961 and NGC 6753 offer an excellent basis to probe structure formation simulations. To this end, the observations are confronted with the moving mesh code AREPO and the smoothed particle hydrodynamics code GADGET. Although neither model gives a perfect description, the observed luminosities, gas masses, and abundances favor the AREPO code. Moreover, the shape and the normalization of the observed density profiles are better reproduced by AREPO within {approx}0.5r{sub 200}. However, neither model incorporates efficient feedback from supermassive black holes or supernovae, which could alter the simulated properties of the X-ray coronae. With the further advance of numerical models, the present observations will be essential in constraining the feedback effects in structure formation simulations.

  18. Galaxy Proto-clusters as an Interface Between Structure, Cluster, and Galaxy Formation

    NASA Astrophysics Data System (ADS)

    Chiang, Yi-Kuan

    2016-01-01

    Proto-clusters, the progenitor large-scale structures of present day galaxy clusters, are unique laboratories to study dark matter assembly, cosmic baryon cycle, galaxy growth, and environmental impact on galaxy evolution. In this dissertation talk, I will present our recent progress in this subject, both theoretical and observational. Using a set of cosmological N-body simulations and semi-analytic galaxy models, we extract the mass, size, and overdensity evolution for ˜3000 simulated clusters from z=8 to z=0. In line with the scenario of cosmic downsizing, the models predict that the fraction of cosmic star formation rate occurs in (proto-)clusters increases from <1% at z=0 to 20-30% at z=8. This result demonstrates that the seemingly sharp distinction when discussing field and cluster galaxy evolution has to be blurred at high redshift, and a significant fraction of cosmic reionization was done by cluster progenitors. Observationally, we focus on the epoch of z≈2 when the first cluster scale halos (1014 M⊙) were about to form. We perform a systematic proto-cluster search using a photometric redshift catalog in the COSMOS field, revealing a large sample of 36 candidate proto-clusters at 1.6structures in this catalog have been confirmed spectroscopically. I will present the confirmation and detailed characterization of a ``proto-Virgo'' cluster in this field at z=2.44 with Mz=0 = 1014.5±0.4 M⊙ using a sample of Lyα emitters (LAE) in the HETDEX Pilot Survey with a highly homogeneous selection function in 3D redshift space. Compared to the cosmic mean, this structure shows a LAE overdensity of 4 on a scale of few tens cMpc, a 5 times higher fraction of extended Lya blobs, a 2 times higher median stellar mass of NIR selected galaxies with photometric redshift, and a significantly enhanced intergalactic gas revealed in the Lyα absorption maps of Lee et al. (2014, 2015). With these results, I will discuss proto-clusters in the context of

  19. Amelotin Gene Structure and Expression during Enamel Formation in the Opossum Monodelphis domestica.

    PubMed

    Gasse, Barbara; Liu, Xi; Corre, Erwan; Sire, Jean-Yves

    2015-01-01

    Amelotin (AMTN) is an ameloblast-secreted protein that belongs to the secretory calcium-binding phosphoprotein family, which also includes the enamel matrix proteins amelogenin, ameloblastin and enamelin. Although AMTN is supposed to play an important role in enamel formation, data were long limited to the rodents, in which it is expressed during the maturation stage. Recent comparative studies in sauropsids and amphibians revealed that (i) AMTN was expressed earlier, i.e. as soon as ameloblasts are depositing the enamel matrix, and (ii) AMTN structure was different, a change which mostly resulted from an intraexonic splicing in the large exon 8 of an ancestral mammal. The present study was performed to know whether the differences in AMTN structure and expression in rodents compared to non-mammalian tetrapods dated back to an early ancestral mammal or were acquired later in mammalian evolution. We sequenced, assembled and screened the jaw transcriptome of a neonate opossum Monodelphis domestica, a marsupial. We found two AMTN transcripts. Variant 1, representing 70.8% of AMTN transcripts, displayed the structure known in rodents, whereas variant 2 (29.2%) exhibited the nonmammalian tetrapod structure. Then, we studied AMTN expression during amelogenesis in a neonate specimen. We obtained similar data as those reported in rodents. These findings indicate that more than 180 million years ago, before the divergence of marsupials and placentals, changes occurred in AMTN function and structure. The spatiotemporal expression was delayed to the maturation stage of amelogenesis and the intraexonic splicing gave rise to isoform 1, encoded by variant 1 and lacking the RGD motif. The ancestral isoform 2, housing the RGD, was initially conserved, as demonstrated here in a marsupial, then secondarily lost in the placental lineages. These findings bring new elements towards our understanding of the non-prismatic to prismatic enamel transition that occurred at the onset of

  20. Amelotin Gene Structure and Expression during Enamel Formation in the Opossum Monodelphis domestica

    PubMed Central

    Gasse, Barbara; Liu, Xi; Corre, Erwan; Sire, Jean-Yves

    2015-01-01

    Amelotin (AMTN) is an ameloblast-secreted protein that belongs to the secretory calcium-binding phosphoprotein family, which also includes the enamel matrix proteins amelogenin, ameloblastin and enamelin. Although AMTN is supposed to play an important role in enamel formation, data were long limited to the rodents, in which it is expressed during the maturation stage. Recent comparative studies in sauropsids and amphibians revealed that (i) AMTN was expressed earlier, i.e. as soon as ameloblasts are depositing the enamel matrix, and (ii) AMTN structure was different, a change which mostly resulted from an intraexonic splicing in the large exon 8 of an ancestral mammal. The present study was performed to know whether the differences in AMTN structure and expression in rodents compared to non-mammalian tetrapods dated back to an early ancestral mammal or were acquired later in mammalian evolution. We sequenced, assembled and screened the jaw transcriptome of a neonate opossum Monodelphis domestica, a marsupial. We found two AMTN transcripts. Variant 1, representing 70.8% of AMTN transcripts, displayed the structure known in rodents, whereas variant 2 (29.2%) exhibited the nonmammalian tetrapod structure. Then, we studied AMTN expression during amelogenesis in a neonate specimen. We obtained similar data as those reported in rodents. These findings indicate that more than 180 million years ago, before the divergence of marsupials and placentals, changes occurred in AMTN function and structure. The spatiotemporal expression was delayed to the maturation stage of amelogenesis and the intraexonic splicing gave rise to isoform 1, encoded by variant 1 and lacking the RGD motif. The ancestral isoform 2, housing the RGD, was initially conserved, as demonstrated here in a marsupial, then secondarily lost in the placental lineages. These findings bring new elements towards our understanding of the non-prismatic to prismatic enamel transition that occurred at the onset of

  1. Electrohydrodynamic pressure enhanced by free space charge for electrically induced structure formation with high aspect ratio.

    PubMed

    Tian, Hongmiao; Wang, Chunhui; Shao, Jinyou; Ding, Yucheng; Li, Xiangming

    2014-10-28

    Electrically induced structure formation (EISF) is an interesting and unique approach for generating a microstructured duplicate from a rheological polymer by a spatially modulated electric field induced by a patterned template. Most of the research on EISF have so far used various dielectric polymers (with an electrical conductivity smaller than 10(-10) S/m that can be considered a perfect dielectric), on which the electric field induces a Maxwell stress only due to the dipoles (or bounded charges) in the polymer molecules, leading to a structure with a small aspect ratio. This paper presents a different approach for improving the aspect ratio allowed in EISF by doping organic salt into the perfect dielectric polymer, i.e., turning the perfect dielectric into a leaky dielectric, considering the fact that the free space charges enriched in the leaky dielectric polymer can make an additional contribution to the Maxwell stress, i.e., electrohydrodynamic pressure, which is desirable for high aspect ratio structuring. Our numerical simulations and experimental tests have shown that a leaky dielectric polymer, with a small conductivity comparable to that of deionized water, can be much more effective at being electrohydrodynamically deformed into a high aspect ratio in comparison with a perfect dielectric polymer when both of them have roughly the same dielectric constant. PMID:25268463

  2. Structure of yeast Ape1 and its role in autophagic vesicle formation.

    PubMed

    Su, Ming-Yuan; Peng, Wen-Hsin; Ho, Meng-Ru; Su, Shih-Chieh; Chang, Yuan-Chih; Chen, Guang-Chao; Chang, Chung-I

    2015-01-01

    In Saccharomyces cerevisiae, a constitutive biosynthetic transport pathway, termed the cytoplasm-to-vacuole targeting (Cvt) pathway, sequesters precursor aminopeptidase I (prApe1) dodecamers in the form of a large complex into a Cvt vesicle using autophagic machinery, targeting it into the vacuole (the yeast lysosome) where it is proteolytically processed into its mature form, Ape1, by removal of an amino-terminal 45-amino acid propeptide. prApe1 is thought to serve as a scaffolding cargo critical for the assembly of the Cvt vesicle by presenting the propeptide to mediate higher-ordered complex formation and autophagic receptor recognition. Here we report the X-ray crystal structure of Ape1 at 2.5 Å resolution and reveal its dodecameric architecture consisting of dimeric and trimeric units, which associate to form a large tetrahedron. The propeptide of prApe1 exhibits concentration-dependent oligomerization and forms a stable tetramer. Structure-based mutagenesis demonstrates that disruption of the inter-subunit interface prevents dodecameric assembly and vacuolar targeting in vivo despite the presence of the propeptide. Furthermore, by examining the vacuolar import of propeptide-fused exogenous protein assemblies with different quaternary structures, we found that 3-dimensional spatial distribution of propeptides presented by a scaffolding cargo is essential for the assembly of the Cvt vesicle for vacuolar delivery. This study describes a molecular framework for understanding the mechanism of Cvt or autophagosomal biogenesis in selective macroautophagy. PMID:26208681

  3. Molecular dynamics study of crater formation by core-shell structured cluster impact

    NASA Astrophysics Data System (ADS)

    Aoki, Takaaki; Seki, Toshio; Matsuo, Jiro

    2012-07-01

    Crater formation processes by the impacts of large clusters with binary atomic species were studied using molecular dynamics (MD) simulations. Argon and xenon atoms are artificially organized in core-shell cluster structures with various component ratios and irradiated on a Si(1 0 0) target surface. When the cluster has Xe1000 core covered with 1000 Ar atoms, and impacts at a total of 20 keV, the core Xe cluster penetrates into the deep area, and a crater with a conical shape is left on the target. On the other hand, in the case of a cluster with the opposite structure, Ar1000 core covered with 1000 Xe atoms, the cluster stops at a shallow area of the target. The incident cluster atoms are mixed and tend to spread in a lateral direction, which results in a square shaped crater with a shallower hole and wider opening. The MD simulations suggest that large cluster impacts cause different irradiation effects by changing the structure, even if the component ratio is the same.

  4. Structure of yeast Ape1 and its role in autophagic vesicle formation

    PubMed Central

    Su, Ming-Yuan; Peng, Wen-Hsin; Ho, Meng-Ru; Su, Shih-Chieh; Chang, Yuan-Chih; Chen, Guang-Chao; Chang, Chung-I

    2015-01-01

    In Saccharomyces cerevisiae, a constitutive biosynthetic transport pathway, termed the cytoplasm-to-vacuole targeting (Cvt) pathway, sequesters precursor aminopeptidase I (prApe1) dodecamers in the form of a large complex into a Cvt vesicle using autophagic machinery, targeting it into the vacuole (the yeast lysosome) where it is proteolytically processed into its mature form, Ape1, by removal of an amino-terminal 45-amino acid propeptide. prApe1 is thought to serve as a scaffolding cargo critical for the assembly of the Cvt vesicle by presenting the propeptide to mediate higher-ordered complex formation and autophagic receptor recognition. Here we report the X-ray crystal structure of Ape1 at 2.5 Å resolution and reveal its dodecameric architecture consisting of dimeric and trimeric units, which associate to form a large tetrahedron. The propeptide of prApe1 exhibits concentration-dependent oligomerization and forms a stable tetramer. Structure-based mutagenesis demonstrates that disruption of the inter-subunit interface prevents dodecameric assembly and vacuolar targeting in vivo despite the presence of the propeptide. Furthermore, by examining the vacuolar import of propeptide-fused exogenous protein assemblies with different quaternary structures, we found that 3-dimensional spatial distribution of propeptides presented by a scaffolding cargo is essential for the assembly of the Cvt vesicle for vacuolar delivery. This study describes a molecular framework for understanding the mechanism of Cvt or autophagosomal biogenesis in selective macroautophagy. PMID:26208681

  5. Resolving detailed molecular structures in complex organic mixtures and modeling their secondary organic aerosol formation

    NASA Astrophysics Data System (ADS)

    Goodman-Rendall, Kevin A. S.; Zhuang, Yang R.; Amirav, Aviv; Chan, Arthur W. H.

    2016-03-01

    Characterization of unresolved complex mixtures (UCMs) remains an ongoing challenge towards developing detailed and accurate inputs for modeling secondary organic aerosol (SOA) formation. Traditional techniques based on gas chromatography/electron impact-mass spectrometry induce excessive fragmentation, making it difficult to speciate and quantify isomers precisely. The goal of this study is to identify individual organic isomers by gas chromatography/mass spectrometry with supersonic molecular beam (SMB-GC/MS, also known as GC/MS with Cold EI) and to incorporate speciated isomers into an SOA model that accounts for the specific structures elucidated. Two samples containing atmospherically relevant UCMs are analyzed. The relative isomer distributions exhibit remarkably consistent trends across a wide range of carbon numbers. Constitutional isomers of different alkanes are speciated and individually quantified as linear, branched - for the first time by position of branching - multiply branched, or unsaturated - by degree of ring substitution and number of rings. Relative amounts of exact molecular structures are used as input parameters in an SOA box model to study the effects of molecular structures on SOA yields and volatility evolution. Highly substituted cyclic, mono-substituted cyclic, and linear species have the highest SOA yields while branched alkanes formed the least SOA. The rate of functionalization of a representative UCM is found to be in agreement with current volatility basis set (VBS) parameterizations based on detailed knowledge of composition and known oxidation mechanisms, confirming the validity of VBS parameters currently used in air quality models.

  6. A microscopic, non-equilibrium, statistical field theory for cosmic structure formation

    NASA Astrophysics Data System (ADS)

    Bartelmann, Matthias; Fabis, Felix; Berg, Daniel; Kozlikin, Elena; Lilow, Robert; Viermann, Celia

    2016-04-01

    Building upon the recent pioneering work by Mazenko and by Das and Mazenko, we develop a microscopic, non-equilibrium, statistical field theory for initially correlated canonical ensembles of classical microscopic particles obeying Hamiltonian dynamics. Our primary target is cosmic structure formation, where initial Gaussian correlations in phase space are believed to be set by inflation. We give an exact expression for the generating functional of this theory and work out suitable approximations. We specify the initial correlations by a power spectrum and derive general expressions for the correlators of the density and the response field. We derive simple closed expressions for the lowest-order contributions to the nonlinear cosmological power spectrum, valid for arbitrary wave numbers. We further calculate the bispectrum expected in this theory within these approximations and the power spectrum of cosmic density fluctuations to first order in the gravitational interaction, using a recent improvement of the Zel’dovich approximation. We show that, with a modification motivated by the adhesion approximation, the nonlinear growth of the density power spectrum found in numerical simulations of cosmic structure evolution is reproduced well to redshift zero and for arbitrary wave numbers even within first-order perturbation theory. Our results present the first fully analytic calculation of the nonlinear power spectrum of cosmic structures.

  7. Understanding irregular shell formation of Nautilus in aquaria: chemical composition and structural analysis.

    PubMed

    Moini, Mehdi; O'Halloran, Aoife; Peters, Alan M; France, Christine A M; Vicenzi, Edward P; DeWitt, Tamsen G; Langan, Esther; Walsh, Tim; Speakman, Robert J

    2014-01-01

    Irregular shell formation and black lines on the outside of live chambered nautilus shells have been observed in all adult specimens at aquariums and zoos soon after the organisms enter aquaria. Black lines have also been observed in wild animals at sites of broken shell, but continued growth from that point returns to a normal, smooth structure. In contrast, rough irregular deposition of shell continues throughout residence in aquaria. The composition and reasons for deposition of the black material and mitigation of this irregular shell formation is the subject of the current study. A variety of analytical techniques were used, including stable isotope mass spectrometry (SI-MS), inductively coupled plasma mass spectrometry (ICP-MS), micro x-ray fluorescence (µXRF), X-ray diffraction (XRD), and scanning electron microscopy (SEM) based X-ray microanalysis. Results indicate that the black material contains excess amounts of copper, zinc, and bromine which are unrelated to the Nautilus diet. The combination of these elements and proteins plays an important role in shell formation, growth, and strengthening. Further study will be needed to compare the proteomics of the shell under aquaria versus natural wild environments. The question remains as to whether the occurrence of the black lines indicates normal healing followed by growth irregularities that are caused by stress from chemical or environmental conditions. In this paper we begin to address this question by examining elemental and isotopic differences of Nautilus diet and salt water. The atomic composition and light stable isotopic ratios of the Nautilus shell formed in aquaria verses wild conditions are presented. PMID:24797217

  8. Cosmological N-body Simulation of Galaxy and Large-Scale Structure Formation: The Gravity Frontier

    NASA Astrophysics Data System (ADS)

    Klypin, Anatoly

    2015-04-01

    One of the first N-body simulations done almost 50 years ago had only 200 self-gravitating particles. Even this first baby step made substantial impact on understanding how astronomical objects should form. Now powerful supercomputers and new algorithms allow astronomers produce N-body simulations that employ up to a trillion dark matter particles and produce vital theoretical predictions regarding formation, evolution, structure and statistics of objects ranging from dwarf galaxies to clusters and superclusters of galaxies. With only gravity involved in these theoretical models, one would naively expect that by now we should know everything we need about N-body dynamics of cosmological fluctuations. Not the case. It appears that the Universe was not cooperative and gave us divergencies in the initial conditions generated during the Inflation epoch and subsequent expansion of the Universe - the infinite phase-space density and divergent density fluctuations. Ever increasing observational demands on statistics and accuracy of theoretical predictions is another driving force for more realistic and larger N-body simulations. Large current and new planned observational projects such as BOSS, eBOSS, Euclid, LSST will bring information on spatial distribution, motion, and properties of millions of galaxies at different redshifts. Direct simulations of evolution of gas and formation of stars for millions of forming galaxies will not be available for years leaving astronomers with the only option - to develop methods to combine large N-body simulations with models of galaxy formation to produce accurate theoretical predictions. I will discuss the current status of the field and directions of its development.

  9. Monodispersed bimetallic PdAg nanoparticles with twinned structures: Formation and enhancement for the methanol oxidation

    NASA Astrophysics Data System (ADS)

    Yin, Zhen; Zhang, Yining; Chen, Kai; Li, Jing; Li, Wenjing; Tang, Pei; Zhao, Huabo; Zhu, Qingjun; Bao, Xinhe; Ma, Ding

    2014-03-01

    Monodispersed bimetallic PdAg nanoparticles can be fabricated through the emulsion-assisted ethylene glycol (EG) ternary system. Different compositions of bimetallic PdAg nanoparticles, Pd80Ag20, Pd65Ag35 and Pd46Ag54 can be obtained via adjusting the reaction parameters. For the formation process of the bimetallic PdAg nanoparticles, there have two-stage growth processes: firstly, nucleation and growth of the primary nanoclusters; secondly, formation of the secondary nanoparticles with the size-selection and relax process via the coalescence or aggregation of the primary nanoclusters. The as-prepared PdAg can be supported on the carbon black without any post-treatment, which exhibited high electro-oxidation activity towards methanol oxidation under alkaline media. More importantly, carbon-supported Pd80Ag20 nanoparticles reveal distinctly superior activities for the methanol oxidation, even if compared with commercial Pt/C electro-catalyst. It is concluded that the enhanced activity is dependant on the unique twinning structure with heterogeneous phase due to the dominating coalescence growth in EG ternary system.

  10. The structure and formation mechanism of a sea fog event over the Yellow Sea

    NASA Astrophysics Data System (ADS)

    Guo, Jingtian; Li, Pengyuan; Fu, Gang; Zhang, Wei; Gao, Shanhong; Zhang, Suping

    2015-02-01

    In this paper, a heavy sea fog event occurring over the Yellow Sea on 11 April 2004 was investigated based upon observational and modeling analyses. From the observational analyses, this sea fog event is a typical advection cooling case. Sea surface temperature (SST) and specific humidity (SH) show strong gradients from south to north, in which warm water is located in the south and consequently, moisture is larger in the south than in the north due to evaporation processes. After fog formation, evaporation process provides more moisture into the air and further contributes to fog evolution. The sea fog event was reproduced by the Regional Atmospheric Modeling System (RAMS) reasonably. The roles of important physical processes such as radiation, turbulence as well as atmospheric stratification in sea fog's structure and its formation mechanisms were analyzed using the model results. The roles of long wave radiation cooling, turbulence as well as atmospheric stratification were analyzed based on the modeling results. It is found that the long wave radiative cooling at the fog top plays an important role in cooling down the fog layer through turbulence mixing. The fog top cooling can overpower warming from the surface. Sea fog develops upward with the aid of turbulence. The buoyancy term, i.e., the unstable layer, contributes to the generation of TKE in the fog region. However, the temperature inversion layer prevents fog from growing upward.

