Local expansion flows of galaxies: quantifying acceleration effect of dark energy

NASA Astrophysics Data System (ADS)

Chernin, A. D.; Teerikorpi, P.

2013-08-01

The nearest expansion flow of galaxies observed around the Local group is studied as an archetypical example of the newly discovered local expansion flows around groups and clusters of galaxies in the nearby Universe. The flow is accelerating due to the antigravity produced by the universal dark energy background. We introduce a new acceleration measure of the flow which is the dimensionless ``acceleration parameter" Q (x) = x - x-2 depending on the normalized distance x only. The parameter is zero at the zero-gravity distance x = 1, and Q(x) ∝ x, when x ≫ 1. At the distance x = 3, the parameter Q = 2.9. Since the expansion flows have a self-similar structure in normalized variables, we expect that the result is valid as well for all the other expansion flows around groups and clusters of galaxies on the spatial scales from ˜ 1 to ˜ 10 Mpc everywhere in the Universe.

Magnetic Properties of Strongly Correlated Hubbard Model and Quantum Spin-One Ferromagnets with Arbitrary Crystal-Field Potential: Linked Cluster Series Expansion Approach

NASA Astrophysics Data System (ADS)

Pan, Kok-Kwei

We have generalized the linked cluster expansion method to solve more many-body quantum systems, such as quantum spin systems with crystal-field potentials and the Hubbard model. The technique sums up all connected diagrams to a certain order of the perturbative Hamiltonian. The modified multiple-site Wick reduction theorem and the simple tau dependence of the standard basis operators have been used to facilitate the evaluation of the integration procedures in the perturbation expansion. Computational methods are developed to calculate all terms in the series expansion. As a first example, the perturbation series expansion of thermodynamic quantities of the single-band Hubbard model has been obtained using a linked cluster series expansion technique. We have made corrections to all previous results of several papers (up to fourth order). The behaviors of the three dimensional simple cubic and body-centered cubic systems have been discussed from the qualitative analysis of the perturbation series up to fourth order. We have also calculated the sixth-order perturbation series of this model. As a second example, we present the magnetic properties of spin-one Heisenberg model with arbitrary crystal-field potential using a linked cluster series expansion. The calculation of the thermodynamic properties using this method covers the whole range of temperature, in both magnetically ordered and disordered phases. The series for the susceptibility and magnetization have been obtained up to fourth order for this model. The method sums up all perturbation terms to certain order and estimates the result using a well -developed and highly successful extrapolation method (the standard ratio method). The dependence of critical temperature on the crystal-field potential and the magnetization as a function of temperature and crystal-field potential are shown. The critical behaviors at zero temperature are also shown. The range of the crystal-field potential for Ni(2+) compounds is roughly estimated based on this model using known experimental results.

Improvements in Ionized Cluster-Beam Deposition

NASA Technical Reports Server (NTRS)

Fitzgerald, D. J.; Compton, L. E.; Pawlik, E. V.

1986-01-01

Lower temperatures result in higher purity and fewer equipment problems. In cluster-beam deposition, clusters of atoms formed by adiabatic expansion nozzle and with proper nozzle design, expanding vapor cools sufficiently to become supersaturated and form clusters of material deposited. Clusters are ionized and accelerated in electric field and then impacted on substrate where films form. Improved cluster-beam technique useful for deposition of refractory metals.

First Principles Studies for Lithium Intercalation and Diffusion Behaviors in MoS2 treated with the Compressive Sensing Cluster Expansion

NASA Astrophysics Data System (ADS)

Liu, Chi-Ping; Zhou, Fei; Ozolins, Vidvuds

2014-03-01

Molybdenum disulfide (MoS2) is a good candidate electrode material for high capacity energy storage applications, such as lithium ion batteries and supercapacitors. In this work, we investigate lithium intercalation and diffusion kinetics in MoS2 by using first-principles density-functional theory (DFT) calculations. Two different lithium intercalation sites (1-H and 2-T) in MoS2 are found to be stable for lithium intercalation at different van der Waals' (vdW) gap distances. It is found that both thermodynamic and kinetic properties are highly related to the interlayer vdW gap distance, and that the optimal gap distance leads to effective solid-state diffusion in MoS2. Additionally, through the use of compressive sensing, we build accurate cluster expansion models to study the thermodynamic properties of MoS2 at high lithium content by truncating the higher order effective clusters with significant contributions. The results show that compressive sensing cluster expansion is a rigorous and powerful tool for model construction for advanced electrochemical applications in the future.

Thermodynamic Behavior of Nano-sized Gold Clusters on the (001) Surface

NASA Technical Reports Server (NTRS)

Paik, Sun M.; Yoo, Sung M.; Namkung, Min; Wincheski, Russell A.; Bushnell, Dennis M. (Technical Monitor)

2001-01-01

We have studied thermal expansion of the surface layers of the hexagonally reconstructed Au (001) surface using a classical Molecular Dynamics (MD) simulation technique with an Embedded Atomic Method (EAM) type many-body potential. We find that the top-most hexagonal layer contracts as temperature increases, whereas the second layer expands or contracts depending on the system size. The magnitude of expansion coefficient of the top layer is much larger than that of the other layers. The calculated thermal expansion coefficients of the top-most layer are about -4.93 x 10(exp -5)Angstroms/Kelvin for the (262 x 227)Angstrom cluster and -3.05 x 10(exp -5)Angstroms/Kelvin for (101 x 87)Angstrom cluster. The Fast Fourier Transform (FFT) image of the atomic density shows that there exists a rotated domain of the top-most hexagonal cluster with rotation angle close to 1 degree at temperature T less than 1000Kelvin. As the temperature increases this domain undergoes a surface orientational phase transition. These predictions are in good agreement with previous phenomenological theories and experimental studies.

Not all stars form in clusters - measuring the kinematics of OB associations with Gaia

NASA Astrophysics Data System (ADS)

Ward, Jacob L.; Kruijssen, J. M. Diederik

2018-04-01

It is often stated that star clusters are the fundamental units of star formation and that most (if not all) stars form in dense stellar clusters. In this monolithic formation scenario, low-density OB associations are formed from the expansion of gravitationally bound clusters following gas expulsion due to stellar feedback. N-body simulations of this process show that OB associations formed this way retain signs of expansion and elevated radial anisotropy over tens of Myr. However, recent theoretical and observational studies suggest that star formation is a hierarchical process, following the fractal nature of natal molecular clouds and allowing the formation of large-scale associations in situ. We distinguish between these two scenarios by characterizing the kinematics of OB associations using the Tycho-Gaia Astrometric Solution catalogue. To this end, we quantify four key kinematic diagnostics: the number ratio of stars with positive radial velocities to those with negative radial velocities, the median radial velocity, the median radial velocity normalized by the tangential velocity, and the radial anisotropy parameter. Each quantity presents a useful diagnostic of whether the association was more compact in the past. We compare these diagnostics to models representing random motion and the expanding products of monolithic cluster formation. None of these diagnostics show evidence of expansion, either from a single cluster or multiple clusters, and the observed kinematics are better represented by a random velocity distribution. This result favours the hierarchical star formation model in which a minority of stars forms in bound clusters and large-scale, hierarchically structured associations are formed in situ.

Astrophysics. Multiple images of a highly magnified supernova formed by an early-type cluster galaxy lens.

PubMed

Kelly, Patrick L; Rodney, Steven A; Treu, Tommaso; Foley, Ryan J; Brammer, Gabriel; Schmidt, Kasper B; Zitrin, Adi; Sonnenfeld, Alessandro; Strolger, Louis-Gregory; Graur, Or; Filippenko, Alexei V; Jha, Saurabh W; Riess, Adam G; Bradac, Marusa; Weiner, Benjamin J; Scolnic, Daniel; Malkan, Matthew A; von der Linden, Anja; Trenti, Michele; Hjorth, Jens; Gavazzi, Raphael; Fontana, Adriano; Merten, Julian C; McCully, Curtis; Jones, Tucker; Postman, Marc; Dressler, Alan; Patel, Brandon; Cenko, S Bradley; Graham, Melissa L; Tucker, Bradley E

2015-03-06

In 1964, Refsdal hypothesized that a supernova whose light traversed multiple paths around a strong gravitational lens could be used to measure the rate of cosmic expansion. We report the discovery of such a system. In Hubble Space Telescope imaging, we have found four images of a single supernova forming an Einstein cross configuration around a redshift z = 0.54 elliptical galaxy in the MACS J1149.6+2223 cluster. The cluster's gravitational potential also creates multiple images of the z = 1.49 spiral supernova host galaxy, and a future appearance of the supernova elsewhere in the cluster field is expected. The magnifications and staggered arrivals of the supernova images probe the cosmic expansion rate, as well as the distribution of matter in the galaxy and cluster lenses. Copyright © 2015, American Association for the Advancement of Science.

Construction of ground-state preserving sparse lattice models for predictive materials simulations

NASA Astrophysics Data System (ADS)

Huang, Wenxuan; Urban, Alexander; Rong, Ziqin; Ding, Zhiwei; Luo, Chuan; Ceder, Gerbrand

2017-08-01

First-principles based cluster expansion models are the dominant approach in ab initio thermodynamics of crystalline mixtures enabling the prediction of phase diagrams and novel ground states. However, despite recent advances, the construction of accurate models still requires a careful and time-consuming manual parameter tuning process for ground-state preservation, since this property is not guaranteed by default. In this paper, we present a systematic and mathematically sound method to obtain cluster expansion models that are guaranteed to preserve the ground states of their reference data. The method builds on the recently introduced compressive sensing paradigm for cluster expansion and employs quadratic programming to impose constraints on the model parameters. The robustness of our methodology is illustrated for two lithium transition metal oxides with relevance for Li-ion battery cathodes, i.e., Li2xFe2(1-x)O2 and Li2xTi2(1-x)O2, for which the construction of cluster expansion models with compressive sensing alone has proven to be challenging. We demonstrate that our method not only guarantees ground-state preservation on the set of reference structures used for the model construction, but also show that out-of-sample ground-state preservation up to relatively large supercell size is achievable through a rapidly converging iterative refinement. This method provides a general tool for building robust, compressed and constrained physical models with predictive power.

Physics of Galaxy Clusters and How it Affects Cosmological Tests

NASA Technical Reports Server (NTRS)

Vikhlinin, Alexey; Oliversen, Ronald J. (Technical Monitor)

2002-01-01

We have worked on the analysis of the Chandra observations of the nearby and distant clusters of galaxies, and on the expansion of the sample of distant X-ray clusters based on the archival ROSAT PSPC data. Some of the scientific results are discussed.

Derivation of the density functional theory from the cluster expansion.

PubMed

Hsu, J Y

2003-09-26

The density functional theory is derived from a cluster expansion by truncating the higher-order correlations in one and only one term in the kinetic energy. The formulation allows self-consistent calculation of the exchange correlation effect without imposing additional assumptions to generalize the local density approximation. The pair correlation is described as a two-body collision of bound-state electrons, and modifies the electron- electron interaction energy as well as the kinetic energy. The theory admits excited states, and has no self-interaction energy.

Bulk properties of two-phase disordered media. I. Cluster expansion for the effective dielectric constant of dispersions of penetrable spheres

NASA Astrophysics Data System (ADS)

Torquato, S.

1984-12-01

We derive a cluster expansion for the effective dielectric constant ɛ* of a dispersion of equal-sized spheres distributed with arbitrary degree of impenetrability. The degree of impenetrability is characterized by some parameter λ whose value varies between zero (in the case of randomly centered spheres, i.e., fully penetrable spheres) and unity (in the instance of totally impenetrable spheres). This generalizes the results of Felderhof, Ford, and Cohen who obtain a cluster expansion for ɛ* for the specific case of a dispersion of totally impenetrable spheres, i.e., the instance λ=1. We describe the physical significance of the contributions to the average polarization of the two-phase system which arise from inclusion-overlap effects. Using these results, we obtain a density expansion for ɛ*, which is exact through second order in the number density ρ, and give the physical interpretations of all of the cluster integrals that arise here. The use of a certain family of equilibrium sphere distributions is suggested in order to systematically study the effects of details of the microstructure on ɛ* through second order in ρ. We show, furthermore, that the second-order term can be written as a sum of the contribution from a reference system of totally impenetrable spheres and an excess contribution, which only involves effects due to overlap of pairs of inclusions. We also obtain an expansion for ɛ* which is exact through second order in φ2, where φ2 is the sphere volume fraction. We evaluate, for concreteness, some of the integrals that arise in this study, for arbitrary λ, in the permeable-sphere model and in the penetrable concentric-shell model introduced in this study.

Mixed clusters from the coexpansion of C2F6 and n2 in a pulsed, supersonic expansion cluster ion source and beam deflection time-of-flight mass spectrometer: A first application

NASA Astrophysics Data System (ADS)

Thompson, Steven D.

The following topics are discussed: (1) cluster ion genesis; (2) cluster ion detection; (3) Ion source; (4) pulse valve; (5) e-gun; (6) Ion optics; (7) a first order model; and (8) a modified Bakker's model.

Extensive regularization of the coupled cluster methods based on the generating functional formalism: application to gas-phase benchmarks and to the S(N)2 reaction of CHCl3 and OH- in water

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

Kowalski, Karol; Valiev, Marat

2009-12-21

The recently introduced energy expansion based on the use of generating functional (GF) [K. Kowalski, P.D. Fan, J. Chem. Phys. 130, 084112 (2009)] provides a way of constructing size-consistent non-iterative coupled-cluster (CC) corrections in terms of moments of the CC equations. To take advantage of this expansion in a strongly interacting regime, the regularization of the cluster amplitudes is required in order to counteract the effect of excessive growth of the norm of the CC wavefunction. Although proven to be effcient, the previously discussed form of the regularization does not lead to rigorously size-consistent corrections. In this paper we addressmore » the issue of size-consistent regularization of the GF expansion by redefning the equations for the cluster amplitudes. The performance and basic features of proposed methodology is illustrated on several gas-phase benchmark systems. Moreover, the regularized GF approaches are combined with QM/MM module and applied to describe the SN2 reaction of CHCl3 and OH- in aqueous solution.« less

Lattice cluster theory of associating polymers. I. Solutions of linear telechelic polymer chains.

PubMed

Dudowicz, Jacek; Freed, Karl F

2012-02-14

The lattice cluster theory (LCT) for the thermodynamics of a wide array of polymer systems has been developed by using an analogy to Mayer's virial expansions for non-ideal gases. However, the high-temperature expansion inherent to the LCT has heretofore precluded its application to systems exhibiting strong, specific "sticky" interactions. The present paper describes a reformulation of the LCT necessary to treat systems with both weak and strong, "sticky" interactions. This initial study concerns solutions of linear telechelic chains (with stickers at the chain ends) as the self-assembling system. The main idea behind this extension of the LCT lies in the extraction of terms associated with the strong interactions from the cluster expansion. The generalized LCT for sticky systems reduces to the quasi-chemical theory of hydrogen bonding of Panyioutou and Sanchez when correlation corrections are neglected in the LCT. A diagrammatic representation is employed to facilitate the evaluation of the corrections to the zeroth-order approximation from short range correlations. © 2012 American Institute of Physics

Measurement of the spectral signature of small carbon clusters at near and far infrared wavelengths

NASA Technical Reports Server (NTRS)

Tarter, J.; Saykally, R.

1991-01-01

A significant percentage of the carbon inventory of the circumstellar and interstellar media may be in the form of large refractory molecules (or small grains) referred to as carbon clusters. At the small end, uneven numbers of carbon atoms seem to be preferred, whereas above 12 atoms, clusters containing an even number of carbon atoms appear to be preferred in laboratory chemistry. In the lab, the cluster C-60 appears to be a particularly stable form and has been nicknamed Bucky Balls because of its resemblance to a soccer ball and to geodesic domes designed by Buckminster Fuller. In order to investigate the prevalence of these clusters, and their relationship to the polycyclic aromatic hydrocarbons (PAHs) that have become the newest focus of IR astronomy, it is necessary to determine the spectroscopic characteristics of these clusters at near and far infrared wavelengths. Described here is the construction of a near to far IR laser magnetic resonance spectrometer that has been built at the University of California Berkeley in order to detect and characterize these spectra. The equipment produces carbon clusters by laser evaporation of a graphitic target. The clusters are then cooled in a supersonic expansion beam in order to simulate conditions in the interstellar medium (ISM). The expansion beam feeds into the spectrometer chamber and permits concentrations of clusters sufficiently high as to permit ultra-high resolution spectroscopy at near and far IR wavelengths. The first successful demonstration of this apparatus occurred last year when the laboratory studies permitted the observational detection of C-5 in the stellar outflow surrounding IRC+10216 in the near-IR. Current efforts focus on reducing the temperature of the supersonic expansion beam that transport the C clusters evaporated from a graphite target into the spectrometer down to temperatures as low as 1 K.

Volume shift and charge instability of simple-metal clusters

NASA Astrophysics Data System (ADS)

Brajczewska, M.; Vieira, A.; Fiolhais, C.; Perdew, J. P.

1996-12-01

Experiment indicates that small clusters show changes (mostly contractions) of the bond lengths with respect to bulk values. We use the stabilized jellium model to study the self-expansion and self-compression of spherical clusters (neutral or ionized) of simple metals. Results from Kohn - Sham density functional theory are presented for small clusters of Al and Na, including negatively-charged ones. We also examine the stability of clusters with respect to charging.

Few-Photon Model of the Optical Emission of Semiconductor Quantum Dots

NASA Astrophysics Data System (ADS)

Richter, Marten; Carmele, Alexander; Sitek, Anna; Knorr, Andreas

2009-08-01

The Jaynes-Cummings model provides a well established theoretical framework for single electron two level systems in a radiation field. Similar exactly solvable models for semiconductor light emitters such as quantum dots dominated by many particle interactions are not known. We access these systems by a generalized cluster expansion, the photon-probability cluster expansion: a reliable approach for few-photon dynamics in many body electron systems. As a first application, we discuss vacuum Rabi oscillations and show that their amplitude determines the number of electrons in the quantum dot.

Theory of few photon dynamics in light emitting quantum dot devices

NASA Astrophysics Data System (ADS)

Carmele, Alexander; Richter, Marten; Sitek, Anna; Knorr, Andreas

2009-10-01

We present a modified cluster expansion to describe single-photon emitters in a semiconductor environment. We calculate microscopically to what extent semiconductor features in quantum dot-wetting layer systems alter the exciton and photon dynamics in comparison to the atom-like emission dynamics. We access these systems by the photon-probability-cluster-expansion: a reliable approach for few photon dynamics in many body electron systems. As a first application, we show that the amplitude of vacuum Rabi flops determines the number of electrons in the quantum dot.

Energy and charge transfer in ionized argon coated water clusters.

PubMed

Kočišek, J; Lengyel, J; Fárník, M; Slavíček, P

2013-12-07

We investigate the electron ionization of clusters generated in mixed Ar-water expansions. The electron energy dependent ion yields reveal the neutral cluster composition and structure: water clusters fully covered with the Ar solvation shell are formed under certain expansion conditions. The argon atoms shield the embedded (H2O)n clusters resulting in the ionization threshold above ≈15 eV for all fragments. The argon atoms also mediate more complex reactions in the clusters: e.g., the charge transfer between Ar(+) and water occurs above the threshold; at higher electron energies above ~28 eV, an excitonic transfer process between Ar(+)* and water opens leading to new products Ar(n)H(+) and (H2O)(n)H(+). On the other hand, the excitonic transfer from the neutral Ar* state at lower energies is not observed although this resonant process was demonstrated previously in a photoionization experiment. Doubly charged fragments (H2O)(n)H2(2+) and (H2O)(n)(2+) ions are observed and Intermolecular Coulomb decay (ICD) processes are invoked to explain their thresholds. The Coulomb explosion of the doubly charged cluster formed within the ICD process is prevented by the stabilization effect of the argon solvent.

Controlled Expansion of a Strong-Field Iron Nitride Cluster: Multi-Site Ligand Substitution as a Strategy for Activating Interstitial Nitride Nucleophilicity.

PubMed

Drance, Myles J; Mokhtarzadeh, Charles C; Melaimi, Mohand; Agnew, Douglas W; Moore, Curtis E; Rheingold, Arnold L; Figueroa, Joshua S

2018-05-02

Multimetallic clusters have long been investigated as molecular surrogates for reactive sites on metal surfaces. In the case of the μ 4 -nitrido cluster [Fe 4 (μ 4 -N)(CO) 12 ] - , this analogy is limited owing to the electron-withdrawing effect of carbonyl ligands on the iron nitride core. Described here is the synthesis and reactivity of [Fe 4 (μ 4 -N)(CO) 8 (CNAr Mes2 ) 4 ] - , an electron-rich analogue of [Fe 4 (μ 4 -N)(CO) 12 ] - , where the interstitial nitride displays significant nucleophilicity. This characteristic enables rational expansion with main-group and transition-metal centers to yield unsaturated sites. The resulting clusters display surface-like reactivity through coordination-sphere-dependent atom rearrangement and metal-metal cooperativity. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Scalar Potential Model progress

NASA Astrophysics Data System (ADS)

Hodge, John

2007-04-01

Because observations of galaxies and clusters have been found inconsistent with General Relativity (GR), the focus of effort in developing a Scalar Potential Model (SPM) has been on the examination of galaxies and clusters. The SPM has been found to be consistent with cluster cellular structure, the flow of IGM from spiral galaxies to elliptical galaxies, intergalactic redshift without an expanding universe, discrete redshift, rotation curve (RC) data without dark matter, asymmetric RCs, galaxy central mass, galaxy central velocity dispersion, and the Pioneer Anomaly. In addition, the SPM suggests a model of past expansion, past contraction, and current expansion of the universe. GR corresponds to the SPM in the limit in which a flat and static scalar potential field replaces the Sources and Sinks such as between clusters and on the solar system scale which is small relative to the distance to a Source. The papers may be viewed at http://web.infoave.net/˜scjh/ .

The expansion of neighborhood and pattern formation on spatial prisoner's dilemma

NASA Astrophysics Data System (ADS)

Qian, Xiaolan; Xu, Fangqian; Yang, Junzhong; Kurths, Jürgen

2015-04-01

The prisoner's dilemma (PD), in which players can either cooperate or defect, is considered a paradigm for studying the evolution of cooperation in spatially structured populations. There the compact cooperator cluster is identified as a characteristic pattern and the probability of forming such pattern in turn depends on the features of the networks. In this paper, we investigate the influence of expansion of neighborhood on pattern formation by taking a weak PD game with one free parameter T, the temptation to defect. Two different expansion methods of neighborhood are considered. One is based on a square lattice and expanses along four directions generating networks with degree increasing with K = 4 m . The other is based on a lattice with Moore neighborhood and expanses along eight directions, generating networks with degree of K = 8 m . Individuals are placed on the nodes of the networks, interact with their neighbors and learn from the better one. We find that cooperator can survive for a broad degree 4 ≤ K ≤ 70 by taking a loose type of cooperator clusters. The former simple corresponding relationship between macroscopic patterns and the microscopic PD interactions is broken. Under a condition that is unfavorable for cooperators such as large T and K, systems prefer to evolve to a loose type of cooperator clusters to support cooperation. However, compared to the well-known compact pattern, it is a suboptimal strategy because it cannot help cooperators dominating the population and always corresponding to a low cooperation level.

GMX approximation for the linear E ⊗ ɛ Jahn-Teller effect

NASA Astrophysics Data System (ADS)

Mancini, Jay D.; Fessatidis, Vassilios; Bowen, Samuel P.

2006-02-01

A newly developed generalized moments expansion (GMX) based on the t-expansion of Horn and Weinstein is applied to a linear E ⊗ ɛ Jahn-Teller system. Comparisons are made with other moments schemes as well a coupled cluster approximation.

Comment on "An Evaluation of Query Expansion by the Addition of Clustered Terms for a Document Retrieval System"

ERIC Educational Resources Information Center

Salton, G.

1972-01-01

The author emphasized that one cannot conclude from the experiments reported upon that term clusters (or equivalently, keyword classifications or thesauruses) are not useful in retrieval. (2 references) (Author)

The Expansion of Clusters of Galaxies

DTIC Science & Technology

1961-01-01

investigators, currently we have usable data for a number of other clusters and groups. It is true that, with the exception of the Virgo Cluster , in each case...progress. Throughout this paper , the term "system of galaxies" is used as a synonym of the term " cluster " appearing in the theory of the spatial...mentioned at the beginning of the paper . Whether these outliers should be treated as members of the Coma Cluster or not is a subjective matter and

Many-body expansion of the Fock matrix in the fragment molecular orbital method

NASA Astrophysics Data System (ADS)

Fedorov, Dmitri G.; Kitaura, Kazuo

2017-09-01

A many-body expansion of the Fock matrix in the fragment molecular orbital method is derived up to three-body terms for restricted Hartree-Fock and density functional theory in the atomic orbital basis and compared to the expansion in the basis of fragment molecular orbitals (MOs). The physical nature of many-body corrections is revealed in terms of charge transfer terms. An improvement of the fragment MO expansion is proposed by adding exchange to the embedding. The accuracy of all developed methods is demonstrated in comparison to unfragmented results for polyalanines, a water cluster, Trp-cage (PDB: 1L2Y) and crambin (PDB: 1CRN) proteins, a zeolite cluster, a Si nano-wire, and a boron nitride ribbon. The physical nature of metallicity is discussed, and it is shown what kinds of metallic systems can be treated by fragment-based methods. The density of states is calculated for a fully closed and a partially open nano-ring of boron nitride with a diameter of 105 nm.

Ternary alloy material prediction using genetic algorithm and cluster expansion

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

Chen, Chong

2015-12-01

This thesis summarizes our study on the crystal structures prediction of Fe-V-Si system using genetic algorithm and cluster expansion. Our goal is to explore and look for new stable compounds. We started from the current ten known experimental phases, and calculated formation energies of those compounds using density functional theory (DFT) package, namely, VASP. The convex hull was generated based on the DFT calculations of the experimental known phases. Then we did random search on some metal rich (Fe and V) compositions and found that the lowest energy structures were body centered cube (bcc) underlying lattice, under which we didmore » our computational systematic searches using genetic algorithm and cluster expansion. Among hundreds of the searched compositions, thirteen were selected and DFT formation energies were obtained by VASP. The stability checking of those thirteen compounds was done in reference to the experimental convex hull. We found that the composition, 24-8-16, i.e., Fe 3VSi 2 is a new stable phase and it can be very inspiring to the future experiments.« less

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

Ceder, Gerbrand

Novel materials are often the enabler for new energy technologies. In ab-initio computational materials science, method are developed to predict the behavior of materials starting from the laws of physics, so that properties can be predicted before compounds have to be synthesized and tested. As such, a virtual materials laboratory can be constructed, saving time and money. The objectives of this program were to develop first-principles theory to predict the structure and thermodynamic stability of materials. Since its inception the program focused on the development of the cluster expansion to deal with the increased complexity of complex oxides. This researchmore » led to the incorporation of vibrational degrees of freedom in ab-initio thermodynamics, developed methods for multi-component cluster expansions, included the explicit configurational degrees of freedom of localized electrons, developed the formalism for stability in aqueous environments, and culminated in the first ever approach to produce exact ground state predictions of the cluster expansion. Many of these methods have been disseminated to the larger theory community through the Materials Project, pymatgen software, or individual codes. We summarize three of the main accomplishments.« less

Coma cluster of galaxies

NASA Technical Reports Server (NTRS)

1999-01-01

Atlas Image mosaic, covering 34' x 34' on the sky, of the Coma cluster, aka Abell 1656. This is a particularly rich cluster of individual galaxies (over 1000 members), most prominently the two giant ellipticals, NGC 4874 (right) and NGC 4889 (left). The remaining members are mostly smaller ellipticals, but spiral galaxies are also evident in the 2MASS image. The cluster is seen toward the constellation Coma Berenices, but is actually at a distance of about 100 Mpc (330 million light years, or a redshift of 0.023) from us. At this distance, the cluster is in what is known as the 'Hubble flow,' or the overall expansion of the Universe. As such, astronomers can measure the Hubble Constant, or the universal expansion rate, based on the distance to this cluster. Large, rich clusters, such as Coma, allow astronomers to measure the 'missing mass,' i.e., the matter in the cluster that we cannot see, since it gravitationally influences the motions of the member galaxies within the cluster. The near-infrared maps the overall luminous mass content of the member galaxies, since the light at these wavelengths is dominated by the more numerous older stellar populations. Galaxies, as seen by 2MASS, look fairly smooth and homogeneous, as can be seen from the Hubble 'tuning fork' diagram of near-infrared galaxy morphology. Image mosaic by S. Van Dyk (IPAC).

Generalized moments expansion applied to the two-dimensional S= 1 /2 Heisenberg model

NASA Astrophysics Data System (ADS)

Mancini, Jay D.; Murawski, Robert K.; Fessatidis, Vassilios; Bowen, Samuel P.

2005-12-01

In this work we derive a generalized moments expansion (GMX), to third order, of which the well-established connected moments expansion and the alternate moments expansion are shown to be special cases. We discuss the benefits of the GMX with respect to the avoidance of singularities which are known to plague such moments methods. We then apply the GMX estimates for the ground-state energy for the two-dimensional S=1/2 Heisenberg square lattice and compare these results to those of both spin-wave theory and the linked-cluster expansion.

On simulations of rarefied vapor flows with condensation

NASA Astrophysics Data System (ADS)

Bykov, Nikolay; Gorbachev, Yuriy; Fyodorov, Stanislav

2018-05-01

Results of the direct simulation Monte Carlo of 1D spherical and 2D axisymmetric expansions into vacuum of condens-ing water vapor are presented. Two models based on the kinetic approach and the size-corrected classical nucleation theory are employed for simulations. The difference in obtained results is discussed and advantages of the kinetic approach in comparison with the modified classical theory are demonstrated. The impact of clusterization on flow parameters is observed when volume fraction of clusters in the expansion region exceeds 5%. Comparison of the simulation data with the experimental results demonstrates good agreement.

Cluster Observations of Currents In The Plasma Sheet During Substorm Expansions

NASA Astrophysics Data System (ADS)

McPherron, R. L.; Kivelson, M. G.; Khurana, K.; Balogh, A.; Conners, M.; Creutzberg, F.; Moldwin, M.; Rostoker, G.; Russell, C. T.

From 00 to 12 UT on August 15, 2001 the Cluster spacecraft passed through the plasma sheet at 0100 lt and distance 18 Re. During this passage three substorms with multiple onsets were observed in the magnetic field and plasma. The North American ground sector was well located to provide the context and timing of these substorms. We find that each substorm was initially associated with strong Earthward directed field-aligned current. The first substorm occurred when the Cluster array was at the boundary of the plasma sheet. The effects of the substorm appear at Cluster in associ- ation with an intensification of the expansion into the morning sector and are initiated by a wave of plasma sheet thickening followed by vertical oscillations of the plasma sheet boundary. The third substorm occurred with Cluster at the neutral sheet. It began with a transient pulse of southward Bz followed by a burst of tailward flow. Subse- quently a sequence of bursts of Earthward flow cause stepwise dipolarization of the local magnetic field. Our goal is to present a coherent three-dimensional representa- tion of the Cluster observations for each of these various substorms.

The kinematics of the Scorpius-Centaurus OB association from Gaia DR1

NASA Astrophysics Data System (ADS)

Wright, Nicholas J.; Mamajek, Eric E.

2018-05-01

We present a kinematic study of the Scorpius-Centaurus (Sco-Cen) OB association (Sco OB2) using Gaia DR1 parallaxes and proper motions. Our goal is to test the classical theory that OB associations are the expanded remnants of dense and compact star clusters disrupted by processes such as residual gas expulsion. Gaia astrometry is available for 258 out of 433 members of the association, with revised Hipparcos astrometry used for the remainder. We use these data to confirm that the three subgroups of Sco-Cen are gravitationally unbound and have non-isotropic velocity dispersions, suggesting that they have not had time to dynamically relax. We also explore the internal kinematics of the subgroups to search for evidence of expansion. We test Blaauw's classical linear model of expansion, search for velocity trends along the Galactic axes, compare the expanding and non-expanding convergence points, perform traceback analysis assuming both linear trajectories and using an epicycle approximation, and assess the evidence for expansion in proper motions corrected for virtual expansion/contraction. None of these methods provide coherent evidence for expansion of the subgroups, with no evidence to suggest that the subgroups had a more compact configuration in the past. We find evidence for kinematic substructure within the subgroups that supports the view that they were not formed by the disruption of individual star clusters. We conclude that Sco-Cen was likely to have been born highly substructured, with multiple small-scale star formation events contributing to the overall OB association, and not as single, monolithic burst of clustered star formation.

The Formation of Galaxies and Clusters.

ERIC Educational Resources Information Center

Gregory, Stephen; Morrison, Nancy D.

1985-01-01

Summarizes recent research on the formation of galaxies and clusters, focusing on research examining how the materials in galaxies seen today separated from the universal expansion and collapsed into stable bodies. A list of six nontechnical books and articles for readers with less background is included. (JN)

Initial conditions of formation of starburst clusters: constraints from stellar dynamics

NASA Astrophysics Data System (ADS)

Banerjee, Sambaran

2017-03-01

How starburst clusters form out of molecular clouds is still an open question. In this article, I highlight some of the key constraints in this regard, that one can get from the dynamical evolutionary properties of dense stellar systems. I particularly focus on secular expansion of massive star clusters and hierarchical merging of sub-clusters, and discuss their implications vis-á-vis the observed properties of young massive clusters. The analysis suggests that residual gas expulsion is necessary for shaping these clusters as we see them today, irrespective of their monolithic or hierarchical mode of formation.

Magnetic cluster expansion model for random and ordered magnetic face-centered cubic Fe-Ni-Cr alloys

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

Lavrentiev, M. Yu., E-mail: Mikhail.Lavrentiev@ukaea.uk; Nguyen-Manh, D.; Dudarev, S. L.

A Magnetic Cluster Expansion model for ternary face-centered cubic Fe-Ni-Cr alloys has been developed, using DFT data spanning binary and ternary alloy configurations. Using this Magnetic Cluster Expansion model Hamiltonian, we perform Monte Carlo simulations and explore magnetic structures of alloys over the entire range of compositions, considering both random and ordered alloy structures. In random alloys, the removal of magnetic collinearity constraint reduces the total magnetic moment but does not affect the predicted range of compositions where the alloys adopt low-temperature ferromagnetic configurations. During alloying of ordered fcc Fe-Ni compounds with Cr, chromium atoms tend to replace nickel rathermore » than iron atoms. Replacement of Ni by Cr in ordered alloys with high iron content increases the Curie temperature of the alloys. This can be explained by strong antiferromagnetic Fe-Cr coupling, similar to that found in bcc Fe-Cr solutions, where the Curie temperature increase, predicted by simulations as a function of Cr concentration, is confirmed by experimental observations. In random alloys, both magnetization and the Curie temperature decrease abruptly with increasing chromium content, in agreement with experiment.« less

Surface brightness profiles and structural parameters for 53 rich stellar clusters in the Large Magellanic Cloud

NASA Astrophysics Data System (ADS)

Mackey, A. D.; Gilmore, G. F.

2003-01-01

We have compiled a pseudo-snapshot data set of two-colour observations from the Hubble Space Telescope archive for a sample of 53 rich LMC clusters with ages of 106-1010 yr. We present surface brightness profiles for the entire sample, and derive structural parameters for each cluster, including core radii, and luminosity and mass estimates. Because we expect the results presented here to form the basis for several further projects, we describe in detail the data reduction and surface brightness profile construction processes, and compare our results with those of previous ground-based studies. The surface brightness profiles show a large amount of detail, including irregularities in the profiles of young clusters (such as bumps, dips and sharp shoulders), and evidence for both double clusters and post-core-collapse (PCC) clusters. In particular, we find power-law profiles in the inner regions of several candidate PCC clusters, with slopes of approximately -0.7, but showing considerable variation. We estimate that 20 +/- 7 per cent of the old cluster population of the Large Magellanic Cloud (LMC) has entered PCC evolution, a similar fraction to that for the Galactic globular cluster system. In addition, we examine the profile of R136 in detail and show that it is probably not a PCC cluster. We also observe a trend in core radius with age that has been discovered and discussed in several previous publications by different authors. Our diagram has better resolution, however, and appears to show a bifurcation at several hundred Myr. We argue that this observed relationship reflects true physical evolution in LMC clusters, with some experiencing small-scale core expansion owing to mass loss, and others large-scale expansion owing to some unidentified characteristic or physical process.

Comparison of mineral dust and droplet residuals measured with two single particle aerosol mass spectrometers

NASA Astrophysics Data System (ADS)

Wonaschütz, Anna; Ludwig, Wolfgang; Zawadowicz, Maria; Hiranuma, Naruki; Hitzenberger, Regina; Cziczo, Daniel; DeMott, Paul; Möhler, Ottmar

2017-04-01

Single Particle mass spectrometers are used to gain information on the chemical composition of individual aerosol particles, aerosol mixing state, and other valuable aerosol characteristics. During the Mass Spectrometry Intercomparison at the Fifth Ice Nucleation (FIN-01) Workshop, the new LAAPTOF single particle aerosol mass spectrometer (AeroMegt GmbH) was conducting simultaneous measurements together with the PALMS (Particle Analysis by Laser Mass Spectrometry) instrument. The aerosol particles were sampled from the AIDA chamber during ice cloud expansion experiments. Samples of mineral dust and ice droplet residuals were measured simultaneously. In this work, three expansion experiments are chosen for a comparison between the two mass spectrometers. A fuzzy clustering routine is used to group the spectra. Cluster centers describing the ensemble of particles are compared. First results show that while differences in the peak heights are likely due to the use of an amplifier in PALMS, cluster centers are comparable.

Constrained variation in Jastrow method at high density

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

Owen, J.C.; Bishop, R.F.; Irvine, J.M.

1976-11-01

A method is derived for constraining the correlation function in a Jastrow variational calculation which permits the truncation of the cluster expansion after two-body terms, and which permits exact minimization of the two-body cluster by functional variation. This method is compared with one previously proposed by Pandharipande and is found to be superior both theoretically and practically. The method is tested both on liquid /sup 3/He, by using the Lennard--Jones potential, and on the model system of neutrons treated as Boltzmann particles (''homework'' problem). Good agreement is found both with experiment and with other calculations involving the explicit evaluation ofmore » higher-order terms in the cluster expansion. The method is then applied to a more realistic model of a neutron gas up to a density of 4 neutrons per F/sup 3/, and is found to give ground-state energies considerably lower than those of Pandharipande. (AIP)« less

Testing Gravity and Cosmic Acceleration with Galaxy Clustering

NASA Astrophysics Data System (ADS)

Kazin, Eyal; Tinker, J.; Sanchez, A. G.; Blanton, M.

2012-01-01

The large-scale structure contains vast amounts of cosmological information that can help understand the accelerating nature of the Universe and test gravity on large scales. Ongoing and future sky surveys are designed to test these using various techniques applied on clustering measurements of galaxies. We present redshift distortion measurements of the Sloan Digital Sky Survey II Luminous Red Galaxy sample. We find that when combining the normalized quadrupole Q with the projected correlation function wp(rp) along with cluster counts (Rapetti et al. 2010), results are consistent with General Relativity. The advantage of combining Q and wp is the addition of the bias information, when using the Halo Occupation Distribution framework. We also present improvements to the standard technique of measuring Hubble expansion rates H(z) and angular diameter distances DA(z) when using the baryonic acoustic feature as a standard ruler. We introduce clustering wedges as an alternative basis to the multipole expansion and show that it yields similar constraints. This alternative basis serves as a useful technique to test for systematics, and ultimately improve measurements of the cosmic acceleration.

A lightweight universe?

PubMed Central

Bahcall, Neta A.; Fan, Xiaohui

1998-01-01

How much matter is there in the universe? Does the universe have the critical density needed to stop its expansion, or is the universe underweight and destined to expand forever? We show that several independent measures, especially those utilizing the largest bound systems known—clusters of galaxies—all indicate that the mass-density of the universe is insufficient to halt the expansion. A promising new method, the evolution of the number density of clusters with time, provides the most powerful indication so far that the universe has a subcritical density. We show that different techniques reveal a consistent picture of a lightweight universe with only ∼20–30% of the critical density. Thus, the universe may expand forever. PMID:9600898

Full-potential KKR calculations for vacancies in Al : Screening effect and many-body interactions

NASA Astrophysics Data System (ADS)

Hoshino, T.; Asato, M.; Zeller, R.; Dederichs, P. H.

2004-09-01

We give ab initio calculations for vacancies in Al . The calculations are based on the generalized-gradient approximation in the density-functional theory and employ the all-electron full-potential Korringa-Kohn-Rostoker Green’s function method for point defects, which guarantees the correct embedding of the cluster of point defects in an otherwise perfect crystal. First, we confirm the recent calculated results of Carling [Phys. Rev. Lett. 85, 3862 (2000)], i.e., repulsion of the first-nearest-neighbor (1NN) divacancy in Al , and elucidate quantitatively the micromechanism of repulsion. Using the calculated results for vacancy formation energies and divacancy binding energies in Na , Mg , Al , and Si of face-centered-cubic, we show that the single vacancy in nearly free-electron systems becomes very stable with increasing free-electron density, due to the screening effect, and that the formation of divacancy destroys the stable electron distribution around the single vacancy, resulting in a repulsion of two vacancies on 1NN sites, so that the 1NN divacancy is unstable. Second, we show that the cluster expansion converges rapidly for the binding energies of vacancy agglomerates in Al . The binding energy of 13 vacancies consisting of a central vacancy and its 12 nearest neighbors, is reproduced within the error of 0.002eV per vacancy, if many-body interaction energies up to the four-body terms are taken into account in the cluster expansion, being compared with the average error (>0.1eV) of the glue models which are very often used to provide interatomic potentials for computer simulations. For the cluster expansion of the binding energies of impurities, we get the same convergence as that obtained for vacancies. Thus, the present cluster-expansion approach for the binding energies of agglomerates of vacancies and impurities in Al may provide accurate data to construct the interaction-parameter model for computer simulations which are strongly requested to study the dynamical process in the initial stage of the formation of the so-called Guinier-Preston zones of low-concentrated Al -based alloys such as Al1-cXc ( X=Cu , Zn ; c<0.05 ).