  11. Identification of a Gene Essential for Sheathed Structure Formation in Sphaerotilus natans, a Filamentous Sheathed Bacterium

    PubMed Central

    Suzuki, Toshihiko; Kanagawa, Takahiro; Kamagata, Yoichi

    2002-01-01

    Sphaerotilus natans, a filamentous bacterium that causes bulking in activated sludge processes, can assume two distinct morphologies, depending on the substrate concentration for growth; in substrate-rich media it grows as single rod-shaped cells, whereas in substrate-limited media it grows as filaments. To identify genes responsible for sheath formation, we carried out transposon Tn5 mutagenesis. Of the approximately 20,000 mutants obtained, 7 did not form sheathed structures. Sequencing of the Tn5-flanking regions showed that five of the seven Tn5 insertions converged at the same open reading frame, designated sthA. The deduced amino acids encoded by sthA were found to be homologous to glycosyltransferase, which is known to be involved in linking sugars to lipid carriers during bacterial exopolysaccharide biosynthesis. Disruption of the gene of the wild-type strain by inserting a kanamycin resistance gene cassette also resulted in sheathless growth under either type of nutrient condition. These findings indicate that sthA is a crucial component responsible for sheath formation. PMID:11772646

  12. Characteristics of entrapment in the Khuff Formation around the Arabian platform: Deposition, diagenesis, structure, and fracturing

    SciTech Connect

    Charara, M.; Nurmi, R. ); Loutfi, G. )

    1991-08-01

    Most giant Khuff discoveries have been gas; however, recent wells demonstrate that the Khuff can contain oil at shallow depths, whereas deepest wells reveal the destruction of methane and the occurrence of nonhydrocarbon gases. The geological characteristics of the Khuff Formation, which determine hydrocarbon entrapment in economic quantities, range from initial depositional faces to late stage fracturing that is influenced by the varying rock character of Khuff diagenetic zones. Exploration evaluation is difficult because porous zones are not uniformly distributed and a dry test does not necessarily condemn an entire structure. Careful integration of log and core petrophysical data on key wells with extensive cored intervals allowed construction of formation evaluation models which were tested and then used to interpret intervals and/or wells and diagenetic pore types using well log data. The validity of this approach was confirmed by comparisons with thin sections for cored wells. The detection and distinction of connected and nonconnected oomoldic limestones and dolostones was critical as oomoldic pore types often are the dominant pores of many of the more porous zones. The most challenging parameter used routinely for evaluating was the fracture character of low porosity zones, including the geologic parameters affecting fracturing. Fracture intensity correlates highly with rock type, lithology, and porosity. Moreover, a multidisciplinary team provided insight into the reservoir characteristics and distribution of fractures which none of the disciplines alone could adequately define.

  13. Monodispersed bimetallic PdAg nanoparticles with twinned structures: formation and enhancement for the methanol oxidation.

    PubMed

    Yin, Zhen; Zhang, Yining; Chen, Kai; Li, Jing; Li, Wenjing; Tang, Pei; Zhao, Huabo; Zhu, Qingjun; Bao, Xinhe; Ma, Ding

    2014-01-01

    Monodispersed bimetallic PdAg nanoparticles can be fabricated through the emulsion-assisted ethylene glycol (EG) ternary system. Different compositions of bimetallic PdAg nanoparticles, Pd₈₀Ag₂₀, Pd₆₅Ag₃₅ and Pd₄₆Ag₅₄ can be obtained via adjusting the reaction parameters. For the formation process of the bimetallic PdAg nanoparticles, there have two-stage growth processes: firstly, nucleation and growth of the primary nanoclusters; secondly, formation of the secondary nanoparticles with the size-selection and relax process via the coalescence or aggregation of the primary nanoclusters. The as-prepared PdAg can be supported on the carbon black without any post-treatment, which exhibited high electro-oxidation activity towards methanol oxidation under alkaline media. More importantly, carbon-supported Pd₈₀Ag₂₀ nanoparticles reveal distinctly superior activities for the methanol oxidation, even if compared with commercial Pt/C electro-catalyst. It is concluded that the enhanced activity is dependant on the unique twinning structure with heterogeneous phase due to the dominating coalescence growth in EG ternary system. PMID:24608736

  14. Monodispersed bimetallic PdAg nanoparticles with twinned structures: Formation and enhancement for the methanol oxidation

    PubMed Central

    Yin, Zhen; Zhang, Yining; Chen, Kai; Li, Jing; Li, Wenjing; Tang, Pei; Zhao, Huabo; Zhu, Qingjun; Bao, Xinhe; Ma, Ding

    2014-01-01

    Monodispersed bimetallic PdAg nanoparticles can be fabricated through the emulsion-assisted ethylene glycol (EG) ternary system. Different compositions of bimetallic PdAg nanoparticles, Pd80Ag20, Pd65Ag35 and Pd46Ag54 can be obtained via adjusting the reaction parameters. For the formation process of the bimetallic PdAg nanoparticles, there have two-stage growth processes: firstly, nucleation and growth of the primary nanoclusters; secondly, formation of the secondary nanoparticles with the size-selection and relax process via the coalescence or aggregation of the primary nanoclusters. The as-prepared PdAg can be supported on the carbon black without any post-treatment, which exhibited high electro-oxidation activity towards methanol oxidation under alkaline media. More importantly, carbon-supported Pd80Ag20 nanoparticles reveal distinctly superior activities for the methanol oxidation, even if compared with commercial Pt/C electro-catalyst. It is concluded that the enhanced activity is dependant on the unique twinning structure with heterogeneous phase due to the dominating coalescence growth in EG ternary system. PMID:24608736

  15. Ultrafine-Grain Structure Formation in an Al-Mg-Sc Alloy During Warm ECAP

    NASA Astrophysics Data System (ADS)

    Sitdikov, Oleg; Avtokratova, Elena; Sakai, Taku; Tsuzaki, Kaneaki

    2013-02-01

    Microstructural evolution taking place during equal-channel angular pressing was studied in a commercial Al-6Mg-0.3Sc alloy at 523 K (250 °C) (~0.5 T m). The structural changes are mainly associated with development of microshear bands (MSBs) that are continuously formed by strain accumulation and microstructural heterogeneities in each pass, which result in fragmentation of coarse original grains. New ultrafine grains (UFGs) with moderate-to-high angle boundary misorientations are concurrently evolved in the interiors of MSBs accompanied by rigid body rotation at medium-to-large strains. Such strain-induced grain refinement process occurs very slowly and incompletely in the present heavily alloyed Al alloy, leading to formation of a mixed microstructure, i.e., the UFGs in colony and some weakly misoriented fragments of original grains. The microstructure evolved at ɛ ≈ 12 is characterized by a bimodal crystallite size distribution with two peaks at d 1 ≈ 0.2 to 0.3 μm and d 2 ≈ 0.6 to 0.7 μm, and the fraction of high angle boundaries of about 0.35 ± 0.05. The main factors promoting dynamic formation of UFGs and the effects of thermal processes on it during severe plastic deformation are discussed in detail.

  16. Structure and formation of the twisted plywood pattern of collagen fibrils in rat lamellar bone.

    PubMed

    Yamamoto, Tsuneyuki; Hasegawa, Tomoka; Sasaki, Muneteru; Hongo, Hiromi; Tabata, Chihiro; Liu, Zhusheng; Li, Minqi; Amizuka, Norio

    2012-04-01

    This study was designed to elucidate details of the structure and formation process of the alternate lamellar pattern known to exist in lamellar bone. For this purpose, we examined basic internal lamellae in femurs of young rats by transmission and scanning electron microscopy, the latter employing two different macerations with NaOH at concentrations of 10 and 24%. Observations after the maceration with 10% NaOH showed that the regular and periodic rotation of collagen fibrils caused an alternation between two types of lamellae: one consisting of transversely and nearly transversely cut fibrils, and the other consisting of longitudinally and nearly longitudinally cut fibrils. This finding confirms the consistency of the twisted plywood model. The maceration method with 24% NaOH removed bone components other than cells, thus allowing for three-dimensional observations of osteoblast morphology. Osteoblasts extended finger-like processes paralleling the inner bone surface, and grouped in such a way that, within a group, the processes arranged in a similar direction. Transmission electron microscopy showed that newly deposited fibrils were arranged alongside these processes. For the formation of the alternating pattern, our findings suggest that: (1) osteoblasts control the collagen fibril arrangement through their finger-like process position; (2) osteoblasts behave similarly within a group; (3) osteoblasts move their processes synchronously and periodically to promote alternating different fibril orientation; and (4) this dynamic sequential deposition of fibrils results in the alternate lamellar (or twisted plywood) pattern. PMID:22362877

  17. Ionizing radiation decreases capillary-like structure formation by endothelial cells in vitro.

    PubMed

    Ahmad, Mansur; Khurana, Neerja R; Jaberi, Joby E

    2007-01-01

    For successful tissue engineering in surgical radiotherapy patients, irradiated endothelial cells (EC) must form new blood vessels to nourish and build connections with the engineered segment. Therefore, it is critical to understand neovasculogenesis by irradiated EC. The objective of this study was to determine the effects of ionizing radiation on endothelial cell proliferation and capillary-like structures (CLS) formation. Human Umbilical Vein Endothelial Cells (HUVEC) were irradiated with single or fractionated doses of radiation. Proliferation was determined by counting cells. CLS morphology was analyzed from photomicrographs. A single dose of 8 Gy radiation was highly lethal to HUVEC compared to lower dosage. A single dose had more of an inhibitory effect on cell proliferation compared to the same dose delivered in a fractionated manner. CLS formation began after cells reached confluency. To form a CLS, a single cell expanded, and a number of cells rearranged around its periphery in an oval fashion (mimicking a vessel wall). The central cell later disintegrated leaving a void, mimicking the lumen. Irradiated EC can form CLS, although they are fewer and smaller compared to those by sham cells. By disrupting the peripheral cells, >or=4 Gy doses significantly reduced the number of CLS. The disruptive affect was seen more with large CLS compared to small CLS. At different doses, the shapes of CLS were not significantly different. PMID:17028041

  18. Does the tail wag the dog? How the structure of a glycosylphosphatidylinositol anchor affects prion formation.

    PubMed

    Bate, Clive; Nolan, William; Williams, Alun

    2016-03-01

    There is increasing interest in the role of the glycosylphosphatidylinositol (GPI) anchor attached to the cellular prion protein (PrP(C)). Since GPI anchors can alter protein targeting, trafficking and cell signaling, our recent study examined how the structure of the GPI anchor affected prion formation. PrP(C) containing a GPI anchor from which the sialic acid had been removed (desialylated PrP(C)) was not converted to PrP(Sc) in prion-infected neuronal cell lines and in scrapie-infected primary cortical neurons. In uninfected neurons desialylated PrP(C) was associated with greater concentrations of gangliosides and cholesterol than PrP(C). In addition, the targeting of desialylated PrP(C) to lipid rafts showed greater resistance to cholesterol depletion than PrP(C). The presence of desialylated PrP(C) caused the dissociation of cytoplasmic phospholipase A2 (cPLA2) from PrP-containing lipid rafts, reduced the activation of cPLA2 and inhibited PrP(Sc) production. We conclude that the sialic acid moiety of the GPI attached to PrP(C) modifies local membrane microenvironments that are important in PrP-mediated cell signaling and PrP(Sc) formation. PMID:26901126

  19. Southern Ocean frontal structure and sea-ice formation rates revealed by elephant seals

    PubMed Central

    Charrassin, J.-B.; Hindell, M.; Rintoul, S. R.; Roquet, F.; Sokolov, S.; Biuw, M.; Costa, D.; Boehme, L.; Lovell, P.; Coleman, R.; Timmermann, R.; Meijers, A.; Meredith, M.; Park, Y.-H.; Bailleul, F.; Goebel, M.; Tremblay, Y.; Bost, C.-A.; McMahon, C. R.; Field, I. C.; Fedak, M. A.; Guinet, C.

    2008-01-01

    Polar regions are particularly sensitive to climate change, with the potential for significant feedbacks between ocean circulation, sea ice, and the ocean carbon cycle. However, the difficulty in obtaining in situ data means that our ability to detect and interpret change is very limited, especially in the Southern Ocean, where the ocean beneath the sea ice remains almost entirely unobserved and the rate of sea-ice formation is poorly known. Here, we show that southern elephant seals (Mirounga leonina) equipped with oceanographic sensors can measure ocean structure and water mass changes in regions and seasons rarely observed with traditional oceanographic platforms. In particular, seals provided a 30-fold increase in hydrographic profiles from the sea-ice zone, allowing the major fronts to be mapped south of 60°S and sea-ice formation rates to be inferred from changes in upper ocean salinity. Sea-ice production rates peaked in early winter (April–May) during the rapid northward expansion of the pack ice and declined by a factor of 2 to 3 between May and August, in agreement with a three-dimensional coupled ocean–sea-ice model. By measuring the high-latitude ocean during winter, elephant seals fill a “blind spot” in our sampling coverage, enabling the establishment of a truly global ocean-observing system. PMID:18695241

  20. Southern Ocean frontal structure and sea-ice formation rates revealed by elephant seals.

    PubMed

    Charrassin, J-B; Hindell, M; Rintoul, S R; Roquet, F; Sokolov, S; Biuw, M; Costa, D; Boehme, L; Lovell, P; Coleman, R; Timmermann, R; Meijers, A; Meredith, M; Park, Y-H; Bailleul, F; Goebel, M; Tremblay, Y; Bost, C-A; McMahon, C R; Field, I C; Fedak, M A; Guinet, C

    2008-08-19

    Polar regions are particularly sensitive to climate change, with the potential for significant feedbacks between ocean circulation, sea ice, and the ocean carbon cycle. However, the difficulty in obtaining in situ data means that our ability to detect and interpret change is very limited, especially in the Southern Ocean, where the ocean beneath the sea ice remains almost entirely unobserved and the rate of sea-ice formation is poorly known. Here, we show that southern elephant seals (Mirounga leonina) equipped with oceanographic sensors can measure ocean structure and water mass changes in regions and seasons rarely observed with traditional oceanographic platforms. In particular, seals provided a 30-fold increase in hydrographic profiles from the sea-ice zone, allowing the major fronts to be mapped south of 60 degrees S and sea-ice formation rates to be inferred from changes in upper ocean salinity. Sea-ice production rates peaked in early winter (April-May) during the rapid northward expansion of the pack ice and declined by a factor of 2 to 3 between May and August, in agreement with a three-dimensional coupled ocean-sea-ice model. By measuring the high-latitude ocean during winter, elephant seals fill a "blind spot" in our sampling coverage, enabling the establishment of a truly global ocean-observing system. PMID:18695241

  1. The formation and structure of fluffy cometary nuclei from random accumulation of grains

    NASA Technical Reports Server (NTRS)

    Donn, B. D.

    1990-01-01

    It is now generally accepted that solid bodies in the solar system are formed by accumulation of solid grains. The mechanism of formation of smaller bodies, less than some tens of kilometers in radius, is investigated. These include planetesimals and comets. Results indicate that essentially complete agglomeration occurs for relative velocities of less than about 1000 cm/sec and fairly efficient mass build-up occurs up to 5000/cm. These velocities are consistent with current models of the primordial solar nebula. The temperature produced in a collision will be under 20 K. For ice/dust grains, the resultant aggregates will be of low density with their volatiles preserved. Cometary nuclei with radii of a few km will be irregularly shaped and fragile with low mean density and significant interanl density variations. The characteristics of such a structure could account for the observed properties of comets.

  2. Explosive crystallization in the course of formation of Se/Ag nanosize film structure

    NASA Astrophysics Data System (ADS)

    Kogai, V. Ya.

    2014-08-01

    Results of an experimental study of explosive crystallization appearing in the process of formation of a Se/Ag nanosize film structure are presented. It is shown that explosive crystallization appears in a wide range of Se film thicknesses (70-280 nm) and occurs during a narrow time interval (2.00-4.52 s). The cooperative effect of the thermal energy of the phase transformation of Ag2Se and the energy of elastic stress in the amorphous Se film leads to development of an explosive crystallization. It was found that, depending on the relative thicknesses of Se and Ag films, orthorhombic Ag2Se with crystal-lattice constants a = 4.333 Å, b = 7.062 Å, and c = 7.764 Å and hexagonal Se ( a = 4.3552 Å and c = 4.9495 Å) are formed in the reaction products upon the explosive crystallization.

  3. Structure formation with a long-range scalar dark matter interaction

    SciTech Connect

    Nusser, Adi; Gubser, S.S.; Peebles, P.J.E.

    2005-04-15

    Numerical simulations show that a long-range scalar interaction in a single species of massive dark matter particles causes voids between the concentrations of large galaxies to be more nearly empty, suppresses accretion of intergalactic matter onto galaxies at low redshift, and produces an early generation of dense dark matter halos. These three effects, in moderation, seem to be improvements over the {lambda}CDM model predictions for cosmic structure formation. Because the scalar interaction in this model has negligible effect on laboratory physics and the classical cosmological tests, it offers an observationally attractive example of cosmology with complicated physics in the dark sector, notably a large violation of the weak equivalence principle.

  4. Glass formation, properties and structure of soda-yttria-silica glasses

    NASA Technical Reports Server (NTRS)

    Angel, Paul W.; Hann, Raiford E.

    1992-01-01

    The glass formation region of the soda yttria silicate system was determined. The glasses within this region were measured to have a density of 2.4 to 3.1 g/cu cm, a refractive index of 1.50 to 1.60, a coefficient of thermal expansion of 7 x 10(exp -6)/C, softening temperatures between 500 and 780 C, and Vickers hardness values of 3.7 to 5.8 GPa. Aqueous chemical durability measurements were made on select glass compositions while infrared transmission spectra were used to study the glass structure and its effect on glass properties. A compositional region was identified which exhibited high thermal expansion, high softening temperatures, and good chemical durability.

  5. Glass formation, properties, and structure of soda-yttria-silicate glasses

    NASA Technical Reports Server (NTRS)

    Angel, Paul W.; Hann, Raiford E.

    1991-01-01

    The glass formation region of the soda yttria silicate system was determined. The glasses within this region were measured to have a density of 2.4 to 3.1 g/cu cm, a refractive index of 1.50 to 1.60, a coefficient of thermal expansion of 7 x 10(exp -6)/C, softening temperatures between 500 and 780 C, and Vickers hardness values of 3.7 to 5.8 GPa. Aqueous chemical durability measurements were made on select glass compositions while infrared transmission spectra were used to study the glass structure and its effect on glass properties. A compositional region was identified which exhibited high thermal expansion, high softening temperatures, and good chemical durability.

  6. Structure formation in binary mixtures of lipids and detergents: Self-assembly and vesicle division

    NASA Astrophysics Data System (ADS)

    Noguchi, Hiroshi

    2013-01-01

    Self-assembly dynamics in binary surfactant mixtures and structure changes of lipid vesicles induced by detergent solution are studied using coarse-grained molecular simulations. Disk-shaped micelles, the bicelles, are stabilized by detergents surrounding the rim of a bilayer disk of lipids. The self-assembled bicelles are considerably smaller than bicelles formed from vesicle rupture, and their size is determined by the concentrations of lipids and detergents and the interactions between the two species. The detergent-adsorption induces spontaneous curvature of the vesicle bilayer and results in vesicle division into two vesicles or vesicle rupture into worm-like micelles. The division occurs mainly via the inverse pathway of the modified stalk model. For large spontaneous curvature of the monolayers of the detergents, a pore is often opened, thereby leading to vesicle division or worm-like micelle formation.

  7. Combustion and structure formation in SHS processes under microgravity conditions: SHS plans for microgravity experiments

    NASA Technical Reports Server (NTRS)

    Merzhanov, A. G.

    1995-01-01

    This paper outlines ISMAN suggestions for the joint NASA-RSA project 'Combustion and Structure formation in SHS Processes under Microgravity Conditions'. The basic ideas of this work naturally follow from our almost 30-year experience in the field of SHS. As a matter of fact, we have already obtained some results in the following two directions closely related to the microgravity problem. One is the studies on SHS processes in the field of centrifugal forces. These studies aimed at the intensification of gravity-sensitive SHS processes in multicomponent highly caloric systems forming melts at high overloads (up to 2000 g). In other words, these studies had the objectives that are inverse to those in the microgravity studies. The second group of results directly relates to the microgravity problem and the project under consideration. These experiments played the important role in establishing links between SHS and microgravity.

  8. RR Lyrae stars as probes of the Milky Way structure and formation

    NASA Astrophysics Data System (ADS)

    Pietrukowicz, Pawel

    2016-08-01

    RR Lyrae stars being distance indicators and tracers of old population serve as excellent probes of the structure, formation, and evolution of our Galaxy. Thousands of them are being discovered in ongoing wide-field surveys. The OGLE project conducts the Galaxy Variability Survey with the aim to detect and analyze variable stars, in particular of RRab type, toward the Galactic bulge and disk, covering a total area of 3000 deg2. Observations in these directions also allow detecting background halo variables and unique studies of their properties and distribution at distances from the Galactic Center to even 40 kpc. In this contribution, we present the first results on the spatial distribution of the observed RRab stars, their metallicity distribution, the presence of multiple populations, and relations with the old bulge. We also show the most recent results from the analysis of RR Lyrae stars of the Sgr dwarf spheroidal galaxy, including its center, the globular cluster M54.

  9. Critical issues in the formation of quantum computer test structures by ion implantation

    SciTech Connect

    Schenkel, T.; Lo, C. C.; Weis, C. D.; Schuh, A.; Persaud, A.; Bokor, J.

    2009-04-06

    The formation of quantum computer test structures in silicon by ion implantation enables the characterization of spin readout mechanisms with ensembles of dopant atoms and the development of single atom devices. We briefly review recent results in the characterization of spin dependent transport and single ion doping and then discuss the diffusion and segregation behaviour of phosphorus, antimony and bismuth ions from low fluence, low energy implantations as characterized through depth profiling by secondary ion mass spectrometry (SIMS). Both phosphorus and bismuth are found to segregate to the SiO2/Si interface during activation anneals, while antimony diffusion is found to be minimal. An effect of the ion charge state on the range of antimony ions, 121Sb25+, in SiO2/Si is also discussed.

  10. Slow shock formation and structure with sub-Alfvénic shear flow in magnetic reconnection

    NASA Astrophysics Data System (ADS)

    Li, L. J.; Zhang, X.; Wang, L. C.; Ma, Z. W.

    2012-06-01

    Slow shock formation and structure associated with magnetic reconnection are investigated in the presence of sub-Alfvénic shear flow using a compressible resistive MHD model. It is found for the first time that one or two pairs of the slow shocks are formed in the inflow region away from the reconnection separatrices within compressible resistive MHD. The distributions of the slow shocks depend largely on the plasma beta and the shear flow velocity that lead to the increase of magnetic reconnection rate. One pair of the slow shocks is formed for β = 0.2 and two pairs of the slow shocks are generated for β = 1.0 with the shear flow velocity in the range 0.6 VA to 0.9 VA. For high plasma beta (β = 5.0), there is no slow shock formed outside the reconnection separatrices. The results can be applied to interpret slow shock observations at the dayside magnetopause.

  11. Structure formation in binary mixtures of lipids and detergents: self-assembly and vesicle division.

    PubMed

    Noguchi, Hiroshi

    2013-01-14

    Self-assembly dynamics in binary surfactant mixtures and structure changes of lipid vesicles induced by detergent solution are studied using coarse-grained molecular simulations. Disk-shaped micelles, the bicelles, are stabilized by detergents surrounding the rim of a bilayer disk of lipids. The self-assembled bicelles are considerably smaller than bicelles formed from vesicle rupture, and their size is determined by the concentrations of lipids and detergents and the interactions between the two species. The detergent-adsorption induces spontaneous curvature of the vesicle bilayer and results in vesicle division into two vesicles or vesicle rupture into worm-like micelles. The division occurs mainly via the inverse pathway of the modified stalk model. For large spontaneous curvature of the monolayers of the detergents, a pore is often opened, thereby leading to vesicle division or worm-like micelle formation. PMID:23320721

  12. Formation of Nanodimensional 3C-SiC Structures from Rice Husks

    NASA Astrophysics Data System (ADS)

    Gorzkowski, E. P.; Qadri, S. B.; Rath, B. B.; Goswami, R.; Caldwell, J. D.

    2013-05-01

    We have demonstrated that large quantities of β-SiC nanostructures can be obtained from rice husk agricultural waste by using controlled conditions in a thermogravimetric setup. This simple and inexpensive method of producing these structures on a large scale is critical for applications in nanoelectronics, nanosensors, and biotechnology. The temperature and atmosphere are two critical elements in forming either α-cristobalite (SiO2) or β-SiC. Using different characterization methods (x-ray diffraction, scanning electron microscopy, transmission electron microscopy, and Raman spectroscopy), we have shown that pyrolysis of rice husks in argon atmosphere at 1375°C results in simultaneous formation of carbon nanotubes, β-SiC nanowires/nanorods, and β-SiC powder.

  13. The Formation of Phase Structure in the Creation of Soliton Trains

    NASA Astrophysics Data System (ADS)

    Nguyen, Jason; Luo, De; Hulet, Randall

    2016-05-01

    Matter-wave soliton trains were initially observed following an interaction quench in a condensate of 7Li atoms. The relative phase between neighboring solitons was inferred to differ by π, giving the appearance of a repulsive interaction between them. The process by which this phase structure is formed is unknown. Starting with a condensate of 7Li atoms in the | 1 , 1 > state, we study the initial formation of soliton trains by quenching the magnetic field to rapidly vary the interaction from repulsive to attractive in a quasi-1-D system. We study the dynamics of the system shortly after the quench, using multiple in situ images. We previously used this technique to study soliton-soliton collisions. Work supported by the NSF, an ARO MURI Grant, and the Welch Foundation.

  14. Influence of solidification accelerators on structure formation of anhydrite-containing binders

    NASA Astrophysics Data System (ADS)

    Anikanova, L.; Volkova, O.; Kudyakov, A.; Sarkisov, Y.; Tolstov, D.

    2016-01-01

    The article presents results of scientific analysis of chemical additives influence on acid fluoride binder. It was found that the influence of sulfate nature additives on the process of hydration and solidification of the binder is similar to influence of additives on indissoluble anhydrite. Additives with SO42- anion NO- are more efficient. The mentioned additives according to accelerating effect belong to the following succession: K2SO4 > Na2SO4 > FeSO4 > MgSO4. Facilitation of the process of hydration and solidification of the binder, increase in density and durability of the binder (32 MPa) is to the greatest extent achieved with the introduction of 2% sodium sulfate additive of the binder's mass into the composition of the binder along with the ultrasonic treatment of water solution. Directed crystal formation process with healing of porous structure by new growths presented as calcium sulfate dehydrate and hydroglauberite provides positive effect.

  15. The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments.

    PubMed

    Gorgolewski, Krzysztof J; Auer, Tibor; Calhoun, Vince D; Craddock, R Cameron; Das, Samir; Duff, Eugene P; Flandin, Guillaume; Ghosh, Satrajit S; Glatard, Tristan; Halchenko, Yaroslav O; Handwerker, Daniel A; Hanke, Michael; Keator, David; Li, Xiangrui; Michael, Zachary; Maumet, Camille; Nichols, B Nolan; Nichols, Thomas E; Pellman, John; Poline, Jean-Baptiste; Rokem, Ariel; Schaefer, Gunnar; Sochat, Vanessa; Triplett, William; Turner, Jessica A; Varoquaux, Gaël; Poldrack, Russell A

    2016-01-01

    The development of magnetic resonance imaging (MRI) techniques has defined modern neuroimaging. Since its inception, tens of thousands of studies using techniques such as functional MRI and diffusion weighted imaging have allowed for the non-invasive study of the brain. Despite the fact that MRI is routinely used to obtain data for neuroscience research, there has been no widely adopted standard for organizing and describing the data collected in an imaging experiment. This renders sharing and reusing data (within or between labs) difficult if not impossible and unnecessarily complicates the application of automatic pipelines and quality assurance protocols. To solve this problem, we have developed the Brain Imaging Data Structure (BIDS), a standard for organizing and describing MRI datasets. The BIDS standard uses file formats compatible with existing software, unifies the majority of practices already common in the field, and captures the metadata necessary for most common data processing operations. PMID:27326542

  16. The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments

    PubMed Central

    Gorgolewski, Krzysztof J.; Auer, Tibor; Calhoun, Vince D.; Craddock, R. Cameron; Das, Samir; Duff, Eugene P.; Flandin, Guillaume; Ghosh, Satrajit S.; Glatard, Tristan; Halchenko, Yaroslav O.; Handwerker, Daniel A.; Hanke, Michael; Keator, David; Li, Xiangrui; Michael, Zachary; Maumet, Camille; Nichols, B. Nolan; Nichols, Thomas E.; Pellman, John; Poline, Jean-Baptiste; Rokem, Ariel; Schaefer, Gunnar; Sochat, Vanessa; Triplett, William; Turner, Jessica A.; Varoquaux, Gaël; Poldrack, Russell A.

    2016-01-01

    The development of magnetic resonance imaging (MRI) techniques has defined modern neuroimaging. Since its inception, tens of thousands of studies using techniques such as functional MRI and diffusion weighted imaging have allowed for the non-invasive study of the brain. Despite the fact that MRI is routinely used to obtain data for neuroscience research, there has been no widely adopted standard for organizing and describing the data collected in an imaging experiment. This renders sharing and reusing data (within or between labs) difficult if not impossible and unnecessarily complicates the application of automatic pipelines and quality assurance protocols. To solve this problem, we have developed the Brain Imaging Data Structure (BIDS), a standard for organizing and describing MRI datasets. The BIDS standard uses file formats compatible with existing software, unifies the majority of practices already common in the field, and captures the metadata necessary for most common data processing operations. PMID:27326542

  17. Formation of titanium carbonitride film by laser treatment: Structural and transport properties

    SciTech Connect

    Soni, Sheetal; Pandey, A.; Gupta, Ratnesh; Sinha, A. K.

    2015-06-24

    In-plane and Out-of-plane Grazing incidence X-ray diffraction is used to characterize the preferred orientation present in the titanium carbonitride films using ADXRD beamline at INDUS 2 synchrotron radiation source. GIXRD shows the formation of mixture of FCCTiC{sub x}N{sub (1-x)} films for different values of x along with the solid solution. From the in-plane and out-of-plane XRD measurements, we have observed that a specific texture along the c-axis of Ti has been formed during the laser treatment process. Due to the diffusion of C and N into Ti, the resistance of the specimen has been decreases with respect to the resistance of pure Ti sheet. The formed phases are stable and there is no structural relaxation has been observed during annealing process.

  18. Semiconductor structural damage attendant to contact formation in III-V solar cells

    NASA Technical Reports Server (NTRS)

    Fatemi, Navid S.; Weizer, Victor G.

    1991-01-01

    In order to keep the resistive losses in solar cells to a minimum, it is often necessary for the ohmic contacts to be heat treated to lower the metal-semiconductor contact resistivity to acceptable values. Sintering of the contacts, however can result in extensive mechanical damage of the semiconductor surface under the metallization. An investigation of the detailed mechanisms involved in the process of contact formation during heat treatment may control the structural damage incurred by the semiconductor surface to acceptable levels, while achieving the desired values of contact resistivity for the ohmic contacts. The reaction kinetics of sintered gold contacts to InP were determined. It was found that the Au-InP interaction involves three consecutive stages marked by distinct color changes observed on the surface of the Au, and that each stage is governed by a different mechanism. A detailed description of these mechanisms and options to control them are presented.

  19. Structural consequences of chromophore formation and exploration of conserved lid residues amongst naturally occurring fluorescent proteins

    NASA Astrophysics Data System (ADS)

    Zimmer, Matthew H.; Li, Binsen; Shahid, Ramza; Peshkepija, Paola; Zimmer, Marc

    2014-01-01

    Computational methods were used to generate the lowest energy conformations of the immature precyclized forms of the 28 naturally occurring GFP-like proteins deposited in the pdb. In all 28 GFP-like proteins, the beta-barrel contracts upon chromophore formation and becomes more rigid. Our prior analysis of over 260 distinct naturally occurring GFP-like proteins revealed that most of the conserved residues are located in the top and bottom of the barrel in the turns between the β-sheets (Ong et al. 2011) [1]. Structural analyses, molecular dynamics simulations and the Anisotropic Network Model were used to explore the role of these conserved lid residues as possible folding nuclei. Our results are internally consistent and show that the conserved residues in the top and bottom lids undergo relatively less translational movement than other lid residues, and a number of these residues may play an important role as hinges or folding nuclei in the fluorescent proteins.

  20. PROPOSED STANDARD TO GREATLY EXPAND PUBLIC ACCESS AND EXPLORATION OF TOXICITY DATA: EVALUATION OF STRUCTURE DATA FILE FORMAT

    EPA Science Inventory



    PROPOSED ST ANDARD TO GREA TL Y EXP AND PUBLIC ACCESS AND EXPLORATION OF TOXICITY DATA: EVALUATION OF STRUCTURE DATA FILE FORMAT

    The ability to assess the potential toxicity of environmental, pharmaceutical, or industrial chemicals based on chemical structure in...

  1. The instability theory of drumlin formation and its explanation of their varied composition and internal structure

    NASA Astrophysics Data System (ADS)

    Stokes, Chris R.; Fowler, Andrew C.; Clark, Chris D.; Hindmarsh, Richard C. A.; Spagnolo, Matteo

    2013-02-01

    Despite their importance in understanding glaciological processes and constraining large-scale flow patterns in palaeo-glaciology, there is little consensus as to how drumlins are formed. Attempts to solve the 'drumlin problem' often fail to address how they are created from an initially flat surface in the absence of obvious cores or obstacles. This is a key strength of the instability theory, which has been described in a suite of physically-based mathematical models and proposes that the coupled flow of ice and till causes spontaneous formation of relief in the till surface. Encouragingly, model predictions of bedform height and length are consistent with observations and, furthermore, the theory has been applied to a range of subglacial bedforms and not just drumlins. However, it has yet to confront the myriad observations relating to the composition and internal structure of drumlins and this could be seen as a major deficiency. This paper is a first attempt to assess whether the instability theory is compatible with the incredible diversity of sediments and structures found within drumlins. We summarise the underlying principles of the theory and then describe and attempt to explain the main types of drumlin composition (e.g. bedrock, till, glaciofluvial sediments, and combinations thereof). Contrary to a view which suggests that the presence of some sedimentary sequences (e.g. horizontally stratified cores) is inconsistent with the theory, we suggest that one would actually expect a diverse range of constituents depending on the inheritance of sediments that pre-date drumlin formation, the duration and variability of ice flow, and the balance between erosion and deposition (till continuity) at the ice-bed interface. We conclude that the instability theory is compatible with (and potentially strengthened by) what is known about drumlin composition and, as such, offers the most complete and promising solution to the drumlin problem to date.

  2. Formation, optical properties, and electronic structure of thin Yb silicide films on Si(111)

    NASA Astrophysics Data System (ADS)

    Galkin, N. G.; Maslov, A. M.; Polyarnyi, V. O.

    2005-06-01

    Continuous very thin (2.5-3.0 nm) and thin (16-18 nm) ytterbium suicide films with some pinhole density (3×107- 1×108 cm-2) have been formed on Si(111) by solid phase epitaxy (SPE) and reactive deposition epitaxy (RDE) growth methods on templates. The stoichiometric ytterbium suicide (YbSi2) formation has shown in SPE grown films by AES and EELS data. Very thin Yb suicide films grown by RDE method had the silicon enrichment in YbSi2 suicide composition. The analysis of LEED data and AFM imaging has shown that ytterbium suicide films had non-oriented blocks with the polycrystalline structure. The analysis of scanning region length dependencies of the root mean square roughness deviation (σR(L)) for grown suicide films has shown that the formation of ytterbium suicide in SPE and RDE growth methods is determined by the surface diffusion of Yb atoms during the three-dimensional growth process. Optical functions (n, k, α, ɛ1, ɛ2, Im ɛ1-1, neff, ɛeff) of ytterbium silicide films grown on Si(1 1 1) have been calculated from transmittance and reflectance spectra in the energy range of 0.1-6.2 eV. Two nearly discrete absorption bands have been observed in the electronic structure of Yb silicide films with different composition, which connected with interband transitions on divalent and trivalent Yb states. It was established that the reflection coefficient minimum in R-spectra at energies higher 4.2 eV corresponds to the state density minimum in Yb suicide between divalent and trivalent Yb states. It was shown from optical data that Yb silicide films have the semi-metallic properties with low state densities at energies less 0.4 eV and high state densities at 0.5-2.5 eV.

  3. Novel Transthyretin Amyloid Fibril Formation Inhibitors: Synthesis, Biological Evaluation, and X-Ray Structural Analysis

    PubMed Central

    Orlandini, Elisabetta; Ortore, Gabriella; Nencetti, Susanna; Lapucci, Annalina; Rossello, Armando; Freundlich, Joel S.; Sacchettini, James C.

    2009-01-01

    Transthyretin (TTR) is one of thirty non-homologous proteins whose misfolding, dissociation, aggregation, and deposition is linked to human amyloid diseases. Previous studies have identified that TTR amyloidogenesis can be inhibited through stabilization of the native tetramer state by small molecule binding to the thyroid hormone sites of TTR. We have evaluated a new series of β-aminoxypropionic acids (compounds 5–21), with a single aromatic moiety (aryl or fluorenyl) linked through a flexible oxime tether to a carboxylic acid. These compounds are structurally distinct from the native ligand thyroxine and typical halogenated biaryl NSAID-like inhibitors to avoid off-target hormonal or anti-inflammatory activity. Based on an in vitro fibril formation assay, five of these compounds showed significant inhibition of TTR amyloidogenesis, with two fluorenyl compounds displaying inhibitor efficacy comparable to the well-known TTR inhibitor diflunisal. Fluorenyl 15 is the most potent compound in this series and importantly does not show off-target anti-inflammatory activity. Crystal structures of the TTR∶inhibitor complexes, in agreement with molecular docking studies, revealed that the aromatic moiety, linked to the sp2-hybridized oxime carbon, specifically directed the ligand in either a forward or reverse binding mode. Compared to the aryl family members, the bulkier fluorenyl analogs achieved more extensive interactions with the binding pockets of TTR and demonstrated better inhibitory activity in the fibril formation assay. Preliminary optimization efforts are described that focused on replacement of the C-terminal acid in both the aryl and fluorenyl series (compounds 22–32). The compounds presented here constitute a new class of TTR inhibitors that may hold promise in treating amyloid diseases associated with TTR misfolding. PMID:19621084

  4. The Effects of Gravity on Combustion and Structure Formation During Synthesis of Advanced Materials

    NASA Technical Reports Server (NTRS)

    Varma, A.; Pelekh, A.; Mukasyan, A.

    1999-01-01

    Combustion in a variety of heterogeneous systems, leading to the synthesis of advanced materials, is characterized by high temperatures (2000-3500 K) and heating rates (up to 10(exp 6) K/s) at and ahead of the reaction front. These high temperatures generate liquids and gases which are subject to gravity-driven flow. The removal of such gravitational effects is likely to provide increased control of the reaction front, with a consequent improvement in control of the microstructure of the synthesized products. Thus, microgravity experiments can lead to major advances in the understanding of fundamental aspects of combustion and structure formation under the extreme conditions of the combustion synthesis wave. In addition, the specific features of microgravity environment allow one to produce unique materials, which cannot be obtained under terrestrial conditions. The general goals of the current research are: 1) to improve the understanding of fundamental phenomena taking place during combustion of heterogeneous systems, 2) to use low-gravity experiments for insight into the physics and chemistry of materials synthesis processes, and 3) based on the obtained knowledge, to optimize processing conditions for synthesis of advanced materials with desired microstructures and properties. This research follows logically from the results of investigations we have conducted in the framework of our previous grant on gravity influence on combustion synthesis (CS) of gasless systems. Prior work, by others and by us, has clearly demonstrated that gravity plays an important role during combustion synthesis of materials. The immediate tasks for the future are to quantitatively identify the nature of observed effects, and to create accurate local kinetic models of the processes, which can lead to a control of the microstructure and properties of the synthesized materials. In summary, this is the value of the proposed research. Based on our prior work, we focus on the fundamental

  5. Effect of chemical structure and network formation on physical properties of di(cyanate ester) thermosets.

    PubMed

    Reams, Josiah T; Guenthner, Andrew J; Lamison, Kevin R; Vij, Vandana; Lubin, Lisa M; Mabry, Joseph M

    2012-02-01

    Key physical properties of three dicyanate ester monomers, bisphenol A dicyanate (BADCy), bisphenol E dicyanate (LECy), and the dicyanate of a silicon-containing analogue of bisphenol A (SiMCy) were investigated as a function of cyanurate conversion at conversions ranging from approximately 70% to greater than 90% in order to assess the range of applicability of both traditional and more unusual structure-property-process relationships known for cyanate ester resins. A more complete understanding of these relationships is essential for the continued development of cyanate ester resins and their composites for a wide variety of aerospace applications. The degree of cure in each system was determined by differential scanning calorimetry (DSC). The degree of conversion achieved at a given temperature was dependent on the structure of the repeat unit, with SiMCy displaying the highest relative ease of cure. The density at room temperature was found to decrease monotonically with increasing conversion for all monomer types studied. In contrast, the water uptake decreased with increasing cure for all three materials over most or all of the conversion range studied, but leveled off or began to increase with increasing conversion at conversions of approximately 90%. The T(g) decreased after exposure to hot water in resins with greater than 85% conversion, but unexpectedly increased in samples with lower conversions. An investigation of the effect of hot water exposure on network chemistry via infrared spectroscopy indicated that carbamate formation varied with both monomer chemistry and extent of cure, but was greatest for the BADCy polycyanurates. On the other hand, the unreacted cyanate ester band tended to disappear uniformly, suggesting that reactions other than carbamate formation (such as cyclotrimerization) may also take place during exposure to hot water, possibly giving rise to the observed unusual increases in T(g) upon exposure. PMID:22311550

  6. Warm dark matter primordial spectra and the onset of structure formation at redshift z

    NASA Astrophysics Data System (ADS)

    Destri, C.; de Vega, H. J.; Sanchez, N. G.