Perron-Frobenius theorem on the superfluid transition of an ultracold Fermi gas

NASA Astrophysics Data System (ADS)

Sakumichi, Naoyuki; Kawakami, Norio; Ueda, Masahito

2014-05-01

The Perron-Frobenius theorem is applied to identify the superfluid transition of the BCS-BEC crossover based on a cluster expansion method of Lee and Yang. Here, the cluster expansion is a systematic expansion of the equation of state (EOS) in terms of the fugacity z = exp (βμ) as βpλ3 = 2 z +b2z2 +b3z3 + ⋯ , with inverse temperature β =(kB T) - 1 , chemical potential μ, pressure p, and thermal de Broglie length λ =(2 πℏβ / m) 1 / 2 . According to the method of Lee and Yang, EOS is expressed by the Lee-Yang graphs. A singularity of an infinite series of ladder-type Lee-Yang graphs is analyzed. We point out that the singularity is governed by the Perron-Frobenius eigenvalue of a certain primitive matrix which is defined in terms of the two-body cluster functions and the Fermi distribution functions. As a consequence, it is found that there exists a unique fugacity at the phase transition point, which implies that there is no fragmentation of Bose-Einstein condensates of dimers and Cooper pairs at the ladder-approximation level of Lee-Yang graphs. An application to a BEC of strongly bounded dimers is also made.

Reprint of: Negative carbon cluster ion beams: New evidence for the special nature of C60

NASA Astrophysics Data System (ADS)

Liu, Y.; O'brien, S. C.; Zhang, Q.; Heath, J. R.; Tittel, F. K.; Curl, R. F.; Kroto, H. W.; Smalley, R. E.

2013-12-01

Cold carbon cluster negative ions are formed by supersonic expansion of a plasma created at the nozzle of a supersonic cluster beam source by an excimer laser pulse. The observed distribution of mass peaks for the Cn- ions for n > 40 demonstrates that the evidence previously given for the special stability of neutral C60 and the existence of spheroidal carbon shells cannot be an artifact of the ionization conditions.

STIM1L traps and gates Orai1 channels without remodeling the cortical ER

PubMed Central

Saüc, Sophie; Bulla, Monica; Nunes, Paula; Orci, Lelio; Marchetti, Anna; Antigny, Fabrice; Bernheim, Laurent; Cosson, Pierre; Frieden, Maud; Demaurex, Nicolas

2015-01-01

STIM proteins populate and expand cortical endoplasmic reticulum (ER) sheets to mediate store-operated Ca2+ entry (SOCE) by trapping and gating Orai channels in ER-plasma membrane clusters. A longer splice variant, STIM1L, forms permanent ER-plasma membrane clusters and mediates rapid Ca2+ influx in muscle. Here, we used electron microscopy, total internal reflection fluorescence (TIRF) microscopy and Ca2+ imaging to establish the trafficking and signaling properties of the two STIM1 isoforms in Stim1−/−/Stim2−/− fibroblasts. Unlike STIM1, STIM1L was poorly recruited into ER-plasma membrane clusters and did not mediate store-dependent expansion of cortical ER cisternae. Removal of the STIM1 lysine-rich tail prevented store-dependent cluster enlargement, whereas inhibition of cytosolic Ca2+ elevations or removal of the STIM1L actin-binding domain had no impact on cluster expansion. Finally, STIM1L restored robust but not accelerated SOCE and clustered with Orai1 channels more slowly than STIM1 following store depletion. These results indicate that STIM1L does not mediate rapid SOCE but can trap and gate Orai1 channels efficiently without remodeling cortical ER cisternae. The ability of STIM proteins to induce cortical ER formation is dispensable for SOCE and requires the lysine-rich tail of STIM1 involved in binding to phosphoinositides. PMID:25736291

Para-hydrogen and helium cluster size distributions in free jet expansions based on Smoluchowski theory with kernel scaling.

PubMed

Kornilov, Oleg; Toennies, J Peter

2015-02-21

The size distribution of para-H2 (pH2) clusters produced in free jet expansions at a source temperature of T0 = 29.5 K and pressures of P0 = 0.9-1.96 bars is reported and analyzed according to a cluster growth model based on the Smoluchowski theory with kernel scaling. Good overall agreement is found between the measured and predicted, Nk = A k(a) e(-bk), shape of the distribution. The fit yields values for A and b for values of a derived from simple collision models. The small remaining deviations between measured abundances and theory imply a (pH2)k magic number cluster of k = 13 as has been observed previously by Raman spectroscopy. The predicted linear dependence of b(-(a+1)) on source gas pressure was verified and used to determine the value of the basic effective agglomeration reaction rate constant. A comparison of the corresponding effective growth cross sections σ11 with results from a similar analysis of He cluster size distributions indicates that the latter are much larger by a factor 6-10. An analysis of the three body recombination rates, the geometric sizes and the fact that the He clusters are liquid independent of their size can explain the larger cross sections found for He.

Geographic Expansion of Lyme Disease in the Southeastern United States, 2000-2014.

PubMed

Lantos, Paul M; Nigrovic, Lise E; Auwaerter, Paul G; Fowler, Vance G; Ruffin, Felicia; Brinkerhoff, R Jory; Reber, Jodi; Williams, Carl; Broyhill, James; Pan, William K; Gaines, David N

2015-12-01

Background.  The majority of Lyme disease cases in the United States are acquired on the east coast between northern Virginia and New England. In recent years the geographic extent of Lyme disease has been expanding, raising the prospect of Lyme disease becoming endemic in the southeast. Methods.  We collected confirmed and probable cases of Lyme disease from 2000 through 2014 from the Virginia Department of Health and North Carolina Department of Public Health and entered them in a geographic information system. We performed spatial and spatiotemporal cluster analyses to characterize Lyme disease expansion. Results.  There was a marked increase in Lyme disease cases in Virginia, particularly from 2007 onwards. Northern Virginia experienced intensification and geographic expansion of Lyme disease cases. The most notable area of expansion was to the southwest along the Appalachian Mountains with development of a new disease cluster in the southern Virginia mountain region. Conclusions.  The geographic distribution of Lyme disease cases significantly expanded in Virginia between 2000 and 2014, particularly southward in the Virginia mountain ranges. If these trends continue, North Carolina can expect autochthonous Lyme disease transmission in its mountain region in the coming years.

Ecotype-specific and chromosome-specific expansion of variant centromeric satellites in Arabidopsis thaliana.

PubMed

Ito, Hidetaka; Miura, Asuka; Takashima, Kazuya; Kakutani, Tetsuji

2007-01-01

Despite the conserved roles and conserved protein machineries of centromeres, their nucleotide sequences can be highly diverse even among related species. The diversity reflects rapid evolution, but the underlying mechanism is largely unknown. One approach to monitor rapid evolution is examination of intra-specific variation. Here we report variant centromeric satellites of Arabidopsis thaliana found through survey of 103 natural accessions (ecotypes). Among them, a cluster of variant centromeric satellites was detected in one ecotype, Cape Verde Islands (Cvi). Recombinant inbred mapping revealed that the variant satellites are distributed in centromeric region of the chromosome 5 (CEN5) of this ecotype. This apparently recent variant accumulation is associated with large deletion of a pericentromeric region and the expansion of satellite region. The variant satellite was bound to HTR12 (centromeric variant histone H3), although expansion of the satellite was not associated with comparable increase in the HTR12 binding. The results suggest that variant satellites with centromere function can rapidly accumulate in one centromere, supporting the model that the satellite repeats in the array are homogenized by occasional unequal crossing-over, which has a potential to generate an expansion of local sequence variants within a centromere cluster.

Identification of natural killer cell receptor clusters in the platypus genome reveals an expansion of C-type lectin genes.

PubMed

Wong, Emily S W; Sanderson, Claire E; Deakin, Janine E; Whittington, Camilla M; Papenfuss, Anthony T; Belov, Katherine

2009-08-01

Natural killer (NK) cell receptors belong to two unrelated, but functionally analogous gene families: the immunoglobulin superfamily, situated in the leukocyte receptor complex (LRC) and the C-type lectin superfamily, located in the natural killer complex (NKC). Here, we describe the largest NK receptor gene expansion seen to date. We identified 213 putative C-type lectin NK receptor homologs in the genome of the platypus. Many have arisen as the result of a lineage-specific expansion. Orthologs of OLR1, CD69, KLRE, CLEC12B, and CLEC16p genes were also identified. The NKC is split into at least two regions of the genome: 34 genes map to chromosome 7, two map to a small autosome, and the remainder are unanchored in the current genome assembly. No NK receptor genes from the LRC were identified. The massive C-type lectin expansion and lack of Ig-domain-containing NK receptors represents the most extreme polarization of NK receptors found to date. We have used this new data from platypus to trace the possible evolutionary history of the NK receptor clusters.

Bonding properties of FCC-like Au 44 (SR) 28 clusters from X-ray absorption spectroscopy

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

Yang, Rui; Chevrier, Daniel M.; Zeng, Chenjie

Thiolate-protected gold clusters with precisely controlled atomic composition have recently emerged as promising candidates for a variety of applications because of their unique optical, electronic, and catalytic properties. The recent discovery of the Au44(SR)28 total structure is considered as an interesting finding in terms of the face-centered cubic (FCC)-like core structure in small gold-thiolate clusters. Herein, the unique bonding properties of Au44(SR)28 is analyzed using temperature-dependent X-ray absorption spectroscopy (XAS) measurements at the Au L3-edge and compared with other FCC-like clusters such as Au36(SR)24 and Au28(SR)20. A negative thermal expansion was detected for the Au–Au bonds of the metal coremore » (the first Au–Au shell) and was interpreted based on the unique Au core structure consisting of the Au4 units. EXAFS fitting results from Au28(SR)20, Au36(SR)24, and Au44(SR)28 show a size-dependent negative thermal expansion behavior in the first Au–Au shell, further highlighting the importance of the Au4 units in determining the Au core bonding properties and shedding light on the growth mechanism of these FCC-like Au clusters.« less

A view on coupled cluster perturbation theory using a bivariational Lagrangian formulation.

PubMed

Kristensen, Kasper; Eriksen, Janus J; Matthews, Devin A; Olsen, Jeppe; Jørgensen, Poul

2016-02-14

We consider two distinct coupled cluster (CC) perturbation series that both expand the difference between the energies of the CCSD (CC with single and double excitations) and CCSDT (CC with single, double, and triple excitations) models in orders of the Møller-Plesset fluctuation potential. We initially introduce the E-CCSD(T-n) series, in which the CCSD amplitude equations are satisfied at the expansion point, and compare it to the recently developed CCSD(T-n) series [J. J. Eriksen et al., J. Chem. Phys. 140, 064108 (2014)], in which not only the CCSD amplitude, but also the CCSD multiplier equations are satisfied at the expansion point. The computational scaling is similar for the two series, and both are term-wise size extensive with a formal convergence towards the CCSDT target energy. However, the two series are different, and the CCSD(T-n) series is found to exhibit a more rapid convergence up through the series, which we trace back to the fact that more information at the expansion point is utilized than for the E-CCSD(T-n) series. The present analysis can be generalized to any perturbation expansion representing the difference between a parent CC model and a higher-level target CC model. In general, we demonstrate that, whenever the parent parameters depend upon the perturbation operator, a perturbation expansion of the CC energy (where only parent amplitudes are used) differs from a perturbation expansion of the CC Lagrangian (where both parent amplitudes and parent multipliers are used). For the latter case, the bivariational Lagrangian formulation becomes more than a convenient mathematical tool, since it facilitates a different and faster convergent perturbation series than the simpler energy-based expansion.

Homogenous Population Genetic Structure of the Non-Native Raccoon Dog (Nyctereutes procyonoides) in Europe as a Result of Rapid Population Expansion

PubMed Central

Drygala, Frank; Korablev, Nikolay; Ansorge, Hermann; Fickel, Joerns; Isomursu, Marja; Elmeros, Morten; Kowalczyk, Rafał; Baltrunaite, Laima; Balciauskas, Linas; Saarma, Urmas; Schulze, Christoph; Borkenhagen, Peter; Frantz, Alain C.

2016-01-01

The extent of gene flow during the range expansion of non-native species influences the amount of genetic diversity retained in expanding populations. Here, we analyse the population genetic structure of the raccoon dog (Nyctereutes procyonoides) in north-eastern and central Europe. This invasive species is of management concern because it is highly susceptible to fox rabies and an important secondary host of the virus. We hypothesized that the large number of introduced animals and the species’ dispersal capabilities led to high population connectivity and maintenance of genetic diversity throughout the invaded range. We genotyped 332 tissue samples from seven European countries using 16 microsatellite loci. Different algorithms identified three genetic clusters corresponding to Finland, Denmark and a large ‘central’ population that reached from introduction areas in western Russia to northern Germany. Cluster assignments provided evidence of long-distance dispersal. The results of an Approximate Bayesian Computation analysis supported a scenario of equal effective population sizes among different pre-defined populations in the large central cluster. Our results are in line with strong gene flow and secondary admixture between neighbouring demes leading to reduced genetic structuring, probably a result of its fairly rapid population expansion after introduction. The results presented here are remarkable in the sense that we identified a homogenous genetic cluster inhabiting an area stretching over more than 1500km. They are also relevant for disease management, as in the event of a significant rabies outbreak, there is a great risk of a rapid virus spread among raccoon dog populations. PMID:27064784

Effective transport properties of composites of spheres

NASA Astrophysics Data System (ADS)

Felderhof, B. U.

1994-06-01

The effective linear transport properties of composites of spheres may be studied by the methods of statistical physics. The analysis leads to an exact cluster expansion. The resulting expression for the transport coefficients may be evaluated approximately as the sum of a mean field contribution and correction terms, given by cluster integrals over two-sphere and three-sphere correlation functions. Calculations of this nature have been performed for the effective dielectric constant, as well as the effective elastic constants of composites of spheres. Accurate numerical data for the effective properties may be obtained by computer simulation. An efficient formulation uses multiple expansion in Cartesian coordinates and periodic boundary conditions. Extensive numerical results have been obtained for the effective dielectric constant of a suspension of randomly distributed spheres.

Application of the Cluster Expansion to a Mathematical Model of the Long Memory Phenomenon in a Financial Market

NASA Astrophysics Data System (ADS)

Kuroda, Koji; Maskawa, Jun-ichi; Murai, Joshin

2013-08-01

Empirical studies of the high frequency data in stock markets show that the time series of trade signs or signed volumes has a long memory property. In this paper, we present a discrete time stochastic process for polymer model which describes trader's trading strategy, and show that a scale limit of the process converges to superposition of fractional Brownian motions with Hurst exponents and Brownian motion, provided that the index γ of the time scale about the trader's investment strategy coincides with the index δ of the interaction range in the discrete time process. The main tool for the investigation is the method of cluster expansion developed in the mathematical study of statistical mechanics.

Population Genetics of Three Dimensional Range Expansions

NASA Astrophysics Data System (ADS)

Lavrentovich, Maxim; Nelson, David

2014-03-01

We develop a simple model of genetic diversity in growing spherical cell clusters, where the growth is confined to the cluster surface. This kind of growth occurs in cells growing in soft agar, and can also serve as a simple model of avascular tumors. Mutation-selection balance in these radial expansions is strongly influenced by scaling near a neutral, voter model critical point and by the inflating frontier. We develop a scaling theory to describe how the dynamics of mutation-selection balance is cut off by inflation. Genetic drift, i.e., local fluctuations in the genetic diversity, also plays an important role, and can lead to the extinction even of selectively advantageous strains. We calculate this extinction probability, taking into account the effect of rough population frontiers.

Dual chain perturbation theory: A new equation of state for polyatomic molecules

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

Marshall, Bennett D., E-mail: bennett.d.marshall@exxonmobil.com

In the development of equations of state for polyatomic molecules, thermodynamic perturbation theory (TPT) is widely used to calculate the change in free energy due to chain formation. TPT is a simplification of a more general and exact multi-density cluster expansion for associating fluids. In TPT, all contributions to the cluster expansion which contain chain–chain interactions are neglected. That is, all inter-chain interactions are treated at the reference fluid level. This allows for the summation of the cluster theory in terms of reference system correlation functions only. The resulting theory has been shown to be accurate and has been widelymore » employed as the basis of many engineering equations of state. While highly successful, TPT has many handicaps which result from the neglect of chain–chain contributions. The subject of this document is to move beyond the limitations of TPT and include chain–chain contributions to the equation of state.« less

Polynomial Similarity Transformation Theory: A smooth interpolation between coupled cluster doubles and projected BCS applied to the reduced BCS Hamiltonian

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

Degroote, M.; Henderson, T. M.; Zhao, J.

We present a similarity transformation theory based on a polynomial form of a particle-hole pair excitation operator. In the weakly correlated limit, this polynomial becomes an exponential, leading to coupled cluster doubles. In the opposite strongly correlated limit, the polynomial becomes an extended Bessel expansion and yields the projected BCS wavefunction. In between, we interpolate using a single parameter. The e ective Hamiltonian is non-hermitian and this Polynomial Similarity Transformation Theory follows the philosophy of traditional coupled cluster, left projecting the transformed Hamiltonian onto subspaces of the Hilbert space in which the wave function variance is forced to be zero.more » Similarly, the interpolation parameter is obtained through minimizing the next residual in the projective hierarchy. We rationalize and demonstrate how and why coupled cluster doubles is ill suited to the strongly correlated limit whereas the Bessel expansion remains well behaved. The model provides accurate wave functions with energy errors that in its best variant are smaller than 1% across all interaction stengths. The numerical cost is polynomial in system size and the theory can be straightforwardly applied to any realistic Hamiltonian.« less

Construction and application of Red5 cluster based on OpenStack

NASA Astrophysics Data System (ADS)

Wang, Jiaqing; Song, Jianxin

2017-08-01

With the application and development of cloud computing technology in various fields, the resource utilization rate of the data center has been improved obviously, and the system based on cloud computing platform has also improved the expansibility and stability. In the traditional way, Red5 cluster resource utilization is low and the system stability is poor. This paper uses cloud computing to efficiently calculate the resource allocation ability, and builds a Red5 server cluster based on OpenStack. Multimedia applications can be published to the Red5 cloud server cluster. The system achieves the flexible construction of computing resources, but also greatly improves the stability of the cluster and service efficiency.

Para-hydrogen and helium cluster size distributions in free jet expansions based on Smoluchowski theory with kernel scaling

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

Kornilov, Oleg; Toennies, J. Peter

The size distribution of para-H{sub 2} (pH{sub 2}) clusters produced in free jet expansions at a source temperature of T{sub 0} = 29.5 K and pressures of P{sub 0} = 0.9–1.96 bars is reported and analyzed according to a cluster growth model based on the Smoluchowski theory with kernel scaling. Good overall agreement is found between the measured and predicted, N{sub k} = A k{sup a} e{sup −bk}, shape of the distribution. The fit yields values for A and b for values of a derived from simple collision models. The small remaining deviations between measured abundances and theory imply a (pH{submore » 2}){sub k} magic number cluster of k = 13 as has been observed previously by Raman spectroscopy. The predicted linear dependence of b{sup −(a+1)} on source gas pressure was verified and used to determine the value of the basic effective agglomeration reaction rate constant. A comparison of the corresponding effective growth cross sections σ{sub 11} with results from a similar analysis of He cluster size distributions indicates that the latter are much larger by a factor 6-10. An analysis of the three body recombination rates, the geometric sizes and the fact that the He clusters are liquid independent of their size can explain the larger cross sections found for He.« less

Two Introductions of Lyme Disease into Connecticut: A Geospatial Analysis of Human Cases from 1984 to 2012.

PubMed

Xue, Ling; Scoglio, Caterina; McVey, D Scott; Boone, Rebecca; Cohnstaedt, Lee W

2015-09-01

Lyme disease has become the most prevalent vector-borne disease in the United States and results in morbidity in humans, especially children. We used historical case distributions to explain vector-borne disease introductions and subsequent geographic expansion in the absence of disease vector data. We used geographic information system analysis of publicly available Connecticut Department of Public Health case data from 1984, 1985, and 1991 to 2012 for the 169 towns in Connecticut to identify the yearly clusters of Lyme disease cases. Our analysis identified the spatial and temporal origins of two separate introductions of Lyme disease into Connecticut and identified the subsequent direction and rate of spread. We defined both epidemic clusters of cases using significant long-term spatial autocorrelation. The incidence-weighted geographic mean analysis indicates a northern trend of geographic expansion for both epidemic clusters. In eastern Connecticut, as the epidemic progressed, the yearly shift in the geographic mean (rate of epidemic expansion) decreased each year until spatial equilibrium was reached in 2007. The equilibrium indicates a transition from epidemic Lyme disease spread to stable endemic transmission, and we associate this with a reduction in incidence. In western Connecticut, the parabolic distribution of the yearly geographic mean indicates that following the establishment of Lyme disease (1988) the epidemic quickly expanded northward and established equilibrium in 2009.

A first principles investigation of the oxygen adsorption on Zr(0001) surface using cluster expansions

NASA Astrophysics Data System (ADS)

Samin, Adib J.; Taylor, Christopher D.

2017-11-01

The design of corrosion resistant zircalloys is important for a variety of technological applications ranging from medicine to the nuclear industry. Since corrosion resistance is mainly attributed to the formation of a surface oxide layer, developing a detailed understanding of this process may assist in future corrosion resistance design. In this work, we conduct a systematic multi-scale investigation of the early stages of oxide formation. This was accomplished by first using a database of fully relaxed DFT calculations to build a cluster-expansion description of the potential function. The developed potential was reasonably good at predicting DFT energies as evidenced by the cross-validation score of 4.4 meV/site. The effective cluster expansion parameters were indicative of repulsive adsorbate interactions in the adlayer in agreement with the literature. The potential then allowed for a systematic investigation of the oxygen configurations on the Zr(0001) surface via Monte Carlo simulations. The adsorption energy was recorded as a function of coverage and an increasing trend was observed in agreement with DFT predictions and the repulsive nature of interactions in the adlayer. The convex hull diagram was recorded indicating the most stable configuration to occur around a coverage of 0.6 ML. The adsorption isotherm was also recorded and contrasted for two temperatures relevant for different applications.

Ultra high resolution molecular beam cars spectroscopy with application to planetary atmospheric molecules

NASA Technical Reports Server (NTRS)

Byer, R. L.

1982-01-01

The measurement of high resolution pulsed and continuous wave (CW) coherent anti-Stokes Raman spectroscopy (CARS) measurements in pulsed and steady state supersonic expansions were demonstrated. Pulsed molecular beam sources were characterized, and saturation of a Raman transition and, for the first time, the Raman spectrum of a complex molecular cluster were observed. The observation of CW CARS spectra in a molecular expansion and the effects of transit time broadening is described. Supersonic expansion is established as a viable technique for high resolution Raman spectroscopy of cold molecules with resolutions of 100 MH2.

Physical conditions in star-forming regions around S235

NASA Astrophysics Data System (ADS)

Kirsanova, M. S.; Wiebe, D. S.; Sobolev, A. M.; Henkel, C.; Tsivilev, A. P.

2014-01-01

Gas density and temperature in star-forming regions around Sh2-235 are derived from ammonia line observations. This information is used to evaluate formation scenarios and to determine evolutionary stages of the young embedded clusters S235 East 1, S235 East 2 and S235 Central. We also estimate the gas mass in the embedded clusters and its ratio to the stellar mass. S235 East 1 appears to be less evolved than S235 East 2 and S235 Central. In S235 East 1 the molecular gas mass exceeds that in the other clusters. Also, this cluster is more embedded in the parent gas cloud than the other two. Comparison with a theoretical model shows that the formation of these three clusters could have been stimulated by the expansion of the Sh2-235 H II region (hereafter S235) via a collect-and-collapse process, provided the density in the surrounding gas exceeds 3 × 103 cm-3, or via collapse of pre-existing clumps. The expansion of S235 cannot be responsible for star formation in the southern S235 A-B region. However, formation of the massive stars in this region might have been triggered by a large-scale supernova shock. Thus, triggered star formation in the studied region may come in three varieties, namely collect-and-collapse and collapse of pre-existing clumps, both initiated by expansion of the local H II regions, and triggered by an external large-scale shock. We argue that the S235 A H II region expands into a highly non-uniform medium with increasing density. It is too young to trigger star formation in its vicinity by a collect-and-collapse process. There is an age spread inside the S235 A-B region. Massive stars in the S235 A-B region are considerably younger than lower mass stars in the same area. This follows from the estimates of their ages and the ages of associated H II regions.

A multi-scale study of the adsorption of lanthanum on the (110) surface of tungsten

NASA Astrophysics Data System (ADS)

Samin, Adib J.; Zhang, Jinsuo

2016-07-01

In this study, we utilize a multi-scale approach to studying lanthanum adsorption on the (110) plane of tungsten. The energy of the system is described from density functional theory calculations within the framework of the cluster expansion method. It is found that including two-body figures up to the sixth nearest neighbor yielded a reasonable agreement with density functional theory calculations as evidenced by the reported cross validation score. The results indicate that the interaction between the adsorbate atoms in the adlayer is important and cannot be ignored. The parameterized cluster expansion expression is used in a lattice gas Monte Carlo simulation in the grand canonical ensemble at 773 K and the adsorption isotherm is recorded. Implications of the obtained results for the pyroprocessing application are discussed.

On the fate of laser-produced NH 2 in a constrained pulsed expansion of trimethylamine alane and NH 3

NASA Astrophysics Data System (ADS)

Demchuk, Alexander; Cahill, John J.; Simpson, Steven; Koplitz, Brent

2001-11-01

The effects of both 193 nm radiation and NH 3 on an expansion of trimethylamine alane (TMAA) have been studied. In neat TMAA, 193 nm radiation induces small but significant clustering. When NH 3 is introduced in the absence of 193 nm photons, no visible reaction occurs. However, when NH 3 is introduced along with 193 nm photons, the H 3Al:N(CH 3) 3 parent molecule is completely replaced by H 3AlNH 2. Moreover, the clustering channels observed with neat TMAA disappear. The apparent stability or inertness of the R 3MNH 2 (R=H, CH 3 or C 2H 5; M=Ga or Al) species in a variety of metal nitride reactive environments is discussed.

Voltage-dependent cluster expansion for electrified solid-liquid interfaces: Application to the electrochemical deposition of transition metals

NASA Astrophysics Data System (ADS)

Weitzner, Stephen E.; Dabo, Ismaila

2017-11-01

The detailed atomistic modeling of electrochemically deposited metal monolayers is challenging due to the complex structure of the metal-solution interface and the critical effects of surface electrification during electrode polarization. Accurate models of interfacial electrochemical equilibria are further challenged by the need to include entropic effects to obtain accurate surface chemical potentials. We present an embedded quantum-continuum model of the interfacial environment that addresses each of these challenges and study the underpotential deposition of silver on the gold (100) surface. We leverage these results to parametrize a cluster expansion of the electrified interface and show through grand canonical Monte Carlo calculations the crucial need to account for variations in the interfacial dipole when modeling electrodeposited metals under finite-temperature electrochemical conditions.

Observation of novel photochemistry in the multiphoton ionization of Mo(CO) sub 6 van der Waals clusters

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

Peifer, W.R.; Garvey, J.F.

1989-07-27

van der Waals clusters of Mo(CO){sub 6} generated in the free-jet expansion of a pulsed beam of seeded helium are subjected to multiphoton ionization and the product ions analyzed by quadrupole mass spectrometry. Oxomolybdenum and dioxomolybdenum ions are observed to be produced with high efficiency. This behavior is in striking contrast to that of metal carbonyl monomers and covalently bound cluster carbonyls, which under complete ligand loss prior to ionization. The observed photochemistry is ascribed to reactions between a photoproduced molybdenum atom and the ligands of neighboring Mo(CO){sub 6} solvent molecules within the van der Waals cluster.

Dynamics of the Coulomb explosion of large hydrogen iodide clusters irradiated by superintense ultrashort laser pulses

NASA Astrophysics Data System (ADS)

Krainov, V. P.; Roshchupkin, A. S.

2001-12-01

Dynamics of the inner and outer above-barrier ionization and of the Coulomb explosion are calculated for large hydrogen iodide clusters irradiated by superintense ultrashort laser pulses. We have found that the Coulomb forces predominate in the expansion of these clusters in comparison with the hydrodynamic forces. The energy distribution of the iodine multiple atomic ions in laser focal volume is derived. Results of our calculations are in a good agreement with the recent experimental data of Tisch et al. [Phys. Rev. A 60, 3076 (1999)].

Implementation of the incremental scheme for one-electron first-order properties in coupled-cluster theory.

PubMed

Friedrich, Joachim; Coriani, Sonia; Helgaker, Trygve; Dolg, Michael

2009-10-21

A fully automated parallelized implementation of the incremental scheme for coupled-cluster singles-and-doubles (CCSD) energies has been extended to treat molecular (unrelaxed) first-order one-electron properties such as the electric dipole and quadrupole moments. The convergence and accuracy of the incremental approach for the dipole and quadrupole moments have been studied for a variety of chemically interesting systems. It is found that the electric dipole moment can be obtained to within 5% and 0.5% accuracy with respect to the exact CCSD value at the third and fourth orders of the expansion, respectively. Furthermore, we find that the incremental expansion of the quadrupole moment converges to the exact result with increasing order of the expansion: the convergence of nonaromatic compounds is fast with errors less than 16 mau and less than 1 mau at third and fourth orders, respectively (1 mau=10(-3)ea(0)(2)); the aromatic compounds converge slowly with maximum absolute deviations of 174 and 72 mau at third and fourth orders, respectively.

Expansion and melting of Xe nanocrystals in Si

NASA Astrophysics Data System (ADS)

Faraci, Giuseppe; Pennisi, Agata R.; Zontone, Federico; Li, Boquan; Petrov, Ivan

2006-12-01

Xe agglomerates confined in a Si matrix by ion implantation were synthesized with different size depending on the implantation process and/or the thermal treatment. At low temperature Xe nanocrystals are formed, whose expansion and melting were studied in the range 15- 300K . Previous high resolution x-ray diffraction spectra were corroborated with complementary techniques such as two-dimensional imaging plate patterns and transmission electron microscopy. We detected fcc Xe nanocrystals whose properties were size dependent. The experiments showed that in annealed samples epitaxial condensation of small Xe clusters, on the cavities of the Si matrix, gave in fact expanded and oriented Xe, suggesting a possible preferential growth of Xe(311) planes oriented orthogonally to the Si[02-2] direction. On the contrary, small Xe clusters in an amorphous Si matrix have a fcc lattice contracted as a consequence of surface tension. Furthermore, a solid-to-liquid phase transition size dependent was found. Expansion of fcc Xe lattice was accurately determined as a function of the temperature. Overpressurized nanocrystals and/or binary size distributions were disproved.

Understanding the many-body expansion for large systems. I. Precision considerations

NASA Astrophysics Data System (ADS)

Richard, Ryan M.; Lao, Ka Un; Herbert, John M.

2014-07-01

Electronic structure methods based on low-order "n-body" expansions are an increasingly popular means to defeat the highly nonlinear scaling of ab initio quantum chemistry calculations, taking advantage of the inherently distributable nature of the numerous subsystem calculations. Here, we examine how the finite precision of these subsystem calculations manifests in applications to large systems, in this case, a sequence of water clusters ranging in size up to (H_2O)_{47}. Using two different computer implementations of the n-body expansion, one fully integrated into a quantum chemistry program and the other written as a separate driver routine for the same program, we examine the reproducibility of total binding energies as a function of cluster size. The combinatorial nature of the n-body expansion amplifies subtle differences between the two implementations, especially for n ⩾ 4, leading to total energies that differ by as much as several kcal/mol between two implementations of what is ostensibly the same method. This behavior can be understood based on a propagation-of-errors analysis applied to a closed-form expression for the n-body expansion, which is derived here for the first time. Discrepancies between the two implementations arise primarily from the Coulomb self-energy correction that is required when electrostatic embedding charges are implemented by means of an external driver program. For reliable results in large systems, our analysis suggests that script- or driver-based implementations should read binary output files from an electronic structure program, in full double precision, or better yet be fully integrated in a way that avoids the need to compute the aforementioned self-energy. Moreover, four-body and higher-order expansions may be too sensitive to numerical thresholds to be of practical use in large systems.

Understanding the many-body expansion for large systems. I. Precision considerations

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

Richard, Ryan M.; Lao, Ka Un; Herbert, John M., E-mail: herbert@chemistry.ohio-state.edu

2014-07-07

Electronic structure methods based on low-order “n-body” expansions are an increasingly popular means to defeat the highly nonlinear scaling of ab initio quantum chemistry calculations, taking advantage of the inherently distributable nature of the numerous subsystem calculations. Here, we examine how the finite precision of these subsystem calculations manifests in applications to large systems, in this case, a sequence of water clusters ranging in size up to (H{sub 2}O){sub 47}. Using two different computer implementations of the n-body expansion, one fully integrated into a quantum chemistry program and the other written as a separate driver routine for the same program,more » we examine the reproducibility of total binding energies as a function of cluster size. The combinatorial nature of the n-body expansion amplifies subtle differences between the two implementations, especially for n ⩾ 4, leading to total energies that differ by as much as several kcal/mol between two implementations of what is ostensibly the same method. This behavior can be understood based on a propagation-of-errors analysis applied to a closed-form expression for the n-body expansion, which is derived here for the first time. Discrepancies between the two implementations arise primarily from the Coulomb self-energy correction that is required when electrostatic embedding charges are implemented by means of an external driver program. For reliable results in large systems, our analysis suggests that script- or driver-based implementations should read binary output files from an electronic structure program, in full double precision, or better yet be fully integrated in a way that avoids the need to compute the aforementioned self-energy. Moreover, four-body and higher-order expansions may be too sensitive to numerical thresholds to be of practical use in large systems.« less

Climate variability risks for electricity supply

NASA Astrophysics Data System (ADS)

Kling, Harald

2017-12-01

Hydropower represents about 20% of sub-Saharan electricity, and expansion is underway. Rainfall varies year-to-year in geographical clusters, increasing the risk of climate-related electricity supply disruption in dry years.

Electron impact ionization of size selected hydrogen clusters (H2)N: ion fragment and neutral size distributions.

PubMed

Kornilov, Oleg; Toennies, J Peter

2008-05-21

Clusters consisting of normal H2 molecules, produced in a free jet expansion, are size selected by diffraction from a transmission nanograting prior to electron impact ionization. For each neutral cluster (H2)(N) (N=2-40), the relative intensities of the ion fragments Hn+ are measured with a mass spectrometer. H3+ is found to be the most abundant fragment up to N=17. With a further increase in N, the abundances of H3+, H5+, H7+, and H9+ first increase and, after passing through a maximum, approach each other. At N=40, they are about the same and more than a factor of 2 and 3 larger than for H11+ and H13+, respectively. For a given neutral cluster size, the intensities of the ion fragments follow a Poisson distribution. The fragmentation probabilities are used to determine the neutral cluster size distribution produced in the expansion at a source temperature of 30.1 K and a source pressure of 1.50 bar. The distribution shows no clear evidence of a magic number N=13 as predicted by theory and found in experiments with pure para-H2 clusters. The ion fragment distributions are also used to extract information on the internal energy distribution of the H3+ ions produced in the reaction H2+ + H2-->H3+ +H, which is initiated upon ionization of the cluster. The internal energy is assumed to be rapidly equilibrated and to determine the number of molecules subsequently evaporated. The internal energy distribution found in this way is in good agreement with data obtained in an earlier independent merged beam scattering experiment.

A clustering method of Chinese medicine prescriptions based on modified firefly algorithm.

PubMed

Yuan, Feng; Liu, Hong; Chen, Shou-Qiang; Xu, Liang

2016-12-01

This paper is aimed to study the clustering method for Chinese medicine (CM) medical cases. The traditional K-means clustering algorithm had shortcomings such as dependence of results on the selection of initial value, trapping in local optimum when processing prescriptions form CM medical cases. Therefore, a new clustering method based on the collaboration of firefly algorithm and simulated annealing algorithm was proposed. This algorithm dynamically determined the iteration of firefly algorithm and simulates sampling of annealing algorithm by fitness changes, and increased the diversity of swarm through expansion of the scope of the sudden jump, thereby effectively avoiding premature problem. The results from confirmatory experiments for CM medical cases suggested that, comparing with traditional K-means clustering algorithms, this method was greatly improved in the individual diversity and the obtained clustering results, the computing results from this method had a certain reference value for cluster analysis on CM prescriptions.

Use of advanced particle methods in modeling space propulsion and its supersonic expansions

NASA Astrophysics Data System (ADS)

Borner, Arnaud

This research discusses the use of advanced kinetic particle methods such as Molecular Dynamics (MD) and direct simulation Monte Carlo (DSMC) to model space propulsion systems such as electrospray thrusters and their supersonic expansions. MD simulations are performed to model an electrospray thruster for the ionic liquid (IL) EMIM--BF4 using coarse-grained (CG) potentials. The model is initially featuring a constant electric field applied in the longitudinal direction. Two coarse-grained potentials are compared, and the effective-force CG (EFCG) potential is found to predict the formation of the Taylor cone, the cone-jet, and other extrusion modes for similar electric fields and mass flow rates observed in experiments of a IL fed capillary-tip-extractor system better than the simple CG potential. Later, one-dimensional and fully transient three-dimensional electric fields, the latter solving Poisson's equation to take into account the electric field due to space charge at each timestep, are computed by coupling the MD model to a Poisson solver. It is found that the inhomogeneous electric field as well as that of the IL space-charge improve agreement between modeling and experiment. The boundary conditions (BCs) are found to have a substantial impact on the potential and electric field, and the tip BC is introduced and compared to the two previous BCs, named plate and needle, showing good improvement by reducing unrealistically high radial electric fields generated in the vicinity of the capillary tip. The influence of the different boundary condition models on charged species currents as a function of the mass flow rate is studied, and it is found that a constant electric field model gives similar agreement to the more rigorous and computationally expensive tip boundary condition at lower flow rates. However, at higher mass flow rates the MD simulations with the constant electric field produces extruded particles with higher Coulomb energy per ion, consistent with droplet formation. Supersonic expansions to vacuum produce clusters of sufficiently small size that properties such as heat capacities and latent heat of evaporation cannot be described by bulk vapor thermodynamic values. Therefore, MD simulations are performed to compute the evaporation rate of small water clusters as a function of temperature and size and the rates are found to agree with Unimolecular Dissociation Theory (UDT) and Classical Nucleation Theory (CNT). The heat capacities and latent heat of vaporization obtained from Monte-Carlo Canonical-Ensemble (MCCE) simulations are used in DSMC simulations of two experiments that measured Rayleigh scattering and terminal dimer mole fraction of supersonic water-jet expansions. Water-cluster temperature and size are found to be influenced by the use of kinetic rather than thermodynamic heat-capacity and latent-heat values as well as the nucleation model. Additionally, MD simulations of water condensation in a one-dimensional free expansion are performed to simulate the conditions in the core of a plume. We find that the internal structure of the clusters formed depends on the stagnation temperature conditions. Clusters of sizes 21 and 324 are studied in detail, and their radial distribution functions (RDF) are computed and compared to reported RDFs for solid amorphous ice clusters. Dielectric properties of liquid water and water clusters are investigated, and the static dielectric constant, dipole moment autocorrelation function and relative permittivity are computed by means of MD simulations.

Food-resources and the influence of spatial pattern on feeding in the phoronid Phoronopsis viridis

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

Ronan, T.E. Jr.

1978-06-01

In the intertidal zone of Bodega Harbor, California, the phoronid, Phoronopsis viridis, aggregates in clusters often composed of thousands of tightly aggregated individuals (up to 150,000/m/sup 2/). Within a dense cluster, there is a spacing problem for expansion of the lophophores. When nearest-neighbor distances are small, a stratification of feeding appendages is a workable solution to the spacing problem, allowing simultaneous expansion of clustered feeding appendages. Suspension-feeding specimens of Phoronopsis expand their lophophores and collect food items from the turbid near-bottom layers of water. Comparison of ingested items with material collected where the phoronids feed indicates a preference for smallmore » (<100 ..mu..m) organic encrusted mineral grains, floc aggregates, and fecal material, all resuspended from the depositional interface. Also taken to a lesser extent are plankton bloom species, such as diatoms and dinoflagellates. The fact that Phoronopsis forms dense assemblages in the intertidal zone has consequences when the community structure of sandflat areas is considered. Although it is probable that no single factor can explain aggregation in Phoronopsis, two possible factors, constituting strong selection pressures for cluster formation, are relative immunity from disturbance by large burrowing infauna and protection from predation by crawling predators.« less

Precision growth index using the clustering of cosmic structures and growth data

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

Pouri, Athina; Basilakos, Spyros; Plionis, Manolis, E-mail: athpouri@phys.uoa.gr, E-mail: svasil@academyofathens.gr, E-mail: mplionis@physics.auth.gr

2014-08-01

We use the clustering properties of Luminous Red Galaxies (LRGs) and the growth rate data provided by the various galaxy surveys in order to constrain the growth index γ) of the linear matter fluctuations. We perform a standard χ{sup 2}-minimization procedure between theoretical expectations and data, followed by a joint likelihood analysis and we find a value of γ=0.56± 0.05, perfectly consistent with the expectations of the ΛCDM model, and Ω{sub m0} =0.29± 0.01, in very good agreement with the latest Planck results. Our analysis provides significantly more stringent growth index constraints with respect to previous studies, as indicated by the fact thatmore » the corresponding uncertainty is only ∼ 0.09 γ. Finally, allowing γ to vary with redshift in two manners (Taylor expansion around z=0, and Taylor expansion around the scale factor), we find that the combined statistical analysis between our clustering and literature growth data alleviates the degeneracy and obtain more stringent constraints with respect to other recent studies.« less

Novel size-dependent chemistry within ionized van der Waals clusters of 1,1-difluoroethane

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

Coolbaugh, M.T.; Peifer, W.R.; Garvey, J.F.