    2013-10-01

    Analytic formulas reproducing the warm dark matter (WDM) cosmological spectra are obtained for WDM particles decoupling in and out of thermal equilibrium; these formulas provide the initial data for WDM nonlinear structure formation. We compute and analyze the corresponding WDM overdensities and compare them to the cold dark matter (CDM) case. We consider the ratio of the WDM to CDM spectrum and the ratio of the WDM to CDM overdensities: They turn out to be self-similar functions of k/k1/2 and R/R1/2, respectively, with k1/2 and R1/2 being the wavenumber and length where the WDM spectrum and overdensity are one-half of the respective CDM magnitudes. Both k1/2 and R1/2 show scaling as powers of the WDM particle mass m, while the self-similar functions are independent of m. The WDM spectrum sharply decreases around k1/2 with respect to the CDM spectrum, while the WDM overdensity slowly decreases around R1/2 for decreasing scales with respect to the CDM one. The nonlinear regions where WDM structure formation takes place are shown and compared to those in CDM: The WDM nonlinear structures start to form later than in CDM, and as a general trend, decreasing the DM particle mass delays the onset of the nonlinear regime. The nonlinear regime starts earlier for smaller objects than for larger ones; smaller objects can form earlier both in WDM and CDM. We compute and analyze the differential mass function dN/dM for WDM at redshift z in the Press-Schechter approach. The WDM suppression effect of small scale structure increases with the redshift z. Our results for dN/dM are useful to be contrasted with observations, in particular, for 4≲z≲12. We perform all of these studies for the most popular WDM particle physics models. Contrasting them to observations should give the value of the WDM particle mass within the keV scale.

  7. Structural controls on the formation and transposition of the Malmberget apatite iron ore deposit, northern Sweden

    NASA Astrophysics Data System (ADS)

    Bauer, Tobias; Sarlus, Zimer; Andersson, Joel; Kearney, Thomas

    2015-04-01

    The Malmberget mine is the World's second largest underground iron ore operation. It is composed of approximately 20 apatite iron ore bodies, whereas 13 ore bodies with 5-245 Mt each are presently mined. The massive magnetite ore is hosted within volcanic and volcaniclastic rocks. Host rocks within the entire area were subject to intense hydrothermal alteration. The ore reserves at beginning of 2012 totalled 290 Mt at 44 percent iron. Together with Kiruna and Svappavaara these three deposits stands for more than 90 percent of the iron ore production in Europe. An on-going collaborative research project aims at unravelling the structural geometries, relationships and control on ore formation and ore body transposition at different scales in the Gällivare district in general and in the Malmberget mine in particular. Recent results show the three-dimensional crustal architecture of the Malmberget deposit which has undergone at least two separate deformation events. The first deformation event (D1) resulted in the formation of a strong and penetrative cleavage (S1) forming a varyingly intense banding within the volcanic rocks. The D1-event coincides with the amphibolite facies peak metamorphism in the area. Distinct, biotite-rich D1 shear zones are spatially related to the majority of the S1-parallel massive magnetite bodies. These D1 shear zones seem to be responsible for a strong strain partitioning during D1. A second compressional event (D2) resulted in open to close folding of the S1 fabric, the D1 shear zones and the related ore bodies. The result is an asymmetric F2-synform with moderately south-west-plunging fold axis. Furthermore, distinct D2 high strain zones are responsible for local transposition of S1 fabrics, tight to isoclinal folding and channeling or re-mobilization of hydrothermal alteration minerals. Both deformation events are accompanied by syn- and late-tectonic granitic intrusions forming both foliated and unfoliated and commonly boudinaged

  8. Cryogenic Electron Microscopy Studies: Structure and Formation of Self-assembled Nanostructures in Solution

    NASA Astrophysics Data System (ADS)

    Lee, Han Seung

    Cryogenic electron microscopy (Cryo-EM) techniques are among the most powerful to characterize self-assembling soft materials (colloids, polymers, and microemulsions, etc.) at the nanometer scale, without any need for implicit models or assumptions about the structure. We can even visualize structure under dynamic conditions, capturing each stage of development. In this thesis, cryo-EM has been used to investigate the formation and structure of a variety of self-assembling soft materials. Visualization is complemented by small angle X-ray scattering (SAXS), dynamic light scattering, and conductivity measurements. In each case, cryo-EM provides new insights, not otherwise available, into the nanostructure development. Self-assembly phenomena at the molecular level are critical to the performance of tremendous number of applied systems ranging from personal care products to industrial products. To evaluate these self-assembled materials, multiple characterization techniques are required. We investigated aggregation behavior of cesium dodecyl sulfate (CsDS) ionic surfactant in aqueous solution. Coupled with the real space data from cryogenic transmission electron microscopy (Cryo-TEM) and the inverse space data from SAXS, the experimental result of CsDS in aqueous solution gave a new insight in CsDS micellar structures and their development as a function of concentration. Cryo-TEM showed the presence of the liquid-like hydrocarbon core in the CsDS micelles and relatively thick shell structures at a low CsDS concentration. The core-shell sphere structure micelle shifted to core-shell cylindrical micelle structure at high concentration. The morphology and structure of paclitaxel silicate (PTX) prodrug, encapsulated with amphiphilic poly(ethylene glycol)-b-poly(lactic-co-glycolic acid) diblock copolymers were studied. The six different silicate PTX prodrug candidates were characterized with cryo-TEM. Direct imaging with cryo-TEM illustrated structure of prodrug

  9. Novel 14,21-dihydroxy-docosahexaenoic acids: structures, formation pathways, and enhancement of wound healing

    PubMed Central

    Lu, Yan; Tian, Haibin; Hong, Song

    2010-01-01

    Chronic wounds remain a medical challenge, where well-coordinated cellular and molecular processes required by optimal healing are impaired by diabetes, aging, or other diseases. In determining mechanisms that regulate wound healing, we found that wounding induced formation of novel endogenous 14S,21S-dihydroxy-docosa-4Z,7Z,10Z,12E,16Z,19Z-hexaenoic acids (14S,21S-diHDHA);14R,21R-diHDHA; 14S,21R-diHDHA; and/or 14R,21S-diHDHA. 12-lipoxygenase and cytochrome P450 catalysis in tandem converted docosahexaenoic acid to 14S,21R-diHDHA and 14S,21S-diHDHA through the intermediacy of 14S-HDHA; P450 also converted 14R-HDHA to novel 14R,21R-diHDHA and 14R,21S-diHDHA. Macrophages function as the combination of 12-lipoxgenase and P450 to generate these 14,21-diHDHA stereoisomers, as well as their intermediates 14S-HDHA, 14R-HDHA, and 21-HDHA. The structure and formation pathways of 14,21-diHDHA stereoisomers were further confirmed by macrophage biosynthesis of 14,21-diHDHA-21,22,22,22-d4 stereoisomers, 14S-HDHA-d5, 14R-HDHA-d5, and 21-HDHA-d4 from DHA-21,21,22,22,22-d5. We found that 14S,21-diHDHA and 14R,21-diHDHA enhanced wound closure, reepithelialization, granulation tissue growth, and capillary vasculature formation of murine wounds. 14S,21-diHDHA and 14R,21-diHDHA produced by macrophages may partially represent the molecular mechanisms for macrophage pro-healing function. Taken together, 14,21-dihydroxy-DHA stereoisomers and their formation pathways may represent a novel mechanism in the orchestration of wound healing processes, which may provide new insight for developing novel therapeutic modalities that counteract impairments to wound healing. PMID:19965612

  10. Novel 14,21-dihydroxy-docosahexaenoic acids: structures, formation pathways, and enhancement of wound healing.

    PubMed

    Lu, Yan; Tian, Haibin; Hong, Song

    2010-05-01

    Chronic wounds remain a medical challenge, where well-coordinated cellular and molecular processes required by optimal healing are impaired by diabetes, aging, or other diseases. In determining mechanisms that regulate wound healing, we found that wounding induced formation of novel endogenous 14S,21S-dihydroxy-docosa-4Z,7Z,10Z,12E,16Z,19Z-hexaenoic acids (14S,21S-diHDHA);14R,21R-diHDHA; 14S,21R-diHDHA; and/or 14R,21S-diHDHA. 12-lipoxygenase and cytochrome P450 catalysis in tandem converted docosahexaenoic acid to 14S,21R-diHDHA and 14S,21S-diHDHA through the intermediacy of 14S-HDHA; P450 also converted 14R-HDHA to novel 14R,21R-diHDHA and 14R,21S-diHDHA. Macrophages function as the combination of 12-lipoxgenase and P450 to generate these 14,21-diHDHA stereoisomers, as well as their intermediates 14S-HDHA, 14R-HDHA, and 21-HDHA. The structure and formation pathways of 14,21-diHDHA stereoisomers were further confirmed by macrophage biosynthesis of 14,21-diHDHA-21,22,22,22-d(4) stereoisomers, 14S-HDHA-d(5), 14R-HDHA-d(5), and 21-HDHA-d(4) from DHA-21,21,22,22,22-d(5). We found that 14S,21-diHDHA and 14R,21-diHDHA enhanced wound closure, reepithelialization, granulation tissue growth, and capillary vasculature formation of murine wounds. 14S,21-diHDHA and 14R,21-diHDHA produced by macrophages may partially represent the molecular mechanisms for macrophage pro-healing function. Taken together, 14,21-dihydroxy-DHA stereoisomers and their formation pathways may represent a novel mechanism in the orchestration of wound healing processes, which may provide new insight for developing novel therapeutic modalities that counteract impairments to wound healing. PMID:19965612

  11. Density variability - fundamental basis of structure formation and tectonic-geodynamic evolution of the Earth

    NASA Astrophysics Data System (ADS)

    Guliyev, Hatam; Guliyev, Ibrahim; Yetirmishli, Gurban

    2014-05-01

    It was shown that there are some common geomechanical basis of process of consolidation, deconsolidation, phase transitions, formation of zones of small shear stiffness (waveguides), realization of material and energetic mass flow in the internal structures of the Earth based on fundamental properties of basic systems of equations of nonlinear mechanics of the deformed bodies, data and results of Green, Ringwood, Liu's known experimental studies. Its instability for different geological media was shown studying the distribution of medium density depending on deformation changes. Distinguishing various forms of instability it was shown that there is general deformation mechanism of consolidation process of compressible medium according to which transfer to deconsolidation occurs at certain stages due to specific change of equilibrium states. Instability of deformation process contributes to emergence of geometric structures in composition of geological medium which are favorable to form deconsolidation zones and zones of small shear stiffness. Destruction by delamination at various depth of the Earth's interior can lead to formation of voids of various scale. Various forms of instability can be realized in the process of further evolution in the vicinity of these free surfaces, and voids can be filled by the loosened mass, i.e. deconsolidation process occurs under compression conditions. More hard bodies of local scale in the form of rod, strips, plates, cylindrical bodies, voids etc. can exist at different depth of mantle. These bodies can lose the stability under compression conditions. Therefore, part of their material and environment are loosened and deconsolidation process occurs again. The above described cases significantly depends on the realized form of deformation. Unevenness of deformation has a great value. Partial melting and magma formation can occur in these deconsolidated zones depending on mineral associations, petrochemical properties, thermobaric

  12. Effect of Ternary Solutes on the Evolution of Structure and Gel Formation in Amphiphilic Copolymer Solutions

    NASA Astrophysics Data System (ADS)

    Meznarich, Norman Anthony Kang

    Aqueous solutions of polyoxyethylene-polyoxypropylene-polyoxyethylene (PEO-PPO-PEO) amphiphilic triblock copolymers (commercially known as Pluronic surfactants) undergo reversible and temperature-dependent micellization and arrangement into cubic ordered lattices known as "micelle gels". The macroscopic behavior of the ordering is a transition from a liquid to a gel. While the phase behavior and gel structure of pure Pluronic surfactant solutions have been well studied, less is known about the effects of added ternary solutes. In this dissertation, a comprehensive investigation into the effects of the added pharmaceutical methylparaben on solutions of F127 ranging from 10 to 30 wt% was conducted in order to better understand the behavior of F127 in multicomponent pharmaceutical formulations. The viscoelastic properties of F127 gel formation were studied using rheometry, where heating rates of 0.1, 1, and 10 degrees C/min were also used to probe the kinetics of the gel transition. In solutions containing methylparaben, F127 gelation occurred at up to 15 degrees C lower temperatures and was accelerated by a factor of three to four. Small angle x-ray scattering (SAXS) was used to characterize the structure of the ordered domains, and how they were affected by the presence of dissolved pharmaceuticals. It was found that ordered domain formation changed from heterogeneous nucleation and growth to possible homogeneous nucleation and growth. A roughly 2% reduction in the cubic lattice parameter was also observed for solutions containing methylparaben. Differential scanning calorimetry (DSC) experiments were performed on a series of different Pluronic surfactants in order to characterize the micellization behavior as a function of PPO center block length and PEO/PPO ratio. Added methylparaben suppressed the micellization endotherm, the degree of suppression depending linearly on the amount of added methylparaben, as well as the length of the PPO center block and PEO

  13. Formation of a protocluster: A virialized structure from gravoturbulent collapse. I. Simulation of cluster formation in a collapsing molecular cloud

    NASA Astrophysics Data System (ADS)

    Lee, Yueh-Ning; Hennebelle, Patrick

    2016-06-01

    Context. Stars are often observed to form in clusters and it is therefore important to understand how such a region of concentrated mass is assembled out of the diffuse medium. The properties of such a region eventually prescribe the important physical mechanisms and determine the characteristics of the stellar cluster. Aims: We study the formation of a gaseous protocluster inside a molecular cloud and associate its internal properties with those of the parent cloud by varying the level of the initial turbulence of the cloud with a view to better characterize the subsequent stellar cluster formation. Methods: We performed high resolution magnetohydrodynamic (MHD) simulations of gaseous protoclusters forming in molecular clouds collapsing under self-gravity. We determined ellipsoidal cluster regions via gas kinematics and sink particle distribution, permitting us to determine the mass, size, and aspect ratio of the cluster. We studied the cluster properties, such as kinetic and gravitational energy, and made links to the parent cloud. Results: The gaseous protocluster is formed out of global collapse of a molecular cloud and has non-negligible rotation owing to angular momentum conservation during the collapse of the object. Most of the star formation occurs in this region, which occupies only a small volume fraction of the whole cloud. This dense entity is a result of the interplay between turbulence and gravity. We identify such regions in simulations and compare the gas and sink particles to observed star-forming clumps and embedded clusters, respectively. The gaseous protocluster inferred from simulation results presents a mass-size relation that is compatible with observations. We stress that the stellar cluster radius, although clearly correlated with the gas cluster radius, depends sensitively on its definition. Energy analysis is performed to confirm that the gaseous protocluster is a product of gravoturbulent reprocessing and that the support of turbulent

  14. Thickness-controllable electrospun fibers promote tubular structure formation by endothelial progenitor cells.

    PubMed

    Hong, Jong Kyu; Bang, Ju Yup; Xu, Guan; Lee, Jun-Hee; Kim, Yeon-Ju; Lee, Ho-Jun; Kim, Han Seong; Kwon, Sang-Mo

    2015-01-01

    Controlling the thickness of an electrospun nanofibrous scaffold by altering its pore size has been shown to regulate cell behaviors such as cell infiltration into a three-dimensional (3D) scaffold. This is of great importance when manufacturing tissue-engineering scaffolds using an electrospinning process. In this study, we report the development of a novel process whereby additional aluminum foil layers were applied to the accumulated electrospun fibers of an existing aluminum foil collector, effectively reducing the incidence of charge buildup. Using this process, we fabricated an electrospun scaffold with a large pore (pore size >40 μm) while simultaneously controlling the thickness. We demonstrate that the large pore size triggered rapid infiltration (160 μm in 4 hours of cell culture) of individual endothelial progenitor cells (EPCs) and rapid cell colonization after seeding EPC spheroids. We confirmed that the 3D, but not two-dimensional, scaffold structures regulated tubular structure formation by the EPCs. Thus, incorporation of stem cells into a highly porous 3D scaffold with tunable thickness has implications for the regeneration of vascularized thick tissues and cardiac patch development. PMID:25709441

  15. Correlation Between Surface Morphology Evolution and Grain Structure: Whisker/Hillock Formation in Sn-Cu

    NASA Astrophysics Data System (ADS)

    Pei, Fei; Jadhav, Nitin; Chason, Eric

    2012-10-01

    Sn whisker and hillock formation is a reliability risk that has become increasingly important as the electronics industry has moved toward Pb-free manufacturing. To prevent them, we would like to understand what makes specific sites susceptible to deform into whiskers. We have used in situ scanning electron microscopy (SEM)/electron backscattering diffraction (EBSD) to monitor simultaneously the evolution of surface morphology and grain orientation in Sn surfaces in order to correlate whisker/hillock initiation with the underlying microstructure. Because rough films are difficult to measure with EBSD, we developed a unique procedure to make Sn-Cu samples with ultra-flat surfaces so that a large fraction of Sn grains can be indexed over repeated scans. We find that whiskers/hillocks grow from existing grains (not re-nucleated grains) with orientations close to (001). They often rotate from the as-deposited structure so that the orientation after growth does not indicate the orientation from which the whisker initiated. We measured the interface structure after removal of the Sn layer by chemical etching and found that there is no excessive accumulation of intermetallic compound around the whisker/hillock roots. Cross-sectional measurements revealed that a large fraction of the whiskers/hillocks have oblique boundaries underneath the surface, supporting the idea that these allow whiskers/hillocks to grow with lower stress.

  16. Role of water on formation and structural features of Maya blue

    NASA Astrophysics Data System (ADS)

    Mondelli, C.; Sánchez del Río, M.; González, M. A.; Magazzú, A.; Cavallari, C.; Suárez, M.; García-Romero, E.; Romano, P.

    2012-02-01

    The Maya blue (MB) is an artificial pigment created between 500-800 A.D. and used in murals, pottery and sculptures by Mayas and other people in Mesoamerica. MB is resistant to age, acid, weathering, biodegradation and even modern chemical solvents, but the chemical reasons behind the resistance to chemical aggressions are still under debate. Water plays a fundamental role in the interactions between indigo and clay. The dynamics of the clay's zeolitic and structural water molecules during the formation of MB, usually stabilized by moderate heating, has been monitored by means of neutron inelastic scattering. Neutron incoherent scattering in these samples is only due to the hydrogen atoms, so the signal is very sensitive to the amount of released water, providing detailed information on the dehydration process. A simultaneous analysis of the coherent elastic scattering and the incoherent scattering allows observing and quantifying how the structure of the clay is affected by dehydration. Here we show that a quite resistant pigment can be obtained at room temperature simply by dehydrating a palygorskite-indigo mixture employing only vacuum, without any thermal treatment.

  17. Dynamic structure and cluster formation in confined nanofluids under the action of an external force field

    NASA Astrophysics Data System (ADS)

    Ben-Abdallah, Philippe

    2006-10-01

    The dynamic structure and the formation of clusters in nanoparticle colloidal solutions (nanofluids) confined between two parallel walls and submitted to the action of an external force field is studied by extensive Brownian-dynamics simulations. The self-correlation of individual particles and the time correlation between distinct particles are analyzed by calculating the density-density time correlation (van Hove) function. It is shown that the self-diffusion is reduced by the external force field while the lifetime of collective modes of nanoparticles (i.e., natural phonons) is significantly enhanced by this force. We demonstrate that this result is related to disorder-order transitions in the nanoparticle spatial distribution under perturbation. Interestingly, we highlight that the interaction forces mediated by the walls act like repulsive interparticle forces. They tend to increase the structural disorder and to lower the lifetime of collective modes. Our results suggest that the heat transport properties of nanofluids could be actively controlled in nanometer-size systems.

  18. Can non-Gaussian fluctuations for structure formation arise from inflation

    SciTech Connect

    Salopek, D.S.

    1991-02-01

    Non-Guassian fluctuation for structure formation may be generated during the inflationary epoch from the nonlinear interaction of two scalar fields with gravity. Semi-analytical calculations are given describing nonlinear long wavelength evolution in 3 + 1 dimensions. Long wavelength fields are governed by a single equation, the separated Hamilton-Jacobi equation (SHJE). I discuss complete analytic solutions of the SHJE for two scalar fields with a potential whose logarithm 1n V ({phi}{sub j}) is linear. More complicated potential surfaces may be approximated by continuously joining various linear 1n V({phi}{sub j}) potentials. Typically, non-Gaussian fluctuations arise when one passes over several sharp ridges in the potential surface. One can input this richer class of initial conditions into N-body codes to see the effects on the large scale structure in the Universe. The cleanest test of non-Gaussian fluctuations will hopefully occur in the near future from large angle microwave background anisotropy experiments. 13 refs., 3 figs.

  19. Structural characterization of toxic oligomers that are kinetically trapped during α-synuclein fibril formation

    PubMed Central

    Chen, Serene W.; Drakulic, Srdja; Deas, Emma; Ouberai, Myriam; Aprile, Francesco A.; Arranz, Rocío; Ness, Samuel; Roodveldt, Cintia; Guilliams, Tim; De-Genst, Erwin J.; Klenerman, David; Wood, Nicholas W.; Knowles, Tuomas P.J.; Alfonso, Carlos; Rivas, Germán; Abramov, Andrey Y.; Valpuesta, José María; Dobson, Christopher M.; Cremades, Nunilo

    2015-01-01

    We describe the isolation and detailed structural characterization of stable toxic oligomers of α-synuclein that have accumulated during the process of amyloid formation. Our approach has allowed us to identify distinct subgroups of oligomers and to probe their molecular architectures by using cryo-electron microscopy (cryoEM) image reconstruction techniques. Although the oligomers exist in a range of sizes, with different extents and nature of β-sheet content and exposed hydrophobicity, they all possess a hollow cylindrical architecture with similarities to certain types of amyloid fibril, suggesting that the accumulation of at least some forms of amyloid oligomers is likely to be a consequence of very slow rates of rearrangement of their β-sheet structures. Our findings reveal the inherent multiplicity of the process of protein misfolding and the key role the β-sheet geometry acquired in the early stages of the self-assembly process plays in dictating the kinetic stability and the pathological nature of individual oligomeric species. PMID:25855634

  20. Spontaneous structural transition and crystal formation in minimal supramolecular polymer model

    PubMed Central

    Fichman, Galit; Guterman, Tom; Damron, Joshua; Adler-Abramovich, Lihi; Schmidt, Judith; Kesselman, Ellina; Shimon, Linda J. W.; Ramamoorthy, Ayyalusamy; Talmon, Yeshayahu; Gazit, Ehud

    2016-01-01

    The association of building blocks into supramolecular polymers allows the fabrication of diverse functional architectures at the nanoscale. The use of minimal assembly units to explore polymer dynamics and phase transitions significantly contributes to the application of polymer physicochemical paradigms in the field of supramolecular polymers. We present a minimal model that displays spontaneous coordinated structural transitions between micro- and nanostructures, hydrogels with nanoscale order, and single crystals. The simple amphiphilic 9-fluorenylmethoxycarbonyl-3,4-dihydroxyphenylalanine (Fmoc-DOPA) modified amino acid undergoes a noninduced transition from spherical assemblies into nanofibrils followed by sol-gel transition, nanotube formation via intermediate assembly, and crystallization within the gel. Notably, the transition kinetics is slow enough to allow both multistage and multiscale characterization of the supramolecular arrangement using electron microscopy, vibrational and circular dichroism spectroscopies, nuclear magnetic resonance, and x-ray crystallography. This minimalistic system is the first comprehensive model for a complete spontaneous structural transition between diverse states governed by distinct molecular interactions. PMID:26933679

  1. Spontaneous structural transition and crystal formation in minimal supramolecular polymer model.

    PubMed

    Fichman, Galit; Guterman, Tom; Damron, Joshua; Adler-Abramovich, Lihi; Schmidt, Judith; Kesselman, Ellina; Shimon, Linda J W; Ramamoorthy, Ayyalusamy; Talmon, Yeshayahu; Gazit, Ehud

    2016-02-01

    The association of building blocks into supramolecular polymers allows the fabrication of diverse functional architectures at the nanoscale. The use of minimal assembly units to explore polymer dynamics and phase transitions significantly contributes to the application of polymer physicochemical paradigms in the field of supramolecular polymers. We present a minimal model that displays spontaneous coordinated structural transitions between micro- and nanostructures, hydrogels with nanoscale order, and single crystals. The simple amphiphilic 9-fluorenylmethoxycarbonyl-3,4-dihydroxyphenylalanine (Fmoc-DOPA) modified amino acid undergoes a noninduced transition from spherical assemblies into nanofibrils followed by sol-gel transition, nanotube formation via intermediate assembly, and crystallization within the gel. Notably, the transition kinetics is slow enough to allow both multistage and multiscale characterization of the supramolecular arrangement using electron microscopy, vibrational and circular dichroism spectroscopies, nuclear magnetic resonance, and x-ray crystallography. This minimalistic system is the first comprehensive model for a complete spontaneous structural transition between diverse states governed by distinct molecular interactions. PMID:26933679

  2. Nanoparticles based laser-induced surface structures formation on mesoporous silicon by picosecond laser beam interaction

    NASA Astrophysics Data System (ADS)

    Talbi, A.; Petit, A.; Melhem, A.; Stolz, A.; Boulmer-Leborgne, C.; Gautier, G.; Defforge, T.; Semmar, N.

    2016-06-01

    In this study, laser induced periodic surface structures were formed on mesoporous silicon by irradiation of Nd:YAG picosecond pulsed laser beam at 266 nm wavelength at 1 Hz repetition rate and with 42 ps pulse duration. The effects of laser processing parameters as laser beam fluence and laser pulse number on the formation of ripples were investigated. Scanning electron microscopy and atomic force microscopy were used to image the surface morphologies and the cross section of samples after laser irradiation. At relatively low fluence ∼20 mJ/cm2, ripples with period close to the laser beam wavelength (266 nm) and with an always controlled orientation (perpendicular to the polarization of ps laser beam) appeared after a large laser pulse number of 12,000. It has been found that an initial random distribution of SiOx nanoparticles is periodically structured with an increase of the laser pulse number. Finally, it is experimentally demonstrated that we formed a 100 nm liquid phase under the protusion zones including the pores in the picosecond regime.

  3. Thickness-controllable electrospun fibers promote tubular structure formation by endothelial progenitor cells

    PubMed Central

    Hong, Jong Kyu; Bang, Ju Yup; Xu, Guan; Lee, Jun-Hee; Kim, Yeon-Ju; Lee, Ho-Jun; Kim, Han Seong; Kwon, Sang-Mo

    2015-01-01

    Controlling the thickness of an electrospun nanofibrous scaffold by altering its pore size has been shown to regulate cell behaviors such as cell infiltration into a three-dimensional (3D) scaffold. This is of great importance when manufacturing tissue-engineering scaffolds using an electrospinning process. In this study, we report the development of a novel process whereby additional aluminum foil layers were applied to the accumulated electrospun fibers of an existing aluminum foil collector, effectively reducing the incidence of charge buildup. Using this process, we fabricated an electrospun scaffold with a large pore (pore size >40 μm) while simultaneously controlling the thickness. We demonstrate that the large pore size triggered rapid infiltration (160 μm in 4 hours of cell culture) of individual endothelial progenitor cells (EPCs) and rapid cell colonization after seeding EPC spheroids. We confirmed that the 3D, but not two-dimensional, scaffold structures regulated tubular structure formation by the EPCs. Thus, incorporation of stem cells into a highly porous 3D scaffold with tunable thickness has implications for the regeneration of vascularized thick tissues and cardiac patch development. PMID:25709441

  4. The formation of cosmic structure in a texture-seeded cold dark matter cosmogony

    NASA Technical Reports Server (NTRS)

    Gooding, Andrew K.; Park, Changbom; Spergel, David N.; Turok, Neil; Gott, Richard, III

    1992-01-01

    The growth of density fluctuations induced by global texture in an Omega = 1 cold dark matter (CDM) cosmogony is calculated. The resulting power spectra are in good agreement with each other, with more power on large scales than in the standard inflation plus CDM model. Calculation of related statistics (two-point correlation functions, mass variances, cosmic Mach number) indicates that the texture plus CDM model compares more favorably than standard CDM with observations of large-scale structure. Texture produces coherent velocity fields on large scales, as observed. Excessive small-scale velocity dispersions, and voids less empty than those observed may be remedied by including baryonic physics. The topology of the cosmic structure agrees well with observation. The non-Gaussian texture induced density fluctuations lead to earlier nonlinear object formation than in Gaussian models and may also be more compatible with recent evidence that the galaxy density field is non-Gaussian on large scales. On smaller scales the density field is strongly non-Gaussian, but this appears to be primarily due to nonlinear gravitational clustering. The velocity field on smaller scales is surprisingly Gaussian.

  5. [A structural organization of the sensory projections on a reticular formation of the brain stem].

    PubMed

    Amunts, V V

    1999-01-01

    The animal experiments were performed by the cutting the sensory afferent tracts which had the projections on the reticular formation (RF) of brain stem, namely--visual, acoustic and taste tracts. Brain was investigated by methods of Marki, Nauta, Fink-Haimer. A quantitative evaluation of the voluminous fractions of neurons and gla was carried out by using "Classimat" device. Capillary density was also counted. A morphologic substrate for the conduction of the specific influences was found in form of both afferent fibers entering in brain stem and the cell groups associated with them. Between the specific brain stem and reticular structures of medulla oblongata, brain stem and midbrain (n.cuneiformis, n. tegmenti pedunculo-ponticus, n.centralis oralis and caudalis pontis, n. papillioformis, n. parabrachialis medialis and n. parvocellularis) intermediate zones were determined which were localized on the junction between sensory and reticular nuclei and had specific afferentation. Intermediate zones were also found in RF between the nuclei in both oral-caudal and mediolateral directions. An idea was formulated about the differencies in a structural organization of RF in medulla oblongata, brain stem and midrain, that were conditioned by a multicentral localization of RF functions. PMID:10533251

  6. Can non-Gaussian fluctuations for structure formation arise from inflation

    NASA Astrophysics Data System (ADS)

    Salopek, D. S.

    1991-02-01

    Non-Guassian fluctuation for structure formation may be generated during the inflationary epoch from the nonlinear interaction of two scalar fields with gravity. Semi-analytical calculations are given describing nonlinear long wavelength evolution in 3 + 1 dimensions. Long wavelength fields are governed by a single equation, the separated Hamilton-Jacobi equation (SHJE). Complete analytic solutions are discussed of the SHJE for two scalar fields with a potential whose logarithm 1n V (phi sub j) is linear. More complicated potential surfaces may be approximated by continuously joining various linear 1n V(phi sub j) potentials. Typically, non-Gaussian fluctuations arise when one passes over several sharp ridges in the potential surface. One can input this richer class of initial conditions into N-body codes to see the effects on the large scale structure in the Universe. The cleanest test of non-Gaussian fluctuations will hopefully occur in the near future from large angle microwave background anisotropy experiments.

  7. Formation of a new benzene-ethane co-crystalline structure under cryogenic conditions.

    PubMed

    Vu, Tuan Hoang; Cable, Morgan L; Choukroun, Mathieu; Hodyss, Robert; Beauchamp, Patricia

    2014-06-12

    We report the first experimental finding of a solid molecular complex between benzene and ethane, two small apolar hydrocarbons, at atmospheric pressure and cryogenic temperatures. Considerable amounts of ethane are found to be incorporated inside the benzene lattice upon the addition of liquid ethane onto solid benzene at 90-150 K, resulting in formation of a distinctive co-crystalline structure that can be detected via micro-Raman spectroscopy. Two new features characteristic of these co-crystals are observed in the Raman spectra at 2873 and 1455 cm(-1), which are red-shifted by 12 cm(-1) from the υ1 (a1g) and υ11 (eg) stretching modes of liquid ethane, respectively. Analysis of benzene and ethane vibrational bands combined with quantum mechanical modeling of isolated molecular dimers reveal an interaction between the aromatic ring of benzene and the hydrogen atoms of ethane in a C-H···π fashion. The most favored configuration for the benzene-ethane dimer is the monodentate-contact structure, with a calculated interaction energy of 9.33 kJ/mol and an equilibrium bonding distance of 2.66 Å. These parameters are comparable to those for a T-shaped co-crystalline complex between benzene and acetylene that has been previously reported in the literature. These results are relevant for understanding the hydrocarbon cycle of Titan, where benzene and similar organics may act as potential hydrocarbon reservoirs due to this incorporation mechanism. PMID:24809894

  8. Structural analysis of high-pressure shear zones (Bacariza Formation, Cabo Ortegal, NW Spain)

    NASA Astrophysics Data System (ADS)

    Puelles, P.; Mulchrone, K. F.; Ábalos, B.; Ibarguchi, J. I. Gil

    2005-06-01

    High-pressure granulites of the Bacariza Formation (Cabo Ortegal Complex, NW Spain) exhibit spectacular examples of ductile shear zones developed at different scales in rocks containing pre-existing foliations. A detailed structural analysis was carried out on these shear zones in order to unravel and compare the role of various parameters controlling the deformation process (i.e. heterogeneous simple shear, components of homogeneous deformation, heterogeneous volume change and degree of non-coaxiality). Although heterogeneous simple shear largely dominated, negligible deviations from the ideal simple shear model were detected involving shortening along the structural directions perpendicular to the stretching axis (within the foliation plane) of the finite strain ellipsoid. The relationship between displacement parallel to a half-shear zone and the normal distance from its boundary provided the basis for the estimation of the stress exponent in the power-law constitutive flow equation associated with each shear zone, which is interpreted as a rheological indicator. These geometric and rheological results, and the thermobaric conditions of high-pressure shear zone deformation, indicate that these shear zones accommodated dominant plastic rock flow coeval with high-pressure and high-temperature deformations under moderate stress levels concomitant with elevated strain rates.

  9. Effective field theory of dark matter and structure formation: Semianalytical results

    NASA Astrophysics Data System (ADS)

    Hertzberg, Mark P.

    2014-02-01

    Complimenting recent work on the effective field theory of cosmological large scale structures, here we present detailed approximate analytical results and further pedagogical understanding of the method. We start from the collisionless Boltzmann equation and integrate out short modes of a dark matter/dark energy dominated universe (ΛCDM) whose matter is comprised of massive particles as used in cosmological simulations. This establishes a long distance effective fluid, valid for length scales larger than the nonlinear scale ˜10 Mpc, and provides the complete description of large scale structure formation. Extracting the time dependence, we derive recursion relations that encode the perturbative solution. This is exact for the matter dominated era and quite accurate in ΛCDM also. The effective fluid is characterized by physical parameters, including sound speed and viscosity. These two fluid parameters play a degenerate role with each other and lead to a relative correction from standard perturbation theory of the form ˜10-6c2k2/H2. Starting from the linear theory, we calculate corrections to cosmological observables, such as the baryon-acoustic-oscillation peak, which we compute semianalytically at one-loop order. Due to the nonzero fluid parameters, the predictions of the effective field theory agree with observation much more accurately than standard perturbation theory and we explain why. We also discuss corrections from treating dark matter as interacting or wavelike and other issues.

  10. Structurally controlled diagenesis of a carbonate ramp (Banff Formation, Alberta, Canada)

    NASA Astrophysics Data System (ADS)

    Chatellier, Jean-Yves D.

    1992-08-01

    The Lower Carboniferous Banff Formation represents a homoclinal carbonate ramp. Its layer-cake geometry and homogeneous lithology over a large area make it ideal to study palaeostructures and palaeofault systems. The study of 607 wells in the area east of Jasper Park outlines major diagenetic features that are probably structurally related. In each well, the average lithology has been broken down into limestone, dolomite and shale, with the dolomite content and the porosity being mapped. Because of the varying density of wells, an "anomaly mapping technique" has been used that is based on flagging anomalies (wells outside the norm) after searching in six out of eight octants. The contour maps indicate that anomalous zones of porosity and oil stain (migration pathways) are related to dolomitisation trends. Their linear geometry and their location indicate a structural control. Three major trends (NW-SE, NE-SW and NNE-SSW) are recognised; they have varying characteristics. Comparison of the anomaly maps for dolomite and porosity shows, locally, a typical pattern of overdolomitisation in the NE-SW trends. Assessment of the relative timing of the various dolomitisation and porosity phases has been tentatively made. In one case a lateral throw of a previously non-recognised fault has been measured (65 km). A comparison with known Devonian sedimentary and diagenetic features is tentatively made in order to validate the outlined trends and their interpretations.

  11. Formation of large-scale magnetic structures associated with the Fermi bubbles

    NASA Astrophysics Data System (ADS)

    Barkov, M. V.; Bosch-Ramon, V.

    2014-05-01

    Context. The Fermi bubbles are part of a complex region of the Milky Way. This region presents broadband extended non-thermal radiation, apparently coming from a physical structure rooted at the Galactic centre and with a partly ordered magnetic field threading it. Aims: We explore the possibility of an explosive origin for the Fermi bubble region to explain its morphology, in particular that of the large-scale magnetic fields, and provide context for the broadband non-thermal radiation. Methods: We performed 3D magnetohydrodynamical simulations of an explosion that occurred a few million years ago that pushed and sheared a surrounding magnetic loop, anchored in the molecular torus around the Galactic centre. Results: Our results can explain the formation of the large-scale magnetic structure in the Fermi bubble region. Consecutive explosive events may match the morphology of the region better. Faster velocities at the top of the shocks than at their sides may explain the hardening with distance from the Galactic plane found in the GeV emission. Conclusions: In the framework of our scenario, we estimate the lifetime of the Fermi bubbles as ≈2 × 106 yr, with a total energy injected in the explosion(s) of ≳1055 ergs. The broadband non-thermal radiation from the region may be explained by leptonic emission, which is more extended in radio and X-rays, and is confined to the Fermi bubbles in gamma rays.

  12. Structure of evolving Accretion Discs and their Implications to the Formation of Planetary Cores

    NASA Astrophysics Data System (ADS)

    Bitsch, Bertram; Morbidelli, A.; Crida, A.; Lega, E.

    2013-10-01

    Two features in a protoplanetary disc can have profound effects on planet formation. The first feature is "pressure bumps", i.e. local maxima in the gas surface density distribution that can arise e.g. at the inner edge of the dead zone. Pressure bumps stop the inward migration of small bodies undergoing gas drag (Brauer et al., 2008), promote the onset of the streaming instability (Johansen and Youdin, 2007), help the accretion of planetary embryos by the pebble-accretion process (Lambrechts and Johansen, 2012) and stop inward type-I migration by the planet-trap mechanism (Masset et al., 2006). The second feature is "scale height bumps", that originate from opacity transitions. The regions of the disc that are shadowed, where H/r decreases with r, allow planetary cores to migrate outwards due to entropy gradient effects (Paardekooper and Mellema (2006), Baruteau and Masset (2008)), until they reach the local minimum of the H/r profile (Bitsch et al. 2013). Thus, it is important to model the existence and the location of these structures in realistic protoplanetary discs. The structure of the disc is dependent on the mass-flux (accretion rate) through the disc, which determines the evolution of the density profile. This mass-flux changes in time, as the whole disc gets accreted onto the central star. We will show using 2D hydrodynamical models how the change of the accretion rate affects the disc structure and how this will change the sweet-spots for saving planetary cores from too rapid inward migration. We will focus here on "scale height bumps" in the disc that will change the alpha-viscosity and consequently the gas surface density (as the mass-flux is constant through the disc). Therefore the formation of pressure bumps is possible, whose prominence and effects on migration will be investigated in detail. This will give important indications of where and when in the disc the cores of giant planets and thus giant planets can form.

  13. Lagrangian analysis of formation, structure, evolution and splitting of anticyclonic Kuril eddies

    NASA Astrophysics Data System (ADS)

    Prants, S. V.; Lobanov, V. B.; Budyansky, M. V.; Uleysky, M. Yu.

    2016-03-01

    We studied in detail a mesoscale anticylonic eddy that has been sampled in the R/V Professor Gagarinskiy cruise (June-July 2012) in the area east of the Kuril Islands in the northwestern subarctic Pacific. Lagrangian approach was applied to study formation, structure and evolution of this feature called the eddy A and of its parent eddy B using a simulation with synthetic tracers advected by the AVISO velocity field. We used different Lagrangian methods and techniques to identify those eddies and their boundaries, to know their structure and to document their deformation, metamorphoses and splitting. It has been found that the eddy A was born as a result of splitting of the eddy B with the core water to be borrowed from the eddy B which, in turn, was influenced by the Okhotsk Sea water flowing into the ocean through the Kuril straits. The periphery of the eddy A was formed mainly by East Kamchatka Current water in the process of its winding onto the eddy A core by portions. All these processes have been documented in detail with the help of drift and tracking Lagrangian maps computed forward and backward in time with a large number of synthetic tracers distributed over the studied area. We have found a Lagrangian structure of those eddies and the ways how they have gained and released water. Simulated and measured locations of the center of the eddy A and its boundary have been be estimated to coincide with the accuracy of ≈ 7-10 and ≈ 15-20 km, respectively. Our simulations were validated in part by tracks of available surface drifters and Argo floats. We presented CTD hydrographic observations of the Kuril eddy A from the surface to deep waters and compared observed and simulated results in order to establish origin and properties of water masses constituting that eddy.

  14. Structure formation in gas-rich galactic discs with finite thickness: from discs to rings

    NASA Astrophysics Data System (ADS)

    Behrendt, M.; Burkert, A.; Schartmann, M.

    2015-03-01

    Gravitational instabilities play an important role in structure formation of gas-rich high-redshift disc galaxies. In this paper, we revisit the axisymmetric perturbation theory and the resulting growth of structure by taking the realistic thickness of the disc into account. In the unstable regime, which corresponds for thick discs to a Toomre parameter below the critical value Q0, crit = 0.696, we find a fastest growing perturbation wavelength that is always a factor 1.93 times larger than in the classical razor-thin disc approximation. This result is independent of the adopted disc scaleheight and by this independent of temperature and surface density. In order to test the analytical theory, we compare it with a high-resolution hydrodynamical simulation of an isothermal gravitationally unstable gas disc with the typical vertical sech2 density profile and study its break up into rings that subsequently fragment into dense clumps. In the first phase, rings form, that organize themselves discretely, with distances corresponding to the local fastest growing perturbation wavelength. We find that the disc scaleheight has to be resolved initially with five or more grid cells in order to guarantee proper growth of the ring structures, which follow the analytical prediction. These rings later on contract to a thin and dense line, while at the same time accreting more gas from the inter-ring region. It is these dense, circular filaments, that subsequently fragment into a large number of clumps. Contrary to what is typically assumed, the clump sizes are therefore not directly determined by the fastest growing wavelength.