1990-02-22

The authors present in this paper evidence for size-dependent cluster chemistry occurring in van der Waals clusters of 1,1-difluoroethane. Clusters of C{sub 2}H{sub 4}F{sub 2} are produced from a neat adiabatic expansion and are ionized via electron impact. In addition to the anticipated fragment ions, we observe ions with the general empirical formula of M{sub n}H{sup +} (where n {ge} 4). The reactive process that generates this species cannot be rationalized in terms of intramolecular analogues of known gas-phase bimolecular ion-molecular reactions. Hence, we fell the production of this product cluster ion represents an additional example of a brand newmore » class of ion-molecule reactions that can only occur within the unique solvated environment of the cluster.« less

Ab initio structures and polarizabilities of sodium clusters

NASA Astrophysics Data System (ADS)

Kronik, Leeor; Vasiliev, Igor; Jain, Manish; Chelikowsky, James R.

2001-09-01

We present quantitative ab initio calculations for Na cluster structures and polarizabilities, for all cluster sizes up to 20 atoms. Our calculations are performed by combining an ab initio core-corrected pseudopotential and a gradient-corrected density functional within a real space approach. We find the cluster bonding to be very floppy and catalog a host of low-energy quasi-degenerate isomers for all second-decade clusters. The existence of these isomers results in a band of polarizability values for each cluster size even at zero temperature. This eliminates any finer structure in the polarizability curve. We further show that the experimental polarizability values are consistently underestimated by calculations at zero temperature. By computing the effects of structure expansion and distortion due to a finite temperature we arrive at a quantitative agreement between theory and experiment.

A multi-scale study of the adsorption of lanthanum on the (110) surface of tungsten

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

Samin, Adib J.; Zhang, Jinsuo

In this study, we utilize a multi-scale approach to studying lanthanum adsorption on the (110) plane of tungsten. The energy of the system is described from density functional theory calculations within the framework of the cluster expansion method. It is found that including two-body figures up to the sixth nearest neighbor yielded a reasonable agreement with density functional theory calculations as evidenced by the reported cross validation score. The results indicate that the interaction between the adsorbate atoms in the adlayer is important and cannot be ignored. The parameterized cluster expansion expression is used in a lattice gas Monte Carlomore » simulation in the grand canonical ensemble at 773 K and the adsorption isotherm is recorded. Implications of the obtained results for the pyroprocessing application are discussed.« less

Exact low-temperature series expansion for the partition function of the zero-field Ising model on the infinite square lattice.

PubMed

Siudem, Grzegorz; Fronczak, Agata; Fronczak, Piotr

2016-10-10

In this paper, we provide the exact expression for the coefficients in the low-temperature series expansion of the partition function of the two-dimensional Ising model on the infinite square lattice. This is equivalent to exact determination of the number of spin configurations at a given energy. With these coefficients, we show that the ferromagnetic-to-paramagnetic phase transition in the square lattice Ising model can be explained through equivalence between the model and the perfect gas of energy clusters model, in which the passage through the critical point is related to the complete change in the thermodynamic preferences on the size of clusters. The combinatorial approach reported in this article is very general and can be easily applied to other lattice models.

Exact low-temperature series expansion for the partition function of the zero-field Ising model on the infinite square lattice

PubMed Central

Siudem, Grzegorz; Fronczak, Agata; Fronczak, Piotr

2016-01-01

In this paper, we provide the exact expression for the coefficients in the low-temperature series expansion of the partition function of the two-dimensional Ising model on the infinite square lattice. This is equivalent to exact determination of the number of spin configurations at a given energy. With these coefficients, we show that the ferromagnetic–to–paramagnetic phase transition in the square lattice Ising model can be explained through equivalence between the model and the perfect gas of energy clusters model, in which the passage through the critical point is related to the complete change in the thermodynamic preferences on the size of clusters. The combinatorial approach reported in this article is very general and can be easily applied to other lattice models. PMID:27721435

Infrared spectra of seeded hydrogen clusters: (para-H2)N-N2O and (ortho-H2)N-N2O, N = 2-13.

PubMed

Tang, Jian; McKellar, A R W

2005-09-15

High-resolution infrared spectra of clusters containing para-H2 and/or ortho-H2 and a single nitrous oxide molecule are studied in the 2225-cm(-1) region of the upsilon1 fundamental band of N2O. The clusters are formed in pulsed supersonic jet expansions from a cooled nozzle and probed using a tunable infrared diode laser spectrometer. The simple symmetric rotor-type spectra generally show no resolved K structure, with prominent Q-branch features for ortho-H2 but not para-H2 clusters. The observed vibrational shifts and rotational constants are reported. There is no obvious indication of superfluid effects for para-H2 clusters up to N=13. Sharp transitions due to even larger clusters are observed, but no definite assignments are possible. Mixed (para-H2)N-(ortho-H2)M-N2O cluster line positions can be well predicted by linear interpolation between the corresponding transitions of the pure clusters.

Second cluster integral from the spectrum of an infinite XXZ spin chain

NASA Astrophysics Data System (ADS)

Bibikov, P. N.

2015-03-01

First and second terms of the low-temperature cluster expansion for the free energy density of a magnetically polarized XXZ spin chain is obtained within the propagator approach suggested by E.W. Montroll and J.C. Ward. All the calculations employ only one- and two-magnon infinite-chain spectrums. In the XXX-point the result reproduces the well known S. Katsura's formula obtained 50 years ago by finite-chain calculations.

Exponents of non-linear clustering in scale-free one-dimensional cosmological simulations

NASA Astrophysics Data System (ADS)

Benhaiem, David; Joyce, Michael; Sicard, François

2013-03-01

One-dimensional versions of dissipationless cosmological N-body simulations have been shown to share many qualitative behaviours of the three-dimensional problem. Their interest lies in the fact that they can resolve a much greater range of time and length scales, and admit exact numerical integration. We use such models here to study how non-linear clustering depends on initial conditions and cosmology. More specifically, we consider a family of models which, like the three-dimensional Einstein-de Sitter (EdS) model, lead for power-law initial conditions to self-similar clustering characterized in the strongly non-linear regime by power-law behaviour of the two-point correlation function. We study how the corresponding exponent γ depends on the initial conditions, characterized by the exponent n of the power spectrum of initial fluctuations, and on a single parameter κ controlling the rate of expansion. The space of initial conditions/cosmology divides very clearly into two parts: (1) a region in which γ depends strongly on both n and κ and where it agrees very well with a simple generalization of the so-called stable clustering hypothesis in three dimensions; and (2) a region in which γ is more or less independent of both the spectrum and the expansion of the universe. The boundary in (n, κ) space dividing the `stable clustering' region from the `universal' region is very well approximated by a `critical' value of the predicted stable clustering exponent itself. We explain how this division of the (n, κ) space can be understood as a simple physical criterion which might indeed be expected to control the validity of the stable clustering hypothesis. We compare and contrast our findings to results in three dimensions, and discuss in particular the light they may throw on the question of `universality' of non-linear clustering in this context.

Time-resolved x-ray imaging of a laser-induced nanoplasma and its neutral residuals

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

Fluckiger, L.; Rupp, D.; Adolph, M.

The evolution of individual, large gas-phase xenon clusters, turned into a nanoplasma by a high power infrared laser pulse, is tracked from femtoseconds up to nanoseconds after laser excitation via coherent diffractive imaging, using ultra-short soft x-ray free electron laser pulses. A decline of scattering signal at high detection angles with increasing time delay indicates a softening of the cluster surface. Here we demonstrate, for the first time a representative speckle pattern of a new stage of cluster expansion for xenon clusters after a nanosecond irradiation. The analysis of the measured average speckle size and the envelope of the intensitymore » distribution reveals a mean cluster size and length scale of internal density fluctuations. Furthermore, the measured diffraction patterns were reproduced by scattering simulations which assumed that the cluster expands with pronounced internal density fluctuations hundreds of picoseconds after excitation.« less

Time-resolved x-ray imaging of a laser-induced nanoplasma and its neutral residuals

DOE PAGES

Fluckiger, L.; Rupp, D.; Adolph, M.; ...

2016-04-13

The evolution of individual, large gas-phase xenon clusters, turned into a nanoplasma by a high power infrared laser pulse, is tracked from femtoseconds up to nanoseconds after laser excitation via coherent diffractive imaging, using ultra-short soft x-ray free electron laser pulses. A decline of scattering signal at high detection angles with increasing time delay indicates a softening of the cluster surface. Here we demonstrate, for the first time a representative speckle pattern of a new stage of cluster expansion for xenon clusters after a nanosecond irradiation. The analysis of the measured average speckle size and the envelope of the intensitymore » distribution reveals a mean cluster size and length scale of internal density fluctuations. Furthermore, the measured diffraction patterns were reproduced by scattering simulations which assumed that the cluster expands with pronounced internal density fluctuations hundreds of picoseconds after excitation.« less

BJUT at TREC 2015 Microblog Track: Real-Time Filtering Using Non-negative Matrix Factorization

DTIC Science & Technology

2015-11-20

information to extend the query, al- leviates the problem of concept drift in query expansion. In User profiles Twitter Google Bing accurate ambiguity...index as the query expansion document set; second- ly,put the interest file in twitter search energy to get back the relevant twetts, the interest in...for clustering is demonstrated in Figure 2. We will be the result of the search energy Twitter as the original expression of interest, the initial

Coping with living in the soil: the genome of the parthenogenetic springtail Folsomia candida.

PubMed

Faddeeva-Vakhrusheva, Anna; Kraaijeveld, Ken; Derks, Martijn F L; Anvar, Seyed Yahya; Agamennone, Valeria; Suring, Wouter; Kampfraath, Andries A; Ellers, Jacintha; Le Ngoc, Giang; van Gestel, Cornelis A M; Mariën, Janine; Smit, Sandra; van Straalen, Nico M; Roelofs, Dick

2017-06-28

Folsomia candida is a model in soil biology, belonging to the family of Isotomidae, subclass Collembola. It reproduces parthenogenetically in the presence of Wolbachia, and exhibits remarkable physiological adaptations to stress. To better understand these features and adaptations to life in the soil, we studied its genome in the context of its parthenogenetic lifestyle. We applied Pacific Bioscience sequencing and assembly to generate a reference genome for F. candida of 221.7 Mbp, comprising only 162 scaffolds. The complete genome of its endosymbiont Wolbachia, was also assembled and turned out to be the largest strain identified so far. Substantial gene family expansions and lineage-specific gene clusters were linked to stress response. A large number of genes (809) were acquired by horizontal gene transfer. A substantial fraction of these genes are involved in lignocellulose degradation. Also, the presence of genes involved in antibiotic biosynthesis was confirmed. Intra-genomic rearrangements of collinear gene clusters were observed, of which 11 were organized as palindromes. The Hox gene cluster of F. candida showed major rearrangements compared to arthropod consensus cluster, resulting in a disorganized cluster. The expansion of stress response gene families suggests that stress defense was important to facilitate colonization of soils. The large number of HGT genes related to lignocellulose degradation could be beneficial to unlock carbohydrate sources in soil, especially those contained in decaying plant and fungal organic matter. Intra- as well as inter-scaffold duplications of gene clusters may be a consequence of its parthenogenetic lifestyle. This high quality genome will be instrumental for evolutionary biologists investigating deep phylogenetic lineages among arthropods and will provide the basis for a more mechanistic understanding in soil ecology and ecotoxicology.

Rotational spectra of tetracyclic quinolizidine alkaloids: does a water molecule flip sparteine?

PubMed

Lesarri, Alberto; Pinacho, Ruth; Enríquez, Lourdes; Rubio, José E; Jaraíz, Martín; Abad, José L; Gigosos, Marco A

2017-07-21

Sparteine is a quinolizidine alkaloid used as a chiral auxiliary in asymmetric synthesis. We examine whether hydration by a single molecule can flip sparteine from the most stable trans conformation to the bidentate cis arrangement observed in catalytic complexation to a metal center. Sparteine and the sparteine-water dimer were generated in a supersonic jet expansion with H 2 16 O and H 2 18 O, and characterized by broadband chirped-pulse microwave spectroscopy. Even though the bidentate water dimer was predicted with larger binding energy, a single isomer was observed for the monohydrated cluster, with sparteine retaining the trans conformation observed for the free molecule. The absence of the bidentate dimer is attributed to the kinetic control of cluster formation, favoring the pre-expansion most abundant monomer. The structural properties of the O-HN hydrogen bond in the dimer are compared with those of complexes of other secondary and tertiary amines.

Transport coefficients of Quark-Gluon plasma with full QCD potential

NASA Astrophysics Data System (ADS)

J. P., Prasanth; Bannur, Vishnu M.

2018-05-01

The shear viscosity η, bulk viscosity ζ and their ratio with the entropy density, η / s, ζ / s have been studied in a quark-gluon plasma (QGP) within the cluster expansion method. The cluster expansion method allows us to include the interaction between the partons in the deconfined phase and to calculate the equation of state of quark-gluon plasma. It has been argued that the interactions present in the equation of state, the modified Cornell potential significantly contributes to the viscosity. The results obtained within our approaches agree with lattice quantum chromodynamics (LQCD) equation of state. We obtained η / s ≈ 0 . 128 within the temperature range T /Tc ∈ [ 0 . 9 , 1 . 5 ] which is very close to the theoretical lower bound η / s ≥ 1 /(4 π) in Yang-Mills theory. We also demonstrate that the effects of ζ / s at freezeout are possibly large.

Magnetic cluster expansion simulation and experimental study of high temperature magnetic properties of Fe-Cr alloys.

PubMed

Lavrentiev, M Yu; Mergia, K; Gjoka, M; Nguyen-Manh, D; Apostolopoulos, G; Dudarev, S L

2012-08-15

We present a combined experimental and computational study of high temperature magnetic properties of Fe-Cr alloys with chromium content up to about 20 at.%. The magnetic cluster expansion method is applied to model the magnetic properties of random Fe-Cr alloys, and in particular the Curie transition temperature, as a function of alloy composition. We find that at low (3-6 at.%) Cr content the Curie temperature increases with the increase of Cr concentration. It is maximum at approximately 6 at.% Cr and then decreases for higher Cr content. The same feature is found in thermo-magnetic measurements performed on model Fe-Cr alloys, where a 5 at.% Cr alloy has a higher Curie temperature than pure Fe. The Curie temperatures of 10 and 15 at.% Cr alloys are found to be lower than the Curie temperature of pure Fe.

Multiwavelength Studies of Young OB Associations

NASA Astrophysics Data System (ADS)

Feigelson, Eric D.

We discuss how contemporary multiwavelength observations of young OB-dominated clusters address long-standing astrophysical questions: Do clusters form rapidly or slowly with an age spread? When do clusters expand and disperse to constitute the field star population? Do rich clusters form by amalgamation of smaller subclusters? What is the pattern and duration of cluster formation in massive star forming regions (MSFRs)? Past observational difficulties in obtaining good stellar censuses of MSFRs have been alleviated in recent studies that combine X-ray and infrared surveys to obtain rich, though still incomplete, censuses of young stars in MSFRs. We describe here one of these efforts, the MYStIX project, that produced a catalog of 31,784 probable members of 20 MSFRs. We find that age spread within clusters is real in the sense that the stars in the core formed after the cluster halo. This is consistent with some recent astrophysical models involving merging star-forming filaments. Cluster expansion is seen in the ensemble of (sub)clusters, and older dispersing populations are found across MSFRs. Long-lived, asynchronous star formation is pervasive across MSFRs.

Hydrodynamic clustering of droplets in turbulence

NASA Astrophysics Data System (ADS)

Kunnen, Rudie; Yavuz, Altug; van Heijst, Gertjan; Clercx, Herman

2017-11-01

Small, inertial particles are known to cluster in turbulent flows: particles are centrifuged out of eddies and gather in the strain-dominated regions. This so-called preferential concentration is reflected in the radial distribution function (RDF; a quantitative measure of clustering). We study clustering of water droplets in a loudspeaker-driven turbulence chamber. We track the motion of droplets in 3D and calculate the RDF. At moderate scales (a few Kolmogorov lengths) we find the typical power-law scaling of preferential concentration in the RDF. However, at even smaller scales (a few droplet diameters), we encounter a hitherto unobserved additional clustering. We postulate that the additional clustering is due to hydrodynamic interactions, an effect which is typically disregarded in modeling. Using a perturbative expansion of inertial effects in a Stokes-flow description of two interacting spheres, we obtain an expression for the RDF which indeed includes the additional clustering. The additional clustering enhances the collision probability of droplets, which enhances their growth rate due to coalescence. The additional clustering is thus an essential effect in precipitation modeling.

Identification of a current hot spot of HIV type 1 transmission in Mongolia by molecular epidemiological analysis.

PubMed

Davaalkham, Jagdagsuren; Unenchimeg, Puntsag; Baigalmaa, Chultem; Erdenetuya, Gombo; Nyamkhuu, Dulmaa; Shiino, Teiichiro; Tsuchiya, Kiyoto; Hayashida, Tsunefusa; Gatanaga, Hiroyuki; Oka, Shinichi

2011-10-01

We investigated the current molecular epidemiological status of HIV-1 in Mongolia, a country with very low incidence of HIV-1 though with rapid expansion in recent years. HIV-1 pol (1065 nt) and env (447 nt) genes were sequenced to construct phylogenetic trees. The evolutionary rates, molecular clock phylogenies, and other evolutionary parameters were estimated from heterochronous genomic sequences of HIV-1 subtype B by the Bayesian Markov chain Monte Carlo method. We obtained 41 sera from 56 reported HIV-1-positive cases as of May 2009. The main route of infection was men who have sex with men (MSM). Dominant subtypes were subtype B in 32 cases (78%) followed by subtype CRF02_AG (9.8%). The phylogenetic analysis of the pol gene identified two clusters in subtype B sequences. Cluster 1 consisted of 21 cases including MSM and other routes of infection, and cluster 2 consisted of eight MSM cases. The tree analyses demonstrated very short branch lengths in cluster 1, suggesting a surprisingly active expansion of HIV-1 transmission during a short period with the same ancestor virus. Evolutionary analysis indicated that the outbreak started around the early 2000s. This study identified a current hot spot of HIV-1 transmission and potential seed of the epidemic in Mongolia. Comprehensive preventive measures targeting this group are urgently needed.

Electron attenuation in free, neutral ethane clusters.

PubMed

Winkler, M; Myrseth, V; Harnes, J; Børve, K J

2014-10-28

The electron effective attenuation length (EAL) in free, neutral ethane clusters has been determined at 40 eV kinetic energy by combining carbon 1s x-ray photoelectron spectroscopy and theoretical lineshape modeling. More specifically, theory is employed to form model spectra on a grid in cluster size (N) and EAL (λ), allowing N and λ to be determined by optimizing the goodness-of-fit χ(2)(N, λ) between model and observed spectra. Experimentally, the clusters were produced in an adiabatic-expansion setup using helium as the driving gas, spanning a range of 100-600 molecules in mean cluster size. The effective attenuation length was determined to be 8.4 ± 1.9 Å, in good agreement with an independent estimate of 10 Å formed on the basis of molecular electron-scattering data and Monte Carlo simulations. The aggregation state of the clusters as well as the cluster temperature and its importance to the derived EAL value are discussed in some depth.

Photoinduced intermolecular dynamics and subsequent fragmentation in VUV-ionized acetamide clusters

NASA Astrophysics Data System (ADS)

Tarkanovskaja, Marta; Kooser, Kuno; Levola, Helena; Nõmmiste, Ergo; Kukk, Edwin

2016-09-01

Photofragmentation of small gas-phase acetamide clusters (CH3CONH2)n (n ≤ 10) produced by a supersonic expansion source has been studied using time-of-flight ion mass spectroscopy combined with tunable vacuum-ultraviolet (VUV) synchrotron radiation. Fragmentation channels of acetamide clusters under VUV photoionization resulting in protonated and ammoniated clusters formation were identified with the discussion about the preceding intramolecular rearrangements. Acetamide-2,2,2-d3 clusters were also studied in an experiment with a gas discharge lamp as a VUV light source; comparison with the main experiment gave insights into the mechanism of formation of protonated acetamide clusters, indicating that proton transfer from amino group plays a dominant role in that process. Geometry of the acetamide dimer was discussed and the most stable arrangement was concluded to be achieved when subunits of the dimer are connected via two N—H⋯O —C hydrogen bonds. Also, the influence of the photon energy on the stability of the clusters and their fragmentation channels has been examined.

Detection of Another Molecular Bubble in the Galactic Center

NASA Astrophysics Data System (ADS)

Tsujimoto, Shiho; Oka, Tomoharu; Takekawa, Shunya; Yamada, Masaya; Tokuyama, Sekito; Iwata, Yuhei; Roll, Justin A.

2018-04-01

The l=-1\\buildrel{\\circ}\\over{.} 2 region in the Galactic center has a high CO J = 3–2/J = 1–0 intensity ratio and extremely broad velocity width. This paper reports the detection of five expanding shells in the l=-1\\buildrel{\\circ}\\over{.} 2 region based on the CO J = 1–0, 13CO J = 1–0, CO J = 3–2, and SiO J = 8–7 line data sets obtained with the Nobeyama Radio Observatory 45 m telescope and James Clerk Maxwell Telescope. The kinetic energy and expansion time of the expanding shells are estimated to be {10}48.3{--50.8} erg and {10}4.7{--5.0} yr, respectively. The origin of these expanding shells is discussed. The total kinetic energy of 1051 erg and the typical expansion time of ∼105 yr correspond to multiple supernova explosions at a rate of 10‑5–10‑4 yr‑1. This indicates that the l=-1\\buildrel{\\circ}\\over{.} 2 region may be a molecular bubble associated with an embedded massive star cluster, although the absence of an infrared counterpart makes this interpretation somewhat controversial. The expansion time of the shells increases as the Galactic longitude decreases, suggesting that the massive star cluster is moving from Galactic west to east with respect to the interacting molecular gas. We propose a model wherein the cluster is moving along the innermost x 1 orbit and the interacting gas collides with it from the Galactic eastern side.

Cluster expansion modeling and Monte Carlo simulation of alnico 5–7 permanent magnets

DOE PAGES

Nguyen, Manh Cuong; Zhao, Xin; Wang, Cai -Zhuang; ...

2015-03-05

The concerns about the supply and resource of rare earth (RE) metals have generated a lot of interests in searching for high performance RE-free permanent magnets. Alnico alloys are traditional non-RE permanent magnets and have received much attention recently due their good performance at high temperature. In this paper, we develop an accurate and efficient cluster expansion energy model for alnico 5–7. Monte Carlo simulations using the cluster expansion method are performed to investigate the structure of alnico 5–7 at atomistic and nano scales. The alnico 5–7 master alloy is found to decompose into FeCo-rich and NiAl-rich phases at lowmore » temperature. The boundary between these two phases is quite sharp (~2 nm) for a wide range of temperature. The compositions of the main constituents in these two phases become higher when the temperature gets lower. Both FeCo-rich and NiAl-rich phases are in B2 ordering with Fe and Al on α-site and Ni and Co on β-site. The degree of order of the NiAl-rich phase is much higher than that of the FeCo-rich phase. In addition, a small magnetic moment is also observed in NiAl-rich phase but the moment reduces as the temperature is lowered, implying that the magnetic properties of alnico 5–7 could be improved by lowering annealing temperature to diminish the magnetism in NiAl-rich phase. Furthermore, the results from our Monte Carlo simulations are consistent with available experimental results.« less

Cluster expansion modeling and Monte Carlo simulation of alnico 5-7 permanent magnets

NASA Astrophysics Data System (ADS)

Nguyen, Manh Cuong; Zhao, Xin; Wang, Cai-Zhuang; Ho, Kai-Ming

2015-03-01

The concerns about the supply and resource of rare earth (RE) metals have generated a lot of interests in searching for high performance RE-free permanent magnets. Alnico alloys are traditional non-RE permanent magnets and have received much attention recently due their good performance at high temperature. In this paper, we develop an accurate and efficient cluster expansion energy model for alnico 5-7. Monte Carlo simulations using the cluster expansion method are performed to investigate the structure of alnico 5-7 at atomistic and nano scales. The alnico 5-7 master alloy is found to decompose into FeCo-rich and NiAl-rich phases at low temperature. The boundary between these two phases is quite sharp (˜2 nm) for a wide range of temperature. The compositions of the main constituents in these two phases become higher when the temperature gets lower. Both FeCo-rich and NiAl-rich phases are in B2 ordering with Fe and Al on α-site and Ni and Co on β-site. The degree of order of the NiAl-rich phase is much higher than that of the FeCo-rich phase. A small magnetic moment is also observed in NiAl-rich phase but the moment reduces as the temperature is lowered, implying that the magnetic properties of alnico 5-7 could be improved by lowering annealing temperature to diminish the magnetism in NiAl-rich phase. The results from our Monte Carlo simulations are consistent with available experimental results.

Relativistic coupled cluster theory based on the no-pair Dirac-Coulomb-Breit Hamiltonian: Relativistic pair correlation energies of the Xe atom

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

Eliav, E.; Kaldor, U.; Ishikawa, Y.

1994-12-31

Relativistic pair correlation energies of Xe were computed by employing a recently developed relativistic coupled cluster theory based on the no-pair Dirac-Coulomb-Breit Hamiltonian. The matrix Dirac-Fock-Breit SCF and relativistic coupled cluster calculations were performed by means of expansion in basis sets of well-tempered Gaussian spinors. A detailed study of the pair correlation energies in Xe is performed, in order to investigate the effects of the low-frequency Breit interaction on the correlation energies of Xe. Nonadditivity of correlation and relativistic (particularly Breit) effects is discussed.

Influence of laser frequency chirp on deuteron energy from laser-driven deuterated methane cluster expansion

NASA Astrophysics Data System (ADS)

Li, H. Y.; Liu, J. S.

2010-06-01

The simulations of three-dimensional particle dynamics are carried out to investigate the Coulomb explosion dynamics of deuterated methane clusters under the irradiation of an ultrashort intense laser pulse. The final kinetic energy of deuterons produced from the cluster explosion is calculated as a function of the pulse width, the laser intensity and the pulse chirp. It is found that the deuteron energy obtained in an intense laser pulse with negative chirp is higher than that with positive chirp, which agrees qualitatively with the experimental results reported by Fukuda et al. [Y. Fukuda et al., Phys. Rev. A 67, 061201 (2003)].

Giant Spherical Cluster with I-C140 Fullerene Topology**

PubMed Central

Heinl, Sebastian; Peresypkina, Eugenia; Sutter, Jörg; Scheer, Manfred

2015-01-01

We report on an effective cluster expansion of CuBr-linked aggregates by the increase of the steric bulk of the CpR ligand in the pentatopic molecules [CpRFe(η5-P5)]. Using [CpBIGFe(η5-P5)] (CpBIG=C5(4-nBuC6H4)5), the novel multishell aggregate [{CpBIGFe(η5:2:1:1:1:1:1-P5)}12(CuBr)92] is obtained. It shows topological analogy to the theoretically predicted I-C140 fullerene molecule. The spherical cluster was comprehensively characterized by various methods in solution and in the solid state. PMID:26411255

Brome isotope selective control of CF3Br molecule clustering by IR laser radiation in gas-dynamic expansion of CF3Br - Ar mixture

NASA Astrophysics Data System (ADS)

Apatin, V. M.; Lokhman, V. N.; Makarov, G. N.; Ogurok, N.-D. D.; Ryabov, E. A.

2018-02-01

We report the results of research on the experimental control of CF3Br molecule clustering under gas-dynamic expansion of the CF3Br - Ar mixture at a nozzle exit by using IR laser radiation. A cw CO2 laser is used for exciting molecules and clusters in the beam and a time-of-flight mass-spectrometer with laser UV ionisation of particles for their detection. The parameters of the gas above the nozzle are determined (compositions and pressure) at which intensive molecule clustering occurs. It is found that in the case of the CF3Br gas without carrier when the pressure P0 above the nozzle does not exceed 4 atm, molecular clusters actually are not generated in the beam. If the gas mixture of CF3Br with argon is used at a pressure ratio 1 : N, where N >= 3, and the total pressure above the nozzle is P0 >= 2 atm, then there occurs molecule clustering. We study the dependences of the efficiency of suppressing the molecule clustering on parameters of the exciting pulse, gas parameters above the nozzle, and on a distance of the molecule irradiation zone from the nozzle exit section. It is shown that in the case of resonant vibrational excitation of gas-dynamically cooled CF3Br molecules at the nozzle exit one can realise isotope-selective suppression of molecule clustering with respect to bromine isotopes. With the CF3Br - Ar mixtures having the pressure ratio 1 : 3 and 1 : 15, the enrichment factors obtained with respect to bromine isotopes are kenr ≈ 1.05 ± 0.005 and kenr ≈ 1.06 ± 0.007, respectively, under jet irradiation by laser emission in the 9R(30) line (1084.635 cm-1). The results obtained let us assume that this method can be used to control clustering of molecules comprising heavy element isotopes, which have a small isotopic shift in IR absorption spectra.

Tuberculosis outbreaks predicted by characteristics of first patients in a DNA fingerprint cluster.

PubMed

Kik, Sandra V; Verver, Suzanne; van Soolingen, Dick; de Haas, Petra E W; Cobelens, Frank G; Kremer, Kristin; van Deutekom, Henk; Borgdorff, Martien W

2008-07-01

Some clusters of patients who have Mycobacterium tuberculosis isolates with identical DNA fingerprint patterns grow faster than others. It is unclear what predictors determine cluster growth. To assess whether the development of a tuberculosis (TB) outbreak can be predicted by the characteristics of its first two patients. Demographic and clinical data of all culture-confirmed patients with TB in the Netherlands from 1993 through 2004 were combined with DNA fingerprint data. Clusters were restricted to cluster episodes of 2 years to only detect newly arising clusters. Characteristics of the first two patients were compared between small (2-4 cases) and large (5 or more cases) cluster episodes. Of 5,454 clustered cases, 1,756 (32%) were part of a cluster episode of 2 years. Of 622 cluster episodes, 54 (9%) were large and 568 (91%) were small episodes. Independent predictors for large cluster episodes were as follows: less than 3 months' time between the diagnosis of the first two patients, one or both patients were young (<35 yr), both patients lived in an urban area, and both patients came from sub-Saharan Africa. In the Netherlands, patients in new cluster episodes should be screened for these risk factors. When the risk pattern applies, targeted interventions (e.g., intensified contact investigation) should be considered to prevent further cluster expansion.

Recombination-enhanced surface expansion of clusters in intense soft x-ray laser pulses

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

Rupp, Daniela; Flückiger, Leonie; Adolph, Marcus

Here, we studied the nanoplasma formation and explosion dynamics of single large xenon clusters in ultrashort, intense x-ray free-electron laser pulses via ion spectroscopy. The simultaneous measurement of single-shot diffraction images enabled a single-cluster analysis that is free from any averaging over the cluster size and laser intensity distributions. The measured charge state-resolved ion energy spectra show narrow distributions with peak positions that scale linearly with final ion charge state. These two distinct signatures are attributed to highly efficient recombination that eventually leads to the dominant formation of neutral atoms in the cluster. The measured mean ion energies exceed themore » value expected without recombination by more than an order of magnitude, indicating that the energy release resulting from electron-ion recombination constitutes a previously unnoticed nanoplasma heating process. This conclusion is supported by results from semiclassical molecular dynamics simulations.« less

Recombination-enhanced surface expansion of clusters in intense soft x-ray laser pulses

DOE PAGES

Rupp, Daniela; Flückiger, Leonie; Adolph, Marcus; ...

2016-10-07

Here, we studied the nanoplasma formation and explosion dynamics of single large xenon clusters in ultrashort, intense x-ray free-electron laser pulses via ion spectroscopy. The simultaneous measurement of single-shot diffraction images enabled a single-cluster analysis that is free from any averaging over the cluster size and laser intensity distributions. The measured charge state-resolved ion energy spectra show narrow distributions with peak positions that scale linearly with final ion charge state. These two distinct signatures are attributed to highly efficient recombination that eventually leads to the dominant formation of neutral atoms in the cluster. The measured mean ion energies exceed themore » value expected without recombination by more than an order of magnitude, indicating that the energy release resulting from electron-ion recombination constitutes a previously unnoticed nanoplasma heating process. This conclusion is supported by results from semiclassical molecular dynamics simulations.« less

CytoCluster: A Cytoscape Plugin for Cluster Analysis and Visualization of Biological Networks.

PubMed

Li, Min; Li, Dongyan; Tang, Yu; Wu, Fangxiang; Wang, Jianxin

2017-08-31

Nowadays, cluster analysis of biological networks has become one of the most important approaches to identifying functional modules as well as predicting protein complexes and network biomarkers. Furthermore, the visualization of clustering results is crucial to display the structure of biological networks. Here we present CytoCluster, a cytoscape plugin integrating six clustering algorithms, HC-PIN (Hierarchical Clustering algorithm in Protein Interaction Networks), OH-PIN (identifying Overlapping and Hierarchical modules in Protein Interaction Networks), IPCA (Identifying Protein Complex Algorithm), ClusterONE (Clustering with Overlapping Neighborhood Expansion), DCU (Detecting Complexes based on Uncertain graph model), IPC-MCE (Identifying Protein Complexes based on Maximal Complex Extension), and BinGO (the Biological networks Gene Ontology) function. Users can select different clustering algorithms according to their requirements. The main function of these six clustering algorithms is to detect protein complexes or functional modules. In addition, BinGO is used to determine which Gene Ontology (GO) categories are statistically overrepresented in a set of genes or a subgraph of a biological network. CytoCluster can be easily expanded, so that more clustering algorithms and functions can be added to this plugin. Since it was created in July 2013, CytoCluster has been downloaded more than 9700 times in the Cytoscape App store and has already been applied to the analysis of different biological networks. CytoCluster is available from http://apps.cytoscape.org/apps/cytocluster.

CytoCluster: A Cytoscape Plugin for Cluster Analysis and Visualization of Biological Networks

PubMed Central

Li, Min; Li, Dongyan; Tang, Yu; Wang, Jianxin

2017-01-01

Nowadays, cluster analysis of biological networks has become one of the most important approaches to identifying functional modules as well as predicting protein complexes and network biomarkers. Furthermore, the visualization of clustering results is crucial to display the structure of biological networks. Here we present CytoCluster, a cytoscape plugin integrating six clustering algorithms, HC-PIN (Hierarchical Clustering algorithm in Protein Interaction Networks), OH-PIN (identifying Overlapping and Hierarchical modules in Protein Interaction Networks), IPCA (Identifying Protein Complex Algorithm), ClusterONE (Clustering with Overlapping Neighborhood Expansion), DCU (Detecting Complexes based on Uncertain graph model), IPC-MCE (Identifying Protein Complexes based on Maximal Complex Extension), and BinGO (the Biological networks Gene Ontology) function. Users can select different clustering algorithms according to their requirements. The main function of these six clustering algorithms is to detect protein complexes or functional modules. In addition, BinGO is used to determine which Gene Ontology (GO) categories are statistically overrepresented in a set of genes or a subgraph of a biological network. CytoCluster can be easily expanded, so that more clustering algorithms and functions can be added to this plugin. Since it was created in July 2013, CytoCluster has been downloaded more than 9700 times in the Cytoscape App store and has already been applied to the analysis of different biological networks. CytoCluster is available from http://apps.cytoscape.org/apps/cytocluster. PMID:28858211

Evaluation of cluster expansions and correlated one-body properties of nuclei

NASA Astrophysics Data System (ADS)

Moustakidis, Ch. C.; Massen, S. E.; Panos, C. P.; Grypeos, M. E.; Antonov, A. N.

2001-07-01

Three different cluster expansions for the evaluation of correlated one-body properties of s-p and s-d shell nuclei are compared. Harmonic oscillator wave functions and Jastrow-type correlations are used, while analytical expressions are obtained for the charge form factor, density distribution, and momentum distribution by truncating the expansions and using a standard Jastrow correlation function f. The harmonic oscillator parameter b and the correlation parameter β have been determined by a least-squares fit to the experimental charge form factors in each case. The information entropy of nuclei in position space (Sr) and momentum space (Sk) according to the three methods are also calculated. It is found that the larger the entropy sum, S=Sr+Sk (the net information content of the system), the smaller the values of χ2. This indicates that maximal S is a criterion of the quality of a given nuclear model, according to the maximum entropy principle. Only two exceptions to this rule, out of many cases examined, were found. Finally an analytic expression for the so-called ``healing'' or ``wound'' integrals is derived with the function f considered, for any state of the relative two-nucleon motion, and their values in certain cases are computed and compared.

Wiggler magnetic field assisted third harmonic generation in expanding clusters

NASA Astrophysics Data System (ADS)

Vij, Shivani

2018-04-01

A simple theoretical model is constructed to study the wiggler magnetic field assisted third harmonic generation of intense short pulse laser in a cluster in its expanding phase. The ponderomotive force of laser causes density perturbations in cluster electron density which couples with wiggler magnetic field to produce a nonlinear current that generates transverse third harmonic. An intense short pulse laser propagating through a gas embedded with atomic clusters, converts it into hot plasma balls via tunnel ionization. Initially, the electron plasma frequency inside the clusters ω pe > \\sqrt{3}{ω }1 (with ω 1 being the frequency of the laser). As the cluster expands under Coulomb force and hydrodynamic pressure, ω pe decreases to \\sqrt{3}{ω }1. At this time, there is resonant enhancement in the efficiency of the third harmonic generation. The efficiency of third harmonic generation is enhanced due to cluster plasmon resonance and by phase matching due to wiggler magnetic field. The effect of cluster size on the expansion rate is studied to observe that the clusters of different radii would expand differently. The impact of laser intensity and wiggler magnetic field on the efficiency of third harmonic generation is also explored.

The Tolman Surface Brightness Test for the Reality of the Expansion. V. Provenance of the Test and a New Representation of the Data for Three Remote Hubble Space Telescope Galaxy Clusters

NASA Astrophysics Data System (ADS)

Sandage, Allan

2010-02-01

A new reduction is made of the Hubble Space Telescope (HST) photometric data for E galaxies in three remote clusters at redshifts near z = 0.85 in search for the Tolman surface brightness (SB) signal for the reality of the expansion. Because of the strong variation of SB of such galaxies with intrinsic size, and because the Tolman test is about SB, we must account for the variation. In an earlier version of the test, Lubin & Sandage calibrated the variation out. In contrast, the test is made here using fixed radius bins for both the local and remote samples. Homologous positions in the galaxy image at which to compare the SB values are defined by radii at five Petrosian η values ranging from 1.0 to 2.0. Sérsic luminosity profiles are used to generate two diagnostic diagrams that define the mean SB distribution across the galaxy image. A Sérsic exponent, defined by the rn family of Sérsic profiles, of n = 0.46 fits both the local and remote samples, on average, with only a small spread from 0.4 to 0.6. Diagrams of the dimming of the langSBrang with redshift over the range of Petrosian η radii shows a highly significant Tolman signal but degraded by luminosity evolution in the look-back time. The expansion is real and a luminosity evolution exists at the mean redshift of the HST clusters of 0.8 mag in R cape and 0.4 mag in the I cape photometric rest-frame bands, consistent with the evolution models of Bruzual & Charlot.

Large-scale galaxy bias

NASA Astrophysics Data System (ADS)

Jeong, Donghui; Desjacques, Vincent; Schmidt, Fabian

2018-01-01

Here, we briefly introduce the key results of the recent review (arXiv:1611.09787), whose abstract is as following. This review presents a comprehensive overview of galaxy bias, that is, the statistical relation between the distribution of galaxies and matter. We focus on large scales where cosmic density fields are quasi-linear. On these scales, the clustering of galaxies can be described by a perturbative bias expansion, and the complicated physics of galaxy formation is absorbed by a finite set of coefficients of the expansion, called bias parameters. The review begins with a detailed derivation of this very important result, which forms the basis of the rigorous perturbative description of galaxy clustering, under the assumptions of General Relativity and Gaussian, adiabatic initial conditions. Key components of the bias expansion are all leading local gravitational observables, which include the matter density but also tidal fields and their time derivatives. We hence expand the definition of local bias to encompass all these contributions. This derivation is followed by a presentation of the peak-background split in its general form, which elucidates the physical meaning of the bias parameters, and a detailed description of the connection between bias parameters and galaxy (or halo) statistics. We then review the excursion set formalism and peak theory which provide predictions for the values of the bias parameters. In the remainder of the review, we consider the generalizations of galaxy bias required in the presence of various types of cosmological physics that go beyond pressureless matter with adiabatic, Gaussian initial conditions: primordial non-Gaussianity, massive neutrinos, baryon-CDM isocurvature perturbations, dark energy, and modified gravity. Finally, we discuss how the description of galaxy bias in the galaxies' rest frame is related to clustering statistics measured from the observed angular positions and redshifts in actual galaxy catalogs.