  15. First-principles study of formation of Se submonolayer structures on Ru surfaces

    NASA Astrophysics Data System (ADS)

    Stolbov, Sergey

    2010-10-01

    The Ru nanoparticles with Se submonolayer coverage (Se/Ru) demonstrate high electrocatalytic activity toward oxygen reduction reaction (ORR) on cathodes of proton exchange membrane fuel cells. To understand the mechanisms of formation of Se structures on Ru surfaces, the geometric and electronic structures and energetics have been calculated in the present work for various distributions of Se atoms on the Ru(0001) surface and in the vicinity of the edge between the (0001) and (1101) facets. The calculations were performed within the density-functional theory with plane-wave expansion for wave functions and the projector augmented wave potentials. It has been found that due to electronic charge transfer from Ru to Se upon selenium adsorption, Se atoms become negatively charged and repel each other. This repulsion makes compact Se islands on Ru(0001) unstable. Se atoms prefer to separate from each other by the distance of ˜5.47Å or larger, which is possible for all Se adsorbates if coverage is not exceeding 1/3 ML. Further increase in Se coverage weakens Se-Ru bonding. Three-dimensional Se structure such as 4- and 11-atom pyramids are found to decompose spontaneously with scattering of Se atoms over the Ru(0001) surface. The Se adsorbates are also found to repel in the vicinity of the edge between the Ru facets, and a small increase in Se bonding to undercoordinated Ru atom does not change the trend of Se adsorbates to separate from each other. The obtained most stable configurations of Se on Ru with 1/3 ML coverage or less may also be optimal for ORR because they provide Ru sites available for O and OH adsorption.

  16. Crystal structures and in-situ formation study of mayenite electrides.

    PubMed

    Palacios, Luis; De La Torre, Angeles G; Bruque, Sebastián; García-Muñoz, Jose L; García-Granda, Santiago; Sheptyakov, Denis; Aranda, Miguel A G

    2007-05-14

    Mayenite inorganic electrides are antizeolite nanoporous materials with variable electron concentration [Ca12Al14O32]2+ square5-deltaO1-delta2-e2delta- (0 < delta < or = 1), where square stands for empty sites. The oxymayenite crystal structure contains positively charged cages where loosely bounded oxide anions are located. These oxygens can be removed to yield electron-loaded materials in which the electrons behave like anions (electrides). Here, a new preparation method, which allows synthesizing powder mayenite electrides easily, is reported. Accurate structural data for the white (delta = 0) and green electride (delta approximately 0.5) are reported from joint Rietveld refinements of neutron and synchrotron X-ray powder diffraction data and also from single-crystal diffraction. The electride formation at high temperature under vacuum has been followed in-situ by neutron powder diffraction. The evolution of mayenite crystal structure, including the changes in the key occupation factor of the intracage oxide anions, is reported. Furthermore, the stability of mayenite framework in very low oxygen partial pressure conditions is also studied. It has been found that C12A7 decomposes, at 1373 K in reducing conditions, to give Ca5Al6O14 (C5A3) and Ca3Al2O6 (C3A). The kinetics of this transformation has also been studied. The fit of the transformed fraction to the classic Avrami-Erofe'ev equation gave an "Avrami exponent", n = 2, which indicates that nucleation is fast and the two-dimensional linear growth of the new phases is likely to be the limiting factor. PMID:17432850

  17. The degree of π electron delocalization and the formation of 3D-extensible sandwich structures.

    PubMed

    Wang, Xiang; Wang, Qiang; Yuan, Caixia; Zhao, Xue-Feng; Li, Jia-Jia; Li, Debao; Wu, Yan-Bo; Wang, Xiaotai

    2016-04-28

    DFT B3LYP/6-31G(d) calculations were performed to examine the feasibility of graphene-like C42H18 and starbenzene C6(BeH)6 (SBz) polymers as ligands of 3D-extensible sandwich compounds (3D-ESCs) with uninterrupted sandwich arrays. The results revealed that sandwich compounds with three or more C42H18 ligands were not feasible. The possible reason may be the localization of π electrons on certain C6 hexagons due to π-metal interactions, which makes the whole ligand lose its electronic structure basis (higher degree of π electron delocalization) to maintain the planar structure. For comparison, with the aid of benzene (Bz) molecules, the SBz polymers can be feasible ligands for designing 3D-ESCs because the C-Be interactions in individual SBz are largely ionic, which will deter the π electrons on one C6 ring from connecting to those on neighbouring C6 rings. This means that high degree of π electron delocalization is not necessary for maintaining the planarity of SBz polymers. Such a locally delocalized π electron structure is desirable for the ligands of 3D-ESCs. Remarkably, the formation of a sandwich compound with SBz is thermodynamically more favourable than that found for bis(Bz)chromium. The assembly of 3D-ESCs is largely exothermic, which will facilitate future experimental synthesis. The different variation trends on the HOMO-LUMO gaps in different directions (relative to the sandwich axes) suggest that they can be developed to form directional conductors or semiconductors, which may be useful in the production of electronic devices. PMID:27004750

  18. Formation and positioning of nucleosomes: effect of sequence-dependent long-range correlated structural disorder.

    PubMed

    Vaillant, C; Audit, B; Thermes, C; Arnéodo, A

    2006-03-01

    The understanding of the long-range correlations (LRC) observed in DNA sequences is still an open and very challenging problem. In this paper, we start reviewing recent results obtained when exploring the scaling properties of eucaryotic, eubacterial and archaeal genomic sequences using the space-scale decomposition provided by the wavelet transform (WT). These results suggest that the existence of LRC up to distances approximately 20-30 kbp is the signature of the nucleosomal structure and dynamics of the chromatin fiber. Actually the LRC are mainly observed in the DNA bending profiles obtained when using some structural coding of the DNA sequences that accounts for the fluctuations of the local double-helix curvature within the nucleosome complex. Because of the approximate planarity of nucleosomal DNA loops, we then study the influence of the LRC structural disorder on the thermodynamical properties of 2D elastic chains submitted locally to mechanical/topological constraint as loops. The equilibrium properties of the one-loop system are derived numerically and analytically in the quite realistic weak-disorder limit. The LRC are shown to favor the spontaneous formation of small loops, the larger the LRC, the smaller the size of the loop. We further investigate the dynamical behavior of such a loop using the mean first passage time (MFPT) formalism. We show that the typical short-time loop dynamics is superdiffusive in the presence of LRC. For displacements larger than the loop size, we use large-deviation theory to derive a LRC-dependent anomalous-diffusion rule that accounts for the lack of disorder self-averaging. Potential biological implications on DNA loops involved in nucleosome positioning and dynamics in eucaryotic chromatin are discussed. PMID:16477390

  19. Influence of Carbon Nanotubes on the Structure Formation of Cement Matrix

    NASA Astrophysics Data System (ADS)

    Petrunin, S.; Vaganov, V.; Reshetniak, V.; Zakrevskaya, L.

    2015-11-01

    The potential of application of CNTs as a reinforcing agent in cement composites is governed by their unique mechanical and electronic properties. The analysis of concrete strength changes under CNTs introduction shows non-uniformity and sometimes inconsistency of results. Due to the fact that CNTs influence the hydration kinetics, structure and phase composition of concrete, an idea concerning the importance of interaction between the surface of CNTs and hydrate ions formed by the dissolution of the clinker phases has been suggested. In this paper, the theoretical and experimental study of interaction between hydrate ions and CNTs surface is discussed. Reference nanotubes and nanotubes functionalized by carboxylic groups are used in this research. Phase composition was determined by X-Ray analysis according to the Rietveld method. It was found that the presence of oxygen-containing functional groups on CNTs surface leads to intensification of the hydration process and increase in concentration of C-S-H gel from 65.9% to 74.4%. Special attention is usually paid to interactions between Ca2+ ions and CNTs, because the hardening rate and structure of cement stone are determined by principle of Ca2+ localization in the solution. In this paper the possible binding mechanisms are discussed. Based on the experimental results, the hypothesis regarding the formation of cement composite structure for different CNTs surface functionalizations is considered. According to this hypothesis, the CNTs act as the centers of crystallization for hydration products contributing to the acceleration of hydration, increase of the concentration of C-S-H gel and strength improvement of CNTs based composites.

  20. Shock tube study of the fuel structure effects on the chemical kinetic mechanisms responsible for soot formation, part 2

    NASA Technical Reports Server (NTRS)

    Frenklach, M.; Clary, D. W.; Ramachandra, M. K.

    1985-01-01

    Soot formation in oxidation of allene, 1,3-butadiene, vinylacetylene and chlorobenzene and in pyrolysis of ethylene, vinylacetylene, 1-butene, chlorobenzene, acetylen-hydrogen, benzene-acetylene, benzene-butadiene and chlorobenzene-acetylene argon-diluted mixtures was studied behind reflected shock waves. The results are rationalized within the framework of the conceptual models. It is shown that vinylacetylene is much less sooty than allene, which indicates that conjugation by itself is not a sufficient factor for determining the sooting tendency of a molecule. Structural reactivity in the context of the chemical kinetics is the dominant factor in soot formation. Detailed chemical kinetic modeling of soot formation in pyrolysis of acetylene is reported. The main mass growth was found to proceed through a single dominant route composed of conventional radical reactions. The practically irreversible formation reactions of the fused polycyclic aromatics and the overshoot by hydrogen atom over its equilibrium concentration are the g-driving kinetic forces for soot formation.

  1. The topography of Ceres and implications for the formation of linear surface structures

    NASA Astrophysics Data System (ADS)

    Buczkowski, D.; Otto, K.; Ruesch, O.; Scully, J. E. C.; Williams, D. A.; Mest, S. C.; Schenk, P.; Jaumann, R.; Nathues, A.; Preusker, F.; Park, R. S.; Raymond, C. A.; Russell, C. T.

    2015-12-01

    NASA's Dawn spacecraft began orbiting the dwarf planet Ceres in April 2015. Framing Camera data from the Approach (1.3 km/px) and Survey (415 m/px) orbits include digital terrain models derived from processing stereo images. These models have supported various scientific studies of the surface. The eastern hemisphere of Ceres is topographically higher than the western hemisphere. Some of linear structures on Ceres (which include grooves, pit crater chains, fractures and troughs) appear to be radial to the large basins Urvara and Yalode, and most likely formed due to impact processes. However, set of regional linear structures (RLS) that do not have any obvious relationship to impact craters are found on the eastern hemisphere topographic high region. Many of the longer RLS are comprised of smaller structures that have linked together, suggestive of en echelon fractures. Polygonal craters, theorized to form when pervasive subsurface fracturing affects crater formation [1], are widespread on Ceres [2], and those proximal to the RLS have straight crater rims aligned with the grooves and troughs, suggesting that the RLS are fracture systems. A cross-section of one RLS is displayed in FC images of the Occator crater wall. Comparing these images to the digital terrain models show 1) that the structure dips ~60º and 2) there is downward motion on the hanging wall, implying normal faulting. The digital terrain models also reveal the presence of numerous positive relief features with sub-circular shapes. These dome-like features have been tentatively interpreted as volcanic/magmatic features [3]; other possibilities include salt domes. Analog models of domal uplift in areas of regional extension [4] predict patterns of linear structures similar to those observed in the RLS near Occator. Utilizing topography data provided by the Ceres digital terrain models, we assess the relationship between the RLS and nearby domes and topographic high regions to determine the mechanism

  2. Terrestrial planet formation constrained by Mars and the structure of the asteroid belt

    NASA Astrophysics Data System (ADS)

    Izidoro, André; Raymond, Sean N.; Morbidelli, Alessandro; Winter, Othon C.

    2015-11-01

    Reproducing the large Earth/Mars mass ratio requires a strong mass depletion in solids within the protoplanetary disc between 1 and 3 au. The Grand Tack model invokes a specific migration history of the giant planets to remove most of the mass initially beyond 1 au and to dynamically excite the asteroid belt. However, one could also invoke a steep density gradient created by inward drift and pile-up of small particles induced by gas drag, as has been proposed to explain the formation of close-in super-Earths. Here we show that the asteroid belt's orbital excitation provides a crucial constraint against this scenario for the Solar system. We performed a series of simulations of terrestrial planet formation and asteroid belt evolution starting from discs of planetesimals and planetary embryos with various radial density gradients and including Jupiter and Saturn on nearly circular and coplanar orbits. Discs with shallow density gradients reproduce the dynamical excitation of the asteroid belt by gravitational self-stirring but form Mars analogues significantly more massive than the real planet. In contrast, a disc with a surface density gradient proportional to r-5.5 reproduces the Earth/Mars mass ratio but leaves the asteroid belt in a dynamical state that is far colder than the real belt. We conclude that no disc profile can simultaneously explain the structure of the terrestrial planets and asteroid belt. The asteroid belt must have been depleted and dynamically excited by a different mechanism such as, for instance, in the Grand Tack scenario.

  3. Structural rearrangements preceding dioxygen formation by the water oxidation complex of photosystem II

    PubMed Central

    Bao, Han; Burnap, Robert L.

    2015-01-01

    Photosynthetic water oxidation is catalyzed by the Mn4CaO5 cluster of photosystem II. Recent studies implicate an oxo bridge atom, O5, of the Mn4CaO5 cluster, as the “slowly exchanging” substrate water molecule. The D1-V185N mutant is in close vicinity of O5 and known to extend the lag phase and retard the O2 release phase (slow phase) in this critical last S3+→S0 transition of water oxidation. The pH dependence, hydrogen/deuterium (H/D) isotope effect, and temperature dependence on the O2 release kinetics for this mutant were studied using time-resolved O2 polarography, and comparisons were made with WT and two mutants of the putative proton gate D1-D61. Both kinetic phases in V185N are independent of pH and buffer concentration and have weaker H/D kinetic isotope effects. Each phase is characterized by a parallel or even lower activation enthalpy but a less favorable activation entropy than the WT. The results indicate new rate-determining steps for both phases. It is concluded that the lag does not represent inhibition of proton release but rather, slowing of a previously unrecognized kinetic phase involving a structural rearrangement or tautomerism of the S3+ ground state as it approaches a configuration conducive to dioxygen formation. The parallel impacts on both the lag and O2 formation phases suggest a common origin for the defects surmised to be perturbations of the H-bond network and the water cluster adjacent to O5. PMID:26508637

  4. Structure and kinetics of formation of interphase layers of synthetic fatty acid aluminum soap at the water/oil interface

    SciTech Connect

    Chalykh, A.E.; Matveev, V.V.; Mityuk, D.Y.; Shal't, S.Y.; Tarasevich, B.N.

    1986-02-01

    The authors investigate the kinetics of formation of interphase layers (IL) at the interface between the phases: a 0.15% solution of aluminum soap of synthetic fatty acids (SFA) (fraction C/sub 17/-C/sub 21/) in n-decane/distilled water. The structure and the morphological properties of IL were investigated by transmission electron spectroscopy. The electron micrographs of the interphase layer of the soap at different stages of its formation show that the formation of a new phase starts with the appearance of small dispersed particles with spherical and fibrillar shapes. The results obtained supplement the authors' concepts about the mechanism of spontaneous microemulsification.

  5. Discussion on the sedimentary structure, geochemical characteristics and sedimentary environment of Ping Chau formation at Tung Ping Chau, Hong Kong.

    PubMed

    Wang, Lulin; Tian, Mingzhong; Wu, Fadong

    2015-07-01

    Ping Chau Formation has long been regarded as the youngest formation in Hong Kong since its emergence from Tung Ping Chau, an island on the northeast of Mirs Bay of New Territories. On the basis of field survey, the present study re-collates and re-stipulates typical sedimentary structure and sedimentary environment of Ping Chau Formation at Tung Ping Chau. Furthermore, with combination of geochemical laboratory methods for the first time a systematic analysis of the major and trace elements of Ping Chau Formation, and geochemical characteristics of rare earth elements were studied. The results showed that: Ping Chau Formation was formed in a passive continental margin structural environment; the study area belonged to transition facies ranging from brackish water to fresh water, with salinity increase from bottom to top on the profile showing a tendency of gradual salinization, The sedimentary environment of Ping Chau Formation had an anoxic reducing environment; The study concluded that Ping Chau Formation was formed in a reducing environment of brackish water or shore-shallow lake with low salinity. PMID:26387352

  6. Photosynthesis. Electronic structure of the oxygen-evolving complex in photosystem II prior to O-O bond formation.

    PubMed

    Cox, Nicholas; Retegan, Marius; Neese, Frank; Pantazis, Dimitrios A; Boussac, Alain; Lubitz, Wolfgang

    2014-08-15

    The photosynthetic protein complex photosystem II oxidizes water to molecular oxygen at an embedded tetramanganese-calcium cluster. Resolving the geometric and electronic structure of this cluster in its highest metastable catalytic state (designated S3) is a prerequisite for understanding the mechanism of O-O bond formation. Here, multifrequency, multidimensional magnetic resonance spectroscopy reveals that all four manganese ions of the catalyst are structurally and electronically similar immediately before the final oxygen evolution step; they all exhibit a 4+ formal oxidation state and octahedral local geometry. Only one structural model derived from quantum chemical modeling is consistent with all magnetic resonance data; its formation requires the binding of an additional water molecule. O-O bond formation would then proceed by the coupling of two proximal manganese-bound oxygens in the transition state of the cofactor. PMID:25124437

  7. Identification, structure, and characterization of an exopolysaccharide produced by Histophilus somni during biofilm formation

    PubMed Central

    2011-01-01

    Background Histophilus somni, a gram-negative coccobacillus, is an obligate inhabitant of bovine and ovine mucosal surfaces, and an opportunistic pathogen responsible for respiratory disease and other systemic infections in cattle and sheep. Capsules are important virulence factors for many pathogenic bacteria, but a capsule has not been identified on H. somni. However, H. somni does form a biofilm in vitro and in vivo, and the biofilm matrix of most bacteria consists of a polysaccharide. Results Following incubation of H. somni under growth-restricting stress conditions, such as during anaerobiosis, stationary phase, or in hypertonic salt, a polysaccharide could be isolated from washed cells or culture supernatant. The polysaccharide was present in large amounts in broth culture sediment after H. somni was grown under low oxygen tension for 4-5 days (conditions favorable to biofilm formation), but not from planktonic cells during log phase growth. Immuno-transmission electron microscopy showed that the polysaccharide was not closely associated with the cell surface, and was of heterogeneous high molecular size by gel electrophoresis, indicating it was an exopolysaccharide (EPS). The EPS was a branched mannose polymer containing some galactose, as determined by structural analysis. The mannose-specific Moringa M lectin and antibodies to the EPS bound to the biofilm matrix, demonstrating that the EPS was a component of the biofilm. The addition of N-acetylneuraminic acid to the growth medium resulted in sialylation of the EPS, and increased biofilm formation. Real-time quantitative reverse transcription-polymerase chain reaction analyses indicated that genes previously identified in a putative polysaccharide locus were upregulated when the bacteria were grown under conditions favorable to a biofilm, compared to planktonic cells. Conclusions H. somni is capable of producing a branching, mannose-galactose EPS polymer under growth conditions favorable to the biofilm

  8. In-situ Micro-structural Studies of Gas Hydrate Formation in Sedimentary Matrices

    NASA Astrophysics Data System (ADS)

    Kuhs, Werner F.; Chaouachi, Marwen; Falenty, Andrzej; Sell, Kathleen; Schwarz, Jens-Oliver; Wolf, Martin; Enzmann, Frieder; Kersten, Michael; Haberthür, David

    2015-04-01

    The formation process of gas hydrates in sedimentary matrices is of crucial importance for the physical and transport properties of the resulting aggregates. This process has never been observed in-situ with sub-micron resolution. Here, we report on synchrotron-based micro-tomographic studies by which the nucleation and growth processes of gas hydrate were observed in different sedimentary matrices (natural quartz, glass beds with different surface properties, with and without admixtures of kaolinite and montmorillonite) at varying water saturation. The nucleation sites can be easily identified and the growth pattern is clearly established. In under-saturated sediments the nucleation starts at the water-gas interface and proceeds from there to form predominantly isometric single crystals of 10-20μm size. Using a newly developed synchrotron-based method we have determined the crystallite size distributions (CSD) of the gas hydrate in the sedimentary matrix confirming in a quantitative and statistically relevant manner the impressions from the tomographic reconstructions. It is noteworthy that the CSDs from synthetic hydrates are distinctly smaller than those of natural gas hydrates [1], which suggest that coarsening processes take place in the sedimentary matrix after the initial hydrate formation. Understanding the processes of formation and coarsening may eventually permit the determination of the age of gas hydrates in sedimentary matrices [2], which are largely unknown at present. Furthermore, the full micro-structural picture and its evolution will enable quantitative digital rock physics modeling to reveal poroelastic properties and in this way to support the exploration and exploitation of gas hydrate resources in the future. [1] Klapp S.A., Hemes S., Klein H., Bohrmann G., McDonald I., Kuhs W.F. Grain size measurements of natural gas hydrates. Marine Geology 2010; 274(1-4):85-94. [2] Klapp S.A., Klein H, Kuhs W.F. First determination of gas hydrate

  9. IUTAM Symposium on Vortex Dynamics: Formation, Structure and Function, 10-14 March 2013, Fukuoka, Japan

    NASA Astrophysics Data System (ADS)

    Fukumoto, Yasuhide

    2014-06-01

    This special issue of Fluid Dynamics Research contains the first of a two-part publication of the papers presented at the IUTAM Symposium on Vortex Dynamics: Formation, Structure and Function, held at the Centennial Hall, Kyushu University School of Medicine, Fukuoka, Japan, during the week of 10-14 March 2013. Vortices are ubiquitous structures in fluid mechanics spanning the range of scales from nanofluidics and microfluidics to geophysical and astrophysical flows. Vortices are the key to understanding many different phenomena. As a result, the subject of vortex dynamics continues to evolve and to constantly find new applications in biology, biotechnology, industrial and environmental problems. Vortices can be created by the separation of a flow from the surface of a body or at a density interface, and evolve into coherent structures. Once formed, a vortex acquires a function, depending on its individual structure. In this way, for example, insects gain lift and fish gain thrust. Surprisingly, despite the long history of vortex dynamics, only recently has knowledge about formation, structure and function of vortices been combined to yield new perspectives in the subject, thereby helping to solve outstanding problems brought about by modern advances in computer technology and improved experimental techniques. This symposium is a continuation, five years on, of the IUTAM Symposium '50 Years of Vortex Dynamics', Lyngby, Denmark that took place between 12-16 October 2008, organized by the late Professor Hassan Aref. Originally, Professor Aref was a member of the International Scientific Committee of this symposium and offered his enthusiasm and great expertise, to support its organization. To our shock, he suddenly passed away on 9 September 2011. Furthermore, Professor Slava Meleshko, a leading scientist of fluid and solid mechanics and an intimate friend of Professor Aref, was expected to make an eminent contribution to the symposium. Soon after this sad loss

  10. Structural style and Basin Formation in Deep-water Area of Northern South China Sea

    NASA Astrophysics Data System (ADS)

    di, Z.; Zhen, S.; Xiong, P.; Min, C. C.