Large-scale galaxy bias

NASA Astrophysics Data System (ADS)

Desjacques, Vincent; Jeong, Donghui; Schmidt, Fabian

2018-02-01

This review presents a comprehensive overview of galaxy bias, that is, the statistical relation between the distribution of galaxies and matter. We focus on large scales where cosmic density fields are quasi-linear. On these scales, the clustering of galaxies can be described by a perturbative bias expansion, and the complicated physics of galaxy formation is absorbed by a finite set of coefficients of the expansion, called bias parameters. The review begins with a detailed derivation of this very important result, which forms the basis of the rigorous perturbative description of galaxy clustering, under the assumptions of General Relativity and Gaussian, adiabatic initial conditions. Key components of the bias expansion are all leading local gravitational observables, which include the matter density but also tidal fields and their time derivatives. We hence expand the definition of local bias to encompass all these contributions. This derivation is followed by a presentation of the peak-background split in its general form, which elucidates the physical meaning of the bias parameters, and a detailed description of the connection between bias parameters and galaxy statistics. We then review the excursion-set formalism and peak theory which provide predictions for the values of the bias parameters. In the remainder of the review, we consider the generalizations of galaxy bias required in the presence of various types of cosmological physics that go beyond pressureless matter with adiabatic, Gaussian initial conditions: primordial non-Gaussianity, massive neutrinos, baryon-CDM isocurvature perturbations, dark energy, and modified gravity. Finally, we discuss how the description of galaxy bias in the galaxies' rest frame is related to clustering statistics measured from the observed angular positions and redshifts in actual galaxy catalogs.

Parallel kinetic Monte Carlo simulation framework incorporating accurate models of adsorbate lateral interactions

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

Nielsen, Jens; D’Avezac, Mayeul; Hetherington, James

2013-12-14

Ab initio kinetic Monte Carlo (KMC) simulations have been successfully applied for over two decades to elucidate the underlying physico-chemical phenomena on the surfaces of heterogeneous catalysts. These simulations necessitate detailed knowledge of the kinetics of elementary reactions constituting the reaction mechanism, and the energetics of the species participating in the chemistry. The information about the energetics is encoded in the formation energies of gas and surface-bound species, and the lateral interactions between adsorbates on the catalytic surface, which can be modeled at different levels of detail. The majority of previous works accounted for only pairwise-additive first nearest-neighbor interactions. Moremore » recently, cluster-expansion Hamiltonians incorporating long-range interactions and many-body terms have been used for detailed estimations of catalytic rate [C. Wu, D. J. Schmidt, C. Wolverton, and W. F. Schneider, J. Catal. 286, 88 (2012)]. In view of the increasing interest in accurate predictions of catalytic performance, there is a need for general-purpose KMC approaches incorporating detailed cluster expansion models for the adlayer energetics. We have addressed this need by building on the previously introduced graph-theoretical KMC framework, and we have developed Zacros, a FORTRAN2003 KMC package for simulating catalytic chemistries. To tackle the high computational cost in the presence of long-range interactions we introduce parallelization with OpenMP. We further benchmark our framework by simulating a KMC analogue of the NO oxidation system established by Schneider and co-workers [J. Catal. 286, 88 (2012)]. We show that taking into account only first nearest-neighbor interactions may lead to large errors in the prediction of the catalytic rate, whereas for accurate estimates thereof, one needs to include long-range terms in the cluster expansion.« less

On star formation in stellar systems. I - Photoionization effects in protoglobular clusters

NASA Technical Reports Server (NTRS)

Tenorio-Tagle, G.; Bodenheimer, P.; Lin, D. N. C.; Noriega-Crespo, A.

1986-01-01

The progressive ionization and subsequent dynamical evolution of nonhomogeneously distributed low-metal-abundance diffuse gas after star formation in globular clusters are investigated analytically, taking the gravitational acceleration due to the stars into account. The basic equations are derived; the underlying assumptions, input parameters, and solution methods are explained; and numerical results for three standard cases (ionization during star formation, ionization during expansion, and evolution resulting in a stable H II region at its equilibrium Stromgren radius) are presented in graphs and characterized in detail. The time scale of residual-gas loss in typical clusters is found to be about the same as the lifetime of a massive star on the main sequence.

Cluster beam targets for laser plasma extreme ultraviolet and soft x-ray sources

DOEpatents

Kublak, G.D.; Richardson, M.C.

1996-11-19

Method and apparatus for producing extreme ultraviolet (EUV) and soft x-ray radiation from an ultra-low debris plasma source are disclosed. Targets are produced by the free jet expansion of various gases through a temperature controlled nozzle to form molecular clusters. These target clusters are subsequently irradiated with commercially available lasers of moderate intensity (10{sup 11}--10{sup 12} watts/cm{sup 2}) to produce a plasma radiating in the region of 0.5 to 100 nanometers. By appropriate adjustment of the experimental conditions the laser focus can be moved 10--30 mm from the nozzle thereby eliminating debris produced by plasma erosion of the nozzle. 5 figs.

Cluster beam targets for laser plasma extreme ultraviolet and soft x-ray sources

DOEpatents

Kublak, Glenn D.; Richardson, Martin C. (CREOL

1996-01-01

Method and apparatus for producing extreme ultra violet (EUV) and soft x-ray radiation from an ultra-low debris plasma source are disclosed. Targets are produced by the free jet expansion of various gases through a temperature controlled nozzle to form molecular clusters. These target clusters are subsequently irradiated with commercially available lasers of moderate intensity (10.sup.11 -10.sup.12 watts/cm.sup.2) to produce a plasma radiating in the region of 0.5 to 100 nanometers. By appropriate adjustment of the experimental conditions the laser focus can be moved 10-30 mm from the nozzle thereby eliminating debris produced by plasma erosion of the nozzle.

Giant Spherical Cluster with I-C140 Fullerene Topology.

PubMed

Heinl, Sebastian; Peresypkina, Eugenia; Sutter, Jörg; Scheer, Manfred

2015-11-02

We report on an effective cluster expansion of CuBr-linked aggregates by the increase of the steric bulk of the Cp(R) ligand in the pentatopic molecules [Cp(R)Fe(η(5)-P5)]. Using [Cp(BIG)Fe(η(5)-P5)] (Cp(BIG)=C5(4-nBuC6H4)5), the novel multishell aggregate [{Cp(BIG)Fe(η(5:2:1:1:1:1:1)-P5)}12(CuBr)92] is obtained. It shows topological analogy to the theoretically predicted I-C140 fullerene molecule. The spherical cluster was comprehensively characterized by various methods in solution and in the solid state. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Reexamining organizational configurations: an update, validation, and expansion of the taxonomy of health networks and systems.

PubMed

Dubbs, Nicole L; Bazzoli, Gloria J; Shortell, Stephen M; Kralovec, Peter D

2004-02-01

To (a) assess how the original cluster categories of hospital-led health networks and systems have changed over time; (b) identify any new patterns of cluster configurations; and (c) demonstrate how additional data can be used to refine and enhance the taxonomy measures. DATA SOURCES; 1994 and 1998 American Hospital Association (AHA) Annual Survey of Hospitals. As in the original taxonomy, separate cluster solutions are identified for health networks and health systems by applying three strategic/structural dimensions (differentiation, integration, and centralization) to three components of the health service/product continuum (hospital services, physician arrangements, and provider-based insurance activities). Factor, cluster, and discriminant analyses are used to analyze the 1998 data. Descriptive and comparative methods are used to analyze the updated 1998 taxonomy relative to the original 1994 version. The 1998 cluster categories are similar to the original taxonomy, however, they reveal some new organizational configurations. For the health networks, centralization of product/service lines is occurring more selectively than in the past. For the health systems, participation has grown in and dispersed across a more diverse set of decentralized organizational forms. For both networks and systems, the definition of centralization has changed over time. In its updated form, the taxonomy continues to provide policymakers and practitioners with a descriptive and contextual framework against which to assess organizational programs and policies. There is a need to continue to revisit the taxonomy from time to time because of the persistent evolution of the U.S. health care industry and the consequent shifting of organizational configurations in this arena. There is also value in continuing to move the taxonomy in the direction of refinement/expansion as new opportunities become available.

Friedreich's Ataxia Variants I154F and W155R Diminish Frataxin-Based Activation of the Iron-Sulfur Cluster Assembly Complex

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

Tsai, Chi-Lin; Bridwell-Rabb, Jennifer; Barondeau, David P

2011-11-07

Friedreich's ataxia (FRDA) is a progressive neurodegenerative disease that has been linked to defects in the protein frataxin (Fxn). Most FRDA patients have a GAA expansion in the first intron of their Fxn gene that decreases protein expression. Some FRDA patients have a GAA expansion on one allele and a missense mutation on the other allele. Few functional details are known for the ~15 different missense mutations identified in FRDA patients. Here in vitro evidence is presented that indicates the FRDA I154F and W155R variants bind more weakly to the complex of Nfs1, Isd11, and Isu2 and thereby are defectivemore » in forming the four-component SDUF complex that constitutes the core of the Fe-S cluster assembly machine. The binding affinities follow the trend Fxn ~ I154F > W155F > W155A ~ W155R. The Fxn variants also have diminished ability to function as part of the SDUF complex to stimulate the cysteine desulfurase reaction and facilitate Fe-S cluster assembly. Four crystal structures, including the first for a FRDA variant, reveal specific rearrangements associated with the loss of function and lead to a model for Fxn-based activation of the Fe-S cluster assembly complex. Importantly, the weaker binding and lower activity for FRDA variants correlate with the severity of disease progression. Together, these results suggest that Fxn facilitates sulfur transfer from Nfs1 to Isu2 and that these in vitro assays are sensitive and appropriate for deciphering functional defects and mechanistic details for human Fe-S cluster biosynthesis.« less

Momentum-space cluster dual-fermion method

NASA Astrophysics Data System (ADS)

Iskakov, Sergei; Terletska, Hanna; Gull, Emanuel

2018-03-01

Recent years have seen the development of two types of nonlocal extensions to the single-site dynamical mean field theory. On one hand, cluster approximations, such as the dynamical cluster approximation, recover short-range momentum-dependent correlations nonperturbatively. On the other hand, diagrammatic extensions, such as the dual-fermion theory, recover long-ranged corrections perturbatively. The correct treatment of both strong short-ranged and weak long-ranged correlations within the same framework is therefore expected to lead to a quick convergence of results, and offers the potential of obtaining smooth self-energies in nonperturbative regimes of phase space. In this paper, we present an exact cluster dual-fermion method based on an expansion around the dynamical cluster approximation. Unlike previous formulations, our method does not employ a coarse-graining approximation to the interaction, which we show to be the leading source of error at high temperature, and converges to the exact result independently of the size of the underlying cluster. We illustrate the power of the method with results for the second-order cluster dual-fermion approximation to the single-particle self-energies and double occupancies.

Early dynamical evolution of young substructured clusters

NASA Astrophysics Data System (ADS)

Dorval, Julien; Boily, Christian

2017-03-01

Stellar clusters form with a high level of substructure, inherited from the molecular cloud and the star formation process. Evidence from observations and simulations also indicate the stars in such young clusters form a subvirial system. The subsequent dynamical evolution can cause important mass loss, ejecting a large part of the birth population in the field. It can also imprint the stellar population and still be inferred from observations of evolved clusters. Nbody simulations allow a better understanding of these early twists and turns, given realistic initial conditions. Nowadays, substructured, clumpy young clusters are usually obtained through pseudo-fractal growth and velocity inheritance. We introduce a new way to create clumpy initial conditions through a ''Hubble expansion'' which naturally produces self consistent clumps, velocity-wise. In depth analysis of the resulting clumps shows consistency with hydrodynamical simulations of young star clusters. We use these initial conditions to investigate the dynamical evolution of young subvirial clusters. We find the collapse to be soft, with hierarchical merging leading to a high level of mass segregation. The subsequent evolution is less pronounced than the equilibrium achieved from a cold collapse formation scenario.

Supercritical fluid molecular spray film deposition and powder formation

DOEpatents

Smith, Richard D.

1986-01-01

Solid films are deposited, or fine powders formed, by dissolving a solid material into a supercritical fluid solution at an elevated pressure and then rapidly expanding the solution through a short orifice into a region of relatively low pressure. This produces a molecular spray which is directed against a substrate to deposit a solid thin film thereon, or discharged into a collection chamber to collect a fine powder. Upon expansion and supersonic interaction with background gases in the low pressure region, any clusters of solvent are broken up and the solvent is vaporized and pumped away. Solute concentration in the solution is varied primarily by varying solution pressure to determine, together with flow rate, the rate of deposition and to control in part whether a film or powder is produced and the granularity of each. Solvent clustering and solute nucleation are controlled by manipulating the rate of expansion of the solution and the pressure of the lower pressure region. Solution and low pressure region temperatures are also controlled.

Investigation of the on-axis atom number density in the supersonic gas jet under high gas backing pressure by simulation

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

Chen, Guanglong; Xu, Yi; Cao, Yunjiu

The supersonic gas jets from conical nozzles are simulated using 2D model. The on-axis atom number density in gas jet is investigated in detail by comparing the simulated densities with the idealized densities of straight streamline model in scaling laws. It is found that the density is generally lower than the idealized one and the deviation between them is mainly dependent on the opening angle of conical nozzle, the nozzle length and the gas backing pressure. The density deviation is then used to discuss the deviation of the equivalent diameter of a conical nozzle from the idealized d{sub eq} inmore » scaling laws. The investigation on the lateral expansion of gas jet indicates the lateral expansion could be responsible for the behavior of the density deviation. These results could be useful for the estimation of cluster size and the understanding of experimental results in laser-cluster interaction experiments.« less

Carbon-shell-constrained silicon cluster derived from Al-Si alloy as long-cycling life lithium ion batteries anode

NASA Astrophysics Data System (ADS)

Su, Junming; Zhang, Congcong; Chen, Xiang; Liu, Siyang; Huang, Tao; Yu, Aishui

2018-03-01

Although silicon is the most promising anode material for Li-ion batteries, large volume expansion during lithiation and delithiation is the main obstacle limiting the commercial application of silicon anodes. There are two ways to alleviate volume expansion and prevent further pulverization of a Si anode: fabrication of a rational nanostructure possessing void spaces and uniform distribution of the conducting sites, without a good balance effect in mitigating the limiting factors and enhancing battery performance. In this paper, we propose a novel nanostructure - a carbon-shell-constrained Si cluster (Si/C shell) with both adequate void space and good distribution of electrical contact sites to guarantee homogeneous lithiation in the initial cycle. Benefiting from the ability to maintain electrical conductivity of the outer carbon shell, even after cluster fragmentation, the Si/C shell synthesized from low-cost commercial Al-Si alloy spheres can deliver 0.03% capacity loss from 100th to 1000th cycles at a current density of 1 A g-1. The Si/C shell sample with the dual functional structure mentioned above can also maintain its own nanostructure during cycling and deliver excellent rate performance. It is a concise and scalable strategy which can simplify the preparation of other alloy anode materials for Li-ion batteries.

Patterns of population structure and environmental associations to aridity across the range of loblolly pine (Pinus taeda L., Pinaceae).

PubMed

Eckert, Andrew J; van Heerwaarden, Joost; Wegrzyn, Jill L; Nelson, C Dana; Ross-Ibarra, Jeffrey; González-Martínez, Santíago C; Neale, David B

2010-07-01

Natural populations of forest trees exhibit striking phenotypic adaptations to diverse environmental gradients, thereby making them appealing subjects for the study of genes underlying ecologically relevant phenotypes. Here, we use a genome-wide data set of single nucleotide polymorphisms genotyped across 3059 functional genes to study patterns of population structure and identify loci associated with aridity across the natural range of loblolly pine (Pinus taeda L.). Overall patterns of population structure, as inferred using principal components and Bayesian cluster analyses, were consistent with three genetic clusters likely resulting from expansions out of Pleistocene refugia located in Mexico and Florida. A novel application of association analysis, which removes the confounding effects of shared ancestry on correlations between genetic and environmental variation, identified five loci correlated with aridity. These loci were primarily involved with abiotic stress response to temperature and drought. A unique set of 24 loci was identified as F(ST) outliers on the basis of the genetic clusters identified previously and after accounting for expansions out of Pleistocene refugia. These loci were involved with a diversity of physiological processes. Identification of nonoverlapping sets of loci highlights the fundamental differences implicit in the use of either method and suggests a pluralistic, yet complementary, approach to the identification of genes underlying ecologically relevant phenotypes.

Postcollapse Evolution of Globular Clusters

NASA Astrophysics Data System (ADS)

Makino, Junichiro

1996-11-01

A number of globular clusters appear to have undergone core collapse, in the sense that their predicted collapse times are much shorter than their current ages. Simulations with gas models and the Fokker-Planck approximation have shown that the central density of a globular cluster after the collapse undergoes nonlinear oscillation with a large amplitude (gravothermal oscillation). However, the question whether such an oscillation actually takes place in real N-body systems has remained unsolved because an N-body simulation with a sufficiently high resolution would have required computing resources of the order of several GFLOPS-yr. In the present paper, we report the results of such a simulation performed on a dedicated special-purpose computer, GRAPE-4. We have simulated the evolution of isolated point-mass systems with up to 32,768 particles. The largest number of particles reported previously is 10,000. We confirm that gravothermal oscillation takes place in an N-body system. The expansion phase shows all the signatures that are considered to be evidence of the gravothermal nature of the oscillation. At the maximum expansion, the core radius is ˜1% of the half-mass radius for the run with 32,768 particles. The maximum core size, rc, depends on N as ∝ N-1/3.

Anharmonic effects in the quantum cluster equilibrium method

NASA Astrophysics Data System (ADS)

von Domaros, Michael; Perlt, Eva

2017-03-01

The well-established quantum cluster equilibrium (QCE) model provides a statistical thermodynamic framework to apply high-level ab initio calculations of finite cluster structures to macroscopic liquid phases using the partition function. So far, the harmonic approximation has been applied throughout the calculations. In this article, we apply an important correction in the evaluation of the one-particle partition function and account for anharmonicity. Therefore, we implemented an analytical approximation to the Morse partition function and the derivatives of its logarithm with respect to temperature, which are required for the evaluation of thermodynamic quantities. This anharmonic QCE approach has been applied to liquid hydrogen chloride and cluster distributions, and the molar volume, the volumetric thermal expansion coefficient, and the isobaric heat capacity have been calculated. An improved description for all properties is observed if anharmonic effects are considered.

Dendritic cells control fibroblastic reticular network tension and lymph node expansion.

PubMed

Acton, Sophie E; Farrugia, Aaron J; Astarita, Jillian L; Mourão-Sá, Diego; Jenkins, Robert P; Nye, Emma; Hooper, Steven; van Blijswijk, Janneke; Rogers, Neil C; Snelgrove, Kathryn J; Rosewell, Ian; Moita, Luis F; Stamp, Gordon; Turley, Shannon J; Sahai, Erik; Reis e Sousa, Caetano

2014-10-23

After immunogenic challenge, infiltrating and dividing lymphocytes markedly increase lymph node cellularity, leading to organ expansion. Here we report that the physical elasticity of lymph nodes is maintained in part by podoplanin (PDPN) signalling in stromal fibroblastic reticular cells (FRCs) and its modulation by CLEC-2 expressed on dendritic cells. We show in mouse cells that PDPN induces actomyosin contractility in FRCs via activation of RhoA/C and downstream Rho-associated protein kinase (ROCK). Engagement by CLEC-2 causes PDPN clustering and rapidly uncouples PDPN from RhoA/C activation, relaxing the actomyosin cytoskeleton and permitting FRC stretching. Notably, administration of CLEC-2 protein to immunized mice augments lymph node expansion. In contrast, lymph node expansion is significantly constrained in mice selectively lacking CLEC-2 expression in dendritic cells. Thus, the same dendritic cells that initiate immunity by presenting antigens to T lymphocytes also initiate remodelling of lymph nodes by delivering CLEC-2 to FRCs. CLEC-2 modulation of PDPN signalling permits FRC network stretching and allows for the rapid lymph node expansion--driven by lymphocyte influx and proliferation--that is the critical hallmark of adaptive immunity.

Molecular Evolution and Expansion Analysis of the NAC Transcription Factor in Zea mays

PubMed Central

Fan, Kai; Wang, Ming; Miao, Ying; Ni, Mi; Bibi, Noreen; Yuan, Shuna; Li, Feng; Wang, Xuede

2014-01-01

NAC (NAM, ATAF1, 2 and CUC2) family is a plant-specific transcription factor and it controls various plant developmental processes. In the current study, 124 NAC members were identified in Zea mays and were phylogenetically clustered into 13 distinct subfamilies. The whole genome duplication (WGD), especially an additional WGD event, may lead to expanding ZmNAC members. Different subfamily has different expansion rate, and NAC subfamily preference was found during the expansion in maize. Moreover, the duplication events might occur after the divergence of the lineages of Z. mays and S. italica, and segmental duplication seemed to be the dominant pattern for the gene duplication in maize. Furthermore, the expansion of ZmNAC members may be also related to gain and loss of introns. Besides, the restriction of functional divergence was discovered after most of the gene duplication events. These results could provide novel insights into molecular evolution and expansion analysis of NAC family in maize, and advance the NAC researches in other plants, especially polyploid plants. PMID:25369196

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

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.

Structural features of small benzene clusters (C6H6)n (n ≤ 30) as investigated with the all-atom OPLS potential.

PubMed

Takeuchi, Hiroshi

2012-10-18

The structures of the simplest aromatic clusters, benzene clusters (C(6)H(6))(n), are not well elucidated. In the present study, benzene clusters (C(6)H(6))(n) (n ≤ 30) were investigated with the all-atom optimized parameters for liquid simulation (OPLS) potential. The global minima and low-lying minima of the benzene clusters were searched with the heuristic method combined with geometrical perturbations. The structural features and growth sequence of the clusters were examined by carrying out local structure analyses and structural similarity evaluation with rotational constants. Because of the anisotropic interaction between the benzene molecules, the local structures consisting of 13 molecules are considerably deviated from regular icosahedron, and the geometries of some of the clusters are inconsistent with the shapes constructed by the interior molecules. The distribution of the angle between the lines normal to two neighboring benzene rings is anisotropic in the clusters, whereas that in the liquid benzene is nearly isotropic. The geometries and energies of the low-lying configurations and the saddle points between them suggest that most of the configurations previously detected in supersonic expansions take different orientations for one to four neighboring molecules.

Cluster-Based Query Expansion Using Language Modeling for Biomedical Literature Retrieval

ERIC Educational Resources Information Center

Xu, Xuheng

2011-01-01

The tremendously huge volume of biomedical literature, scientists' specific information needs, long terms of multiples words, and fundamental problems of synonym and polysemy have been challenging issues facing the biomedical information retrieval community researchers. Search engines have significantly improved the efficiency and effectiveness of…

Agricultural Resources: Program Planning Guide: Volume 6.

ERIC Educational Resources Information Center

German, Carl; And Others

The program planning guide for agricultural resources was written to assist Applied Biological and Agricultural Occupations (ABAO) teachers in enriching existing programs and/or to provide the basis for expansion of offerings to include additional materials for the cluster areas of forests, recreation, soil, wildlife, and other agricultural…

Forestry: Program Planning Guide: Volume 7.

ERIC Educational Resources Information Center

Roth, Paul L.; And Others

The program planning guide for forestry was written to assist Applied Biological and Agricultural Occupations (ABAO) teachers in enriching existing programs and/or to provide the basis for expansion of offerings to include additional materials for the cluster areas of forests, forest protection, logging, wood utilization, recreation, and special…

Fast trimers in a one-dimensional extended Fermi-Hubbard model

NASA Astrophysics Data System (ADS)

Dhar, A.; Törmä, P.; Kinnunen, J. J.

2018-04-01

We consider a one-dimensional two-component extended Fermi-Hubbard model with nearest-neighbor interactions and mass imbalance between the two species. We study the binding energy of trimers, various observables for detecting them, and expansion dynamics. We generalize the definition of the trimer gap to include the formation of different types of clusters originating from nearest-neighbor interactions. Expansion dynamics reveal rapidly propagating trimers, with speeds exceeding doublon propagation in the strongly interacting regime. We present a simple model for understanding this unique feature of the movement of the trimers, and we discuss the potential for experimental realization.

Galaxy Clusters, Near and Far, Have a Lot in Common

NASA Astrophysics Data System (ADS)

2005-04-01

Using two orbiting X-ray telescopes, a team of international astronomers has examined distant galaxy clusters in order to compare them with their counterparts that are relatively close by. Speaking today at the RAS National Astronomy Meeting in Birmingham, Dr. Ben Maughan (Harvard-Smithsonian Center for Astrophysics), presented the results of this new analysis. The observations indicate that, despite the great expansion that the Universe has undergone since the Big Bang, galaxy clusters both local and distant have a great deal in common. This discovery could eventually lead to a better understanding of how to "weigh" these enormous structures, and, in so doing, answer important questions about the nature and structure of the Universe. Clusters of galaxies, the largest known gravitationally-bound objects, are the knots in the cosmic web of structure that permeates the Universe. Theoretical models make predictions about the number, distribution and properties of these clusters. Scientists can test and improve models of the Universe by comparing these predictions with observations. The most powerful way of doing this is to measure the masses of galaxy clusters, particularly those in the distant Universe. However, weighing galaxy clusters is extremely difficult. One relatively easy way to weigh a galaxy cluster is to use simple laws ("scaling relations") to estimate its weight from properties that are easy to observe, like its luminosity (brightness) or temperature. This is like estimating someone's weight from their height if you didn't have any scales. Over the last 3 years, a team of researchers, led by Ben Maughan, has observed 11 distant galaxy clusters with ESA's XMM-Newton and NASA's Chandra X-ray Observatory. The clusters have redshifts of z = 0.6-1.0, which corresponds to distances of 6 to 8 billion light years. This means that we see them as they were when the Universe was half its present age. The survey included two unusual systems, one in which two massive clusters are merging and another extremely massive cluster which appears very "relaxed" and undisturbed. The X-ray data allowed the scientists to measure the temperatures and luminosities of the gas in the clusters. They were then able to infer their total masses, which varied between 200 and 1,100 times the mass of our Milky Way galaxy. These measurements were then used to test whether galaxy clusters of different sizes and located at different distances from us are simply scaled versions of each other -- a condition known as being "self-similar." This is an important characteristic for astronomers to identify if they hope to get the true weights of galaxy clusters. "For example, chocolate bars are strongly self-similar," said Maughan. "If you shrank a king-size bar to a fun-size bar, they would be identical versions of each other but just different sizes." "However, if you shrank a castle to the size of a bungalow, they would be very different structures, despite being the same size. This means that they are not strongly self-similar objects." Another possible type of relationship between clusters is what scientists call "weakly self-similar." In this case, galaxy clusters in the distant universe and those nearby are almost identical to each other, but not exactly the same. (The only differences between them can be accounted for by the expansion of the Universe since the Big Bang.) Although astronomers have known for some time that galaxy clusters are not strongly self-similar, the question of whether or not they are weakly self-similar has remained open. The new results show that as long as astronomers take into account the continuous expansion of the Universe, then galaxy clusters are, in fact, weakly self-similar. This means that the same scaling relations used to weigh nearby galaxy clusters hold true for these very distant clusters. "Our results mean that weighing distant galaxy clusters could become as easy as converting from Fahrenheit to Celsius," said Maughan. "This will help to answer important questions about the nature and structure of the Universe." The other members of the team were: Laurence Jones (University of Birmingham, UK) Harald Ebeling (Institute for Astronomy, HI, USA), and Caleb Scharf (Columbia Astrophysics Laboratory, NY, USA). The observations were made with the European Photon Imaging Camera (EPIC) on XMM and the Advanced Camera for Imaging and Spectroscopy (ACIS) on Chandra. They were part of the WARPS survey of distant galaxy clusters detected by chance in observations made with the UK-US-Dutch ROSAT X-ray satellite. Additional information and images are available at: http://www.sr.bham.ac.uk/~habib/nampr/

Genetic diversity and structure related to expansion history and habitat isolation: stone marten populating rural-urban habitats.

PubMed

Wereszczuk, Anna; Leblois, Raphaël; Zalewski, Andrzej

2017-12-22

Population genetic diversity and structure are determined by past and current evolutionary processes, among which spatially limited dispersal, genetic drift, and shifts in species distribution boundaries have major effects. In most wildlife species, environmental modifications by humans often lead to contraction of species' ranges and/or limit their dispersal by acting as environmental barriers. However, in species well adapted to anthropogenic habitat or open landscapes, human induced environmental changes may facilitate dispersal and range expansions. In this study, we analysed whether isolation by distance and deforestation, among other environmental features, promotes or restricts dispersal and expansion in stone marten (Martes foina) populations. We genotyped 298 martens from eight sites at twenty-two microsatellite loci to characterize the genetic variability, population structure and demographic history of stone martens in Poland. At the landscape scale, limited genetic differentiation between sites in a mosaic of urban, rural and forest habitats was mostly influenced by isolation by distance. Statistical clustering and multivariate analyses showed weak genetic structuring with two to four clusters and a high rate of gene flow between them. Stronger genetic differentiation was detected for one stone marten population (NE1) located inside a large forest complex. Genetic differentiation between this site and all others was 20% higher than between other sites separated by similar distances. The genetic uniqueness index of NE1 was also twofold higher than in other sites. Past demographic history analyses showed recent expansion of this species in north-eastern Poland. A decrease in genetic diversity from south to north, and MIGRAINE analyses indicated the direction of expansion of stone marten. Our results showed that two processes, changes in species distribution boundaries and limited dispersal associated with landscape barriers, affect genetic diversity and structure in stone marten. Analysis of local barriers that reduced dispersal and large scale analyses of genetic structure and demographic history highlight the importance of isolation by distance and forest cover for the past colonization of central Europe by stone marten. This confirmed the hypothesis that human-landscape changes (deforestation) accelerated stone marten expansion, to which climate warming probably has also been contributing over the last few decades.

Interstellar matter near the Pleiades. IV - The wake of the Pleiades through the interstellar medium in Taurus

NASA Technical Reports Server (NTRS)

White, Richard E.; Bally, John

1993-01-01

A large emission 'cavity' whose bright rims extend about 5 deg eastward from the Pleiades, and is pressurized by the soft-UV radiation of the cluster, has been revealed by a mosaic of IRAS images; the emission cavity delineates the wake of the Pleiades as it moves supersonically through the ISM. Photoelectric heating is identified as the most likely agent of the cluster-cloud interaction generating a shock wave, and prompts the hypothesis that transverse expansion of heated gas near the cluster plays a crucial role in driving the shock. The cloud trajectory can be traced back to an origin in Gould's Belt some 15 Myr ago, in a blowout of gas into the Galactic halo.

Genome Engineering and Modification Toward Synthetic Biology for the Production of Antibiotics.

PubMed

Zou, Xuan; Wang, Lianrong; Li, Zhiqiang; Luo, Jie; Wang, Yunfu; Deng, Zixin; Du, Shiming; Chen, Shi

2018-01-01

Antibiotic production is often governed by large gene clusters composed of genes related to antibiotic scaffold synthesis, tailoring, regulation, and resistance. With the expansion of genome sequencing, a considerable number of antibiotic gene clusters has been isolated and characterized. The emerging genome engineering techniques make it possible towards more efficient engineering of antibiotics. In addition to genomic editing, multiple synthetic biology approaches have been developed for the exploration and improvement of antibiotic natural products. Here, we review the progress in the development of these genome editing techniques used to engineer new antibiotics, focusing on three aspects of genome engineering: direct cloning of large genomic fragments, genome engineering of gene clusters, and regulation of gene cluster expression. This review will not only summarize the current uses of genomic engineering techniques for cloning and assembly of antibiotic gene clusters or for altering antibiotic synthetic pathways but will also provide perspectives on the future directions of rebuilding biological systems for the design of novel antibiotics. © 2017 Wiley Periodicals, Inc.

PHOTONICS AND NANOTECHNOLOGY Pulsed laser ablation of binary semiconductors: mechanisms of vaporisation and cluster formation

NASA Astrophysics Data System (ADS)

Bulgakov, A. V.; Evtushenko, A. B.; Shukhov, Yu G.; Ozerov, I.; Marin, W.

2010-12-01

Formation of small clusters during pulsed ablation of two binary semiconductors, zinc oxide and indium phosphide, in vacuum by UV, visible, and IR laser radiation is comparatively studied. The irradiation conditions favourable for generation of neutral and charged ZnnOm and InnPm clusters of different stoichiometry in the ablation products are found. The size and composition of the clusters, their expansion dynamics and reactivity are analysed by time-of-flight mass spectrometry. A particular attention is paid to the mechanisms of ZnO and InP ablation as a function of laser fluence, with the use of different ablation models. It is established that ZnO evapourates congruently in a wide range of irradiation conditions, while InP ablation leads to enrichment of the target surface with indium. It is shown that this radically different character of semiconductor ablation determines the composition of the nanostructures formed: zinc oxide clusters are mainly stoichiometric, whereas InnPm particles are significantly enriched with indium.

Constraints on Cosmology and Gravity from the Growth of X-ray Luminous Galaxy Clusters

NASA Astrophysics Data System (ADS)

Mantz, Adam; Allen, S. W.; Rapetti, D.; Ebeling, H.; Drlica-Wagner, A.

2010-03-01

I will present simultaneous constraints on galaxy cluster X-ray scaling relations and models of cosmology and gravity obtained from observations of the growth of massive clusters. The data set consists of 238 flux-selected clusters at redshifts z≤0.5 drawn from the ROSAT All-Sky Survey, and incorporates extensive Chandra follow-up observations. Our results on the scaling relations are consistent with excess heating of the intracluster medium, although the evolution of the relations remains consistent with the predictions of simple gravitational collapse models. For spatially flat, constant-w cosmological models, the cluster data yield Ωm=0.23±0.04, σ8=0.82±0.05, and w=-1.01±0.20, including conservative allowances for systematic uncertainties. Our results are consistent and competitive with a variety of independent cosmological data. In evolving-w models, marginalizing over transition redshifts in the range 0.05-1, the combination of the growth of structure data with the cosmic microwave background, supernovae, cluster gas mass fractions and baryon acoustic oscillations constrains the dark energy equation of state at late and early times to be respectively w0=-0.88±0.21 and wet=-1.05+0.20-0.36. Applying this combination of data to the problem of determining fundamental neutrino properties, we place an upper limit on the species-summed neutrino mass at 0.33eV (95% CL) and constrain the effective number of relativistic species to 3.4±0.6. In addition to dark energy and related problems, such data can be used to test the predictions of General Relativity. Introducing the standard Peebles/Linder parametrization of the linear growth rate, we use the cluster data to constrain the growth of structure, independent of the expansion of the Universe. Our analysis provides a tight constraint on the combination γ(σ8/0.8)6.8=0.55+0.13-0.10, and is simultaneously consistent with the predictions of relativity (γ=0.55) and the cosmological constant expansion model. This work was funded by NASA, the U.S. Department of Energy, and Stanford University.

Final Report for "Non-Accelerator Physics – Research in High Energy Physics: Dark Energy Research on DES"

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

Ritz, Steve; Jeltema, Tesla

One of the greatest mysteries in modern cosmology is the fact that the expansion of the universe is observed to be accelerating. This acceleration may stem from dark energy, an additional energy component of the universe, or may indicate that the theory of general relativity is incomplete on cosmological scales. The growth rate of large-scale structure in the universe and particularly the largest collapsed structures, clusters of galaxies, is highly sensitive to the underlying cosmology. Clusters will provide one of the single most precise methods of constraining dark energy with the ongoing Dark Energy Survey (DES). The accuracy of themore » cosmological constraints derived from DES clusters necessarily depends on having an optimized and well-calibrated algorithm for selecting clusters as well as an optical richness estimator whose mean relation and scatter compared to cluster mass are precisely known. Calibrating the galaxy cluster richness-mass relation and its scatter was the focus of the funded work. Specifically, we employ X-ray observations and optical spectroscopy with the Keck telescopes of optically-selected clusters to calibrate the relationship between optical richness (the number of galaxies in a cluster) and underlying mass. This work also probes aspects of cluster selection like the accuracy of cluster centering which are critical to weak lensing cluster studies.« less

Structure, stability and magnetism of cobalt doped (ZnO)n clusters.

PubMed

Yang, Jack; Zhang, Y B; Li, Sean

2011-03-01

Clusters of magnetic impurities are believed to play an important role in retaining ferromagnetism in diluted magnetic semiconductors (DMS), the origin of which has been a long debated issue. Controlling the dopant homogeneity in magnetic semiconductors is therefore a critical issue for the fabrication of high performance DMS. The current paper presents a first principle study on the stability and magnetic properties of Co doped (ZnO)n (n = 12 and 15) clusters using density functional theory. The results show that cobalt ions in these clusters tend to increase their stabilities by maximizing their co-ordination numbers to oxygen. This will likely to be the case for (ZnO)n clusters with n other than 12 and 15 in order for Co to reside in a stable local crystal field. Expansive (shrinkage) stress is introduced when cobalt resides in exohedral substitutional (endohedral interstitial) sites; such strain can be offset by the cluster deformation. Bidoped cluster is found to be unstable due to the increase of system strain energy. All the doped clusters were found to preserve 3 microg of magnetic moments from Co in the overall clusters, but with part of the local moments on cobalt re-distributed onto neighboring oxygen atoms. Current findings may provide a better understanding on the structural chemistry of magnetic dopants in nanocrystallined DMS materials.

Spatial analysis of rural land development

Treesearch

Seong-Hoon Cho; David H. Newman

2005-01-01

This article examines patterns of rural land development and density using spatial econometric models with the application of Geographical Information System (GIS). The cluster patterns of both development and high-density development indicate that the spatially continuous expansions of development and high-density development exist in relatively remote rural areas....

Agricultural Production: Program Planning Guide: Volume 1.

ERIC Educational Resources Information Center

Rich, William; Wood, Eugene

The program planning guide for agricultural production was written to assist Applied Biological and Agricultural Occupations (ABAO) teachers in enriching existing programs and/or to provide the basis for expansion of offerings to include additional materials for the cluster areas of animal science, plant science, farm mechanics, and farm business…

Agricultural Supplies and Services. Program Planning Guide: Volume 2.

ERIC Educational Resources Information Center

Welton, Richard; Marks, Michael

The program planning guide for agricultural supplies and services was written to assist Applied Biological and Agricultural Occupations (ABAO) teachers in enriching existing programs and/or to provide the basis for expansion of offerings to include additional materials for the cluster areas of agricultural chemicals, feeds, seeds, fertilizers, and…

Agricultural Mechanics: Program Planning Guide: Volume 3.

ERIC Educational Resources Information Center

Bristol, Benton K.

The program planning guide for agricultural mechanics was written to assist Applied Biological and Agricultural Occupations (ABAO) teachers in enriching existing programs and/or to provide the basis for expansion of offerings to include additional materials for the cluster areas of agricultural power and machinery, structural and conveniences,…

β1 integrin is a crucial regulator of pancreatic β-cell expansion

PubMed Central

Diaferia, Giuseppe R.; Jimenez-Caliani, Antonio J.; Ranjitkar, Prerana; Yang, Wendy; Hardiman, Gary; Rhodes, Christopher J.; Crisa, Laura; Cirulli, Vincenzo

2013-01-01

Development of the endocrine compartment of the pancreas, as represented by the islets of Langerhans, occurs through a series of highly regulated events encompassing branching of the pancreatic epithelium, delamination and differentiation of islet progenitors from ductal domains, followed by expansion and three-dimensional organization into islet clusters. Cellular interactions with the extracellular matrix (ECM) mediated by receptors of the integrin family are postulated to regulate key functions in these processes. Yet, specific events regulated by these receptors in the developing pancreas remain unknown. Here, we show that ablation of the β1 integrin gene in developing pancreatic β-cells reduces their ability to expand during embryonic life, during the first week of postnatal life, and thereafter. Mice lacking β1 integrin in insulin-producing cells exhibit a dramatic reduction of the number of β-cells to only ∼18% of wild-type levels. Despite the significant reduction in β-cell mass, these mutant mice are not diabetic. A thorough phenotypic analysis of β-cells lacking β1 integrin revealed a normal expression repertoire of β-cell markers, normal architectural organization within islet clusters, and a normal ultrastructure. Global gene expression analysis revealed that ablation of this ECM receptor in β-cells inhibits the expression of genes regulating cell cycle progression. Collectively, our results demonstrate that β1 integrin receptors function as crucial positive regulators of β-cell expansion. PMID:23863477

Widespread acquisition of antimicrobial resistance among Campylobacter isolates from UK retail poultry and evidence for clonal expansion of resistant lineages.

PubMed

Wimalarathna, Helen M L; Richardson, Judith F; Lawson, Andy J; Elson, Richard; Meldrum, Richard; Little, Christine L; Maiden, Martin C J; McCarthy, Noel D; Sheppard, Samuel K

2013-07-15

Antimicrobial resistance is increasing among clinical Campylobacter cases and is common among isolates from other sources, specifically retail poultry - a major source of human infection. In this study the antimicrobial susceptibility of isolates from a UK-wide survey of Campylobacter in retail poultry in 2001 and 2004-5 was investigated. The occurrence of phenotypes resistant to tetracycline, quinolones (ciprofloxacin and naladixic acid), erythromycin, chloramphenicol and aminoglycosides was quantified. This was compared with a phylogeny for these isolates based upon Multi Locus Sequence Typing (MLST) to investigate the pattern of antimicrobial resistance acquisition. Antimicrobial resistance was present in all lineage clusters, but statistical testing showed a non-random distribution. Erythromycin resistance was associated with Campylobacter coli. For all antimicrobials tested, resistant isolates were distributed among relatively distant lineages indicative of widespread acquisition. There was also evidence of clustering of resistance phenotypes within lineages; indicative of local expansion of resistant strains. These results are consistent with the widespread acquisition of antimicrobial resistance among chicken associated Campylobacter isolates, either through mutation or horizontal gene transfer, and the expansion of these lineages as a proportion of the population. As Campylobacter are not known to multiply outside of the host and long-term carriage in humans is extremely infrequent in industrialized countries, the most likely location for the proliferation of resistant lineages is in farmed chickens.