    2007-12-01

    grabens and down warps with relatively small offset of boundary faults. To the east the Chaoshan Depression is composed of Mesozoic strata under very thin (<1km) Cenozoic cover. The origin of such a W-E variation might be related to the existence of Mesozoic subduction system in the east, which influenced not only the formation of Cenozoic sedimentary basins and the variation of sedimentary facies, but also the thermo- rheological structure of the underlying lithosphere. The BYS from the bottom upwards includes 3 layers, a layer of rifts, a layer of faulted down-warps, and a layer of down-warps. Compared with the 2-layer bull-head structure of the Zhu 1 depression in the shelf, the BYS has one more layer of faulted down-warps. This might indicate that after a short period of brittle rifting the relatively hot lithosphere in the slope has undergone a period of ductile extension. The post-extension sequence in BYS is much thicker than that predicted by thermal subsidence theory. We suspect that in a passive margin the formation mechanism of deep-water basins is different from that of shallow-water basins. A study is ongoing to explore the basin formation mechanism, taking into account of the factors of abnormal lithosphere rheology, active mantle underplating and magmatic heating, lower crust flow, as well as the superposition of later extensional events. The study is supported by NSFC grants 40576027 and 40238060.

  11. Kinetic description of the 3D electromagnetic structures formation in flows of expanding plasma coronas. Part 1: General

    NASA Astrophysics Data System (ADS)

    Gubchenko, V. M.

    2015-12-01

    In part I of the work, the physical effects responsible for the formation of low-speed flows in plasma coronas, coupled with formation of coronas magnetosphere-like structures, are described qualitatively. Coronal domain structures form if we neglect scales of spatial plasma dispersion: high-speed flows are accumulated in magnetic tubes of the open domains, while magnetic structures and low-speed flows are concentrated within boundaries of domains. The inductive electromagnetic process occurring in flows of the hot collisionless plasma is shown to underlie the formation of magnetosphere-like structures. Depending on the form of the velocity distribution function of particles (PDF), a hot flow differently reveals its electromagnetic properties, which are expressed by the induction of resistive and diamagnetic scales of spatial dispersion. These determine the magnetic structure scales and structure reconstruction. The inductive electromagnetic process located in lines of the plasma nontransparency and absorption, in which the structures of excited fields are spatially aperiodic and skinned to the magnetic field sources. The toroidal and dipole magnetic sources of different configurations are considered for describing the corona structures during the solar maximum and solar minimum.

  12. Stringy models of modified gravity: space-time defects and structure formation

    SciTech Connect

    Mavromatos, Nick E.; Sakellariadou, Mairi; Yusaf, Muhammad Furqaan E-mail: mairi.sakellariadou@kcl.ac.uk

    2013-03-01

    Starting from microscopic models of space-time foam, based on brane universes propagating in bulk space-times populated by D0-brane defects (''D-particles''), we arrive at effective actions used by a low-energy observer on the brane world to describe his/her observations of the Universe. These actions include, apart from the metric tensor field, also scalar (dilaton) and vector fields, the latter describing the interactions of low-energy matter on the brane world with the recoiling point-like space-time defect (D-particle). The vector field is proportional to the recoil velocity of the D-particle and as such it satisfies a certain constraint. The vector breaks locally Lorentz invariance, which however is assumed to be conserved on average in a space-time foam situation, involving the interaction of matter with populations of D-particle defects. In this paper we clarify the role of fluctuations of the vector field on structure formation and galactic growth. In particular we demonstrate that, already at the end of the radiation era, the (constrained) vector field associated with the recoil of the defects provides the seeds for a growing mode in the evolution of the Universe. Such a growing mode survives during the matter dominated era, provided the variance of the D-particle recoil velocities on the brane is larger than a critical value. We note that in this model, as a result of specific properties of D-brane dynamics in the bulk, there is no issue of overclosing the brane Universe for large defect densities. Thus, in these models, the presence of defects may be associated with large-structure formation. Although our string inspired models do have (conventional, from a particle physics point of view) dark matter components, nevertheless it is interesting that the role of ''extra'' dark matter is also provided by the population of massive defects. This is consistent with the weakly interacting character of the D-particle defects, which predominantly interact only

  13. Mechanistic Studies of Combustion and Structure Formation During Synthesis of Advanced Materials

    NASA Technical Reports Server (NTRS)

    Varma, A.; Lau, C.; Mukasyan, A. S.

    2001-01-01

    Combustion in a variety of heterogeneous systems, leading to the synthesis of advanced materials, is characterized by high temperatures (2000-3500 K) and heating rates (up to 10(exp 6) K/s) at and ahead of the reaction front. These high temperatures generate liquids and gases which are subject to gravity-driven flow. The removal of such gravitational effects is likely to provide increased control of the reaction front, with a consequent improvement in control of the microstructure of the synthesized products. Thus, microgravity (mu-g) experiments lead to major advances in the understanding of fundamental aspects of combustion and structure formation under the extreme conditions of the combustion synthesis (CS) wave. In addition, the specific features of microgravity environment allow one to produce unique materials, which cannot be obtained under terrestrial conditions. The current research is a logic continuation of our previous work on investigations of the fundamental phenomena of combustion and structure formation that occur at the high temperatures achieved in a CS wave. Our research is being conducted in three main directions: 1) Microstructural Transformations during Combustion Synthesis of Metal-Ceramic Composites. The studies are devoted to the investigation of particle growth during CS of intermetallic-ceramic composites, synthesized from nickel, aluminum, titanium, and boron metal reactants. To determine the mechanisms of particle growth, the investigation varies the relative amount of components in the initial mixture to yield combustion wave products with different ratios of solid and liquid phases, under 1g and mu-g conditions; 2) Mechanisms of Heat Transfer during Reactions in Heterogeneous Media. Specifically, new phenomena of gasless combustion wave propagation in heterogeneous media with porosity higher than that achievable in normal gravity conditions, are being studied. Two types of mixtures are investigated: clad powders, where contact between

  14. The features of ceramic materials structure formation when using hard-melting wastes of thermal power stations in charge stock

    NASA Astrophysics Data System (ADS)

    Skripnikova, Nelli; Yuriev, Ivan; Lutsenko, Alexander; Litvinova, Viktoriya

    2016-01-01

    The paper presents the analysis of aluminum silicate waste generated by thermal power station of the city of Seversk, Tomsk region, Russia. The chemical compositions of aluminum silicate waste are detected and the efficient mixture compositions with the addition of aluminum silicate waste are suggested herein. Ceramic brick structure formation is studied in this paper using X-ray phase and SEM analyses. It is identified that the formed vitreous phase facilitates such strengthening structural modifications as sintering out of pores and shrinkage of unmelted aluminum silicate particles with the following formation of a monolithic product.

  15. Formation of S0 galaxies through mergers. Bulge-disc structural coupling resulting from major mergers

    NASA Astrophysics Data System (ADS)

    Querejeta, M.; Eliche-Moral, M. C.; Tapia, T.; Borlaff, A.; Rodríguez-Pérez, C.; Zamorano, J.; Gallego, J.

    2015-01-01

    Context. Observations reveal a strong structural coupling between bulge and disc in S0 galaxies, which seems difficult to explain if they have formed from supposedly catastrophic events such as major mergers. Aims: We face this question by quantifying the bulge-disc coupling in dissipative simulations of major and minor mergers that result in realistic S0s. Methods: We have studied the dissipative N-body binary merger simulations from the GalMer database that give rise to realistic, relaxed E/S0 and S0 remnants (67 major and 29 minor mergers). We simulate surface brightness profiles of these S0-like remnants in the K band, mimicking typical observational conditions, to perform bulge-disc decompositions analogous to those carried out in real S0s. Additional components have been included when needed. The global bulge-disc structure of these remnants has been compared with real data. Results: The S0-like remnants distribute in the B/T - re - hd parameter space consistently with real bright S0s, where B/T is the bulge-to-total luminosity ratio, re is the bulge effective radius, and hd is the disc scalelength. Major mergers can rebuild a bulge-disc coupling in the remnants after having destroyed the structures of the progenitors, whereas minor mergers directly preserve them. Remnants exhibit B/T and re/hd spanning a wide range of values, and their distribution is consistent with observations. Many remnants have bulge Sérsic indices ranging 1 formation in embedded discs, a result which agrees with the presence of pseudobulges in real S0s. Conclusions: Contrary to the popular view, mergers (and in particular, major events) can result in S0 remnants with realistically coupled bulge-disc structures in less than ~3 Gyr. The bulge-disc coupling and the presence of pseudobulges in real S0s cannot be used as an argument against the possible major-merger origin of these galaxies. Table 3 is available in electronic form at http://www.aanda.org

  16. The crowded environment of a reverse micelle induces the formation of β-strand seed structures for nucleating amyloid fibril formation.

    PubMed

    Yeung, Priscilla S-W; Axelsen, Paul H

    2012-04-11

    A hallmark of Alzheimer's disease is the accumulation of insoluble fibrils in the brain composed of amyloid beta (Aβ) proteins with parallel in-register cross-β-sheet structure. It has been suggested that the aggregation of monomeric Aβ proteins into fibrils is promoted by "seeds" that form within compartments of the brain that have limited solvent due to macromolecular crowding. To characterize these seeds, a crowded macromolecular environment was mimicked by encapsulating Aβ40 monomers into reverse micelles. Fourier-transform infrared spectroscopy revealed that monomeric Aβ proteins form extended β-strands in reverse micelles, while an analogue with a scrambled sequence does not. This is a remarkable finding, because the formation of extended β-strands by monomeric Aβ proteins suggests a plausible mechanism whereby the formation of amyloid fibrils may be nucleated in the human brain. PMID:22448820

  17. Structural Transitions of Transmembrane Helix 6 in the Formation of Metarhodopsin I

    PubMed Central

    Eilers, Markus; Goncalves, Joseph A.; Ahuja, Shivani; Kirkup, Colleen; Hirshfeld, Amiram; Simmerling, Carlos; Reeves, Philip J.; Sheves, Mordechai; Smith, Steven O.

    2012-01-01

    Absorption of light by the visual pigment rhodopsin triggers a rapid cis-trans photoisomerization of its retinal chromophore and a series of conformational changes in both the retinal and protein. The largest structural change is an outward tilt of transmembrane helix H6 that increases the separation of the intracellular ends of H6 and H3, and opens up the G-protein binding site. In the dark state of rhodopsin, Glu247 at the intracellular end of H6 forms a salt bridge with Arg135 on H3 to tether H6 in an inactive conformation. The Arg135-Glu247 interaction is broken in the active state of the receptor, and Arg135 is then stabilized by interactions with Tyr223, Met257 and Tyr306 on helices H5, H6 and H7, respectively. To address the mechanism of H6 motion, solid-state NMR measurements are undertaken of Metarhodopsin I (Meta I), the intermediate preceding the active Metarhodopsin II (Meta II) state of the receptor. 13C NMR dipolar recoupling measurements reveal an interhelical contact of 13Cζ-Arg135 with 13Cε-Met257 in Meta I, but not with 13Cζ-Tyr223 or 13Cζ-Tyr306. These observations suggest that helix H6 has rotated in the formation of Meta I, but that structural changes involving helices H5 and H7 have not yet occurred. Together, our results provide insights into the sequence of events leading up to the outward motion of H6, a hallmark of G protein-coupled receptor activation. PMID:22564141

  18. Computation Sheds Insight into Iron Porphyrin Carbenes' Electronic Structure, Formation, and N-H Insertion Reactivity.

    PubMed

    Sharon, Dina A; Mallick, Dibyendu; Wang, Binju; Shaik, Sason

    2016-08-01

    Iron porphyrin carbenes constitute a new frontier of species with considerable synthetic potential. Exquisitely engineered myoglobin and cytochrome P450 enzymes can generate these complexes and facilitate the transformations they mediate. The current work harnesses density functional theoretical methods to provide insight into the electronic structure, formation, and N-H insertion reactivity of an iron porphyrin carbene, [Fe(Por)(SCH3)(CHCO2Et)](-), a model of a complex believed to exist in an experimentally studied artificial metalloenzyme. The ground state electronic structure of the terminal form of this complex is an open-shell singlet, with two antiferromagnetically coupled electrons residing on the iron center and carbene ligand. As we shall reveal, the bonding properties of [Fe(Por)(SCH3)(CHCO2Et)](-) are remarkably analogous to those of ferric heme superoxide complexes. The carbene forms by dinitrogen loss from ethyl diazoacetate. This reaction occurs preferentially through an open-shell singlet transition state: iron donates electron density to weaken the C-N bond undergoing cleavage. Once formed, the iron porphyrin carbene accomplishes N-H insertion via nucleophilic attack. The resulting ylide then rearranges, using an internal carbonyl base, to form an enol that leads to the product. The findings rationalize experimentally observed reactivity trends reported in artificial metalloenzymes employing iron porphyrin carbenes. Furthermore, these results suggest a possible expansion of enzymatic substrate scope, to include aliphatic amines. Thus, this work, among the first several computational explorations of these species, contributes insights and predictions to the surging interest in iron porphyrin carbenes and their synthetic potential. PMID:27347808

  19. Structural Basis of M3 Muscarinic Receptor Dimer/Oligomer Formation*

    PubMed Central

    McMillin, Sara M.; Heusel, Moritz; Liu, Tong; Costanzi, Stefano; Wess, Jürgen

    2011-01-01

    Class A G protein-coupled receptors (GPCRs) are known to form dimers and/or oligomeric arrays in vitro and in vivo. These complexes are thought to play important roles in modulating class A GPCR function. Many studies suggest that residues located on the “outer” (lipid-facing) surface of the transmembrane (TM) receptor core are critically involved in the formation of class A receptor dimers (oligomers). However, no clear consensus has emerged regarding the identity of the TM helices or TM subsegments involved in this process. To shed light on this issue, we have used the M3 muscarinic acetylcholine receptor (M3R), a prototypic class A GPCR, as a model system. Using a comprehensive and unbiased approach, we subjected all outward-facing residues (70 amino acids total) of the TM helical bundle (TM1–7) of the M3R to systematic alanine substitution mutagenesis. We then characterized the resulting mutant receptors in radioligand binding and functional studies and determined their ability to form dimers (oligomers) in bioluminescence resonance energy transfer saturation assays. We found that M3R/M3R interactions are not dependent on the presence of one specific structural motif but involve the outer surfaces of multiple TM subsegments (TM1–5 and -7) located within the central and endofacial portions of the TM receptor core. Moreover, we demonstrated that the outward-facing surfaces of most TM helices play critical roles in proper receptor folding and/or function. Guided by the bioluminescence resonance energy transfer data, molecular modeling studies suggested the existence of multiple dimeric/oligomeric M3R arrangements, which may exist in a dynamic equilibrium. Given the high structural homology found among all class A GPCRs, our results should be of considerable general relevance. PMID:21685385

  20. From Globular Clusters to Tidal Dwarfs: Structure Formation in the Tidal Tails of Merging Pairs

    NASA Astrophysics Data System (ADS)

    Knierman, K. A.; Gallagher, S. C.; Charlton, J. C.; Hunsberger, S. D.; Whitmore, B. C.; Kundu, A.; Hibbard, J. E.; Zaritsky, D. F.

    2001-05-01

    Using V and I images obtained with the Wide Field Planetary Camera 2 (WFPC2) of the Hubble Space Telescope, we investigate compact stellar structures within tidal tails. Six regions of tidal debris in the four classic ``Toomre Sequence'' mergers: NGC 4038/9 (``Antennae''), NGC 3256, NGC 3921, and NGC 7252 (``Atoms for Peace'') have been studied in order to explore how the star formation depends upon the local and global physical conditions. These mergers sample a range of stages in the evolutionary sequence, and include HI--rich and HI--poor environments. The six tails are found to contain a variety of stellar structures, with sizes ranging from those of globular clusters up to those of dwarf galaxies. From V and I WFPC2 images, we measure the luminosities and colors of the star clusters. NGC 3256 is found to have a large population of young clusters lying along both tails, similar to those found in the inner region of the merger. In contrast, NGC 4038/9 has no clusters in the observed region of the tail, only less luminous point sources likely to be individual stars. NGC 3921 and NGC 7252 have small populations of clusters that are concentrated in certain regions of the tail, and particularly in the prominent tidal dwarfs in the eastern and western tails of NGC 7252. The two cluster--rich tails of NGC 3256 are not distinguished from the others by their ages or by their total HI masses. We acknowledge support from NASA through STScI, and from NSF for an REU supplement for Karen Knierman.

  1. Formation of dome and basin structures: Results from scaled experiments using non-linear rock analogues

    NASA Astrophysics Data System (ADS)

    Zulauf, J.; Zulauf, G.; Zanella, F.

    2016-09-01

    Dome and basin folds are structures with circular or slightly elongate outcrop patterns, which can form during single- and polyphase deformation in various tectonic settings. We used power-law viscous rock analogues to simulate single-phase dome-and-basin folding of rocks undergoing dislocation creep. The viscosity ratio between a single competent layer and incompetent matrix was 5, and the stress exponent of both materials was 7. The samples underwent layer-parallel shortening under bulk pure constriction. Increasing initial layer thickness resulted in a decrease in the number of domes and basins and an increase in amplitude, A, arc-length, L, wavelength, λ, and layer thickness, Hf. Samples deformed incrementally show progressive development of domes and basins until a strain of eY=Z = -30% is attained. During the dome-and-basin formation the layer thickened permanently, while A, L, and λ increased. A dominant wavelength was not attained. The normalized amplitude (A/λ) increased almost linearly reaching a maximum of 0.12 at eY=Z = -30%. During the last increment of shortening (eY=Z = -30 to -40%) the domes and basins did not further grow, but were overprinted by a second generation of non-cylindrical folds. Most of the geometrical parameters of the previously formed domes and basins behaved stable or decreased during this phase. The normalized arc-length (L/Hf) of domes and basins is significantly higher than that of 2D cylindrical folds. For this reason, the normalized arc length can probably be used to identify domes and basins in the field, even if these structures are not fully exposed in 3D.

  2. CARMA LARGE AREA STAR FORMATION SURVEY: STRUCTURE AND KINEMATICS OF DENSE GAS IN SERPENS MAIN

    SciTech Connect

    Lee, Katherine I.; Storm, Shaye; Mundy, Lee G.; Teuben, Peter; Pound, Marc W.; Salter, Demerese M.; Chen, Che-Yu; Fernández-López, Manuel; Looney, Leslie W.; Segura-Cox, Dominique; Rosolowsky, Erik; Arce, Héctor G.; Plunkett, Adele L.; Ostriker, Eve C.; Shirley, Yancy L.; Kwon, Woojin; Kauffmann, Jens; Tobin, John J.; Volgenau, N. H.; Tassis, Konstantinos; and others

    2014-12-20

    We present observations of N{sub 2}H{sup +} (J = 1 → 0), HCO{sup +} (J = 1 → 0), and HCN (J = 1 → 0) toward the Serpens Main molecular cloud from the CARMA Large Area Star Formation Survey (CLASSy). We mapped 150 arcmin{sup 2} of Serpens Main with an angular resolution of ∼7''. The gas emission is concentrated in two subclusters (the NW and SE subclusters). The SE subcluster has more prominent filamentary structures and more complicated kinematics compared to the NW subcluster. The majority of gas in the two subclusters has subsonic to sonic velocity dispersions. We applied a dendrogram technique with N{sub 2}H{sup +}(1-0) to study the gas structures; the SE subcluster has a higher degree of hierarchy than the NW subcluster. Combining the dendrogram and line fitting analyses reveals two distinct relations: a flat relation between nonthermal velocity dispersion and size, and a positive correlation between variation in velocity centroids and size. The two relations imply a characteristic depth of 0.15 pc for the cloud. Furthermore, we have identified six filaments in the SE subcluster. These filaments have lengths of ∼0.2 pc and widths of ∼0.03 pc, which is smaller than a characteristic width of 0.1 pc suggested by Herschel observations. The filaments can be classified into two types based on their properties. The first type, located in the northeast of the SE subcluster, has larger velocity gradients, smaller masses, and nearly critical mass-per-unit-length ratios. The other type, located in the southwest of the SE subcluster, has the opposite properties. Several YSOs are formed along two filaments which have supercritical mass per unit length ratios, while filaments with nearly critical mass-per-unit-length ratios are not associated with YSOs, suggesting that stars are formed on gravitationally unstable filaments.