Comparison of permutationally invariant polynomials, neural networks, and Gaussian approximation potentials in representing water interactions through many-body expansions

NASA Astrophysics Data System (ADS)

Nguyen, Thuong T.; Székely, Eszter; Imbalzano, Giulio; Behler, Jörg; Csányi, Gábor; Ceriotti, Michele; Götz, Andreas W.; Paesani, Francesco

2018-06-01

The accurate representation of multidimensional potential energy surfaces is a necessary requirement for realistic computer simulations of molecular systems. The continued increase in computer power accompanied by advances in correlated electronic structure methods nowadays enables routine calculations of accurate interaction energies for small systems, which can then be used as references for the development of analytical potential energy functions (PEFs) rigorously derived from many-body (MB) expansions. Building on the accuracy of the MB-pol many-body PEF, we investigate here the performance of permutationally invariant polynomials (PIPs), neural networks, and Gaussian approximation potentials (GAPs) in representing water two-body and three-body interaction energies, denoting the resulting potentials PIP-MB-pol, Behler-Parrinello neural network-MB-pol, and GAP-MB-pol, respectively. Our analysis shows that all three analytical representations exhibit similar levels of accuracy in reproducing both two-body and three-body reference data as well as interaction energies of small water clusters obtained from calculations carried out at the coupled cluster level of theory, the current gold standard for chemical accuracy. These results demonstrate the synergy between interatomic potentials formulated in terms of a many-body expansion, such as MB-pol, that are physically sound and transferable, and machine-learning techniques that provide a flexible framework to approximate the short-range interaction energy terms.

Newspaper Reporting on a Cluster of Suicides in the UK.

PubMed

John, Ann; Hawton, Keith; Gunnell, David; Lloyd, Keith; Scourfield, Jonathan; Jones, Phillip A; Luce, Ann; Marchant, Amanda; Platt, Steve; Price, Sian; Dennis, Michael S

2017-01-01

Media reporting may influence suicide clusters through imitation or contagion. In 2008 there was extensive national and international newspaper coverage of a cluster of suicides in young people in the Bridgend area of South Wales, UK. To explore the quantity and quality of newspaper reporting during the identified cluster. Searches were conducted for articles on suicide in Bridgend for 6 months before and after the defined cluster (June 26, 2007, to September 16, 2008). Frequency, quality (using the PRINTQUAL instrument), and sensationalism were examined. In all, 577 newspaper articles were identified. One in seven articles included the suicide method in the headline, 47.3% referred to earlier suicides, and 44% used phrases that guidelines suggest should be avoided. Only 13% included sources of information or advice. A high level of poor-quality and sensationalist reporting was found during an ongoing suicide cluster at the very time when good-quality reporting could be considered important. A broad awareness of media guidelines and expansion and adherence to press codes of practice are required by journalists to ensure ethical reporting.

Characterization of micron-size hydrogen clusters using Mie scattering.

PubMed

Jinno, S; Tanaka, H; Matsui, R; Kanasaki, M; Sakaki, H; Kando, M; Kondo, K; Sugiyama, A; Uesaka, M; Kishimoto, Y; Fukuda, Y

2017-08-07

Hydrogen clusters with diameters of a few micrometer range, composed of 10 8-10 hydrogen molecules, have been produced for the first time in an expansion of supercooled, high-pressure hydrogen gas into a vacuum through a conical nozzle connected to a cryogenic pulsed solenoid valve. The size distribution of the clusters has been evaluated by measuring the angular distribution of laser light scattered from the clusters. The data were analyzed based on the Mie scattering theory combined with the Tikhonov regularization method including the instrumental functions, the validity of which was assessed by performing a calibration study using a reference target consisting of standard micro-particles with two different sizes. The size distribution of the clusters was found discrete peaked at 0.33 ± 0.03, 0.65 ± 0.05, 0.81 ± 0.06, 1.40 ± 0.06 and 2.00 ± 0.13 µm in diameter. The highly reproducible and impurity-free nature of the micron-size hydrogen clusters can be a promising target for laser-driven multi-MeV proton sources with the currently available high power lasers.

Significance of clustering and classification applications in digital and physical libraries

NASA Astrophysics Data System (ADS)

Triantafyllou, Ioannis; Koulouris, Alexandros; Zervos, Spiros; Dendrinos, Markos; Giannakopoulos, Georgios

2015-02-01

Applications of clustering and classification techniques can be proved very significant in both digital and physical (paper-based) libraries. The most essential application, document classification and clustering, is crucial for the content that is produced and maintained in digital libraries, repositories, databases, social media, blogs etc., based on various tags and ontology elements, transcending the traditional library-oriented classification schemes. Other applications with very useful and beneficial role in the new digital library environment involve document routing, summarization and query expansion. Paper-based libraries can benefit as well since classification combined with advanced material characterization techniques such as FTIR (Fourier Transform InfraRed spectroscopy) can be vital for the study and prevention of material deterioration. An improved two-level self-organizing clustering architecture is proposed in order to enhance the discrimination capacity of the learning space, prior to classification, yielding promising results when applied to the above mentioned library tasks.

Numerical analysis of bubble-cluster formation in an ultrasonic field

NASA Astrophysics Data System (ADS)

Kim, Donghyun; Son, Gihun

2016-11-01

Bubble-cluster formation in an ultrasonic field is investigated numerically solving the conservation equations of mass, momentum and energy. The liquid-gas interface is calculated using the volume-of-fluid method with variable gas density to consider the bubble compressibility. The effect of liquid-gas phase change is also included as the interface source terms of the mass and energy equations. The numerical approach is tested through the simulation of the expansion and contraction motion of a compressed bubble adjacent to a wall. When the bubble is placed in an ultrasonic field, it oscillates radially and then collapses violently. Numerical simulation is also performed for bubble-cluster formation induced by an ultrasonic generator, where the generated bubbles are merged into a macrostructure along the acoustic flow field. The effects of ultrasonic power and frequency, liquid properties and pool temperature on the bubble-cluster formation are investigated. This work was supported by the Korea Institute of Energy Research.

A study on the interaction and evolution of the spatial expansion and administrative division adjustment in Beijing metropolitan area

NASA Astrophysics Data System (ADS)

Li, Yongfu; Dang, Anrong

2008-10-01

Since 1990s and especially since 2000, the city space of Beijing has grown rapidly. There's no doubt that the urban construction land area is expanding to the suburban areas, which is the result of rapid social and economic growth in the city and also closely related to the reform of "turning county into district". In other words, the adjustment of administrative division in Beijing interacts with the expansion of urban construction land space. Beijing turns counties into districts and introduces regional offices are two distinct evidence. As for the interaction, there're both advantages and disadvantages and the focus of the article is to explore how to exploit the favorable conditions and avoid unfavorable ones. The article takes the town administrative region as the minimum space unit so as to better explore the anisotropism and regional differences of city space expansion as well as the impact caused by the adjustment of administrative divisions. With initial analysis, we find that: firstly, on the contrary to the sharp reduction of farming land, the city construction land are for residential communities, factories and mines increases the fastest; secondly, the big central cluster expansion has great regional difference and the three directions of northwest, north and south grows the fastest, which is mainly caused by the positive guidance of trunk roads including highway construction; thirdly, the land area in central cluster used for new construction projects is mainly located in suburban area, but exurb districts of Daxing and Changping also take up a considerable proportion; fourthly, as for the key exurb towns including Changping, Shunyi, and Fangshan, the built-up area also grows rapidly.

Effect of IL-18 on the Expansion and Phenotype of Human Natural Killer Cells: Application to Cancer Immunotherapy.

PubMed

Senju, Hiroaki; Kumagai, Asuka; Nakamura, Yoichi; Yamaguchi, Hiroyuki; Nakatomi, Katsumi; Fukami, Shota; Shiraishi, Kengo; Harada, Yuka; Nakamura, Mitsuhiro; Okamura, Haruki; Tanaka, Yoshimasa; Mukae, Hiroshi

2018-01-01

When pathogenic stresses are recognized by innate immune cells, inflammasomes are assembled and caspase-1 is activated, resulting in the conversion of pro-IL-18 into mature IL-18. Because natural killer (NK) cells express IL-18 receptors, IL-18 may play roles in immune functions of NK cells. In the present study, we examined the effect of IL-18 on NK cells derived from lung cancer patients and healthy adult volunteers. When peripheral blood NK cells were stimulated with IL-2, the cells formed clusters beginning on day 5-6 and proliferated thereafter, in which the number of NK cells increased by 10-fold in 10 days. When IL-18 was added, cell clusters were observed as early as on day 4 and NK cells proliferated vigorously. On day 10, the expansion rate was 56-fold on average, showing that IL-18 promoted the expansion of NK cells. It was also notable that IL-18 enhanced the expression of CD80, CD86, HLA-DR and HLA-DQ on NK cells, suggesting that IL-18 conferred NK cells an APC-like phenotype. When cellular cytotoxicity was determined, APC-like NK cells efficiently killed tumor cells and anti-tumor activity was augmented by the addition of tumor antigen-specific mAbs. In addition, IFN-γ was produced by APC-like NK cells in response to tumor cells, and the cytokine production was further enhanced by mAbs. Taken together, IL-18 not only promoted the expansion of NK cells, but also changed the phenotype of NK cells. IL-2/IL-18-induced NK cells might, therefore, serve as a bridge between innate immunity and adaptive immunity and be useful for cancer immunotherapy.

Mayer-cluster expansion of instanton partition functions and thermodynamic bethe ansatz

NASA Astrophysics Data System (ADS)

Meneghelli, Carlo; Yang, Gang

2014-05-01

In [19] Nekrasov and Shatashvili pointed out that the = 2 instanton partition function in a special limit of the Ω-deformation parameters is characterized by certain thermodynamic Bethe ansatz (TBA) like equations. In this work we present an explicit derivation of this fact as well as generalizations to quiver gauge theories. To do so we combine various techniques like the iterated Mayer expansion, the method of expansion by regions, and the path integral tricks for non-perturbative summation. The TBA equations derived entirely within gauge theory have been proposed to encode the spectrum of a large class of quantum integrable systems. We hope that the derivation presented in this paper elucidates further this completely new point of view on the origin, as well as on the structure, of TBA equations in integrable models.

Segmentation of clustered cells in negative phase contrast images with integrated light intensity and cell shape information.

PubMed

Wang, Y; Wang, C; Zhang, Z

2018-05-01

Automated cell segmentation plays a key role in characterisations of cell behaviours for both biology research and clinical practices. Currently, the segmentation of clustered cells still remains as a challenge and is the main reason for false segmentation. In this study, the emphasis was put on the segmentation of clustered cells in negative phase contrast images. A new method was proposed to combine both light intensity and cell shape information through the construction of grey-weighted distance transform (GWDT) within preliminarily segmented areas. With the constructed GWDT, the clustered cells can be detected and then separated with a modified region skeleton-based method. Moreover, a contour expansion operation was applied to get optimised detection of cell boundaries. In this paper, the working principle and detailed procedure of the proposed method are described, followed by the evaluation of the method on clustered cell segmentation. Results show that the proposed method achieves an improved performance in clustered cell segmentation compared with other methods, with 85.8% and 97.16% accuracy rate for clustered cells and all cells, respectively. © 2017 The Authors Journal of Microscopy © 2017 Royal Microscopical Society.

Infrared spectra of CO2-doped hydrogen clusters, (H2)N-CO2.

PubMed

McKellar, A R W

2012-03-07

Clusters of para-H(2) and/or ortho-H(2) containing a single carbon dioxide molecule are studied by high resolution infrared spectroscopy in the 2300 cm(-1) region of the CO(2) ν(3) fundamental band. The (H(2))(N)-CO(2) clusters are formed in a pulsed supersonic jet expansion from a cooled nozzle and probed using a rapid scan tunable diode laser. Simple symmetric rotor type spectra are observed with little or no resolved K-structure, and prominent Q-branch features for ortho-H(2) but not para-H(2). Observed rotational constants and vibrational shifts are reported for ortho-H(2) up to N = 7 and para-H(2) up to N = 15, with the N > 7 assignments only made possible with the help of theoretical simulations. The para-H(2) cluster with N = 12 shows clear evidence for superfluid effects, in good agreement with theory. The presence of larger clusters with N > 15 is evident in the spectra, but specific assignments are not possible. Mixed para- + ortho-H(2) cluster transitions are well predicted by linear interpolation between corresponding pure cluster line positions. © 2012 American Institute of Physics

Single photon ionization of van der Waals clusters with a soft x-ray laser: (CO2)n and (CO2)n(H2O)m.

PubMed

Heinbuch, S; Dong, F; Rocca, J J; Bernstein, E R

2006-10-21

Pure neutral (CO2)n clusters and mixed (CO2)n(H2O)m clusters are investigated employing time of flight mass spectroscopy and single photon ionization at 26.5 eV. The distribution of pure (CO2)n clusters decreases roughly exponentially with increasing cluster size. During the ionization process, neutral clusters suffer little fragmentation because almost all excess cluster energy above the vertical ionization energy is taken away by the photoelectron and only a small part of the photon energy is deposited into the (CO2)n cluster. Metastable dissociation rate constants of (CO2)n+ are measured in the range of (0.2-1.5) x 10(4) s(-1) for cluster sizes of 5< or =n< or =16. Mixed CO2-H2O clusters are studied under different generation conditions (5% and 20% CO2 partial pressures and high and low expansion pressures). At high CO2 concentration, predominant signals in the mass spectrum are the (CO2)n+ cluster ions. The unprotonated cluster ion series (CO2)nH2O+ and (CO2)n(H2O)2+ are also observed under these conditions. At low CO2 concentration, protonated cluster ions (H2O)nH+ are the dominant signals, and the protonated CO2(H2O)nH+ and unprotonated (H2O)n+ and (CO2)(H2O)n+ cluster ion series are also observed. The mechanisms and dynamics of the formation of these neutral and ionic clusters are discussed.

Patterns of Population Structure and Environmental Associations to Aridity Across the Range of Loblolly Pine (Pinus taeda L., Pinaceae)

PubMed Central

Eckert, Andrew J.; van Heerwaarden, Joost; Wegrzyn, Jill L.; Nelson, C. Dana; Ross-Ibarra, Jeffrey; González-Martínez, Santíago C.; Neale, David. B.

2010-01-01

Natural populations of forest trees exhibit striking phenotypic adaptations to diverse environmental gradients, thereby making them appealing subjects for the study of genes underlying ecologically relevant phenotypes. Here, we use a genome-wide data set of single nucleotide polymorphisms genotyped across 3059 functional genes to study patterns of population structure and identify loci associated with aridity across the natural range of loblolly pine (Pinus taeda L.). Overall patterns of population structure, as inferred using principal components and Bayesian cluster analyses, were consistent with three genetic clusters likely resulting from expansions out of Pleistocene refugia located in Mexico and Florida. A novel application of association analysis, which removes the confounding effects of shared ancestry on correlations between genetic and environmental variation, identified five loci correlated with aridity. These loci were primarily involved with abiotic stress response to temperature and drought. A unique set of 24 loci was identified as FST outliers on the basis of the genetic clusters identified previously and after accounting for expansions out of Pleistocene refugia. These loci were involved with a diversity of physiological processes. Identification of nonoverlapping sets of loci highlights the fundamental differences implicit in the use of either method and suggests a pluralistic, yet complementary, approach to the identification of genes underlying ecologically relevant phenotypes. PMID:20439779

Dynamic evolution and biogenesis of small RNAs during sex reversal.

PubMed

Liu, Jie; Luo, Majing; Sheng, Yue; Hong, Qiang; Cheng, Hanhua; Zhou, Rongjia

2015-05-06

Understanding origin, evolution and functions of small RNA (sRNA) genes has been a great challenge in the past decade. Molecular mechanisms underlying sexual reversal in vertebrates, particularly sRNAs involved in this process, are largely unknown. By deep-sequencing of small RNA transcriptomes in combination with genomic analysis, we identified a large amount of piRNAs and miRNAs including over 1,000 novel miRNAs, which were differentially expressed during gonad reversal from ovary to testis via ovotesis. Biogenesis and expressions of miRNAs were dynamically changed during the reversal. Notably, phylogenetic analysis revealed dynamic expansions of miRNAs in vertebrates and an evolutionary trajectory of conserved miR-17-92 cluster in the Eukarya. We showed that the miR-17-92 cluster in vertebrates was generated through multiple duplications from ancestor miR-92 in invertebrates Tetranychus urticae and Daphnia pulex from the Chelicerata around 580 Mya. Moreover, we identified the sexual regulator Dmrt1 as a direct target of the members miR-19a and -19b in the cluster. These data suggested dynamic biogenesis and expressions of small RNAs during sex reversal and revealed multiple expansions and evolutionary trajectory of miRNAs from invertebrates to vertebrates, which implicate small RNAs in sexual reversal and provide new insight into evolutionary and molecular mechanisms underlying sexual reversal.

Ancient Expansion of the Hox Cluster in Lepidoptera Generated Four Homeobox Genes Implicated in Extra-Embryonic Tissue Formation

PubMed Central

Taylor, William R.; Gibbs, Melanie; Breuker, Casper J.; Holland, Peter W. H.

2014-01-01

Gene duplications within the conserved Hox cluster are rare in animal evolution, but in Lepidoptera an array of divergent Hox-related genes (Shx genes) has been reported between pb and zen. Here, we use genome sequencing of five lepidopteran species (Polygonia c-album, Pararge aegeria, Callimorpha dominula, Cameraria ohridella, Hepialus sylvina) plus a caddisfly outgroup (Glyphotaelius pellucidus) to trace the evolution of the lepidopteran Shx genes. We demonstrate that Shx genes originated by tandem duplication of zen early in the evolution of large clade Ditrysia; Shx are not found in a caddisfly and a member of the basally diverging Hepialidae (swift moths). Four distinct Shx genes were generated early in ditrysian evolution, and were stably retained in all descendent Lepidoptera except the silkmoth which has additional duplications. Despite extensive sequence divergence, molecular modelling indicates that all four Shx genes have the potential to encode stable homeodomains. The four Shx genes have distinct spatiotemporal expression patterns in early development of the Speckled Wood butterfly (Pararge aegeria), with ShxC demarcating the future sites of extraembryonic tissue formation via strikingly localised maternal RNA in the oocyte. All four genes are also expressed in presumptive serosal cells, prior to the onset of zen expression. Lepidopteran Shx genes represent an unusual example of Hox cluster expansion and integration of novel genes into ancient developmental regulatory networks. PMID:25340822

The Fundamental Plane and the Surface Brightness Test for the Expansion of the Universe

NASA Astrophysics Data System (ADS)

Kjaergaard, Per; Jorgensen, Inger; Moles, Mariano

1993-12-01

We have determined the Petrosian radius, rη , and the enclosed mean surface brightness within the Petrosian radius, <μ>η, for 33 elliptical and S0 galaxies in the Coma cluster from new accurate CCD surface photometry. For the Petrosian parameter η = 1.39, rη and <μ>η are compared with the effective radius, re, and the effective mean surface brightness, <μ>e derived from fitting a de Vaucouleurs law. The fundamental plane (FP) expressed using rη and <μ>η is the same as the FP found by Jørgensen, Franx, & Kjaergaard (1993) using re and <μ>e. The FP can be used to predict the mean surface brightness within the effective radius or the corresponding Petrosian radius (η = 1.39) with an uncertainty of ±0.14 mag for Coma cluster ellipticals. Thus the FP, applied to clusters, appears to be a suitable tool for performing the surface brightness test (SBT) for the expansion of the universe. We suggest that instead of correcting individual galaxies to some standard conditions, e.g., the same metric radius, the fundamental plane itself should be considered the standard. It is argued that the metric size enclosing around 75% of the total light represents a reasonable compromise between resolution and faint level detection when performing the SBT. This radius could be derived as the Petrosian radius corresponding to η = 2.0 or from a global fit to that part of the observed profile which encompasses 75% of the total light. In case both small and large galaxies are well described by a de Vaucouleurs law the global fit can be performed on a smaller central part of the brightness profile. The use of the FP involves the time consuming determinations of velocity dispersions. We find that <μ>η (η = 1.39) can be predicted from the log rη alone with an accuracy of 0.3 mag for the Coma cluster ellipticals. Our discussion of the various error contributions to the predicted mean surface brightness for faint cluster ellipticals at redshifts z < 0.5 shows that the final error is probably dominated by extra scatter due to, e.g., environmental and evolutionary effects. Thus it might be possible that the use of velocity dispersions are not necessary. To get significant results for the SBT, clusters out to a redshift of approximately z = 0.3 have to be observed. For the most distant galaxies light levels down to about 25-26 mag arcsec-2 in the red and sizes as small as approximately 2" have to be accurately measured. We outline an observational program which will allow the control of the different sources of scatter, including cosmic evolution, producing conclusive results about the expansion of the universe.

Rayleigh Scattering Density Measurements, Cluster Theory, and Nucleation Calculations at Mach 10

NASA Technical Reports Server (NTRS)

Balla, R. Jeffrey; Everhart, Joel L.

2012-01-01

In an exploratory investigation, quantitative unclustered laser Rayleigh scattering measurements of density were performed in the air in the NASA Langley Research Center's 31 in. Mach 10 wind tunnel. A review of 20 previous years of data in supersonic and Mach 6 hypersonic flows is presented where clustered signals typically overwhelmed molecular signals. A review of nucleation theory and accompanying nucleation calculations are also provided to interpret the current observed lack of clustering. Data were acquired at a fixed stagnation temperature near 990Kat five stagnation pressures spanning 2.41 to 10.0 MPa (350 to 1454 psi) using a pulsed argon fluoride excimer laser and double-intensified charge-coupled device camera. Data averaged over 371 images and 210 pixels along a 36.7mmline measured freestream densities that agree with computed isentropic-expansion densities to less than 2% and less than 6% at the highest and lowest densities, respectively. Cluster-free Mach 10 results are compared with previous clustered Mach 6 and condensation-free Mach 14 results. Evidence is presented indicating vibrationally excited oxygen and nitrogen molecules are absorbed as the clusters form, release their excess energy, and inhibit or possibly reverse the clustering process. Implications for delaying clustering and condensation onset in hypersonic and hypervelocity facilities are discussed.

Is It Feasible to Identify Natural Clusters of TSC-Associated Neuropsychiatric Disorders (TAND)?

PubMed

Leclezio, Loren; Gardner-Lubbe, Sugnet; de Vries, Petrus J

2018-04-01

Tuberous sclerosis complex (TSC) is a genetic disorder with multisystem involvement. The lifetime prevalence of TSC-Associated Neuropsychiatric Disorders (TAND) is in the region of 90% in an apparently unique, individual pattern. This "uniqueness" poses significant challenges for diagnosis, psycho-education, and intervention planning. To date, no studies have explored whether there may be natural clusters of TAND. The purpose of this feasibility study was (1) to investigate the practicability of identifying natural TAND clusters, and (2) to identify appropriate multivariate data analysis techniques for larger-scale studies. TAND Checklist data were collected from 56 individuals with a clinical diagnosis of TSC (n = 20 from South Africa; n = 36 from Australia). Using R, the open-source statistical platform, mean squared contingency coefficients were calculated to produce a correlation matrix, and various cluster analyses and exploratory factor analysis were examined. Ward's method rendered six TAND clusters with good face validity and significant convergence with a six-factor exploratory factor analysis solution. The "bottom-up" data-driven strategies identified a "scholastic" cluster of TAND manifestations, an "autism spectrum disorder-like" cluster, a "dysregulated behavior" cluster, a "neuropsychological" cluster, a "hyperactive/impulsive" cluster, and a "mixed/mood" cluster. These feasibility results suggest that a combination of cluster analysis and exploratory factor analysis methods may be able to identify clinically meaningful natural TAND clusters. Findings require replication and expansion in larger dataset, and could include quantification of cluster or factor scores at an individual level. Copyright © 2018 Elsevier Inc. All rights reserved.

Continental-scale assessment of genetic diversity and population structure in quaking aspen (Populus tremuloides)

Treesearch

Colin M. Callahan; Carol A. Rowe; Ronald J. Ryel; John D. Shaw; Michael D. Madritch; Karen E. Mock

2013-01-01

Aspen populations in the south-western portion of the range are consistent with expectations for a historically stable edge, with low within-population diversity, significant geographical population structuring, and little evidence of northward expansion. Structuring within the southwestern cluster may result from distinct gene pools separated during the Pleistocene...

Infrared Photodissociation Spectroscopy of Metal Ion -WATER Complexes

NASA Astrophysics Data System (ADS)

Bandyopadhyay, B.; Carnegie, P. D.; Duncan, M. A.

2011-06-01

Metal ion-water complexes are produced in a supersonic expansion cluster source via laser vaporization technique. Infrared photodissociation spectroscopy has been performed in the O-H stretch region. DFT calculations have also been carried out to obtain the structures and vibrational frequencies. Infrared spectra show partially resolved rotational structures which will be analyzed.

Novel and recently evolved miRNA clusters regulate expansive F-box gene networks through phasiRNAs in wild diploid strawberry

USDA-ARS?s Scientific Manuscript database

The wild strawberry, Fragaria vesca, has recently emerged as an excellent model for investigating flower and fruit traits in economically important fruit crops. Its history of physiological studies combined with sequenced genome and a full complement of molecular genetic tools facilitate investigat...

Chandra Opens New Line of Investigation on Dark Energy

NASA Astrophysics Data System (ADS)

2004-05-01

Astronomers have detected and probed dark energy by applying a powerful, new method that uses images of galaxy clusters made by NASA's Chandra X-ray Observatory. The results trace the transition of the expansion of the Universe from a decelerating to an accelerating phase several billion years ago, and give intriguing clues about the nature of dark energy and the fate of the Universe. "Dark energy is perhaps the biggest mystery in physics," said Steve Allen of the Institute of Astronomy (IoA) at the University of Cambridge in England, and leader of the study. "As such, it is extremely important to make an independent test of its existence and properties." Abell 2029 Chandra X-ray Image of Abell 2029 Allen and his colleagues used Chandra to study 26 clusters of galaxies at distances corresponding to light travel times of between one and eight billion years. These data span the time when the Universe slowed from its original expansion, before speeding up again because of the repulsive effect of dark energy. "We're directly seeing that the expansion of the Universe is accelerating by measuring the distances to these galaxy clusters," said Andy Fabian also of the IoA, a co-author on the study. The new Chandra results suggest that the dark energy density does not change quickly with time and may even be constant, consistent with the "cosmological constant" concept first introduced by Albert Einstein. If so, the Universe is expected to continue expanding forever, so that in many billions of years only a tiny fraction of the known galaxies will be observable. More Animations Animation of the "Big Rip" If the dark energy density is constant, more dramatic fates for the Universe would be avoided. These include the "Big Rip," where dark energy increases until galaxies, stars, planets and eventually atoms are eventually torn apart. The "Big Crunch," where the Universe eventually collapses on itself, would also be ruled out. Chandra's probe of dark energy relies on the unique ability of X-ray observations to detect and study the hot gas in galaxy clusters. From these data, the ratio of the mass of the hot gas and the mass of the dark matter in a cluster can be determined. The observed values of the gas fraction depend on the assumed distance to the cluster, which in turn depends on the curvature of space and the amount of dark energy in the universe. Galaxy Cluster Animation Galaxy Cluster Animation Because galaxy clusters are so large, they are thought to represent a fair sample of the matter content in the universe. If so, then relative amounts of hot gas and dark matter should be the same for every cluster. Using this assumption, Allen and colleagues adjusted the distance scale to determine which one fit the data best. These distances show that the expansion of the Universe was first decelerating and then began to accelerate about six billion years ago. Chandra's observations agree with supernova results including those from the Hubble Space Telescope (HST), which first showed dark energy's effect on the acceleration of the Universe. Chandra's results are completely independent of the supernova technique - both in wavelength and the objects observed. Such independent verification is a cornerstone of science. In this case it helps to dispel any remaining doubts that the supernova technique is flawed. "Our Chandra method has nothing to do with other techniques, so they're definitely not comparing notes, so to speak," said Robert Schmidt of University of Potsdam in Germany, another coauthor on the study. Energy Distribution of the Universe Energy Distribution of the Universe Better limits on the amount of dark energy and how it varies with time are obtained by combining the X-ray results with data from NASA's Wilkinson Microwave Anisotropy Probe (WMAP), which used observations of the cosmic microwave background radiation to discover evidence for dark energy in the very early Universe. Using the combined data, Allen and his colleagues found that dark energy makes up about 75% of the Universe, dark matter about 21%, and visible matter about 4%. Allen and his colleagues stress that the uncertainties in the measurements are such that the data are consistent with dark energy having a constant value. The present Chandra data do, however, allow for the possibility that the dark energy density is increasing with time. More detailed studies with Chandra, HST, WMAP and with the future mission Constellation-X should provide much more precise constraints on dark energy. Expansion of the Universe Expansion of the Universe at Constant Acceleration "Until we better understand cosmic acceleration and the nature of the dark energy we cannot hope to understand the destiny of the Universe," said independent commentator Michael Turner, of the University of Chicago. The team conducting the research also included Harald Ebeling of the University of Hawaii and the late Leon van Speybroeck of the Harvard-Smithsonian Center for Astrophysics. These results will appear in an upcoming issue of the Monthly Notices of the Royal Astronomy Society. NASA's Marshall Space Flight Center, Huntsville, Ala., manages the Chandra program for NASA's Office of Space Science, Washington. Northrop Grumman of Redondo Beach, Calif., formerly TRW, Inc., was the prime development contractor for the observatory. The Smithsonian Astrophysical Observatory controls science and flight operations from the Chandra X-ray Center in Cambridge, Mass. Press Kit: Galaxy Clusters and Dark Energy Press Kit Additional information and images are available at: http://chandra.harvard.edu and http://chandra.nasa.gov

Implications of the circumpolar genetic structure of polar bears for their conservation in a rapidly warming Arctic.

PubMed

Peacock, Elizabeth; Sonsthagen, Sarah A; Obbard, Martyn E; Boltunov, Andrei; Regehr, Eric V; Ovsyanikov, Nikita; Aars, Jon; Atkinson, Stephen N; Sage, George K; Hope, Andrew G; Zeyl, Eve; Bachmann, Lutz; Ehrich, Dorothee; Scribner, Kim T; Amstrup, Steven C; Belikov, Stanislav; Born, Erik W; Derocher, Andrew E; Stirling, Ian; Taylor, Mitchell K; Wiig, Øystein; Paetkau, David; Talbot, Sandra L

2015-01-01

We provide an expansive analysis of polar bear (Ursus maritimus) circumpolar genetic variation during the last two decades of decline in their sea-ice habitat. We sought to evaluate whether their genetic diversity and structure have changed over this period of habitat decline, how their current genetic patterns compare with past patterns, and how genetic demography changed with ancient fluctuations in climate. Characterizing their circumpolar genetic structure using microsatellite data, we defined four clusters that largely correspond to current ecological and oceanographic factors: Eastern Polar Basin, Western Polar Basin, Canadian Archipelago and Southern Canada. We document evidence for recent (ca. last 1-3 generations) directional gene flow from Southern Canada and the Eastern Polar Basin towards the Canadian Archipelago, an area hypothesized to be a future refugium for polar bears as climate-induced habitat decline continues. Our data provide empirical evidence in support of this hypothesis. The direction of current gene flow differs from earlier patterns of gene flow in the Holocene. From analyses of mitochondrial DNA, the Canadian Archipelago cluster and the Barents Sea subpopulation within the Eastern Polar Basin cluster did not show signals of population expansion, suggesting these areas may have served also as past interglacial refugia. Mismatch analyses of mitochondrial DNA data from polar and the paraphyletic brown bear (U. arctos) uncovered offset signals in timing of population expansion between the two species, that are attributed to differential demographic responses to past climate cycling. Mitogenomic structure of polar bears was shallow and developed recently, in contrast to the multiple clades of brown bears. We found no genetic signatures of recent hybridization between the species in our large, circumpolar sample, suggesting that recently observed hybrids represent localized events. Documenting changes in subpopulation connectivity will allow polar nations to proactively adjust conservation actions to continuing decline in sea-ice habitat.

Implications of the Circumpolar Genetic Structure of Polar Bears for Their Conservation in a Rapidly Warming Arctic

PubMed Central

Peacock, Elizabeth; Sonsthagen, Sarah A.; Obbard, Martyn E.; Boltunov, Andrei; Regehr, Eric V.; Ovsyanikov, Nikita; Aars, Jon; Atkinson, Stephen N.; Sage, George K.; Hope, Andrew G.; Zeyl, Eve; Bachmann, Lutz; Ehrich, Dorothee; Scribner, Kim T.; Amstrup, Steven C.; Belikov, Stanislav; Born, Erik W.; Derocher, Andrew E.; Stirling, Ian; Taylor, Mitchell K.; Wiig, Øystein; Paetkau, David; Talbot, Sandra L.

2015-01-01

We provide an expansive analysis of polar bear (Ursus maritimus) circumpolar genetic variation during the last two decades of decline in their sea-ice habitat. We sought to evaluate whether their genetic diversity and structure have changed over this period of habitat decline, how their current genetic patterns compare with past patterns, and how genetic demography changed with ancient fluctuations in climate. Characterizing their circumpolar genetic structure using microsatellite data, we defined four clusters that largely correspond to current ecological and oceanographic factors: Eastern Polar Basin, Western Polar Basin, Canadian Archipelago and Southern Canada. We document evidence for recent (ca. last 1–3 generations) directional gene flow from Southern Canada and the Eastern Polar Basin towards the Canadian Archipelago, an area hypothesized to be a future refugium for polar bears as climate-induced habitat decline continues. Our data provide empirical evidence in support of this hypothesis. The direction of current gene flow differs from earlier patterns of gene flow in the Holocene. From analyses of mitochondrial DNA, the Canadian Archipelago cluster and the Barents Sea subpopulation within the Eastern Polar Basin cluster did not show signals of population expansion, suggesting these areas may have served also as past interglacial refugia. Mismatch analyses of mitochondrial DNA data from polar and the paraphyletic brown bear (U. arctos) uncovered offset signals in timing of population expansion between the two species, that are attributed to differential demographic responses to past climate cycling. Mitogenomic structure of polar bears was shallow and developed recently, in contrast to the multiple clades of brown bears. We found no genetic signatures of recent hybridization between the species in our large, circumpolar sample, suggesting that recently observed hybrids represent localized events. Documenting changes in subpopulation connectivity will allow polar nations to proactively adjust conservation actions to continuing decline in sea-ice habitat. PMID:25562525

Implications of the circumpolar genetic structure of polar bears for their conservation in a rapidly warming Arctic

USGS Publications Warehouse

Peacock, Elizabeth; Sonsthagen, Sarah A.; Obbard, Martyn E.; Boltunov, Andrei N.; Regehr, Eric V.; Ovsyanikov, Nikita; Aars, Jon; Atkinson, Stephen N.; Sage, George K.; Hope, Andrew G.; Zeyl, Eve; Bachmann, Lutz; Ehrich, Dorothee; Scribner, Kim T.; Amstrup, Steven C.; Belikov, Stanislav; Born, Erik W.; Derocher, Andrew E.; Stirling, Ian; Taylor, Mitchell K.; Wiig, Øystein; Paetkau, David; Talbot, Sandra L.

2015-01-01

We provide an expansive analysis of polar bear (Ursus maritimus) circumpolar genetic variation during the last two decades of decline in their sea-ice habitat. We sought to evaluate whether their genetic diversity and structure have changed over this period of habitat decline, how their current genetic patterns compare with past patterns, and how genetic demography changed with ancient fluctuations in climate. Characterizing their circumpolar genetic structure using microsatellite data, we defined four clusters that largely correspond to current ecological and oceanographic factors: Eastern Polar Basin, Western Polar Basin, Canadian Archipelago and Southern Canada. We document evidence for recent (ca. last 1–3 generations) directional gene flow from Southern Canada and the Eastern Polar Basin towards the Canadian Archipelago, an area hypothesized to be a future refugium for polar bears as climate-induced habitat decline continues. Our data provide empirical evidence in support of this hypothesis. The direction of current gene flow differs from earlier patterns of gene flow in the Holocene. From analyses of mitochondrial DNA, the Canadian Archipelago cluster and the Barents Sea subpopulation within the Eastern Polar Basin cluster did not show signals of population expansion, suggesting these areas may have served also as past interglacial refugia. Mismatch analyses of mitochondrial DNA data from polar and the paraphyletic brown bear (U. arctos) uncovered offset signals in timing of population expansion between the two species, that are attributed to differential demographic responses to past climate cycling. Mitogenomic structure of polar bears was shallow and developed recently, in contrast to the multiple clades of brown bears. We found no genetic signatures of recent hybridization between the species in our large, circumpolar sample, suggesting that recently observed hybrids represent localized events. Documenting changes in subpopulation connectivity will allow polar nations to proactively adjust conservation actions to continuing decline in sea-ice habitat.

Evolutionary History of HIV-1 Subtype B and CRF01_AE Transmission Clusters among Men Who Have Sex with Men (MSM) in Kuala Lumpur, Malaysia

PubMed Central

Ng, Kim Tien; Ong, Lai Yee; Lim, Sin How; Takebe, Yutaka; Kamarulzaman, Adeeba; Tee, Kok Keng

2013-01-01

HIV-1 epidemics among men who have sex with men (MSM) continue to expand in developed and developing countries. Although HIV infection in MSM is amongst the highest of the key affected populations in many countries in Southeast Asia, comprehensive molecular epidemiological study of HIV-1 among MSM remains inadequate in the region including in Malaysia. Here, we reported the phylodynamic profiles of HIV-1 genotypes circulating among MSM population in Kuala Lumpur, Malaysia. A total of n = 459 newly-diagnosed treatment-naïve consenting subjects were recruited between March 2006 and August 2012, of whom 87 (18.9%) were self-reported MSM. Transmitted drug resistance mutations were absent in these isolates. Cumulatively, phylogenetic reconstructions of the pro-rt gene (HXB2∶2253–3275) showed that HIV-1 subtype B and CRF01_AE were predominant and contributed to approximately 80% of the total HIV-1 infection among MSM. In addition to numerous unique transmission lineages within these genotypes, twelve monophyletic transmission clusters of different sizes (2–7 MSM sequences, supported by posterior probability value of 1) were identified in Malaysia. Bayesian coalescent analysis estimated that the divergence times for these clusters were mainly dated between 1995 and 2005 with four major transmission clusters radiating at least 12 years ago suggesting that active spread of multiple sub-epidemic clusters occurred during this period. The changes in effective population size of subtype B showed an exponential growth within 5 years between 1988 and 1993, while CRF01_AE lineage exhibited similar expansion between 1993 and 2003. Our study provides the first insight of the phylodynamic profile of HIV-1 subtype B and CRF01_AE circulating among MSM population in Kuala Lumpur, Malaysia, unravelling the importance of understanding transmission behaviours as well as evolutionary history of HIV-1 in assessing the risk of outbreak or epidemic expansion. PMID:23840653

Phylogeographic Analyses of American Black Bears (Ursus americanus) Suggest Four Glacial Refugia and Complex Patterns of Postglacial Admixture.

PubMed

Puckett, Emily E; Etter, Paul D; Johnson, Eric A; Eggert, Lori S

2015-09-01

Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and admixture within American black bears (Ursus americanus) across their range using 22 k single nucleotide polymorphisms and mitochondrial DNA sequences. We identified three subcontinental nuclear clusters which we further divided into nine geographic regions: Alaskan (Alaska-East), eastern (Central Interior Highlands, Great Lakes, Northeast, Southeast), and western (Alaska-West, West, Pacific Coast, Southwest). We estimated that the western cluster diverged 67 ka, before eastern and Alaskan divergence 31 ka; these divergence dates contrasted with those from the mitochondrial genome where clades A and B diverged 1.07 Ma, and clades A-east and A-west diverged 169 ka. We combined estimates of divergence timing with hindcast species distribution models to infer glacial refugia for the species in Beringia, Pacific Northwest, Southwest, and Southeast. Our results show a complex arrangement of admixture due to expansion out of multiple refugia. The delineation of the genomic population clusters was inconsistent with the ranges for 16 previously described subspecies. Ranges for U. a. pugnax and U. a. cinnamomum were concordant with admixed clusters, calling into question how to order taxa below the species level. Additionally, our finding that U. a. floridanus has not diverged from U. a. americanus also suggests that morphology and genetics should be reanalyzed to assess taxonomic designations relevant to the conservation management of the species. © The Author 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved.For permissions please email: journals.permissions@oup.com.

Genetic variations of ND5 gene of mtDNA in populations of Anopheles sinensis (Diptera: Culicidae) malaria vector in China

PubMed Central

2013-01-01

Background Anopheles sinensis is a principal vector for Plasmodium vivax malaria in most parts of China. Understanding of genetic structure and genetic differentiation of the mosquito should contribute to the vector control and malaria elimination in China. Methods The present study investigated the genetic structure of An. sinensis populations using a 729 bp fragment of mtDNA ND5 among 10 populations collected from seven provinces in China. Results ND5 was polymorphic by single mutations within three groups of An. sinensis that were collected from 10 different geographic populations in China. Out of 140 specimens collected from 10 representative sites, 84 haplotypes and 71 variable positions were determined. The overall level of genetic differentiation of An. sinensis varied from low to moderate across China and with a FST range of 0.00065 – 0.341. Genealogy analysis clustered the populations of An. sinensis into three main clusters. Each cluster shared one main haplotype. Pairwise variations within populations were higher (68.68%) than among populations (31.32%) and with high fixation index (FST = 0.313). The results of the present study support population growth and expansion in the An. sinensis populations from China. Three clusters of An. sinensis populations were detected in this study with each displaying different proportion patterns over seven Chinese provinces. No correlation between genetic and geographic distance was detected in overall populations of An. sinensis (R2 = 0.058; P = 0.301). Conclusions The results indicate that the ND5 gene of mtDNA is highly polymorphic in An. sinensis and has moderate genetic variability in the populations of this mosquito in China. Demographic and spatial results support evidence of expansion in An. sinensis populations. PMID:24192424

Changes in urban-related precipitation in the summer over three city clusters in China

NASA Astrophysics Data System (ADS)

Zhao, Deming; Wu, Jian

2017-09-01

The impacts of urban surface expansion on the summer precipitations over three city clusters [Beijing-Tianjin-Hebei (BTH), the Yangtze River Delta (YRD), and the Pearl River Delta (PRD)] in eastern China under different monsoonal circulation backgrounds were explored using the nested fifth-generation Penn State/NCAR Mesoscale Model version 3.7 (MM5 V3.7), including the urban-related thermal and dynamical parameters. Ten-year integrations were performed using satellite image data from 2000 and 2010 to represent the urban surface distributions and expansions in China. Changes in the precipitation revealed obvious subregional characteristics, which could be explained by the influences of the vertical wind velocity and moisture flux. With urban-related warming, vertical wind motion generally intensified over urban surface-expanded areas. Meanwhile, the increase in impervious surface areas induced rapid rainwater runoff into drains, and the Bowen ratio increased over urban areas, which further contributed to changes in the local moisture fluxes in these regions. The intensities of the changes in precipitation were inconsistent over the three city clusters, although the changes in vertical motion and local evaporation were similar, which indicates that the changes in precipitation cannot be solely explained by the changes in the local evaporation-related moisture flux. The changes in precipitation were also influenced by the changes in the East Asian summer monsoon (EASM) circulation and the corresponding moisture flux, which are expressed in marked subregional characteristics. Therefore, the influence of urban-related precipitation over the three city clusters in China, for which changes in moisture flux from both the impacted local evaporation and EASM circulation should be considered, varied based on the precipitation changes of only a single city.

In the heartland of Eurasia: the multilocus genetic landscape of Central Asian populations

PubMed Central

Martínez-Cruz, Begoña; Vitalis, Renaud; Ségurel, Laure; Austerlitz, Frédéric; Georges, Myriam; Théry, Sylvain; Quintana-Murci, Lluis; Hegay, Tatyana; Aldashev, Almaz; Nasyrova, Firuza; Heyer, Evelyne

2011-01-01

Located in the Eurasian heartland, Central Asia has played a major role in both the early spread of modern humans out of Africa and the more recent settlements of differentiated populations across Eurasia. A detailed knowledge of the peopling in this vast region would therefore greatly improve our understanding of range expansions, colonizations and recurrent migrations, including the impact of the historical expansion of eastern nomadic groups that occurred in Central Asia. However, despite its presumable importance, little is known about the level and the distribution of genetic variation in this region. We genotyped 26 Indo-Iranian- and Turkic-speaking populations, belonging to six different ethnic groups, at 27 autosomal microsatellite loci. The analysis of genetic variation reveals that Central Asian diversity is mainly shaped by linguistic affiliation, with Turkic-speaking populations forming a cluster more closely related to East-Asian populations and Indo-Iranian speakers forming a cluster closer to Western Eurasians. The scattered position of Uzbeks across Turkic- and Indo-Iranian-speaking populations may reflect their origins from the union of different tribes. We propose that the complex genetic landscape of Central Asian populations results from the movements of eastern, Turkic-speaking groups during historical times, into a long-lasting group of settled populations, which may be represented nowadays by Tajiks and Turkmen. Contrary to what is generally thought, our results suggest that the recurrent expansions of eastern nomadic groups did not result in the complete replacement of local populations, but rather into partial admixture. PMID:20823912

The expansion of the metazoan microRNA repertoire

PubMed Central

Hertel, Jana; Lindemeyer, Manuela; Missal, Kristin; Fried, Claudia; Tanzer, Andrea; Flamm, Christoph; Hofacker, Ivo L; Stadler, Peter F

2006-01-01

Background MicroRNAs have been identified as crucial regulators in both animals and plants. Here we report on a comprehensive comparative study of all known miRNA families in animals. We expand the MicroRNA Registry 6.0 by more than 1000 new homologs of miRNA precursors whose expression has been verified in at least one species. Using this uniform data basis we analyze their evolutionary history in terms of individual gene phylogenies and in terms of preservation of genomic nearness across species. This allows us to reliably identify microRNA clusters that are derived from a common transcript. Results We identify three episodes of microRNA innovation that correspond to major developmental innovations: A class of about 20 miRNAs is common to protostomes and deuterostomes and might be related to the advent of bilaterians. A second large wave of innovations maps to the branch leading to the vertebrates. The third significant outburst of miRNA innovation coincides with placental (eutherian) mammals. In addition, we observe the expected expansion of the microRNA inventory due to genome duplications in early vertebrates and in an ancestral teleost. The non-local duplications in the vertebrate ancestor are predated by local (tandem) duplications leading to the formation of about a dozen ancient microRNA clusters. Conclusion Our results suggest that microRNA innovation is an ongoing process. Major expansions of the metazoan miRNA repertoire coincide with the advent of bilaterians, vertebrates, and (placental) mammals. PMID:16480513

Generation of monodisperse droplets by spontaneous condensation of flow in nozzles

NASA Technical Reports Server (NTRS)

Lai, Der-Shaiun; Kadambi, J. R.

1993-01-01

Submicron size monodisperse particles are of interest in many industrial and scientific applications. These include the manufacture of ceramic parts using fine ceramic particles, the production of thin films by deposition of ionized clusters, monodisperse seed particles for laser anemometry, and the study of size dependence of cluster chemical and physical properties. An inexpensive and relatively easy way to generate such particles is by utilizing the phenomenon of spontaneous condensation. The phenomenon occurs when the vapor or a mixture of a vapor and a noncondensing gas is expanded at a high expansion rate. The saturation line is crossed with the supercooled vapor behaving like a gas, until all of a sudden at the so called Wilson point, condensation occurs, resulting in a large number of relatively monodisperse droplets. The droplet size is a function of the expansion rate, inlet conditions, mass fraction of vapor, gas properties, etc. Spontaneous condensation of steam and water vapor and air mixture in a one dimensional nozzle was modeled and the resulting equations solved numerically. The droplet size distribution at the exit of various one dimensional nozzles and the flow characteristics such as pressure ratio, mean droplet radius, vapor and droplet temperatures, nucleation flux, supercooling, wetness, etc., along the axial distance were obtained. The numerical results compared very well with the available experimental data. The effect of inlet conditions, nozzle expansion rates, and vapor mass fractions on droplet mean radius, droplet size distribution, and pressure ratio were examined.

Dendritic Cells Control Fibroblastic Reticular Network Tension and Lymph Node Expansion

PubMed Central

Acton, Sophie E.; Farrugia, Aaron J.; Astarita, Jillian L.; Mourão-Sá, Diego; Jenkins, Robert P.; Nye, Emma; Hooper, Steven; van Blijswijk, Janneke; Rogers, Neil C.; Snelgrove, Kathryn J.; Rosewell, Ian; Moita, Luis F.; Stamp, Gordon; Turley, Shannon J.; Sahai, Erik; Sousa, Caetano Reis e

2014-01-01

Following immunogenic challenge, infiltrating and dividing lymphocytes significantly increase lymph node (LN) cellularity leading to organ expansion1,2. Here we report that the physical elasticity of LNs is maintained in part by podoplanin (PDPN) signalling in stromal fibroblastic reticular cells (FRCs) and its modulation by CLEC-2 expressed on dendritic cells (DCs). We show that PDPN induces actomyosin contractility in FRCs via activation of RhoA/C and downstream Rho-kinase. Engagement by CLEC-2 causes PDPN clustering and rapidly uncouples PDPN from RhoA/C activation, relaxing the actomyosin cytoskeleton and permitting FRC stretching. Notably, administration of CLEC-2 protein to immunised mice augments LN expansion. In contrast, the latter is significantly constrained in mice selectively lacking CLEC-2 expression in DCs. Thus, the same DCs that initiate immunity by presenting antigens to T lymphocytes3 also initiate remodeling of LNs by delivering CLEC-2 to FRCs. CLEC-2 modulation of PDPN signalling permits FRC network stretching and allows for the rapid LN expansion driven by lymphocyte influx and proliferation that is the critical hallmark of adaptive immunity. PMID:25341788

Comparative study of energy of particles ejected from coulomb explosion of rare gas and metallic clusters irradiated by intense femtosecond laser field

NASA Astrophysics Data System (ADS)

Boucerredj, N.; Beggas, K.

2016-10-01

We present our study of high intensity femtosecond laser field interaction with large cluster of Kr and Na (contained 2.103 to 2.107 atoms). When laser intensity is above a critical value, it blows off all of electrons from the cluster and forms a non neutral ion cloud. The irradiation of these clusters by the intense laser field leads to highly excitation energy which can be the source of energetic electrons, electronic emission, highly charge, energetic ions and fragmentation process. During the Coulomb explosion of the resulting highly ionized, high temperature nanoplasma, ions acquire again their energy. It is shown that ultra fast ions are produced. The goal of our study is to investigate in detail a comparative study of the expansion and explosion then the ion energy of metallic and rare gas clusters irradiated by an intense femtosecond laser field. We have found that ions have a kinetic energy up to 105 eV and the Coulomb pressure is little than the hydrodynamic pressure. The Coulomb explosion of a cluster may provide a new high energy ion source.

Using SVD on Clusters to Improve Precision of Interdocument Similarity Measure.

PubMed

Zhang, Wen; Xiao, Fan; Li, Bin; Zhang, Siguang

2016-01-01

Recently, LSI (Latent Semantic Indexing) based on SVD (Singular Value Decomposition) is proposed to overcome the problems of polysemy and homonym in traditional lexical matching. However, it is usually criticized as with low discriminative power for representing documents although it has been validated as with good representative quality. In this paper, SVD on clusters is proposed to improve the discriminative power of LSI. The contribution of this paper is three manifolds. Firstly, we make a survey of existing linear algebra methods for LSI, including both SVD based methods and non-SVD based methods. Secondly, we propose SVD on clusters for LSI and theoretically explain that dimension expansion of document vectors and dimension projection using SVD are the two manipulations involved in SVD on clusters. Moreover, we develop updating processes to fold in new documents and terms in a decomposed matrix by SVD on clusters. Thirdly, two corpora, a Chinese corpus and an English corpus, are used to evaluate the performances of the proposed methods. Experiments demonstrate that, to some extent, SVD on clusters can improve the precision of interdocument similarity measure in comparison with other SVD based LSI methods.

Using SVD on Clusters to Improve Precision of Interdocument Similarity Measure

PubMed Central

Xiao, Fan; Li, Bin; Zhang, Siguang

2016-01-01

Recently, LSI (Latent Semantic Indexing) based on SVD (Singular Value Decomposition) is proposed to overcome the problems of polysemy and homonym in traditional lexical matching. However, it is usually criticized as with low discriminative power for representing documents although it has been validated as with good representative quality. In this paper, SVD on clusters is proposed to improve the discriminative power of LSI. The contribution of this paper is three manifolds. Firstly, we make a survey of existing linear algebra methods for LSI, including both SVD based methods and non-SVD based methods. Secondly, we propose SVD on clusters for LSI and theoretically explain that dimension expansion of document vectors and dimension projection using SVD are the two manipulations involved in SVD on clusters. Moreover, we develop updating processes to fold in new documents and terms in a decomposed matrix by SVD on clusters. Thirdly, two corpora, a Chinese corpus and an English corpus, are used to evaluate the performances of the proposed methods. Experiments demonstrate that, to some extent, SVD on clusters can improve the precision of interdocument similarity measure in comparison with other SVD based LSI methods. PMID:27579031

Graph-Based Object Class Discovery

NASA Astrophysics Data System (ADS)

Xia, Shengping; Hancock, Edwin R.

We are interested in the problem of discovering the set of object classes present in a database of images using a weakly supervised graph-based framework. Rather than making use of the ”Bag-of-Features (BoF)” approach widely used in current work on object recognition, we represent each image by a graph using a group of selected local invariant features. Using local feature matching and iterative Procrustes alignment, we perform graph matching and compute a similarity measure. Borrowing the idea of query expansion , we develop a similarity propagation based graph clustering (SPGC) method. Using this method class specific clusters of the graphs can be obtained. Such a cluster can be generally represented by using a higher level graph model whose vertices are the clustered graphs, and the edge weights are determined by the pairwise similarity measure. Experiments are performed on a dataset, in which the number of images increases from 1 to 50K and the number of objects increases from 1 to over 500. Some objects have been discovered with total recall and a precision 1 in a single cluster.

Fierz Convergence Criterion: A Controlled Approach to Strongly Interacting Systems with Small Embedded Clusters.

PubMed

Ayral, Thomas; Vučičević, Jaksa; Parcollet, Olivier

2017-10-20

We present an embedded-cluster method, based on the triply irreducible local expansion formalism. It turns the Fierz ambiguity, inherent to approaches based on a bosonic decoupling of local fermionic interactions, into a convergence criterion. It is based on the approximation of the three-leg vertex by a coarse-grained vertex computed from a self-consistently determined cluster impurity model. The computed self-energies are, by construction, continuous functions of momentum. We show that, in three interaction and doping regimes of the two-dimensional Hubbard model, self-energies obtained with clusters of size four only are very close to numerically exact benchmark results. We show that the Fierz parameter, which parametrizes the freedom in the Hubbard-Stratonovich decoupling, can be used as a quality control parameter. By contrast, the GW+extended dynamical mean field theory approximation with four cluster sites is shown to yield good results only in the weak-coupling regime and for a particular decoupling. Finally, we show that the vertex has spatially nonlocal components only at low Matsubara frequencies.

Evaluating effective pair and multisite interactions for Ni-Mo system

NASA Astrophysics Data System (ADS)

Banerjee, Rumu H.; Arya, A.; Banerjee, S.

2018-04-01

Cluster expansion (CE) method was used to calculate the energies of various Ni-Mo phases. The clusters comprising of few nearest neighbours can describe any phase of Ni-Mo system by suitable choice of effective pair and multisite interaction parameters (ECI). The ECIs were evaluated in present study by fitting the ground state energies obtained by first principle calculations. The ECIs evaluated for Ni-Mo system were mostly pair clusters followed by triplets and quadruplet clusters with cluster diameters in the range 2.54 - 10.20 Å. The ECI values diminished for multi-body (triplets and quadruplets) clusters as compared to 2-point or pair clusters indicating a good convergence of CE model. With these ECIs the predicted energies of all the Ni-Mo structures across the Mo concentration range 0-100 at% were obtained. The quantitative error in the energies calculated by CE approach and first principle is very small (< 0.026 meV/atom). The appreciable values of 2-point ECIs upto 4th nearest neighbour reveal that two body interactions are dominant in the case of Ni-Mo system. These ECIs are compared with the reported values of compositional dependent effective pair interactions evaluated by first principle as well as by Monte Carlo method.

Three-cluster dynamics within an ab initio framework

DOE PAGES

Quaglioni, Sofia; Romero-Redondo, Carolina; Navratil, Petr

2013-09-26

In this study, we introduce a fully antisymmetrized treatment of three-cluster dynamics within the ab initio framework of the no-core shell model/resonating-group method. Energy-independent nonlocal interactions among the three nuclear fragments are obtained from realistic nucleon-nucleon interactions and consistent ab initio many-body wave functions of the clusters. The three-cluster Schrödinger equation is solved with bound-state boundary conditions by means of the hyperspherical-harmonic method on a Lagrange mesh. We discuss the formalism in detail and give algebraic expressions for systems of two single nucleons plus a nucleus. Using a soft similarity-renormalization-group evolved chiral nucleon-nucleon potential, we apply the method to amore » 4He+n+n description of 6He and compare the results to experiment and to a six-body diagonalization of the Hamiltonian performed within the harmonic-oscillator expansions of the no-core shell model. Differences between the two calculations provide a measure of core ( 4He) polarization effects.« less

Surface properties for α-cluster nuclear matter

NASA Astrophysics Data System (ADS)

Castro, J. J.; Soto, J. R.; Yépez, E.

2013-03-01

We introduce a new microscopic model for α-cluster matter, which simulates the properties of ordinary nuclear matter and α-clustering in a curved surface of a large but finite nucleus. The model is based on a nested icosahedral fullerene-like multiple-shell structure, where each vertex is occupied by a microscopic α-particle. The novel aspect of this model is that it allows a consistent description of nuclear surface properties from microscopic parameters to be made without using the leptodermous expansion. In particular, we show that the calculated surface energy is in excellent agreement with the corresponding coefficient of the Bethe-Weizäcker semi-empirical mass formula. We discuss the properties of the surface α-cluster state, which resembles an ultra cold bosonic quantum gas trapped in an optical lattice. By comparing the surface and interior states we are able to estimate the α preformation probability. Possible extensions of this model to study nuclear dynamics through surface vibrations and departures from approximate sphericity are mentioned.

Magnetic Field-Induced T Cell Receptor Clustering by Nanoparticles Enhances T Cell Activation and Stimulates Antitumor Activity

PubMed Central

2015-01-01

Iron–dextran nanoparticles functionalized with T cell activating proteins have been used to study T cell receptor (TCR) signaling. However, nanoparticle triggering of membrane receptors is poorly understood and may be sensitive to physiologically regulated changes in TCR clustering that occur after T cell activation. Nano-aAPC bound 2-fold more TCR on activated T cells, which have clustered TCR, than on naive T cells, resulting in a lower threshold for activation. To enhance T cell activation, a magnetic field was used to drive aggregation of paramagnetic nano-aAPC, resulting in a doubling of TCR cluster size and increased T cell expansion in vitro and after adoptive transfer in vivo. T cells activated by nano-aAPC in a magnetic field inhibited growth of B16 melanoma, showing that this novel approach, using magnetic field-enhanced nano-aAPC stimulation, can generate large numbers of activated antigen-specific T cells and has clinically relevant applications for adoptive immunotherapy. PMID:24564881

Sochi, Russia 2014

NASA Image and Video Library

2014-02-06

2013 image of Adler and the newly created Olympic Coastal Cluster. This false color satellite image reveals a largely agricultural area that was transformed into the Coastal Olympic Cluster with the nearby Olympic Village and Rail Station with transport to the Mountain Cluster. A spanking new breakwater structure was installed to create a harbor for cruise ships. The airport also received an expansion to handle the increased traffic. Caption and image provided by Tim Assal, US Geological Survey – Fort Collins Science Center Credit: NASA/Landsat NASA image use policy. NASA Goddard Space Flight Center enables NASA’s mission through four scientific endeavors: Earth Science, Heliophysics, Solar System Exploration, and Astrophysics. Goddard plays a leading role in NASA’s accomplishments by contributing compelling scientific knowledge to advance the Agency’s mission. Follow us on Twitter Like us on Facebook Find us on Instagram

Beyond the Rayleigh instability limit for multicharged finite systems: From fission to Coulomb explosion

PubMed Central

Last, Isidore; Levy, Yaakov; Jortner, Joshua

2002-01-01

We address the stability of multicharged finite systems driven by Coulomb forces beyond the Rayleigh instability limit. Our exploration of the nuclear dynamics of heavily charged Morse clusters enabled us to vary the range of the pair potential and of the fissibility parameter, which results in distinct fragmentation patterns and in the angular distributions of the fragments. The Rayleigh instability limit separates between nearly binary (or tertiary) spatially unisotropic fission and spatially isotropic Coulomb explosion into a large number of small, ionic fragments. Implications are addressed for a broad spectrum of dynamics in chemical physics, radiation physics of ultracold gases, and biophysics, involving the fission of clusters and droplets, the realization of Coulomb explosion of molecular clusters, the isotropic expansion of optical molasses, and the Coulomb instability of “isolated” proteins. PMID:12093910

Relativistic corrections to the multiple scattering effect on the Sunyaev-Zel'dovich effect in the isotropic approximation

NASA Astrophysics Data System (ADS)

Itoh, Naoki; Kawana, Youhei; Nozawa, Satoshi; Kohyama, Yasuharu

2001-10-01

We extend the formalism for the calculation of the relativistic corrections to the Sunyaev-Zel'dovich effect for clusters of galaxies and include the multiple scattering effects in the isotropic approximation. We present the results of the calculations by the Fokker-Planck expansion method as well as by the direct numerical integration of the collision term of the Boltzmann equation. The multiple scattering contribution is found to be very small compared with the single scattering contribution. For high-temperature galaxy clusters of kBTe~15keV, the ratio of both the contributions is -0.2 per cent in the Wien region. In the Rayleigh-Jeans region the ratio is -0.03 per cent. Therefore the multiple scattering contribution is safely neglected for the observed galaxy clusters.

Monitoring evolving urban cluster systems using DMSP/OLS nighttime light data: a case study of the Yangtze River Delta region, China

NASA Astrophysics Data System (ADS)

Wang, Zhao; Yang, Shan; Wang, Shuguang; Shen, Yan

2017-10-01

The assessment of the dynamic urban structure has been affected by lack of timely and accurate spatial information for a long period, which has hindered the measurements of structural continuity at the macroscale. Defense meteorological satellite program's operational linescan system (DMSP/OLS) nighttime light (NTL) data provide an ideal source for urban information detection with a long-time span, short-time interval, and wide coverage. In this study, we extracted the physical boundaries of urban clusters from corrected NTL images and quantitatively analyzed the structure of the urban cluster system based on rank-size distribution, spatial metrics, and Mann-Kendall trend test. Two levels of urban cluster systems in the Yangtze River Delta region (YRDR) were examined. We found that (1) in the entire YRDR, the urban cluster system showed a periodic process, with a significant trend of even distribution before 2007 but an unequal growth pattern after 2007, and (2) at the metropolitan level, vast disparities exist in four metropolitan areas for the fluctuations of Pareto's exponent, the speed of cluster expansion, and the dominance of core cluster. The results suggest that the extracted urban cluster information from NTL data effectively reflect the evolving nature of regional urbanization, which in turn can aid in the planning of cities and help achieve more sustainable regional development.

Structural parameters of young star clusters: fractal analysis

NASA Astrophysics Data System (ADS)

Hetem, A.

2017-07-01

A unified view of star formation in the Universe demand detailed and in-depth studies of young star clusters. This work is related to our previous study of fractal statistics estimated for a sample of young stellar clusters (Gregorio-Hetem et al. 2015, MNRAS 448, 2504). The structural properties can lead to significant conclusions about the early stages of cluster formation: 1) virial conditions can be used to distinguish warm collapsed; 2) bound or unbound behaviour can lead to conclusions about expansion; and 3) fractal statistics are correlated to the dynamical evolution and age. The technique of error bars estimation most used in the literature is to adopt inferential methods (like bootstrap) to estimate deviation and variance, which are valid only for an artificially generated cluster. In this paper, we expanded the number of studied clusters, in order to enhance the investigation of the cluster properties and dynamic evolution. The structural parameters were compared with fractal statistics and reveal that the clusters radial density profile show a tendency of the mean separation of the stars increase with the average surface density. The sample can be divided into two groups showing different dynamic behaviour, but they have the same dynamic evolution, since the entire sample was revealed as being expanding objects, for which the substructures do not seem to have been completely erased. These results are in agreement with the simulations adopting low surface densities and supervirial conditions.

Understanding the many-body expansion for large systems. II. Accuracy considerations

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

Lao, Ka Un; Liu, Kuan-Yu; Richard, Ryan M.

2016-04-28

To complement our study of the role of finite precision in electronic structure calculations based on a truncated many-body expansion (MBE, or “n-body expansion”), we examine the accuracy of such methods in the present work. Accuracy may be defined either with respect to a supersystem calculation computed at the same level of theory as the n-body calculations, or alternatively with respect to high-quality benchmarks. Both metrics are considered here. In applications to a sequence of water clusters, (H{sub 2}O){sub N=6−55} described at the B3LYP/cc-pVDZ level, we obtain mean absolute errors (MAEs) per H{sub 2}O monomer of ∼1.0 kcal/mol for two-bodymore » expansions, where the benchmark is a B3LYP/cc-pVDZ calculation on the entire cluster. Three- and four-body expansions exhibit MAEs of 0.5 and 0.1 kcal/mol/monomer, respectively, without resort to charge embedding. A generalized many-body expansion truncated at two-body terms [GMBE(2)], using 3–4 H{sub 2}O molecules per fragment, outperforms all of these methods and affords a MAE of ∼0.02 kcal/mol/monomer, also without charge embedding. GMBE(2) requires significantly fewer (although somewhat larger) subsystem calculations as compared to MBE(4), reducing problems associated with floating-point roundoff errors. When compared to high-quality benchmarks, we find that error cancellation often plays a critical role in the success of MBE(n) calculations, even at the four-body level, as basis-set superposition error can compensate for higher-order polarization interactions. A many-body counterpoise correction is introduced for the GMBE, and its two-body truncation [GMBCP(2)] is found to afford good results without error cancellation. Together with a method such as ωB97X-V/aug-cc-pVTZ that can describe both covalent and non-covalent interactions, the GMBE(2)+GMBCP(2) approach provides an accurate, stable, and tractable approach for large systems.« less

60,000 years of interactions between Central and Eastern Africa documented by major African mitochondrial haplogroup L2.

PubMed

Silva, Marina; Alshamali, Farida; Silva, Paula; Carrilho, Carla; Mandlate, Flávio; Jesus Trovoada, Maria; Černý, Viktor; Pereira, Luísa; Soares, Pedro

2015-07-27

Mitochondrial DNA (mtDNA) haplogroup L2 originated in Western Africa but is nowadays spread across the entire continent. L2 movements were previously postulated to be related to the Bantu expansion, but L2 expansions eastwards probably occurred much earlier. By reconstructing the phylogeny of L2 (44 new complete sequences) we provide insights on the complex net of within-African migrations in the last 60 thousand years (ka). Results show that lineages in Southern Africa cluster with Western/Central African lineages at a recent time scale, whereas, eastern lineages seem to be substantially more ancient. Three moments of expansion from a Central African source are associated to L2: (1) one migration at 70-50 ka into Eastern or Southern Africa, (2) postglacial movements (15-10 ka) into Eastern Africa; and (3) the southward Bantu Expansion in the last 5 ka. The complementary population and L0a phylogeography analyses indicate no strong evidence of mtDNA gene flow between eastern and southern populations during the later movement, suggesting low admixture between Eastern African populations and the Bantu migrants. This implies that, at least in the early stages, the Bantu expansion was mainly a demic diffusion with little incorporation of local populations.

60,000 years of interactions between Central and Eastern Africa documented by major African mitochondrial haplogroup L2

PubMed Central

Silva, Marina; Alshamali, Farida; Silva, Paula; Carrilho, Carla; Mandlate, Flávio; Jesus Trovoada, Maria; Černý, Viktor; Pereira, Luísa; Soares, Pedro

2015-01-01

Mitochondrial DNA (mtDNA) haplogroup L2 originated in Western Africa but is nowadays spread across the entire continent. L2 movements were previously postulated to be related to the Bantu expansion, but L2 expansions eastwards probably occurred much earlier. By reconstructing the phylogeny of L2 (44 new complete sequences) we provide insights on the complex net of within-African migrations in the last 60 thousand years (ka). Results show that lineages in Southern Africa cluster with Western/Central African lineages at a recent time scale, whereas, eastern lineages seem to be substantially more ancient. Three moments of expansion from a Central African source are associated to L2: (1) one migration at 70–50 ka into Eastern or Southern Africa, (2) postglacial movements (15–10 ka) into Eastern Africa; and (3) the southward Bantu Expansion in the last 5 ka. The complementary population and L0a phylogeography analyses indicate no strong evidence of mtDNA gene flow between eastern and southern populations during the later movement, suggesting low admixture between Eastern African populations and the Bantu migrants. This implies that, at least in the early stages, the Bantu expansion was mainly a demic diffusion with little incorporation of local populations. PMID:26211407

Identifying the driving forces of urban expansion and its environmental impact in Jakarta-Bandung mega urban region

NASA Astrophysics Data System (ADS)

Pravitasari, A. E.; Rustiadi, E.; Mulya, S. P.; Setiawan, Y.; Fuadina, L. N.; Murtadho, A.

2018-05-01

The socio-economic development in Jakarta-Bandung Mega Urban Region (JBMUR) caused the increasing of urban expansion and led to a variety of environmental damage such as uncontrolled land use conversion and raising anthropogenic disaster. The objectives of this study are: (1) to identify the driving forces of urban expansion that occurs on JBMUR and (2) to analyze the environmental quality decline on JBMUR by producing time series spatial distribution map and spatial autocorrelation of floods and landslide as the proxy of anthropogenic disaster. The driving forces of urban expansion in this study were identified by employing Geographically Weighted Regression (GWR) model using 6 (six) independent variables, namely: population density, percentage of agricultural land, distance to the center of capital city/municipality, percentage of household who works in agricultural sector, distance to the provincial road, and distance to the local road. The GWR results showed that local demographic, social and economic factors including distance to the road spatially affect urban expansion in JBMUR. The time series spatial distribution map of floods and landslide event showed the spatial cluster of anthropogenic disaster in some areas. Through Local Moran Index, we found that environmental damage in one location has a significant impact on the condition of its surrounding area.

Genetic variations in two seahorse species (Hippocampus mohnikei and Hippocampus trimaculatus): evidence for middle Pleistocene population expansion.

PubMed

Zhang, Yanhong; Pham, Nancy Kim; Zhang, Huixian; Lin, Junda; Lin, Qiang

2014-01-01

Population genetic of seahorses is confidently influenced by their species-specific ecological requirements and life-history traits. In the present study, partial sequences of mitochondrial cytochrome b (cytb) and control region (CR) were obtained from 50 Hippocampus mohnikei and 92 H. trimaculatus from four zoogeographical zones. A total of 780 base pairs of cytb gene were sequenced to characterize mitochondrial DNA (mtDNA) diversity. The mtDNA marker revealed high haplotype diversity, low nucleotide diversity, and a lack of population structure across both populations of H. mohnikei and H. trimaculatus. A neighbour-joining (NJ) tree of cytb gene sequences showed that H. mohnikei haplotypes formed one cluster. A maximum likelihood (ML) tree of cytb gene sequences showed that H. trimaculatus belonged to one lineage. The star-like pattern median-joining network of cytb and CR markers indicated a previous demographic expansion of H. mohnikei and H. trimaculatus. The cytb and CR data sets exhibited a unimodal mismatch distribution, which may have resulted from population expansion. Mismatch analysis suggested that the expansion was initiated about 276,000 years ago for H. mohnikei and about 230,000 years ago for H. trimaculatus during the middle Pleistocene period. This study indicates a possible signature of genetic variation and population expansion in two seahorses under complex marine environments.

The pace of Holocene vegetation change - testing for synchronous developments

NASA Astrophysics Data System (ADS)

Giesecke, Thomas; Bennett, K. D.; Birks, H. John B.; Bjune, Anne E.; Bozilova, Elisaveta; Feurdean, Angelica; Finsinger, Walter; Froyd, Cynthia; Pokorný, Petr; Rösch, Manfred; Seppä, Heikki; Tonkov, Spasimir; Valsecchi, Verushka; Wolters, Steffen

2011-09-01

Mid to high latitude forest ecosystems have undergone several major compositional changes during the Holocene. The temporal and spatial patterns of these vegetation changes hold potential information to their causes and triggers. Here we test the hypothesis that the timing of vegetation change was synchronous on a sub-continental scale, which implies a common trigger or a step-like change in climate parameters. Pollen diagrams from selected European regions were statistically divided into assemblage zones and the temporal pattern of the zone boundaries analysed. The results show that the temporal pattern of vegetation change was significantly different from random. Times of change cluster around 8.2, 4.8, 3.7, and 1.2 ka, while times of higher than average stability were found around 2.1 and 5.1 ka. Compositional changes linked to the expansion of Corylus avellana and Alnus glutinosa centre around 10.6 and 9.5 ka, respectively. A climatic trigger initiating these changes may have occurred 0.5 to 1 ka earlier, respectively. The synchronous expansion of C. avellana and A. glutinosa exemplify that dispersal is not necessarily followed by population expansion. The partly synchronous, partly random expansion of A. glutinosa in adjacent European regions exemplifies that sudden synchronous population expansions are not species specific traits but vary regionally.

Assessing Many-Body Effects of Water Self-Ions. I: OH-(H2O) n Clusters.

PubMed

Egan, Colin K; Paesani, Francesco

2018-04-10

The importance of many-body effects in the hydration of the hydroxide ion (OH - ) is investigated through a systematic analysis of the many-body expansion of the interaction energy carried out at the CCSD(T) level of theory, extrapolated to the complete basis set limit, for the low-lying isomers of OH - (H 2 O) n clusters, with n = 1-5. This is accomplished by partitioning individual fragments extracted from the whole clusters into "groups" that are classified by both the number of OH - and water molecules and the hydrogen bonding connectivity within each fragment. With the aid of the absolutely localized molecular orbital energy decomposition analysis (ALMO-EDA) method, this structure-based partitioning is found to largely correlate with the character of different many-body interactions, such as cooperative and anticooperative hydrogen bonding, within each fragment. This analysis emphasizes the importance of a many-body representation of inductive electrostatics and charge transfer in modeling OH - hydration. Furthermore, the rapid convergence of the many-body expansion of the interaction energy also suggests a rigorous path for the development of analytical potential energy functions capable of describing individual OH - -water many-body terms, with chemical accuracy. Finally, a comparison between the reference CCSD(T) many-body interaction terms with the corresponding values obtained with various exchange-correlation functionals demonstrates that range-separated, dispersion-corrected, hybrid functionals exhibit the highest accuracy, while GGA functionals, with or without dispersion corrections, are inadequate to describe OH - -water interactions.

Bruker Biotyper Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry System for Identification of Nocardia, Rhodococcus, Kocuria, Gordonia, Tsukamurella, and Listeria Species

PubMed Central

Lee, Tai-Fen; Du, Shin-Hei; Teng, Shih-Hua; Liao, Chun-Hsing; Sheng, Wang-Hui; Teng, Lee-Jene

2014-01-01

We evaluated whether the Bruker Biotyper matrix-associated laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) system provides accurate species-level identifications of 147 isolates of aerobically growing Gram-positive rods (GPRs). The bacterial isolates included Nocardia (n = 74), Listeria (n = 39), Kocuria (n = 15), Rhodococcus (n = 10), Gordonia (n = 7), and Tsukamurella (n = 2) species, which had all been identified by conventional methods, molecular methods, or both. In total, 89.7% of Listeria monocytogenes, 80% of Rhodococcus species, 26.7% of Kocuria species, and 14.9% of Nocardia species (n = 11, all N. nova and N. otitidiscaviarum) were correctly identified to the species level (score values, ≥2.0). A clustering analysis of spectra generated by the Bruker Biotyper identified six clusters of Nocardia species, i.e., cluster 1 (N. cyriacigeorgica), cluster 2 (N. brasiliensis), cluster 3 (N. farcinica), cluster 4 (N. puris), cluster 5 (N. asiatica), and cluster 6 (N. beijingensis), based on the six peaks generated by ClinProTools with the genetic algorithm, i.e., m/z 2,774.477 (cluster 1), m/z 5,389.792 (cluster 2), m/z 6,505.720 (cluster 3), m/z 5,428.795 (cluster 4), m/z 6,525.326 (cluster 5), and m/z 16,085.216 (cluster 6). Two clusters of L. monocytogenes spectra were also found according to the five peaks, i.e., m/z 5,594.85, m/z 6,184.39, and m/z 11,187.31, for cluster 1 (serotype 1/2a) and m/z 5,601.21 and m/z 11,199.33 for cluster 2 (serotypes 1/2b and 4b). The Bruker Biotyper system was unable to accurately identify Nocardia (except for N. nova and N. otitidiscaviarum), Tsukamurella, or Gordonia species. Continuous expansion of the MALDI-TOF MS databases to include more GPRs is necessary. PMID:24759706

HUBBLE SPACE TELESCOPE ON TRACK FOR MEASURING THE EXPANSION RATE OF THE UNIVERSE

NASA Technical Reports Server (NTRS)

2002-01-01

Two international teams of astronomers, using NASA's Hubble Space Telescope, are reporting major progress in converging on an accurate measurement of the Universe's rate of expansion -- a value which has been debated for over half a century. These new results yield ranges for the age of the Universe from 9-12 billion years, and 11-14 billion years, respectively. The goal of the project is to measure the Hubble Constant to ten percent accuracy. The Hubble Space Telescope Key Project team, an international group of over 20 astronomers, is led by Wendy Freedman of Carnegie Observatories, Pasadena, CA, Robert Kennicutt, University of Arizona, Tucson, AZ, and Jeremy Mould, Mount Stromlo and Siding Springs Observatory, Australia. The group's interim results, announced at a meeting held at the Space Telescope Science Institute (STScI) in Baltimore, Maryland, are consistent with their preliminary result, announced in 1994, of 80 kilometers per second per megaparsec (km/sec/Mpc), based on observations of a galaxy in the Virgo cluster. 'We have five different ways of measuring the Hubble Constant with HST,' said Dr. Freedman. 'The results are coming in between 68 and 78 km/sec/Mpc.' (For example, at an expansion rate of 75 km/sec/Mpc, galaxies appear to be receding from us at a rate of 162,000 miles per hour for every 3.26 million light-years farther out we look). Two months ago, a second team, led by Allan Sandage, also of the Carnegie Observatories, Abhijit Saha, STScI, Gustav Tammann and Lukas Labhardt, Astronomical Institute, University of Basel, Duccio Macchetto and Nino Panagia, STScI/European Space Agency, reported a slower expansion rate of 57 km/sec/Mpc. The value of the Hubble Constant allows astronomers to calculate the expansion age of the Universe, the time elapsed since the Big Bang. Astronomers have been arguing recently whether the time since the Big Bang is consistent with the ages of the oldest stars. The ages are calculated from combining the expansion rate with an estimate of how much matter is in space. The younger age values from each team assume the Universe is at a critical density where it contains just enough matter to expand indefinitely. The higher age estimates are calculated based on a low density of matter in space. (See 'Science Background' for more information on the expanding Universe.) 'A point of great interest is whether the age of the Universe arrived at this way is really older than the independently derived ages of the oldest stars,' said Saha, an investigator on both Hubble teams. 'The numbers lean on the side that the stellar ages are a little lower, or that the hypothesis that we live in a critical density universe needs to be questioned,' said Saha. 'As further results accumulate over the next few years, we hope to tighten the constraints on these issues.' THE OBSERVATIONS The Key Project team is midway along in their three-year program to derive the expansion rate of the Universe based on precise distance measurements to galaxies. They have now measured Cepheid distances to a dozen galaxies, and are about halfway through their overall program. The Key Project team also presented a preliminary estimate of the distance to the Fornax cluster of galaxies. The estimate was obtained through the detection and measurement with the Hubble Space Telescope of pulsating stars known as Cepheid variables found in the Fornax cluster. The Fornax cluster is measured to be approximately as far away as the Virgo cluster of galaxies -- about 60 million light-years. The Key Project team member who led this effort, Caltech astronomer Barry Madore said, 'This cluster allows us to make independent estimates of the expansion rate of the Universe using a number of different techniques. All of these methods are now in excellent agreement. With Fornax we are now at turning point in this field.' The team is measuring Cepheid distances to the Virgo and Fornax clusters of galaxies as a complementary test. Their strategy is to compare and contrast expansion numbers from a variety of distance indicators. The Key Project team is systematically looking into a variety of methods for measuring distances. They are using Cepheids in a large sample to tie into five or six 'secondary methods'. One such secondary method relates the total luminosity of a galaxy to the rate at which the galaxy is spinning, the Tully-Fisher relation. Another secondary method makes use of a special class of exploding star known as a type Ia supernova. This phase of the Hubble Constant research will be completed within another two years. In contrast, the Sandage team focused on a single secondary distance indicator, one of the same indicators also used by the Key Project team, the type Ia supernova. Sandage maintains that these stars are 'standard bombs' according to theory. He suggests that when they explode they all reach exactly the same intrinsic brightness. This would make them extremely reliable 'standard candles,' (objects with a well-known intrinsic brightness) visible 1,000 times farther away than Cepheids. Since they are intrinsically brighter than any other standard candle, they offer the opportunity for an accurate measurement of the Universe's overall expansion by looking out the farthest. Although both teams are still in disagreement over the precise rate at which the Universe is expanding and on how old it is, they are optimistic that their estimates will continue to converge with further observations and analysis. * * * * Members of the Key Project team include W. Freedman (Carnegie Observatories), R. Kennicutt (University of Arizona), J. Mould (Mount Stromlo and Siding Springs Observatories, Australia), L. Ferrarese (Johns Hopkins University), H. Ford (Johns Hopkins University), J. Graham (Department of Terrestrial Magnetism), M. Han (University of Wisconsin), P. Harding (University of Arizona), J. Hoessel (University of Wisconsin), J. Huchra (Smithsonian/Harvard University), S. Hughes (Royal Greenwich Observatory, Cambridge), G. Illingworth (University of California, Santa Cruz), B.F. Madore (IPAC/Caltech), R. Phelps (Carnegie Observatories), A. Saha (Space Telescope Science Institute), N. Silbermann (IPAC), P. Stetson (Dominion Astrophysical Observatory), and S. Sakai (IPAC). Members of the Sandage team include A. Sandage (Carnegie Observatories), A. Saha (Space Telescope Science Institute), G.A. Tammann, and L. Labhardt (Astronomical Institute, University of Basel), F.D. Macchetto and N. Panagia (Space Telescope Science Institute/European Space Agency).