  3. Microtopography-Induced Lag Formation on Bedforms and Biogenic Structures in Aeolian Settings

    NASA Astrophysics Data System (ADS)

    Buynevich, I. V.

    2010-12-01

    In a variety of sand-dominated depositional settings, high-energy events typically culminate with the formation of a lag deposit, expressed as an increase in coarse fraction, accumulation of shell fragments, or a concentration of heavy minerals (density >2.9) beyond their background values. In aeolian settings, grain impact plays a greater role in sediment transport than under subaqueous conditions, but there is a similar segregation of minerals by size and density due to different threshold entrainment and fall velocities of sand grains. For fine-to-medium sand transition, near-surface wind velocities increase from 4.5 m/s for quartz to 6.5 m/s for magnetite, which has twice the density. Most heavy minerals occur in a finer fraction of the surface sediment layer, which further increases their entrainment threshold due to high pivot angles and sheltering by the lighter minerals. Prolonged periods of increased wind activity generate heavy-mineral-enriched horizons ranging in thickness from a few grain diameters to more than 10-20 cm, producing distinct marker horizons and placers of economic importance. However, even under relatively low wind regime, localized density lag may form due to minor variations in topography and bed roughness. This process was exemplified along Revere Beach (Massachusetts, USA), where a series of 15-cm-high steps were installed at the base of a low seawall to prevent the formation of aeolian ramp that facilitated frequent overtopping. During the following months, a clear trend was established where the heavy-mineral fraction (primarily almandine garnet) progressively increased in a landward direction, toward higher substrate elevations. In natural settings with even a small background fraction of heavy minerals (2-5%), microtopographic highs of less than 1 cm are sufficient for the formation of a density lag. In a backshore area of Assateague Island (Maryland, USA), a clear increase in heavy-mineral content (mostly magnetite) was observed

  4. Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning

    PubMed Central

    Aziz, Wajeeha; Wang, Wen; Kesaf, Sebnem; Mohamed, Alsayed Abdelhamid; Fukazawa, Yugo; Shigemoto, Ryuichi

    2014-01-01

    Long-lasting memories are formed when the stimulus is temporally distributed (spacing effect). However, the synaptic mechanisms underlying this robust phenomenon and the precise time course of the synaptic modifications that occur during learning remain unclear. Here we examined the adaptation of horizontal optokinetic response in mice that underwent 1 h of massed and spaced training at varying intervals. Despite similar acquisition by all training protocols, 1 h of spacing produced the highest memory retention at 24 h, which lasted for 1 mo. The distinct kinetics of memory are strongly correlated with the reduction of floccular parallel fiber–Purkinje cell synapses but not with AMPA receptor (AMPAR) number and synapse size. After the spaced training, we observed 25%, 23%, and 12% reduction in AMPAR density, synapse size, and synapse number, respectively. Four hours after the spaced training, half of the synapses and Purkinje cell spines had been eliminated, whereas AMPAR density and synapse size were recovered in remaining synapses. Surprisingly, massed training also produced long-term memory and halving of synapses; however, this occurred slowly over days, and the memory lasted for only 1 wk. This distinct kinetics of structural plasticity may serve as a basis for unique temporal profiles in the formation and decay of memory with or without intervals. PMID:24367076

  5. Talik formation in the flank shore of water-retaining structure in permafrost area

    NASA Astrophysics Data System (ADS)

    Petrunin, A. G.; Milanovsky, S. Yu.

    2003-04-01

    Regular water and energy supply in permafrost areas are vitally important conditions for inhabitants of the large North territories of Russia, Canada, US and Alpine areas of China. Dam and flank shore stability is the key point for safety of reservoir (power pool, water supply, tailing pit, etc.). In permafrost areas stability of many engineering structures, including hydraulic work, associated with thawing- freezing process. As a result of it we can have the loss of mechanical properties causing destructive of the unit. Emergency situation of the unit we have when seepage occurs in originated permeable talik zone adjoining to reservoir. In our work we numerically analysed conditions causing origin and development of talik near reservoir builted in permafrost conditions. The results of 2D heat-mass transfer modelling indicate that the development of the talik formation strongly depends on the specific thermal and hydraulic material parameters, thickness of the layer covering talik, seasonal temperature trend and the winter snow front insulating ground rocks.

  6. Electronic structure changes during the surface-assisted formation of a graphene nanoribbon

    SciTech Connect

    Bronner, Christopher Tegeder, Petra; Utecht, Manuel; Saalfrank, Peter; Klamroth, Tillmann; Haase, Anton

    2014-01-14

    High conductivity and a tunability of the band gap make quasi-one-dimensional graphene nanoribbons (GNRs) highly interesting materials for the use in field effect transistors. Especially bottom-up fabricated GNRs possess well-defined edges which is important for the electronic structure and accordingly the band gap. In this study we investigate the formation of a sub-nanometer wide armchair GNR generated on a Au(111) surface. The on-surface synthesis is thermally activated and involves an intermediate non-aromatic polymer in which the molecular precursor forms polyanthrylene chains. Employing angle-resolved two-photon photoemission in combination with density functional theory calculations we find that the polymer exhibits two dispersing states which we attribute to the valence and the conduction band, respectively. While the band gap of the non-aromatic polymer obtained in this way is relatively large, namely 5.25 ± 0.06 eV, the gap of the corresponding aromatic GNR is strongly reduced which we attribute to the different degree of electron delocalization in the two systems.

  7. Membrane tubule formation by banana-shaped proteins with or without transient network structure.

    PubMed

    Noguchi, Hiroshi

    2016-01-01

    In living cells, membrane morphology is regulated by various proteins. Many membrane reshaping proteins contain a Bin/Amphiphysin/Rvs (BAR) domain, which consists of a banana-shaped rod. The BAR domain bends the biomembrane along the rod axis and the features of this anisotropic bending have recently been studied. Here, we report on the role of the BAR protein rods in inducing membrane tubulation, using large-scale coarse-grained simulations. We reveal that a small spontaneous side curvature perpendicular to the rod can drastically alter the tubulation dynamics at high protein density, whereas no significant difference is obtained at low density. A percolated network is intermediately formed depending on the side curvature. This network suppresses tubule protrusion, leading to the slow formation of fewer tubules. Thus, the side curvature, which is generated by protein-protein and membrane-protein interactions, plays a significant role in tubulation dynamics. We also find that positive surface tensions and the vesicle membrane curvature can stabilize this network structure by suppressing the tubulation. PMID:26863901

  8. Membrane tubule formation by banana-shaped proteins with or without transient network structure

    NASA Astrophysics Data System (ADS)

    Noguchi, Hiroshi

    2016-02-01

    In living cells, membrane morphology is regulated by various proteins. Many membrane reshaping proteins contain a Bin/Amphiphysin/Rvs (BAR) domain, which consists of a banana-shaped rod. The BAR domain bends the biomembrane along the rod axis and the features of this anisotropic bending have recently been studied. Here, we report on the role of the BAR protein rods in inducing membrane tubulation, using large-scale coarse-grained simulations. We reveal that a small spontaneous side curvature perpendicular to the rod can drastically alter the tubulation dynamics at high protein density, whereas no significant difference is obtained at low density. A percolated network is intermediately formed depending on the side curvature. This network suppresses tubule protrusion, leading to the slow formation of fewer tubules. Thus, the side curvature, which is generated by protein-protein and membrane-protein interactions, plays a significant role in tubulation dynamics. We also find that positive surface tensions and the vesicle membrane curvature can stabilize this network structure by suppressing the tubulation.

  9. A preliminary investigation of dislocation cell structure formation in metals using continuum dislocation dynamics

    NASA Astrophysics Data System (ADS)

    Xia, S. X.; El-Azab, A.

    2015-08-01

    A continuum dislocation dynamics model capable of capturing the cellular arrangements of dislocations in deformed crystals is presented. A small strain formulation of the model is given, followed by sample results of stress-strain behaviour, dislocation density evolution, dislocation cell pattern, lattice rotation, and geometrically necessary dislocation density and strain energy density distributions. An important finding of the current work is that dislocations form patterns under all circumstances due to their long range interactions. It is found, however, that the famous cell structure pattern forms when cross slip is activated. It is also found that cells are 3D sub-regions surrounded by dislocations walls in all directions, and they form, disappear, and reappear as a result of the motion of cell walls and formation of new walls by cross slip. It is further found that the average cell size is connected with the applied resolved shear stress according to the similitude principle observed in related experiments. The importance of these results is briefly discussed in the context of recrystallization.

  10. Membrane tubule formation by banana-shaped proteins with or without transient network structure

    PubMed Central

    Noguchi, Hiroshi

    2016-01-01

    In living cells, membrane morphology is regulated by various proteins. Many membrane reshaping proteins contain a Bin/Amphiphysin/Rvs (BAR) domain, which consists of a banana-shaped rod. The BAR domain bends the biomembrane along the rod axis and the features of this anisotropic bending have recently been studied. Here, we report on the role of the BAR protein rods in inducing membrane tubulation, using large-scale coarse-grained simulations. We reveal that a small spontaneous side curvature perpendicular to the rod can drastically alter the tubulation dynamics at high protein density, whereas no significant difference is obtained at low density. A percolated network is intermediately formed depending on the side curvature. This network suppresses tubule protrusion, leading to the slow formation of fewer tubules. Thus, the side curvature, which is generated by protein–protein and membrane–protein interactions, plays a significant role in tubulation dynamics. We also find that positive surface tensions and the vesicle membrane curvature can stabilize this network structure by suppressing the tubulation. PMID:26863901

  11. Relative velocity of dark matter and baryonic fluids and the formation of the first structures

    NASA Astrophysics Data System (ADS)

    Tseliakhovich, Dmitriy; Hirata, Christopher

    2010-10-01

    At the time of recombination, baryons and photons decoupled and the sound speed in the baryonic fluid dropped from relativistic, ˜c/3, to the thermal velocities of the hydrogen atoms, ˜2×10-5c. This is less than the relative velocities of baryons and dark matter computed via linear perturbation theory, so we infer that there are supersonic coherent flows of the baryons relative to the underlying potential wells created by the dark matter. As a result, the advection of small-scale perturbations (near the baryonic Jeans scale) by large-scale velocity flows is important for the formation of the first structures. This effect involves a quadratic term in the cosmological perturbation theory equations and hence has not been included in studies based on linear perturbation theory. We show that the relative motion suppresses the abundance of the first bound objects, even if one only investigates dark matter haloes, and leads to qualitative changes in their spatial distribution, such as introducing scale-dependent bias and stochasticity. We further discuss the possible observable implications of this effect for high-redshift galaxy clustering and reionization.

  12. Cyclodextrins in pharmaceutical formulations I: structure and physicochemical properties, formation of complexes, and types of complex.

    PubMed

    Jambhekar, Sunil S; Breen, Philip

    2016-02-01

    Cyclodextrins are cyclic oligosaccharides that have been recognized as pharmaceutical adjuvants for the past 20 years. The molecular structure of these glucose derivatives, which approximates a truncated cone, bucket, or torus, generates a hydrophilic exterior surface and a nonpolar interior cavity. Cyclodextrins can interact with appropriately sized drug molecules to yield an inclusion complex. These noncovalent inclusion complexes offer a variety of advantages over the noncomplexed form of a drug. Cyclodextrins are primarily used to enhance the aqueous solubility, physical chemical stability, and bioavailability of drugs. Their other applications include preventing drug-drug interactions, converting liquid drugs into microcrystalline powders, minimizing gastrointestinal and ocular irritation, and reducing or eliminating unpleasant taste and smell. Here, we discuss the physical chemical properties of various cyclodextrins, including the effects of substitutions on these properties. Additionally, we report on the regulatory status of their use, commercial products containing cyclodextrins, toxicological considerations, and the forces involved in complex formation. We also highlight the types of complex formed and discuss the methods used to determine the types of complex present. PMID:26686054

  13. Slow shock formation and its structure with sub-Alfvenic shear flow in magnetic reconnection

    NASA Astrophysics Data System (ADS)

    Ma, Zhi-Wei

    2011-10-01

    Slow shock formation and its structures associated with magnetic reconnection are investigated in the presence of sub-Alfvénic shear flow based on compressible resistive MHD model and compressible Hall MHD model. It is found for the first time that one or two pairs of the slow shocks are formed in the inflow region away from the reconnection separatrices in the compressible resistive MHD. The distributions of the slow shocks largely depend on the plasma beta and the shear flow velocity. One pair of the slow shocks is formed for the case β = 0 . 2 and two pairs of the low shocks are generated for the case β = 1 . 0 with the shear flow velocity around the range from 0.6VA to 0.9 VA. In the case of the high plasma beta (β = 5 . 0) , there is no slow shock formed outside the reconnection separatrices. In the compressible Hall MHD, the slow shocks are gradually evolved into wave trains as increase of the ion inertial length di. This work is supported by China NSF Grant No. 10975160.

  14. Self-propelled worm-like filaments: spontaneous spiral formation, structure, and dynamics.

    PubMed

    Isele-Holder, Rolf E; Elgeti, Jens; Gompper, Gerhard

    2015-09-28

    Worm-like filaments that are propelled homogeneously along their tangent vector are studied by Brownian dynamics simulations. Systems in two dimensions are investigated, corresponding to filaments adsorbed to interfaces or surfaces. A large parameter space covering weak and strong propulsion, as well as flexible and stiff filaments is explored. For strongly propelled and flexible filaments, the free-swimming filaments spontaneously form stable spirals. The propulsion force has a strong impact on dynamic properties, such as the rotational and translational mean square displacement and the rate of conformational sampling. In particular, when the active self-propulsion dominates thermal diffusion, but is too weak for spiral formation, the rotational diffusion coefficient has an activity-induced contribution given by v(c)/ξ(P), where v(c) is the contour velocity and ξ(P) the persistence length. In contrast, structural properties are hardly affected by the activity of the system, as long as no spirals form. The model mimics common features of biological systems, such as microtubules and actin filaments on motility assays or slender bacteria, and artificially designed microswimmers. PMID:26256415

  15. A review of bioactive glasses: Their structure, properties, fabrication and apatite formation.

    PubMed

    Kaur, Gurbinder; Pandey, Om P; Singh, Kulvir; Homa, Dan; Scott, Brian; Pickrell, Gary

    2014-01-01

    Bioactive glass and glass-ceramics are used in bone repair applications and are being developed for tissue engineering applications. Bioactive glasses/Bioglass are very attractive materials for producing scaffolds devoted to bone regeneration due to their versatile properties, which can be properly designed depending on their composition. An important feature of bioactive glasses, which enables them to work for applications in bone tissue engineering, is their ability to enhance revascularization, osteoblast adhesion, enzyme activity and differentiation of mesenchymal stem cells as well as osteoprogenitor cells. An extensive amount of research work has been carried out to develop silicate, borate/borosilicate bioactive glasses and phosphate glasses. Along with this, some metallic glasses have also been investigated for biomedical and technological applications in tissue engineering. Many trace elements have also been incorporated in the glass network to obtain the desired properties, which have beneficial effects on bone remodeling and/or associated angiogenesis. The motivation of this review is to provide an overview of the general requirements, composition, structure-property relationship with hydroxyapatite formation and future perspectives of bioglasses.Attention has also been given to developments of metallic glasses and doped bioglasses along with the techniques used for their fabrication. PMID:23468256

  16. The role of the dark matter distribution in the structure formation

    SciTech Connect

    Gómez, L. Gabriel; Rueda, Jorge A.

    2015-12-17

    We review the most important ingredients that compose the halo model of structure formation, emphasizing on the role played by the density profile of dark matter (DM). The theoretical predictions of the so-called warm DM (WDM) and cold DM (CDM) cosmologies at small scales are discussed in terms of recent numerical simulations and current observational data coming from rotation curves of galaxies. We elaborate on the recently introduced Ruffini-Argüelles-Rueda (RAR) DM profile, which is obtained from the configuration of equilibrium of a self-gravitating system of massive fermions, hereafter “inos”, and show that it can be a good candidate for WDM. A significant insight for this model might be inferred based on the analytical approach of the halo model, pointing out that there might have signals of quantum cores of galaxies on the non-linear matter power spectrum at small scales, which are however unfortunately inaccessible today with the current observational instruments. Upcoming surveys could test in the future the quantum features of galactic cores.

  17. Studying Star and Planet Formation with the Submillimeter Probe of the Evolution of Cosmic Structure

    NASA Technical Reports Server (NTRS)

    Rinehart, Stephen A.

    2005-01-01

    The Submillimeter Probe of the Evolution of Cosmic Structure (SPECS) is a far- infrared/submillimeter (40-640 micrometers) spaceborne interferometry concept, studied through the NASA Vision Missions program. SPECS is envisioned as a 1-km baseline Michelson interferometer with two 4- meter collecting mirrors. To maximize science return, SPECS will have three operational modes: a photometric imaging mode, an intermediate spectral resolution mode (R approximately equal to 1000-3000), and a high spectral resolution mode (R approximately equal to 3 x 10(exp 5)). The first two of these modes will provide information on all sources within a 1 arcminute field-of-view (FOV), while the the third will include sources in a small (approximately equal to 5 arcsec) FOV. With this design, SPECS will have angular resolution comparable to the Hubble Space Telescope (50 mas) and sensitivity more than two orders of magnitude better than Spitzer (5sigma in 10ks of approximately equal to 3 x 10(exp 7) Jy Hz). We present here some of the results of the recently-completed Vision Mission Study for SPECS, and discuss the application of this mission to future studies of star and planet formation.

  18. UVMag: stellar formation, evolution, structure and environment with space UV and visible spectropolarimetry

    NASA Astrophysics Data System (ADS)

    Neiner, C.; Baade, D.; Fullerton, A.; Gry, C.; Hussain, G.; Lèbre, A.; Morin, J.; Petit, P.; Sundqvist, J. O.; ud-Doula, A.; Vidotto, A. A.; Wade, G. A.

    2014-11-01

    Important insights into the formation, structure, evolution and environment of all types of stars can be obtained through the measurement of their winds and possible magnetospheres. However, this has hardly been done up to now mainly because of the lack of UV instrumentation available for long periods of time. To reach this aim, we have designed UVMag, an M-size space mission equipped with a high-resolution spectropolarimeter working in the UV and visible spectral range. The UV domain is crucial in stellar physics as it is very rich in atomic and molecular lines and contains most of the flux of hot stars. Moreover, covering the UV and visible spectral domains at the same time will allow us to study the star and its environment simultaneously. Adding polarimetric power to the spectrograph will multiply tenfold the capabilities of extracting information on stellar magnetospheres, winds, disks, and magnetic fields. Examples of science objectives that can be reached with UVMag are presented for pre-main sequence, main sequence and evolved stars. They will cast new light onto stellar physics by addressing many exciting and important questions. UVMag is currently undergoing a Research & Technology study and will be proposed at the forthcoming ESA call for M-size missions. This spectropolarimeter could also be installed on a large UV and visible observatory (e.g. NASA's LUVOIR project) within a suite of instruments.

  19. Repetitive formation and decay of current sheets in magnetic loops: An origin of diverse magnetic structures

    SciTech Connect

    Kumar, Dinesh; Bhattacharyya, R.; Smolarkiewicz, P. K.

    2015-01-15

    In this work, evolution of an incompressible, thermally homogeneous, infinitely conducting, viscous magnetofluid is numerically explored as the fluid undergoes repeated events of magnetic reconnection. The initial magnetic field is constructed by a superposition of two linear force-free fields and has similar morphology as the magnetic loops observed in the solar corona. The results are presented for computations with three distinct sets of footpoint geometries. To onset reconnection, we rely on numerical model magnetic diffusivity, in the spirit of implicit large eddy simulation. It is generally expected that in a high Lundquist number fluid, repeated magnetic reconnections are ubiquitous and hence can lead to a host of magnetic structures with considerable observational importance. In particular, the simulations presented here illustrate formations of magnetic islands, rotating magnetic helices and rising flux ropes—depending on the initial footpoint geometry but through the common process of repeated magnetic reconnections. Further, we observe the development of extended current sheets in two case studies, where the footpoint reconnections generate favorable dynamics.

  20. Soot formation and temperature