Size resolved infrared spectroscopy of Na(CH3OH)n (n = 4-7) clusters in the OH stretching region: unravelling the interaction of methanol clusters with a sodium atom and the emergence of the solvated electron.

PubMed

Forck, Richard M; Pradzynski, Christoph C; Wolff, Sabine; Ončák, Milan; Slavíček, Petr; Zeuch, Thomas

2012-03-07

Size resolved IR action spectra of neutral sodium doped methanol clusters have been measured using IR excitation modulated photoionisation mass spectroscopy. The Na(CH(3)OH)(n) clusters were generated in a supersonic He seeded expansion of methanol by subsequent Na doping in a pick-up cell. A combined analysis of IR action spectra, IP evolutions and harmonic predictions of IR spectra (using density functional theory) of the most stable structures revealed that for n = 4, 5 structures with an exterior Na atom showing high ionisation potentials (IPs) of ~4 eV dominate, while for n = 6, 7 clusters with lower IPs (~3.2 eV) featuring fully solvated Na atoms and solvated electrons emerge and dominate the IR action spectra. For n = 4 simulations of photoionisation spectra using an ab initio MD approach confirm the dominance of exterior structures and explain the previously reported appearance IP of 3.48 eV by small fractions of clusters with partly solvated Na atoms. Only for this cluster size a shift in the isomer composition with cluster temperature has been observed, which may be related to kinetic stabilisation of less Na solvated clusters at low temperatures. Features of slow fragmentation dynamics of cationic Na(+)(CH(3)OH)(6) clusters have been observed for the photoionisation near the adiabatic limit. This finding points to the relevance of previously proposed non-vertical photoionisation dynamics of this system.

``Dressing'' lines and vertices in calculations of matrix elements with the coupled-cluster method and determination of Cs atomic properties

NASA Astrophysics Data System (ADS)

Derevianko, Andrei; Porsev, Sergey G.

2005-03-01

We consider evaluation of matrix elements with the coupled-cluster method. Such calculations formally involve infinite number of terms and we devise a method of partial summation (dressing) of the resulting series. Our formalism is built upon an expansion of the product C†C of cluster amplitudes C into a sum of n -body insertions. We consider two types of insertions: particle (hole) line insertion and two-particle (two-hole) random-phase-approximation-like insertion. We demonstrate how to “dress” these insertions and formulate iterative equations. We illustrate the dressing equations in the case when the cluster operator is truncated at single and double excitations. Using univalent systems as an example, we upgrade coupled-cluster diagrams for matrix elements with the dressed insertions and highlight a relation to pertinent fourth-order diagrams. We illustrate our formalism with relativistic calculations of the hyperfine constant A(6s) and the 6s1/2-6p1/2 electric-dipole transition amplitude for the Cs atom. Finally, we augment the truncated coupled-cluster calculations with otherwise omitted fourth order diagrams. The resulting analysis for Cs is complete through the fourth order of many-body perturbation theory and reveals an important role of triple and disconnected quadruple excitations.

In vitro motility evaluation of aggregated cancer cells by means of automatic image processing.

PubMed

De Hauwer, C; Darro, F; Camby, I; Kiss, R; Van Ham, P; Decaesteker, C

1999-05-01

Set up of an automatic image processing based method that enables the motility of in vitro aggregated cells to be evaluated for a number of hours. Our biological model included the PC-3 human prostate cancer cell line growing as a monolayer on the bottom of Falcon plastic dishes containing conventional culture media. Our equipment consisted of an incubator, an inverted phase contrast microscope, a Charge Coupled Device (CCD) video camera, and a computer equipped with an image processing software developed in our laboratory. This computer-assisted microscope analysis of aggregated cells enables global cluster motility to be evaluated. This analysis also enables the trajectory of each cell to be isolated and parametrized within a given cluster or, indeed, the trajectories of individual cells outside a cluster. The results show that motility inside a PC-3 cluster is not restricted to slight motion due to cluster expansion, but rather consists of a marked cell movement within the cluster. The proposed equipment enables in vitro aggregated cell motility to be studied. This method can, therefore, be used in pharmacological studies in order to select anti-motility related compounds. The compounds selected by the equipment described could then be tested in vivo as potential anti-metastatic.

Feedback in the Antennae Galaxies (NGC 4038/9): I. High-Resolution Infrared Spectroscopy of Winds from Super Star Clusters

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

Gilbert, A; Graham, J

2007-06-05

We present high-resolution (R {approx} 24,600) near-IR spectroscopy of the youngest super star clusters (SSCs) in the prototypical starburst merger, the Antennae Galaxies. These SSCs are young (3-7 Myr old) and massive (10{sup 5}-10{sup 7} M{sub {circle_dot}} for a Kroupa IMF) and their spectra are characterized by broad, extended Brackett {gamma} emission, so we refer to them as emission-line clusters (ELCs) to distinguish them from older SSCs. The Br {gamma} lines of most ELCs have supersonic widths (60-110 km s{sup -1} FWHM) and non-Gaussian wings whose velocities exceed the clusters escape velocities. This high-velocity unbound gas is flowing out inmore » winds that are powered by the clusters massive O and W-R stars over the course of at least several crossing times. The large sizes of some ELCs relative to those of older SSCs may be due to expansion caused by these outflows; many of the ELCs may not survive as bound stellar systems, but rather dissipate rapidly into the field population. The observed tendency of older ELCs to be more compact than young ones is consistent with the preferential survival of the most concentrated clusters at a given age.« less

Cadherin genes and evolutionary novelties in the octopus.

PubMed

Wang, Z Yan; Ragsdale, Clifton W

2017-09-01

All animals with large brains must have molecular mechanisms to regulate neuronal process outgrowth and prevent neurite self-entanglement. In vertebrates, two major gene families implicated in these mechanisms are the clustered protocadherins and the atypical cadherins. However, the molecular mechanisms utilized in complex invertebrate brains, such as those of the cephalopods, remain largely unknown. Recently, we identified protocadherins and atypical cadherins in the octopus. The octopus protocadherin expansion shares features with the mammalian clustered protocadherins, including enrichment in neural tissues, clustered head-to-tail orientations in the genome, and a large first exon encoding all cadherin domains. Other octopus cadherins, including a newly-identified cadherin with 77 extracellular cadherin domains, are elevated in the suckers, a striking cephalopod novelty. Future study of these octopus genes may yield insights into the general functions of protocadherins in neural wiring and cadherin-related proteins in complex morphogenesis. Copyright © 2017 Elsevier Ltd. All rights reserved.

The clustering of galaxies in the completed SDSS-III Baryon Oscillation Spectroscopic Survey: Single-probe measurements from DR12 galaxy clustering – towards an accurate model

DOE PAGES

Chia -Hsun Chuang; Pellejero-Ibanez, Marco; Rodriguez-Torres, Sergio; ...

2016-06-26

We analyze the broad-range shape of the monopole and quadrupole correlation functions of the BOSS Data Release 12 (DR12) CMASS and LOWZ galaxy sample to obtain constraints on the Hubble expansion rate H(z), the angular-diameter distance DA(z), the normalised growth rate f(z)σ 8(z), and the physical matter density Ω mh 2. In addition, we adopt wide and flat priors on all model parameters in order to ensure the results are those of a `single-probe' galaxy clustering analysis. We also marginalize over three nuisance terms that account for potential observational systematics affecting the measured monopole. However, such Monte Carlo Markov Chainmore » analysis is computationally expensive for advanced theoretical models, thus we develop a new methodology to speed up our analysis.« less

Significance tests for functional data with complex dependence structure.

PubMed

Staicu, Ana-Maria; Lahiri, Soumen N; Carroll, Raymond J

2015-01-01

We propose an L 2 -norm based global testing procedure for the null hypothesis that multiple group mean functions are equal, for functional data with complex dependence structure. Specifically, we consider the setting of functional data with a multilevel structure of the form groups-clusters or subjects-units, where the unit-level profiles are spatially correlated within the cluster, and the cluster-level data are independent. Orthogonal series expansions are used to approximate the group mean functions and the test statistic is estimated using the basis coefficients. The asymptotic null distribution of the test statistic is developed, under mild regularity conditions. To our knowledge this is the first work that studies hypothesis testing, when data have such complex multilevel functional and spatial structure. Two small-sample alternatives, including a novel block bootstrap for functional data, are proposed, and their performance is examined in simulation studies. The paper concludes with an illustration of a motivating experiment.

HOW SIGNIFICANT IS RADIATION PRESSURE IN THE DYNAMICS OF THE GAS AROUND YOUNG STELLAR CLUSTERS?

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

Silich, Sergiy; Tenorio-Tagle, Guillermo, E-mail: silich@inaoep.mx

2013-03-01

The impact of radiation pressure on the dynamics of the gas in the vicinity of young stellar clusters is thoroughly discussed. The radiation over the thermal/ram pressure ratio time evolution is calculated explicitly and the crucial roles of the cluster mechanical power, the strong time evolution of the ionizing photon flux, and the bolometric luminosity of the exciting cluster are stressed. It is shown that radiation has only a narrow window of opportunity to dominate the wind-driven shell dynamics. This may occur only at early stages of the bubble evolution and if the shell expands into a dusty and/or amore » very dense proto-cluster medium. The impact of radiation pressure on the wind-driven shell always becomes negligible after about 3 Myr. Finally, the wind-driven model results allow one to compare the model predictions with the distribution of thermal pressure derived from X-ray observations. The shape of the thermal pressure profile then allows us to distinguish between the energy and the momentum-dominated regimes of expansion and thus conclude whether radiative losses of energy or the leakage of hot gas from the bubble interior have been significant during bubble evolution.« less

Young star clusters in nearby molecular clouds

NASA Astrophysics Data System (ADS)

Getman, K. V.; Kuhn, M. A.; Feigelson, E. D.; Broos, P. S.; Bate, M. R.; Garmire, G. P.

2018-06-01

The SFiNCs (Star Formation in Nearby Clouds) project is an X-ray/infrared study of the young stellar populations in 22 star-forming regions with distances ≲ 1 kpc designed to extend our earlier MYStIX (Massive Young Star-Forming Complex Study in Infrared and X-ray) survey of more distant clusters. Our central goal is to give empirical constraints on cluster formation mechanisms. Using parametric mixture models applied homogeneously to the catalogue of SFiNCs young stars, we identify 52 SFiNCs clusters and 19 unclustered stellar structures. The procedure gives cluster properties including location, population, morphology, association with molecular clouds, absorption, age (AgeJX), and infrared spectral energy distribution (SED) slope. Absorption, SED slope, and AgeJX are age indicators. SFiNCs clusters are examined individually, and collectively with MYStIX clusters, to give the following results. (1) SFiNCs is dominated by smaller, younger, and more heavily obscured clusters than MYStIX. (2) SFiNCs cloud-associated clusters have the high ellipticities aligned with their host molecular filaments indicating morphology inherited from their parental clouds. (3) The effect of cluster expansion is evident from the radius-age, radius-absorption, and radius-SED correlations. Core radii increase dramatically from ˜0.08 to ˜0.9 pc over the age range 1-3.5 Myr. Inferred gas removal time-scales are longer than 1 Myr. (4) Rich, spatially distributed stellar populations are present in SFiNCs clouds representing early generations of star formation. An appendix compares the performance of the mixture models and non-parametric minimum spanning tree to identify clusters. This work is a foundation for future SFiNCs/MYStIX studies including disc longevity, age gradients, and dynamical modelling.

Coarse-Grained Clustering Dynamics of Heterogeneously Coupled Neurons.

PubMed

Moon, Sung Joon; Cook, Katherine A; Rajendran, Karthikeyan; Kevrekidis, Ioannis G; Cisternas, Jaime; Laing, Carlo R

2015-12-01

The formation of oscillating phase clusters in a network of identical Hodgkin-Huxley neurons is studied, along with their dynamic behavior. The neurons are synaptically coupled in an all-to-all manner, yet the synaptic coupling characteristic time is heterogeneous across the connections. In a network of N neurons where this heterogeneity is characterized by a prescribed random variable, the oscillatory single-cluster state can transition-through [Formula: see text] (possibly perturbed) period-doubling and subsequent bifurcations-to a variety of multiple-cluster states. The clustering dynamic behavior is computationally studied both at the detailed and the coarse-grained levels, and a numerical approach that can enable studying the coarse-grained dynamics in a network of arbitrarily large size is suggested. Among a number of cluster states formed, double clusters, composed of nearly equal sub-network sizes are seen to be stable; interestingly, the heterogeneity parameter in each of the double-cluster components tends to be consistent with the random variable over the entire network: Given a double-cluster state, permuting the dynamical variables of the neurons can lead to a combinatorially large number of different, yet similar "fine" states that appear practically identical at the coarse-grained level. For weak heterogeneity we find that correlations rapidly develop, within each cluster, between the neuron's "identity" (its own value of the heterogeneity parameter) and its dynamical state. For single- and double-cluster states we demonstrate an effective coarse-graining approach that uses the Polynomial Chaos expansion to succinctly describe the dynamics by these quickly established "identity-state" correlations. This coarse-graining approach is utilized, within the equation-free framework, to perform efficient computations of the neuron ensemble dynamics.

Role of donor hemodynamic trajectory in determining graft survival in liver transplantation from donation after circulatory death donors.

PubMed

Firl, Daniel J; Hashimoto, Koji; O'Rourke, Colin; Diago-Uso, Teresa; Fujiki, Masato; Aucejo, Federico N; Quintini, Cristiano; Kelly, Dympna M; Miller, Charles M; Fung, John J; Eghtesad, Bijan

2016-11-01

Donation after circulatory death (DCD) donors show heterogeneous hemodynamic trajectories following withdrawal of life support. Impact of hemodynamics in DCD liver transplant is unclear, and objective measures of graft viability would ease transplant surgeon decision making and inform safe expansion of the donor organ pool. This retrospective study tested whether hemodynamic trajectories were associated with transplant outcomes in DCD liver transplantation (n = 87). Using longitudinal clustering statistical techniques, we phenotyped DCD donors based on hemodynamic trajectory for both mean arterial pressure (MAP) and peripheral oxygen saturation (SpO 2 ) following withdrawal of life support. Donors were categorized into 3 clusters: those who gradually decline after withdrawal of life support (cluster 1), those who maintain stable hemodynamics followed by rapid decline (cluster 2), and those who decline rapidly (cluster 3). Clustering outputs were used to compare characteristics and transplant outcomes. Cox proportional hazards modeling revealed hepatocellular carcinoma (hazard ratio [HR] = 2.53; P = 0.047), cold ischemia time (HR = 1.50 per hour; P = 0.027), and MAP cluster 1 were associated with increased risk of graft loss (HR = 3.13; P = 0.021), but not SpO 2 cluster (P = 0.172) or donor warm ischemia time (DWIT; P = 0.154). Despite longer DWIT, MAP and SpO 2 clusters 2 showed similar graft survival to MAP and SpO 2 clusters 3, respectively. In conclusion, despite heterogeneity in hemodynamic trajectories, DCD donors can be categorized into 3 clinically meaningful subgroups that help predict graft prognosis. Further studies should confirm the utility of liver grafts from cluster 2. Liver Transplantation 22 1469-1481 2016 AASLD. © 2016 by the American Association for the Study of Liver Diseases.

Unraveling the benzocaine-receptor interaction at molecular level using mass-resolved spectroscopy.

PubMed

Aguado, Edurne; León, Iker; Millán, Judith; Cocinero, Emilio J; Jaeqx, Sander; Rijs, Anouk M; Lesarri, Alberto; Fernández, José A

2013-10-31

The benzocaine-toluene cluster has been used as a model system to mimic the interaction between the local anesthetic benzocaine and the phenylalanine residue in Na(+) channels. The cluster was generated in a supersonic expansion of benzocaine and toluene in helium. Using a combination of mass-resolved laser-based experimental techniques and computational methods, the complex was fully characterized, finding four conformational isomers in which the molecules are bound through N-H···π and π···π weak hydrogen bonds. The structures of the detected isomers closely resemble those predicted for benzocaine in the inner pore of the ion channels, giving experimental support to previously reported molecular chemistry models.

Extension of lattice cluster theory to strongly interacting, self-assembling polymeric systems.

PubMed

Freed, Karl F

2009-02-14

A new extension of the lattice cluster theory is developed to describe the influence of monomer structure and local correlations on the free energy of strongly interacting and self-assembling polymer systems. This extension combines a systematic high dimension (1/d) and high temperature expansion (that is appropriate for weakly interacting systems) with a direct treatment of strong interactions. The general theory is illustrated for a binary polymer blend whose two components contain "sticky" donor and acceptor groups, respectively. The free energy is determined as an explicit function of the donor-acceptor contact probabilities that depend, in turn, on the local structure and both the strong and weak interactions.

Microwave Spectrum of the Ethanol-Methanol Dimer

NASA Astrophysics Data System (ADS)

Finneran, Ian A.; Carroll, Brandon; Mead, Griffin; Blake, Geoffrey

2016-06-01

The hydrogen bond donor/acceptor competition in mixed alcohol clusters remains a fundamental question in physical chemistry. Previous theoretical work on the prototype ethanol-methanol dimer has been inconclusive in predicting the energetically preferred structure. Here, we report the microwave spectrum of the ethanol-methanol dimer between 8-18 GHz, using a chirped pulse Fourier transform microwave spectrometer. With the aid of ab initio calculations, 36 transitions have been fit and assigned to a t-ethanol-acceptor, methanol-donor structure in an argon-backed expansion. In a helium-backed expansion, a second excited conformer has been observed, and tentatively assigned to a g-ethanol-acceptor, methanol-donor structure. No ethanol-donor, methanol-acceptor structures have been found, suggesting such structures are energetically disfavored.

Isentropic expansion and related thermodynamic properties of non-ionic amphiphile-water mixtures.

PubMed

Reis, João Carlos R; Douhéret, Gérard; Davis, Michael I; Fjellanger, Inger Johanne; Høiland, Harald

2008-01-28

A concise thermodynamic formalism is developed for the molar isentropic thermal expansion, ES,m = ( partial differential Vm/ partial differential T)(Sm,x), and the ideal and excess quantities for the molar, apparent molar and partial molar isentropic expansions of binary liquid mixtures. Ultrasound speeds were determined by means of the pulse-echo-overlap method in aqueous mixtures of 2-methylpropan-2-ol at 298.15 K over the entire composition range. These data complement selected extensive literature data on density, isobaric heat capacity and ultrasound speed for 9 amphiphile (methanol, ethanol, propan-1-ol, propan-2-ol, 2-methylpropan-2-ol, ethane-1,2-diol, 2-methoxyethanol, 2-ethoxyethanol or 2-butoxyethanol)-water binary systems, which form the basis of tables listing molar and excess molar isobaric expansions and heat capacities, and molar and excess molar isentropic compressions and expansions at 298.15 K and at 65 fixed mole fractions spanning the entire composition range and fine-grained in the water-rich region. The dependence on composition of these 9 systems is graphically depicted for the excess molar isobaric and isentropic expansions and for the excess partial molar isobaric and isentropic expansions of the amphiphile. The analysis shows that isentropic thermal expansion properties give a much stronger response to amphiphile-water molecular interactions than do their isobaric counterparts. Depending on the pair property-system, the maximum excess molar isentropic value is generally twenty- to a hundred-fold greater than the corresponding maximum isobaric value, and occurs at a lower mole fraction of the amphiphile. Values at infinite dilution of the 9 amphiphiles in water are given for the excess partial molar isobaric heat capacity, isentropic compression, isobaric expansion and isentropic expansion. These values are interpreted in terms of the changes occurring when amphiphile molecules cluster into an oligomeric form. Present results are discussed from theoretical and experimental thermodynamic viewpoints. It is concluded that isentropic thermal expansion properties constitute a new distinct resource for revealing particular features and trends in complex mixing processes, and that analyses using these new properties compare favourably with conventional approaches.

Genetic Variations in Two Seahorse Species (Hippocampus mohnikei and Hippocampus trimaculatus): Evidence for Middle Pleistocene Population Expansion

PubMed Central

Zhang, Yanhong; Pham, Nancy Kim; Zhang, Huixian; Lin, Junda; Lin, Qiang

2014-01-01

Population genetic of seahorses is confidently influenced by their species-specific ecological requirements and life-history traits. In the present study, partial sequences of mitochondrial cytochrome b (cytb) and control region (CR) were obtained from 50 Hippocampus mohnikei and 92 H. trimaculatus from four zoogeographical zones. A total of 780 base pairs of cytb gene were sequenced to characterize mitochondrial DNA (mtDNA) diversity. The mtDNA marker revealed high haplotype diversity, low nucleotide diversity, and a lack of population structure across both populations of H. mohnikei and H. trimaculatus. A neighbour-joining (NJ) tree of cytb gene sequences showed that H. mohnikei haplotypes formed one cluster. A maximum likelihood (ML) tree of cytb gene sequences showed that H. trimaculatus belonged to one lineage. The star-like pattern median-joining network of cytb and CR markers indicated a previous demographic expansion of H. mohnikei and H. trimaculatus. The cytb and CR data sets exhibited a unimodal mismatch distribution, which may have resulted from population expansion. Mismatch analysis suggested that the expansion was initiated about 276,000 years ago for H. mohnikei and about 230,000 years ago for H. trimaculatus during the middle Pleistocene period. This study indicates a possible signature of genetic variation and population expansion in two seahorses under complex marine environments. PMID:25144384

Macrosegregation Due to Convection in Al-19Cu Alloy Directionally Solidified Through an Abrupt Expansion in Cross-Section: A Comparison with Al-7Si

NASA Astrophysics Data System (ADS)

Ghods, M.; Lauer, M.; Grugel, R. N.; Tewari, S. N.; Poirier, D. R.

2017-10-01

Hypoeutectic Al-19 wt.% Cu alloys were directionally solidified at two different growth speeds in cylindrical molds that featured an abrupt increase in cross-section, from 3.2 to 9.5 mm in diameter. The effects of thermosolutal convection and shrinkage flow induced by the cross-section change on macrosegregation were investigated. Dendrite clustering and extensive radial macrosegregation were seen, particularly in the larger cross-section after expansion. Negative longitudinal macrosegregation right after the cross-section increase was observed; the extent of macrosegregation, however, decreases with increasing growth speed. Both thermal and flow effects due to cross-section change were seen to influence the radial macrosegregation immediately before, and after the expansion. Radial macrosegregation pattern was found to be changing as the mushy zone enters the larger cross-section region above the cross-section change where the solidification is in its unsteady state. The effect of the solutal expansion coefficient on macrosegregation was studied by comparing the degree of thermosolutal convection in Al-19 wt.% Cu with a previous study in which we investigated Al-7 wt.% Si. A two-dimensional model accounting for both shrinkage and thermosolutal convection was used to simulate the resulting steepling, as well as the axial and radial macrosegregation. The experimentally observed macrosegregation associated with the expansion during directional solidification is well predicted by the numerical simulations.

7TH International Workshop on Laser Physics (LPHYS󈨦) Berlin, Germany July 6-10, 1998 Program and Book of Abstracts: Volume 1.

DTIC Science & Technology

1998-07-01

to a hydrodynamic expansion of the so-called " nanoplasma " into the vacuum. The relative weight of each of these two explosion mechanisms depends on... nanoplasma . In particular, we observe L-shell emission in the case of Krypton and Xenon clusters and K-shell emission for Argon. Our results concern the

An Open-Source Galaxy Redshift Survey Simulator for next-generation Large Scale Structure Surveys

NASA Astrophysics Data System (ADS)

Seijak, Uros

Galaxy redshift surveys produce three-dimensional maps of the galaxy distribution. On large scales these maps trace the underlying matter fluctuations in a relatively simple manner, so that the properties of the primordial fluctuations along with the overall expansion history and growth of perturbations can be extracted. The BAO standard ruler method to measure the expansion history of the universe using galaxy redshift surveys is thought to be robust to observational artifacts and understood theoretically with high precision. These same surveys can offer a host of additional information, including a measurement of the growth rate of large scale structure through redshift space distortions, the possibility of measuring the sum of neutrino masses, tighter constraints on the expansion history through the Alcock-Paczynski effect, and constraints on the scale-dependence and non-Gaussianity of the primordial fluctuations. Extracting this broadband clustering information hinges on both our ability to minimize and subtract observational systematics to the observed galaxy power spectrum, and our ability to model the broadband behavior of the observed galaxy power spectrum with exquisite precision. Rapid development on both fronts is required to capitalize on WFIRST's data set. We propose to develop an open-source computational toolbox that will propel development in both areas by connecting large scale structure modeling and instrument and survey modeling with the statistical inference process. We will use the proposed simulator to both tailor perturbation theory and fully non-linear models of the broadband clustering of WFIRST galaxies and discover novel observables in the non-linear regime that are robust to observational systematics and able to distinguish between a wide range of spatial and dynamic biasing models for the WFIRST galaxy redshift survey sources. We have demonstrated the utility of this approach in a pilot study of the SDSS-III BOSS galaxies, in which we improved the redshift space distortion growth rate measurement precision by a factor of 2.5 using customized clustering statistics in the non-linear regime that were immunized against observational systematics. We look forward to addressing the unique challenges of modeling and empirically characterizing the WFIRST galaxies and observational systematics.

Isolation with differentiation followed by expansion with admixture in the tunicate Pyura chilensis

PubMed Central

2013-01-01

Background Pyura chilensis, a tunicate commercially exploited as food resource in Chile, is subject to management strategies, including restocking. The goal of this study was to examine the genetic structure of P. chilensis using information from a mitochondrial gene (Cytochrome Oxidase I, COI) and a nuclear gene (Elongation 1 alpha, EF1a), to characterize the geographic distribution of genetic diversity and differentiation, and to identify the main processes that have shaped it. We analyzed 268 and 208 sequences of COI and EF1a, respectively, from samples of eight local populations covering ca. 1800 km. Results For Pyura chilensis, partial sequences of the gene COI revealed three highly supported haplogroups that diverged 260000 to 470000 years ago. Two haplogroups currently are widely distributed and sympatric, while one is dominant only in Los Molinos (LM, 39°50′S). The two widespread COI haplogroups underwent a geographic expansion during an interglacial period of the Late Pleistocene ca. 100000 years ago. The nuclear gene was less divergent and did not resolve the COI haplogroups. Bayesian clustering of the nuclear gene’s SNPs revealed that individuals from the two widespread COI haplogroups were mostly assigned to two of the three detected clusters and had a marked degree of admixture. The third cluster predominated in LM and showed low admixture. Haplotypic diversity of both genes was very high, there was no isolation by distance, and most localities were genetically undifferentiated; only LM was consistently differentiated with both genes analyzed. Conclusions Pyura chilensis has less genetic structure than expected given its life history, which could be a consequence of dispersal on ship hulls. The only differentiated local population analyzed was LM. Coincidentally, it is the one furthest away from main maritime routes along the coast of Chile. The use of mitochondrial and nuclear markers allowed detection of divergent mitochondrial haplogroups in P. chilensis, two of which revealed nuclear admixture. The genetic structure of P. chilensis has likely been shaped by Pleistocene’s climatic effect on sea level leading to population contraction with isolation, followed by geographic range expansions with concomitant secondary contact and admixture. PMID:24238017

Dynamic simulations of the inhomogeneous sedimentation of rigid fibres

NASA Astrophysics Data System (ADS)

Butler, Jason E.; Shaqfeh, Eric S. G.

2002-10-01

We have simulated the dynamics of suspensions of fibres sedimenting in the limit of zero Reynolds number. In these simulations, the dominant inter-particle force arises from hydrodynamic interactions between the rigid, non-Brownian fibres. The simulation algorithm uses slender-body theory to model the linear and rotational velocities of each fibre. To include far-field interactions between the fibres, the line distribution of force on each fibre is approximated by making a Legendre polynomial expansion of the disturbance velocity on the fibre, where only the first two terms of the expansion are retained in the calculation. Thus, the resulting linear force distribution can be specified completely by a centre-of-mass force, a couple, and a stresslet. Short-range interactions between particles are included using a lubrication approximation, and an infinite suspension is simulated by using periodic boundary conditions. Our numerical results confirm that the sedimentation of these non-spherical, orientable particles differs qualitatively from the sedimentation of spherical particles. The simulations demonstrate that an initially homogeneous, settling suspension develops clusters, or streamers, which are particle rich surrounded by clarified fluid. The instability which causes the heterogeneous structure arises solely from hydrodynamic interactions which couple the particle orientation and the sedimentation rate in particle clusters. Depending upon the concentration and aspect ratio, the formation of clusters of particles can enhance the sedimentation rate of the suspension to a value in excess of the maximum settling speed of an isolated particle. The suspension of fibres tends to orient with gravity during the sedimentation process. The average velocities and orientations, as well as their distributions, compare favourably with previous experimental measurements.

Vacuum-ultraviolet photoionization studies of the microhydration of DNA bases (guanine, cytosine, adenine, and thymine).

PubMed

Belau, Leonid; Wilson, Kevin R; Leone, Stephen R; Ahmed, Musahid

2007-08-09

In this work, we report on a photoionization study of the microhydration of the four DNA bases. Gas-phase clusters of water with DNA bases [guanine (G), cytosine (C), adenine (A), and thymine (T)] are generated via thermal vaporization of the bases and expansion of the resultant vapor in a continuous supersonic jet expansion of water seeded in Ar. The resulting clusters are investigated by single-photon ionization with tunable vacuum-ultraviolet synchrotron radiation and mass analyzed using reflectron mass spectrometry. Photoionization efficiency (PIE) curves are recorded for the DNA bases and the following water (W) clusters: G, GWn (n = 1-3); C, CWn (n = 1-3); A, AWn (n = 1,2); and T, TWn (n = 1-3). Appearance energies (AE) are derived from the onset of these PIE curves (all energies in eV): G (8.1 +/- 0.1), GW (8.0 +/- 0.1), GW2 (8.0 +/- 0.1), and GW3 (8.0); C (8.65 +/- 0.05), CW (8.45 +/- 0.05), CW2 (8.4 +/- 0.1), and CW3 (8.3 +/- 0.1); A (8.30 +/- 0.05), AW (8.20 +/- 0.05), and AW2 (8.1 +/- 0.1); T (8.90 +/- 0.05); and TW (8.75 +/- 0.05), TW2 (8.6 +/- 0.1), and TW3 (8.6 +/- 0.1). The AEs of the DNA bases decrease slightly with the addition of water molecules (up to three) but do not converge to values found for photoinduced electron removal from DNA bases in solution.

Mitochondrial population genomic analyses reveal population structure and demography of Indian Plasmodium falciparum.

PubMed

Tyagi, Suchi; Das, Aparup

2015-09-01

Inference on the genetic diversity of Plasmodium falciparum populations could help in better management of malaria. A very recent study with mitochondrial (mt) genomes in global P. falciparum had revealed interesting evolutionary genetic patterns of Indian isolates in comparison to global ones. However, no population genetic study using the whole mt genome sequences of P. falciparum isolates collected in the entire distribution range in India has yet been performed. We herewith have analyzed 85 whole mt genomes (48 already published and 37 entirely new) sampled from eight differentially endemic Indian locations to estimate genetic diversity and infer population structure and historical demography of Indian P. falciparum. We found 19 novel Indian-specific Single Nucleotide Polymorphisms (SNPs) and 22 novel haplotypes segregating in Indian P. falciparum. Accordingly, high haplotype and nucleotide diversities were detected in Indian P. falciparum in comparison to many other global isolates. Indian P. falciparum populations were found to be moderately sub-structured with four different genetic clusters. Interestingly, group of local populations aggregate to form each cluster; while samples from Jharkhand and Odisha formed a single cluster, P. falciparum isolates from Asom formed an independent one. Similarly, Surat, Bilaspur and Betul formed a single cluster and Goa and Mangalore formed another. Interestingly, P. falciparum isolates from the two later populations were significantly genetically differentiated from isolates collected in other six Indian locations. Signature of historical population expansion was evident in five population samples, and the onset of expansion event was found to be very similar to African P. falciparum. In agreement with the previous finding, the estimated Time to Most Recent Common Ancestor (TMRCA) and the effective population size were high in Indian P. falciparum. All these genetic features of Indian P. falciparum with high mt genome diversity are somehow similar to Africa, but quite different from other Asian population samples. Copyright © 2015 © Elsevier B.V. and Mitochondria Research Society. Published by Elsevier B.V. All rights reserved.

Ground states of larger nuclei

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

Pieper, S.C.; Wiringa, R.B.; Pandharipande, V.R.

1995-08-01

The methods used for the few-body nuclei require operations on the complete spin-isospin vector; the size of this vector makes such methods impractical for nuclei with A > 8. During the last few years we developed cluster expansion methods that do not require operations on the complete vector. We use the same Hamiltonians as for the few-body nuclei and variational wave functions of form similar to the few-body wave functions. The cluster expansions are made for the noncentral parts of the wave functions and for the operators whose expectation values are being evaluated. The central pair correlations in the wavemore » functions are treated exactly and this requires the evaluation of 3A-dimensional integrals which are done with Monte Carlo techniques. Most of our effort was on {sup 16}O, other p-shell nuclei, and {sup 40}Ca. In 1993 the Mathematics and Computer Science Division acquired a 128-processor IBM SP which has a theoretical peak speed of 16 Gigaflops (GFLOPS). We converted our program to run on this machine. Because of the large memory on each node of the SP, it was easy to convert the program to parallel form with very low communication overhead. Considerably more effort was needed to restructure the program from one oriented towards long vectors for the Cray computers at NERSC to one that makes efficient use of the cache of the RS6000 architecture. The SP made possible complete five-body cluster calculations of {sup 16}O for the first time; previously we could only do four-body cluster calculations. These calculations show that the expectation value of the two-body potential is converging less rapidly than we had thought, while that of the three-body potential is more rapidly convergent; the net result is no significant change to our predicted binding energy for {sup 16}O using the new Argonne v{sub 18} potential and the Urbana IX three-nucleon potential. This result is in good agreement with experiment.« less

Bruker biotyper matrix-assisted laser desorption ionization-time of flight mass spectrometry system for identification of Nocardia, Rhodococcus, Kocuria, Gordonia, Tsukamurella, and Listeria species.

PubMed

Hsueh, Po-Ren; Lee, Tai-Fen; Du, Shin-Hei; Teng, Shih-Hua; Liao, Chun-Hsing; Sheng, Wang-Hui; Teng, Lee-Jene

2014-07-01

We evaluated whether the Bruker Biotyper matrix-associated laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) system provides accurate species-level identifications of 147 isolates of aerobically growing Gram-positive rods (GPRs). The bacterial isolates included Nocardia (n = 74), Listeria (n = 39), Kocuria (n = 15), Rhodococcus (n = 10), Gordonia (n = 7), and Tsukamurella (n = 2) species, which had all been identified by conventional methods, molecular methods, or both. In total, 89.7% of Listeria monocytogenes, 80% of Rhodococcus species, 26.7% of Kocuria species, and 14.9% of Nocardia species (n = 11, all N. nova and N. otitidiscaviarum) were correctly identified to the species level (score values, ≥ 2.0). A clustering analysis of spectra generated by the Bruker Biotyper identified six clusters of Nocardia species, i.e., cluster 1 (N. cyriacigeorgica), cluster 2 (N. brasiliensis), cluster 3 (N. farcinica), cluster 4 (N. puris), cluster 5 (N. asiatica), and cluster 6 (N. beijingensis), based on the six peaks generated by ClinProTools with the genetic algorithm, i.e., m/z 2,774.477 (cluster 1), m/z 5,389.792 (cluster 2), m/z 6,505.720 (cluster 3), m/z 5,428.795 (cluster 4), m/z 6,525.326 (cluster 5), and m/z 16,085.216 (cluster 6). Two clusters of L. monocytogenes spectra were also found according to the five peaks, i.e., m/z 5,594.85, m/z 6,184.39, and m/z 11,187.31, for cluster 1 (serotype 1/2a) and m/z 5,601.21 and m/z 11,199.33 for cluster 2 (serotypes 1/2b and 4b). The Bruker Biotyper system was unable to accurately identify Nocardia (except for N. nova and N. otitidiscaviarum), Tsukamurella, or Gordonia species. Continuous expansion of the MALDI-TOF MS databases to include more GPRs is necessary. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Observations of different core water cluster ions Y-(H2O)n (Y = O2, HOx, NOx, COx) and magic number in atmospheric pressure negative corona discharge mass spectrometry.

PubMed

Sekimoto, Kanako; Takayama, Mitsuo

2011-01-01

Reliable mass spectrometry data from large water clusters Y(-)(H(2)O)(n) with various negative core ions Y(-) such as O(2)(-), HO(-), HO(2)(-), NO(2)(-), NO(3)(-), NO(3)(-)(HNO(3))(2), CO(3)(-) and HCO(4)(-) have been obtained using atmospheric pressure negative corona discharge mass spectrometry. All the core Y(-) ions observed were ionic species that play a central role in tropospheric ion chemistry. These mass spectra exhibited discontinuities in ion peak intensity at certain size clusters Y(-)(H(2)O)(m) indicating specific thermochemical stability. Thus, Y(-)(H(2)O)(m) may correspond to the magic number or first hydrated shell in the cluster series Y(-)(H(2)O)(n). The high intensity discontinuity at HO(-)(H(2)O)(3) observed was the first mass spectrometric evidence for the specific stability of HO(-)(H(2)O)(3) as the first hydrated shell which Eigen postulated in 1964. The negative ion water clusters Y(-)(H(2)O)(n) observed in the mass spectra are most likely to be formed via core ion formation in the ambient discharge area (760 torr) and the growth of water clusters by adiabatic expansion in the vacuum region of the mass spectrometers (≈1 torr). The detailed mechanism of the formation of the different core water cluster ions Y(-)(H(2)O)(n) is described. Copyright © 2010 John Wiley & Sons, Ltd.

Phylogeography of speciation: allopatric divergence and secondary contact between outcrossing and selfing Clarkia.

PubMed

Pettengill, James B; Moeller, David A

2012-09-01

The origins of hybrid zones between parapatric taxa have been of particular interest for understanding the evolution of reproductive isolation and the geographic context of species divergence. One challenge has been to distinguish between allopatric divergence (followed by secondary contact) versus primary intergradation (parapatric speciation) as alternative divergence histories. Here, we use complementary phylogeographic and population genetic analyses to investigate the recent divergence of two subspecies of Clarkia xantiana and the formation of a hybrid zone within the narrow region of sympatry. We tested alternative phylogeographic models of divergence using approximate Bayesian computation (ABC) and found strong support for a secondary contact model and little support for a model allowing for gene flow throughout the divergence process (i.e. primary intergradation). Two independent methods for inferring the ancestral geography of each subspecies, one based on probabilistic character state reconstructions and the other on palaeo-distribution modelling, also support a model of divergence in allopatry and range expansion leading to secondary contact. The membership of individuals to genetic clusters suggests geographic substructure within each taxon where allopatric and sympatric samples are primarily found in separate clusters. We also observed coincidence and concordance of genetic clines across three types of molecular markers, which suggests that there is a strong barrier to gene flow. Taken together, our results provide evidence for allopatric divergence followed by range expansion leading to secondary contact. The location of refugial populations and the directionality of range expansion are consistent with expectations based on climate change since the last glacial maximum. Our approach also illustrates the utility of combining phylogeographic hypothesis testing with species distribution modelling and fine-scale population genetic analyses for inferring the geography of the divergence process. © 2012 Blackwell Publishing Ltd.

Adaptive expansion of the maize maternally expressed gene (Meg) family involves changes in expression patterns and protein secondary structures of its members

PubMed Central

2014-01-01

Background The Maternally expressed gene (Meg) family is a locally-duplicated gene family of maize which encodes cysteine-rich proteins (CRPs). The founding member of the family, Meg1, is required for normal development of the basal endosperm transfer cell layer (BETL) and is involved in the allocation of maternal nutrients to growing seeds. Despite the important roles of Meg1 in maize seed development, the evolutionary history of the Meg cluster and the activities of the duplicate genes are not understood. Results In maize, the Meg gene cluster resides in a 2.3 Mb-long genomic region that exhibits many features of non-centromeric heterochromatin. Using phylogenetic reconstruction and syntenic alignments, we identified the pedigree of the Meg family, in which 11 of its 13 members arose in maize after allotetraploidization ~4.8 mya. Phylogenetic and population-genetic analyses identified possible signatures suggesting recent positive selection in Meg homologs. Structural analyses of the Meg proteins indicated potentially adaptive changes in secondary structure from α-helix to β-strand during the expansion. Transcriptomic analysis of the maize endosperm indicated that 6 Meg genes are selectively activated in the BETL, and younger Meg genes are more active than older ones. In endosperms from B73 by Mo17 reciprocal crosses, most Meg genes did not display parent-specific expression patterns. Conclusions Recently-duplicated Meg genes have different protein secondary structures, and their expressions in the BETL dominate over those of older members. Together with the signs of positive selections in the young Meg genes, these results suggest that the expansion of the Meg family involves potentially adaptive transitions in which new members with novel functions prevailed over older members. PMID:25084677

The Impact of Clinical, Demographic and Risk Factors on Rates of HIV Transmission: A Population-based Phylogenetic Analysis in British Columbia, Canada

PubMed Central

Poon, Art F. Y.; Joy, Jeffrey B.; Woods, Conan K.; Shurgold, Susan; Colley, Guillaume; Brumme, Chanson J.; Hogg, Robert S.; Montaner, Julio S. G.; Harrigan, P. Richard

2015-01-01

Background. The diversification of human immunodeficiency virus (HIV) is shaped by its transmission history. We therefore used a population based province wide HIV drug resistance database in British Columbia (BC), Canada, to evaluate the impact of clinical, demographic, and behavioral factors on rates of HIV transmission. Methods. We reconstructed molecular phylogenies from 27 296 anonymized bulk HIV pol sequences representing 7747 individuals in BC—about half the estimated HIV prevalence in BC. Infections were grouped into clusters based on phylogenetic distances, as a proxy for variation in transmission rates. Rates of cluster expansion were reconstructed from estimated dates of HIV seroconversion. Results. Our criteria grouped 4431 individuals into 744 clusters largely separated with respect to risk factors, including large established clusters predominated by injection drug users and more-recently emerging clusters comprising men who have sex with men. The mean log10 viral load of an individual's phylogenetic neighborhood (composed of 5 other individuals with shortest phylogenetic distances) increased their odds of appearing in a cluster by >2-fold per log10 viruses per milliliter. Conclusions. Hotspots of ongoing HIV transmission can be characterized in near real time by the secondary analysis of HIV resistance genotypes, providing an important potential resource for targeting public health initiatives for HIV prevention. PMID:25312037

Energetics of charged metal clusters containing vacancies

NASA Astrophysics Data System (ADS)

Pogosov, Valentin V.; Reva, Vitalii I.

2018-01-01

We study theoretically large metal clusters containing vacancies. We propose an approach, which combines the Kohn-Sham results for monovacancy in a bulk of metal and analytical expansions in small parameters cv (relative concentration of vacancies) and RN,v -1, RN ,v being cluster radii. We obtain expressions of the ionization potential and electron affinity in the form of corrections to electron work function, which require only the characteristics of 3D defect-free metal. The Kohn-Sham method is used to calculate the electron profiles, ionization potential, electron affinity, electrical capacitance; dissociation, cohesion, and monovacancy-formation energies of the small perfect clusters NaN, MgN, AlN (N ≤ 270) and the clusters containing a monovacancy (N ≥ 12) in the stabilized-jellium model. The quantum-sized dependences for monovacancy-formation energies are calculated for the Schottky scenario and the "bubble blowing" scenario, and their asymptotic behavior is also determined. It is shown that the asymptotical behaviors of size dependences for these two mechanisms differ from each other and weakly depend on the number of atoms in the cluster. The contribution of monovacancy to energetics of charged clusters and the size dependences of their characteristics and asymptotics are discussed. It is shown that the difference between the characteristics for the neutral and charged clusters is entirely determined by size dependences of ionization potential and electron affinity. Obtained analytical dependences may be useful for the analysis of the results of photoionization experiments and for the estimation of the size dependences of the vacancy concentration including the vicinity of the melting point.

The Use of Hotspot Spatial Clustering and Multitemporal Satellite Imagery to Facilitate Peat Land Degradation in West Kalimantan, Indonesia (Case Study in Mensiku Miniwatershed of Kapuas River)

NASA Astrophysics Data System (ADS)

Yanuarsyah, I.; Suwarno, Y.; Hudjimartsu, S.

2016-11-01

Peat land in Indonesia is currently a matter of interest to economic activity. In addition to having the uniqueness of the ecosystem which is reserve a huge of biodiversity and carbon storage, peat land is grow an alternative expansion of agriculture and plantation. Mensiku miniwatershed is a subset of Kapuas Watershed with the domination of the peat soil type. It located in the upstream from the Kapuas River and supporting for the continuation of the river ecosystem. The research objective is to facilitate peat land degradation by using hotspot spatial clustering and multitemporal satellite imagery. There have three main processes which are image processing, geoprocessing and statistical process using DBSCAN to determine hotspot clustering. The trend of LUC changes for 14 years (2002 to 2016) shows that the downward occurred in secondary peat forest (0.9% per year) and swampy shrub (0.6% per year). The upward occurred in mixed farms (0.6% per year) and plantations (0.8% per year). degradation rate of peat land over 14 years about 4.6 km2 per year. Hotspot predominantly occurrence in secondary peat forest with 200-250 centimeter depth and Saprists type. DBSCAN clustering obtain 2 clusters in 2002, obtain 4 clusters in 2009 and obtain 1 clusters in 2016. Regarding LUC platform, average density value over 14 years about 0.063 hotspot per km2. DBSCAN is common used to examine the cluster and perform the distribution and density with spatial analysis

Inferring Viral Dynamics in Chronically HCV Infected Patients from the Spatial Distribution of Infected Hepatocytes

DOE PAGES

Graw, Frederik; Balagopal, Ashwin; Kandathil, Abraham J.; ...

2014-11-13

Chronic liver infection by hepatitis C virus (HCV) is a major public health concern. Despite partly successful treatment options, several aspects of intrahepatic HCV infection dynamics are still poorly understood, including the preferred mode of viral propagation, as well as the proportion of infected hepatocytes. Answers to these questions have important implications for the development of therapeutic interventions. In this study, we present methods to analyze the spatial distribution of infected hepatocytes obtained by single cell laser capture microdissection from liver biopsy samples of patients chronically infected with HCV. By characterizing the internal structure of clusters of infected cells, wemore » are able to evaluate hypotheses about intrahepatic infection dynamics. We found that individual clusters on biopsy samples range in size from 4-50 infected cells. In addition, the HCV RNA content in a cluster declines from the cell that presumably founded the cluster to cells at the maximal cluster extension. These observations support the idea that HCV infection in the liver is seeded randomly (e.g. from the blood) and then spreads locally. Assuming that the amount of intracellular HCV RNA is a proxy for how long a cell has been infected, we estimate based on models of intracellular HCV RNA replication and accumulation that cells in clusters have been infected on average for less than a week. Further, we do not find a relationship between the cluster size and the estimated cluster expansion time. Lastly, our method represents a novel approach to make inferences about infection dynamics in solid tissues from static spatial data.« less

Inferring Viral Dynamics in Chronically HCV Infected Patients from the Spatial Distribution of Infected Hepatocytes

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

Graw, Frederik; Balagopal, Ashwin; Kandathil, Abraham J.

Chronic liver infection by hepatitis C virus (HCV) is a major public health concern. Despite partly successful treatment options, several aspects of intrahepatic HCV infection dynamics are still poorly understood, including the preferred mode of viral propagation, as well as the proportion of infected hepatocytes. Answers to these questions have important implications for the development of therapeutic interventions. In this study, we present methods to analyze the spatial distribution of infected hepatocytes obtained by single cell laser capture microdissection from liver biopsy samples of patients chronically infected with HCV. By characterizing the internal structure of clusters of infected cells, wemore » are able to evaluate hypotheses about intrahepatic infection dynamics. We found that individual clusters on biopsy samples range in size from 4-50 infected cells. In addition, the HCV RNA content in a cluster declines from the cell that presumably founded the cluster to cells at the maximal cluster extension. These observations support the idea that HCV infection in the liver is seeded randomly (e.g. from the blood) and then spreads locally. Assuming that the amount of intracellular HCV RNA is a proxy for how long a cell has been infected, we estimate based on models of intracellular HCV RNA replication and accumulation that cells in clusters have been infected on average for less than a week. Further, we do not find a relationship between the cluster size and the estimated cluster expansion time. Lastly, our method represents a novel approach to make inferences about infection dynamics in solid tissues from static spatial data.« less

Falsification of dark energy by fluid mechanics

NASA Astrophysics Data System (ADS)

Gibson, Carl H.

2011-11-01

The 2011 Nobel Prize in Physics has been awarded for the discovery from observations of increased supernovae dimness interpreted as distance, so that the Universe expansion rate has changed from a rate decreasing since the big bang to one that is now increasing, driven by anti-gravity forces of a mysterious dark energy material comprising 70% of the Universe mass-energy. Fluid mechanical considerations falsify both the accelerating expansion and dark energy concepts. Kinematic viscosity is neglected in current stan- dard models of self-gravitational structure formation, which rely on cold dark matter CDM condensations and clusterings that are also falsified by fluid mechanics. Weakly collisional CDM particles do not condense but diffuse away. Photon viscosity predicts su- perclustervoid fragmentation early in the plasma epoch and protogalaxies at the end. At the plasma-gas transition, the plasma fragments into Earth-mass gas planets in trillion planet clumps (proto-globular-star-cluster PGCs). The hydrogen planets freeze to form the dark matter of galaxies and merge to form their stars. Dark energy is a systematic dimming error for Supernovae Ia caused by dark matter planets near hot white dwarf stars at the Chandrasekhar carbon limit. Evaporated planet atmospheres may or may not scatter light from the events depending on the line of sight.

Thermodynamic consideration and ground-state search of icosahedral boron subselenide B12(B1-xSex) 2 from a first-principles cluster expansion

NASA Astrophysics Data System (ADS)

Ektarawong, A.

2018-05-01

The phase stability of icosahedral boron subselenide B12(B1-xSex) 2 , where 0.5 ≤x ≤1 , is explored using a first-principles cluster expansion. The results shows that, instead of a continuous solid solution, B12(B1-xSex) 2 is thermodynamically stable as an individual line compound at the composition of B9.5Se . The ground-state configuration of B9.5Se is represented by a mixture of B12(Se-Se), B12(B-Se), and B12(Se-B) with a ratio of 1:1:1, where they form a periodic A B C A B C ⋯ stacking sequence of B12(Se-Se), B12(B-Se), and B12(Se-B) layers along the c axis of the hexagonal conventional unit cell. The structural and electronic properties of the ground-state B9.5Se are also derived and discussed. By comparing the derived ground-state properties of B9.5Se to the existing experimental data of boron subselenide B˜13Se , I proposed that the as-synthesized boron subselenide B˜13Se , as reported in the literature, has the actual composition of B9.5Se .

Euclid and the Dark Universe

NASA Astrophysics Data System (ADS)

Mellier, Yannick

2016-07-01

The ESA Euclid mission aims to understand why the expansion of the Universe is accelerating and pin down the source responsible for the acceleration. It will uncover the very nature of dark energy and gravitation by measuring with exquisite accuracy the expansion rate of the Universe and the growth rate of structure formation in the Universe. To achieve its objectives Euclid will observe the distribution of dark matter in the Universe by measuring shapes of weakly distorted distant galaxies lensed by foreground cosmic structures with the VIS imaging instrument. In parallel, Euclid will analyse the clustering of galaxies and the distribution of clusters of galaxies by using spectroscopy and measuring redshifts of galaxies with the NISP photometer and spectrometer instrument. The Euclid mission will observe one third of the sky (15,000 deg2) to collect data on several billion galaxies spread over the last ten billion years. In this presentation I will report on the considerable technical and scientific progresses made since COSPAR 2014, on behalf of the Euclid Collaboration. The recent mission PDR that has been passed successfully shows that Euclid should meet its requirements and achieve its primary scientific objectives to map the dark universe. The most recent forecasts and constraints on dark energy, gravity, dark matter and inflation will be presented.

Logged peat swamp forest supports greater macrofungal biodiversity than large-scale oil palm plantations and smallholdings.

PubMed

Shuhada, Siti Noor; Salim, Sabiha; Nobilly, Frisco; Zubaid, Akbar; Azhar, Badrul

2017-09-01

Intensive land expansion of commercial oil palm agricultural lands results in reducing the size of peat swamp forests, particularly in Southeast Asia. The effect of this land conversion on macrofungal biodiversity is, however, understudied. We quantified macrofungal biodiversity by identifying mushroom sporocarps throughout four different habitats; logged peat swamp forest, large-scale oil palm plantation, monoculture, and polyculture smallholdings. We recorded a total of 757 clusters of macrofungi belonging to 127 morphospecies and found that substrates for growing macrofungi were abundant in peat swamp forest; hence, morphospecies richness and macrofungal clusters were significantly greater in logged peat swamp forest than converted oil palm agriculture lands. Environmental factors that influence macrofungi in logged peat swamp forests such as air temperature, humidity, wind speed, soil pH, and soil moisture were different from those in oil palm plantations and smallholdings. We conclude that peat swamp forests are irreplaceable with respect to macrofungal biodiversity. They host much greater macrofungal biodiversity than any of the oil palm agricultural lands. It is imperative that further expansion of oil palm plantation into remaining peat swamp forests should be prohibited in palm oil producing countries. These results imply that macrofungal distribution reflects changes in microclimate between habitats and reduced macrofungal biodiversity may adversely affect decomposition in human-modified landscapes.

Ionized cluster beam deposition

NASA Technical Reports Server (NTRS)

Kirkpatrick, A. R.

1983-01-01

Ionized Cluster Beam (ICB) deposition, a new technique originated by Takagi of Kyoto University in Japan, offers a number of unique capabilities for thin film metallization as well as for deposition of active semiconductor materials. ICB allows average energy per deposited atom to be controlled and involves impact kinetics which result in high diffusion energies of atoms on the growth surface. To a greater degree than in other techniques, ICB involves quantitative process parameters which can be utilized to strongly control the characteristics of films being deposited. In the ICB deposition process, material to be deposited is vaporized into a vacuum chamber from a confinement crucible at high temperature. Crucible nozzle configuration and operating temperature are such that emerging vapor undergoes supercondensation following adiabatic expansion through the nozzle.

Kinematics of the Optically Visible YSOs toward the Orion B Molecular Cloud

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

Kounkel, Marina; Hartmann, Lee; Mateo, Mario

2017-08-01

We present results from high-resolution optical spectra toward 66 young stars in the Orion B molecular cloud to study their kinematics and other properties. Observations of the H α and Li i 6707 Å lines are used to check membership and accretion properties. While the stellar radial velocities of NGC 2068 and L1622 are in good agreement with that of the molecular gas, many of the stars in NGC 2024 show a considerable offset. This could be a signature of either the expansion of the cluster, the high degree of the ejection of the stars from the cluster through dynamicalmore » interaction, or the acceleration of the gas due to stellar feedback.« less

Structures of cage, prism, and book isomers of water hexamer from broadband rotational spectroscopy.

PubMed

Pérez, Cristóbal; Muckle, Matt T; Zaleski, Daniel P; Seifert, Nathan A; Temelso, Berhane; Shields, George C; Kisiel, Zbigniew; Pate, Brooks H

2012-05-18

Theory predicts the water hexamer to be the smallest water cluster with a three-dimensional hydrogen-bonding network as its minimum energy structure. There are several possible low-energy isomers, and calculations with different methods and basis sets assign them different relative stabilities. Previous experimental work has provided evidence for the cage, book, and cyclic isomers, but no experiment has identified multiple coexisting structures. Here, we report that broadband rotational spectroscopy in a pulsed supersonic expansion unambiguously identifies all three isomers; we determined their oxygen framework structures by means of oxygen-18-substituted water (H(2)(18)O). Relative isomer populations at different expansion conditions establish that the cage isomer is the minimum energy structure. Rotational spectra consistent with predicted heptamer and nonamer structures have also been identified.

Cluster-based query expansion using external collections in medical information retrieval.

PubMed

Oh, Heung-Seon; Jung, Yuchul

2015-12-01

Utilizing external collections to improve retrieval performance is challenging research because various test collections are created for different purposes. Improving medical information retrieval has also gained much attention as various types of medical documents have become available to researchers ever since they started storing them in machine processable formats. In this paper, we propose an effective method of utilizing external collections based on the pseudo relevance feedback approach. Our method incorporates the structure of external collections in estimating individual components in the final feedback model. Extensive experiments on three medical collections (TREC CDS, CLEF eHealth, and OHSUMED) were performed, and the results were compared with a representative expansion approach utilizing the external collections to show the superiority of our method. Copyright © 2015 Elsevier Inc. All rights reserved.

Electron-induced chemistry in microhydrated sulfuric acid clusters

NASA Astrophysics Data System (ADS)

Lengyel, Jozef; Pysanenko, Andriy; Fárník, Michal

2017-11-01

We investigate the mixed sulfuric acid-water clusters in a molecular beam experiment with electron attachment and negative ion mass spectrometry and complement the experiment by density functional theory (DFT) calculations. The microhydration of (H2SO4)m(H2O)n clusters is controlled by the expansion conditions, and the electron attachment yields the main cluster ion series (H2SO4)m(H2O)nHSO4- and (H2O)nH2SO4-. The mass spectra provide an experimental evidence for the onset of the ionic dissociation of sulfuric acid and ion-pair (HSO4- ṡ ṡ ṡ H3O+) formation in the neutral H2SO4(H2O)n clusters with n ≥ 5 water molecules, in excellent agreement with the theoretical predictions. In the clusters with two sulfuric acid molecules (H2SO4)2(H2O)n this process starts as early as n ≥ 2 water molecules. The (H2SO4)m(H2O)nHSO4- clusters are formed after the dissociative electron attachment to the clusters containing the (HSO4- ṡ ṡ ṡ H3O+) ion-pair structure, which leads to the electron recombination with the H3O+ moiety generating H2O molecule and the H-atom dissociation from the cluster. The (H2O)nH2SO4- cluster ions point to an efficient caging of the H atom by the surrounding water molecules. The electron-energy dependencies exhibit an efficient electron attachment at low electron energies below 3 eV, and no resonances above this energy, for all the measured mass peaks. This shows that in the atmospheric chemistry only the low-energy electrons can be efficiently captured by the sulfuric acid-water clusters and converted into the negative ions. Possible atmospheric consequences of the acidic dissociation in the clusters and the electron attachment to the sulfuric acid-water aerosols are discussed.

FIRST OBSERVATIONAL SIGNATURE OF ROTATIONAL DECELERATION IN A MASSIVE, INTERMEDIATE-AGE STAR CLUSTER IN THE MAGELLANIC CLOUDS

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

Wu, Xiaohan; Li, Chengyuan; De Grijs, Richard

While the extended main-sequence turnoffs (eMSTOs) found in almost all 1–2 Gyr old star clusters in the Magellanic Clouds are often explained by postulating extended star formation histories (SFHs), the tight subgiant branches (SGBs) seen in some clusters challenge this popular scenario. Puzzlingly, the SGB of the eMSTO cluster NGC 419 is significantly broader at bluer than at redder colors. We carefully assess and confirm the reality of this observational trend. If we would assume that the widths of the features in color–magnitude space were entirely owing to a range in stellar ages, the SFHs of the eMSTO stars andmore » the blue SGB region would be significantly more prolonged than that of the red part of the SGB. This cannot be explained by assuming an internal age spread. We show that rotational deceleration of a population of rapidly rotating stars, a currently hotly debated alternative scenario, naturally explains the observed trend along the SGB. Our analysis shows that a “converging” SGB could be produced if the cluster is mostly composed of rapidly rotating stars that slow down over time owing to the conservation of angular momentum during their evolutionary expansion from main-sequence turnoff stars to red giants.« less

Geographic Expansion of Lyme Disease in Michigan, 2000-2014.

PubMed

Lantos, Paul M; Tsao, Jean; Nigrovic, Lise E; Auwaerter, Paul G; Fowler, Vance G; Ruffin, Felicia; Foster, Erik; Hickling, Graham

2017-01-01

Most Lyme disease cases in the Midwestern United States are reported in Minnesota and Wisconsin. In recent years, however, a widening geographic extent of Lyme disease has been noted with evidence of expansion eastwards into Michigan and neighboring states with historically low incidence rates. We collected confirmed and probable cases of Lyme disease from 2000 through 2014 from the Michigan Department of Health and Human Services, entering them in a geographic information system. We performed spatial focal cluster analyses to characterize Lyme disease expansion. We compared the distribution of human cases with recent Ixodes scapularis tick distribution studies. Lyme disease cases in both the Upper and Lower Peninsulas of Michigan expanded more than 5-fold over the study period. Although increases were seen throughout the Upper Peninsula, the Lower Peninsula particularly expanded along the Indiana border north along the eastern shore of Lake Michigan. Human cases corresponded to a simultaneous expansion in established I scapularis tick populations. The geographic distribution of Lyme disease cases significantly expanded in Michigan between 2000 and 2014, particularly northward along the Lake Michigan shore. If such dynamic trends continue, Michigan-and possibly neighboring areas of Indiana, Ohio, and Ontario, Canada-can expect a continued increase in Lyme disease cases. © The Author 2017. Published by Oxford University Press on behalf of Infectious Diseases Society of America.

Agricultural land change in the Carpathian ecoregion after the breakdown of socialism and expansion of the European Union

NASA Astrophysics Data System (ADS)

Griffiths, Patrick; Müller, Daniel; Kuemmerle, Tobias; Hostert, Patrick

2013-12-01

Widespread changes of agricultural land use occurred in Eastern Europe since the collapse of socialism and the European Union’s eastward expansion, but the rates and patterns of recent land changes remain unclear. Here we assess agricultural land change for the entire Carpathian ecoregion in Eastern Europe at 30 m spatial resolution with Landsat data and for two change periods, between 1985-2000 and 2000-2010. The early period is characterized by post-socialist transition processes, the late period by an increasing influence of EU politics in the region. For mapping and change detection, we use a machine learning approach (random forests) on image composites and variance metrics which were derived from the full decadal archive of Landsat imagery. Our results suggest that cropland abandonment was the most prevalent change process, but we also detected considerable areas of grassland conversion and forest expansion on non-forest land. Cropland abandonment was most extensive during the transition period and predominantly occurred in marginal areas with low suitability for agriculture. Conversely, we observed substantial recultivation of formerly abandoned cropland in high-value agricultural areas since 2000. Hence, market forces increasingly adjust socialist legacies of land expansive production and agricultural land use clusters in favorable areas while marginal lands revert to forest.

Model-Assisted Analysis of Sugar Metabolism throughout Tomato Fruit Development Reveals Enzyme and Carrier Properties in Relation to Vacuole Expansion[W

PubMed Central

Beauvoit, Bertrand P.; Colombié, Sophie; Monier, Antoine; Andrieu, Marie-Hélène; Biais, Benoit; Bénard, Camille; Chéniclet, Catherine; Dieuaide-Noubhani, Martine; Nazaret, Christine; Mazat, Jean-Pierre; Gibon, Yves

2014-01-01

A kinetic model combining enzyme activity measurements and subcellular compartmentation was parameterized to fit the sucrose, hexose, and glucose-6-P contents of pericarp throughout tomato (Solanum lycopersicum) fruit development. The model was further validated using independent data obtained from domesticated and wild tomato species and on transgenic lines. A hierarchical clustering analysis of the calculated fluxes and enzyme capacities together revealed stage-dependent features. Cell division was characterized by a high sucrolytic activity of the vacuole, whereas sucrose cleavage during expansion was sustained by both sucrose synthase and neutral invertase, associated with minimal futile cycling. Most importantly, a tight correlation between flux rate and enzyme capacity was found for fructokinase and PPi-dependent phosphofructokinase during cell division and for sucrose synthase, UDP-glucopyrophosphorylase, and phosphoglucomutase during expansion, thus suggesting an adaptation of enzyme abundance to metabolic needs. In contrast, for most enzymes, flux rates varied irrespectively of enzyme capacities, and most enzymes functioned at <5% of their maximal catalytic capacity. One of the major findings with the model was the high accumulation of soluble sugars within the vacuole together with organic acids, thus enabling the osmotic-driven vacuole expansion that was found during cell division. PMID:25139005

Mutations of cellulose synthase (CESA1) phosphorylation sites modulate anisotropic cell expansion and bidirectional mobility of cellulose synthase.

PubMed

Chen, Shaolin; Ehrhardt, David W; Somerville, Chris R

2010-10-05

The CESA1 component of cellulose synthase is phosphorylated at sites clustered in two hypervariable regions of the protein. Mutations of the phosphorylated residues to Ala (A) or Glu (E) alter anisotropic cell expansion and cellulose synthesis in rapidly expanding roots and hypocotyls. Expression of T166E, S686E, or S688E mutants of CESA1 fully rescued the temperature sensitive cesA1-1 allele (rsw1) at a restrictive temperature whereas mutations to A at these positions caused defects in anisotropic cell expansion. However, mutations to E at residues surrounding T166 (i.e., S162, T165, and S167) caused opposite effects. Live-cell imaging of fluorescently labeled CESA showed close correlations between tissue or cell morphology and patterns of bidirectional motility of CESA complexes in the plasma membrane. In the WT, CESA complexes moved at similar velocities in both directions along microtubule tracks. By contrast, the rate of movement of CESA particles was directionally asymmetric in mutant lines that exhibited abnormal tissue or cell expansion, and the asymmetry was removed upon depolymerizing microtubules with oryzalin. This suggests that phosphorylation of CESA differentially affects a polar interaction with microtubules that may regulate the length or quantity of a subset of cellulose microfibrils and that this, in turn, alters microfibril structure in the primary cell wall resulting in or contributing to the observed defect in anisotropic cell expansion.

Characterization of the isolated [Co3Ni (EtOH )] + cluster by IR spectroscopy and spin-dynamics calculations

NASA Astrophysics Data System (ADS)

Dutta, D.; Becherer, M.; Bellaire, D.; Dietrich, F.; Gerhards, M.; Lefkidis, G.; Hübner, W.

2018-06-01

We experimentally and theoretically study the geometry, as well as the electronic and vibrational properties, of the heterotetranuclear magnetic cluster [Co3Ni (EtOH )] +, which is prepared in the gas phase with molecular beam expansion. We characterize the cluster and identify possible isomers through the comparison of experimentally observed infrared spectra with state-of-the-art quantum chemistry calculations, more specifically by focusing on the OH stretching frequency. Furthermore, we suggest ultrafast, laser-induced, local spin-flip scenarios on every Co atom, and report a cooperative effect, in which the spin density is localized on one Co atom, gets transiently transferred to another, and then bounces back pointing in the opposite direction. Finally, we predict a tolerance of the suggested scenarios with respect to the laser detuning of about 20 meV, which lies within an experimentally applicable range. Our joint investigation is an additional step toward the implementation of laser-controlled nanospintronic devices.

Cluster studies of La[sub 2]CuO[sub 4]: A mapping onto the Pariser--Parr--Pople (PPP) model

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

Martin, R.L.

1993-06-01

The techniques of [ital ab] [ital initio] electronic structure theory are used to study Cu[sub 2]O[sub 7] and Cu[sub 2]O[sub 11] cluster models of La[sub 2]CuO[sub 4]. Fair agreement is obtained with the experimentally determined spin exchange constant [ital J] (90 meV calculated vs 125 meV measured) at the expense of quite large configuration interactions (CI) expansions. Results for various charge states of the cluster are well described by a single-band'' Pariser--Parr--Pople (PPP) model. As in earlier local-density-functional (LDF) based parameter determinations, the present work suggests these materials fall in the strong coupling regime. However, a significant intersite Coulomb repulsionmore » is found in the present research. It is of sufficient strength [ital V][similar to][ital U]/5 to indicate that charge fluctuations may be more important in these materials than generally believed.« less

Clonal Outbreak of Plasmodium falciparum Infection in Eastern Panama

PubMed Central

Obaldia, Nicanor; Baro, Nicholas K.; Calzada, Jose E.; Santamaria, Ana M.; Daniels, Rachel; Wong, Wesley; Chang, Hsiao-Han; Hamilton, Elizabeth J.; Arevalo-Herrera, Myriam; Herrera, Socrates; Wirth, Dyann F.; Hartl, Daniel L.; Marti, Matthias; Volkman, Sarah K.

2015-01-01

Identifying the source of resurgent parasites is paramount to a strategic, successful intervention for malaria elimination. Although the malaria incidence in Panama is low, a recent outbreak resulted in a 6-fold increase in reported cases. We hypothesized that parasites sampled from this epidemic might be related and exhibit a clonal population structure. We tested the genetic relatedness of parasites, using informative single-nucleotide polymorphisms and drug resistance loci. We found that parasites were clustered into 3 clonal subpopulations and were related to parasites from Colombia. Two clusters of Panamanian parasites shared identical drug resistance haplotypes, and all clusters shared a chloroquine-resistance genotype matching the pfcrt haplotype of Colombian origin. Our findings suggest these resurgent parasite populations are highly clonal and that the high clonality likely resulted from epidemic expansion of imported or vestigial cases. Malaria outbreak investigations that use genetic tools can illuminate potential sources of epidemic malaria and guide strategies to prevent further resurgence in areas where malaria has been eliminated. PMID:25336725

Bridging single and multireference coupled cluster theories with universal state selective formalism

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

Bhaskaran-Nair, Kiran; Kowalski, Karol

2013-05-28

The universal state selective (USS) multireference approach is used to construct new energy functionals which offers a unique possibility of bridging single and multireference coupled cluster theories (SR/MRCC). These functionals, which can be used to develop iterative and non-iterative approaches, utilize a special form of the trial wavefunctions, which assure additive separability (or size-consistency) of the USS energies in the non-interacting subsystem limit. When the USS formalism is combined with approximate SRCC theories, the resulting formalism can be viewed as a size-consistent version of the method of moments of coupled cluster equations (MMCC) employing a MRCC trial wavefunction. Special casesmore » of the USS formulations, which utilize single reference state specific CC (V.V. Ivanov, D.I. Lyakh, L. Adamowicz, Phys. Chem. Chem. Phys. 11, 2355 (2009)) and tailored CC (T. Kinoshita, O. Hino, R.J. Bartlett, J. Chem. Phys. 123, 074106 (2005)) expansions are also discussed.« less

Image Recommendation Algorithm Using Feature-Based Collaborative Filtering

NASA Astrophysics Data System (ADS)

Kim, Deok-Hwan

As the multimedia contents market continues its rapid expansion, the amount of image contents used in mobile phone services, digital libraries, and catalog service is increasing remarkably. In spite of this rapid growth, users experience high levels of frustration when searching for the desired image. Even though new images are profitable to the service providers, traditional collaborative filtering methods cannot recommend them. To solve this problem, in this paper, we propose feature-based collaborative filtering (FBCF) method to reflect the user's most recent preference by representing his purchase sequence in the visual feature space. The proposed approach represents the images that have been purchased in the past as the feature clusters in the multi-dimensional feature space and then selects neighbors by using an inter-cluster distance function between their feature clusters. Various experiments using real image data demonstrate that the proposed approach provides a higher quality recommendation and better performance than do typical collaborative filtering and content-based filtering techniques.

Modelling galaxy clustering on small scales to tighten constraints on dark energy and modified gravity

NASA Astrophysics Data System (ADS)

Wang, Yun

2017-01-01

We present a new approach to measuring cosmic expansion history and growth rate of large-scale structure using the anisotropic two-dimensional galaxy correlation function (2DCF) measured from data; it makes use of the empirical modelling of small-scale galaxy clustering derived from numerical simulations by Zheng et al. We validate this method using mock catalogues, before applying it to the analysis of the CMASS sample from the Sloan Digital Sky Survey Data Release 10 of the Baryon Oscillation Spectroscopic Survey. We find that this method enables accurate and precise measurements of cosmic expansion history and growth rate of large-scale structure. Modelling the 2DCF fully including non-linear effects and redshift space distortions in the scale range of 16-144 h-1 Mpc, we find H(0.57)rs(zd)/c = 0.0459 ± 0.0006, DA(0.57)/rs(zd) = 9.011 ± 0.073, and fg(0.57)σ8(0.57) = 0.476 ± 0.050, which correspond to precisions of 1.3 per cent, 0.8 per cent, and 10.5 per cent, respectively. We have defined rs(zd) to be the sound horizon at the drag epoch computed using a simple integral, fg(z) as the growth rate at redshift z, and σ8(z) as the matter power spectrum normalization on 8 h-1 Mpc scale at z. We find that neglecting the small-scale information significantly weakens the constraints on H(z) and DA(z), and leads to a biased estimate of fg(z). Our results indicate that we can significantly tighten constraints on dark energy and modified gravity by reliably modelling small-scale galaxy clustering.

Vacuum-Ultraviolet photoionization studies of the microhydrationof DNA bases (Guanine, Cytosine, Adenine and Thymine)

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

Belau, L.; Wilson, K.R.; Leone, S.R.

2007-01-22

In this work, we report on a photoionization study of the microhydration of the four DNA bases. Gas-phase clusters of water with DNA bases [guanine (G), cytosine (C), adenine (A), and thymine (T)] are generated via thermal vaporization of the bases and expansion of the resultant vapor in a continuous supersonic jet expansion of water seeded in Ar. The resulting clusters are investigated by single-photon ionization with tunable vacuum-ultraviolet synchrotron radiation and mass analyzed using reflectron mass spectrometry. Photoionization efficiency (PIE) curves are recorded for the DNA bases and the following water (W) clusters: G, GW{sub n} (n = 1-3);more » C, CW{sub n} (n = 1-3); A, AW{sub n} (n = 1,2); and T, TW{sub n} (n = 1-3). Appearance energies (AE) are derived from the onset of these PIE curves (all energies in eV): G (8.1 {+-} 0.1), GW (8.0 {+-} 0.1), GW{sub 2} (8.0 {+-} 0.1), and GW{sub 3} (8.0); C (8.65 {+-} 0.05), CW (8.45 {+-} 0.05), CW{sub 2} (8.4 {+-} 0.1), and CW{sub 3} (8.3 {+-} 0.1); A (8.30 {+-} 0.05), AW (8.20 {+-} 0.05), and AW{sub 2} (8.1 {+-} 0.1); T (8.90 {+-} 0.05); and TW (8.75 {+-} 0.05), TW{sub 2} (8.6 {+-} 0.1), and TW{sub 3} (8.6 {+-} 0.1). The AEs of the DNA bases decrease slightly with the addition of water molecules (up to three) but do not converge to values found for photoinduced electron removal from DNA bases in solution.« less

Gravitationally neutral dark matter-dark antimatter universe crystal with epochs of decelerated and accelerated expansion

NASA Astrophysics Data System (ADS)

Gribov, I. A.; Trigger, S. A.

2016-11-01

A large-scale self-similar crystallized phase of finite gravitationally neutral universe (GNU)—huge GNU-ball—with spherical 2D-boundary immersed into an endless empty 3D- space is considered. The main principal assumptions of this universe model are: (1) existence of stable elementary particles-antiparticles with the opposite gravitational “charges” (M+gr and M -gr), which have the same positive inertial mass M in = |M ±gr | ≥ 0 and are equally presented in the universe during all universe evolution epochs; (2) the gravitational interaction between the masses of the opposite charges” is repulsive; (3) the unbroken baryon-antibaryon symmetry; (4) M+gr-M-gr “charges” symmetry, valid for two equally presented matter-antimatter GNU-components: (a) ordinary matter (OM)-ordinary antimatter (OAM), (b) dark matter (DM)-dark antimatter (DAM). The GNU-ball is weightless crystallized dust of equally presented, mutually repulsive (OM+DM) clusters and (OAM+DAM) anticlusters. Newtonian GNU-hydrodynamics gives the observable spatial flatness and ideal Hubble flow. The GNU in the obtained large-scale self-similar crystallized phase preserves absence of the cluster-anticluster collisions and simultaneously explains the observable large-scale universe phenomena: (1) the absence of the matter-antimatter clusters annihilation, (2) the self-similar Hubble flow stability and homogeneity, (3) flatness, (4) bubble and cosmic-net structures as 3D-2D-1D decrystallization phases with decelerative (a ≤ 0) and accelerative (a ≥ 0) expansion epochs, (5) the dark energy (DE) phenomena with Λ VACUUM = 0, (6) the DE and DM fine-tuning nature and predicts (7) evaporation into isolated huge M±gr superclusters without Big Rip.

Bipolar H II regions produced by cloud-cloud collisions

NASA Astrophysics Data System (ADS)

Whitworth, Anthony; Lomax, Oliver; Balfour, Scott; Mège, Pierre; Zavagno, Annie; Deharveng, Lise

2018-05-01

We suggest that bipolar H II regions may be the aftermath of collisions between clouds. Such a collision will produce a shock-compressed layer, and a star cluster can then condense out of the dense gas near the center of the layer. If the clouds are sufficiently massive, the star cluster is likely to contain at least one massive star, which emits ionizing radiation, and excites an H II region, which then expands, sweeping up the surrounding neutral gas. Once most of the matter in the clouds has accreted onto the layer, expansion of the H II region meets little resistance in directions perpendicular to the midplane of the layer, and so it expands rapidly to produce two lobes of ionized gas, one on each side of the layer. Conversely, in directions parallel to the midplane of the layer, expansion of the H II region stalls due to the ram pressure of the gas that continues to fall towards the star cluster from the outer parts of the layer; a ring of dense neutral gas builds up around the waist of the bipolar H II region, and may spawn a second generation of star formation. We present a dimensionless model for the flow of ionized gas in a bipolar H II region created according to the above scenario, and predict the characteristics of the resulting free-free continuum and recombination-line emission. This dimensionless model can be scaled to the physical parameters of any particular system. Our intention is that these predictions will be useful in testing the scenario outlined above, and thereby providing indirect support for the role of cloud-cloud collisions in triggering star formation.

Abraham's children in the genome era: major Jewish diaspora populations comprise distinct genetic clusters with shared Middle Eastern Ancestry.

PubMed

Atzmon, Gil; Hao, Li; Pe'er, Itsik; Velez, Christopher; Pearlman, Alexander; Palamara, Pier Francesco; Morrow, Bernice; Friedman, Eitan; Oddoux, Carole; Burns, Edward; Ostrer, Harry

2010-06-11

For more than a century, Jews and non-Jews alike have tried to define the relatedness of contemporary Jewish people. Previous genetic studies of blood group and serum markers suggested that Jewish groups had Middle Eastern origin with greater genetic similarity between paired Jewish populations. However, these and successor studies of monoallelic Y chromosomal and mitochondrial genetic markers did not resolve the issues of within and between-group Jewish genetic identity. Here, genome-wide analysis of seven Jewish groups (Iranian, Iraqi, Syrian, Italian, Turkish, Greek, and Ashkenazi) and comparison with non-Jewish groups demonstrated distinctive Jewish population clusters, each with shared Middle Eastern ancestry, proximity to contemporary Middle Eastern populations, and variable degrees of European and North African admixture. Two major groups were identified by principal component, phylogenetic, and identity by descent (IBD) analysis: Middle Eastern Jews and European/Syrian Jews. The IBD segment sharing and the proximity of European Jews to each other and to southern European populations suggested similar origins for European Jewry and refuted large-scale genetic contributions of Central and Eastern European and Slavic populations to the formation of Ashkenazi Jewry. Rapid decay of IBD in Ashkenazi Jewish genomes was consistent with a severe bottleneck followed by large expansion, such as occurred with the so-called demographic miracle of population expansion from 50,000 people at the beginning of the 15th century to 5,000,000 people at the beginning of the 19th century. Thus, this study demonstrates that European/Syrian and Middle Eastern Jews represent a series of geographical isolates or clusters woven together by shared IBD genetic threads.

Abraham's Children in the Genome Era: Major Jewish Diaspora Populations Comprise Distinct Genetic Clusters with Shared Middle Eastern Ancestry

PubMed Central

Atzmon, Gil; Hao, Li; Pe'er, Itsik; Velez, Christopher; Pearlman, Alexander; Palamara, Pier Francesco; Morrow, Bernice; Friedman, Eitan; Oddoux, Carole; Burns, Edward; Ostrer, Harry

2010-01-01

For more than a century, Jews and non-Jews alike have tried to define the relatedness of contemporary Jewish people. Previous genetic studies of blood group and serum markers suggested that Jewish groups had Middle Eastern origin with greater genetic similarity between paired Jewish populations. However, these and successor studies of monoallelic Y chromosomal and mitochondrial genetic markers did not resolve the issues of within and between-group Jewish genetic identity. Here, genome-wide analysis of seven Jewish groups (Iranian, Iraqi, Syrian, Italian, Turkish, Greek, and Ashkenazi) and comparison with non-Jewish groups demonstrated distinctive Jewish population clusters, each with shared Middle Eastern ancestry, proximity to contemporary Middle Eastern populations, and variable degrees of European and North African admixture. Two major groups were identified by principal component, phylogenetic, and identity by descent (IBD) analysis: Middle Eastern Jews and European/Syrian Jews. The IBD segment sharing and the proximity of European Jews to each other and to southern European populations suggested similar origins for European Jewry and refuted large-scale genetic contributions of Central and Eastern European and Slavic populations to the formation of Ashkenazi Jewry. Rapid decay of IBD in Ashkenazi Jewish genomes was consistent with a severe bottleneck followed by large expansion, such as occurred with the so-called demographic miracle of population expansion from 50,000 people at the beginning of the 15th century to 5,000,000 people at the beginning of the 19th century. Thus, this study demonstrates that European/Syrian and Middle Eastern Jews represent a series of geographical isolates or clusters woven together by shared IBD genetic threads. PMID:20560205

Convergence of the Light-Front Coupled-Cluster Method in Scalar Yukawa Theory

NASA Astrophysics Data System (ADS)

Usselman, Austin

We use Fock-state expansions and the Light-Front Coupled-Cluster (LFCC) method to study mass eigenvalue problems in quantum field theory. Specifically, we study convergence of the method in scalar Yukawa theory. In this theory, a single charged particle is surrounded by a cloud of neutral particles. The charged particle can create or annihilate neutral particles, causing the n-particle state to depend on the n + 1 and n - 1-particle state. Fock state expansion leads to an infinite set of coupled equations where truncation is required. The wave functions for the particle states are expanded in a basis of symmetric polynomials and a generalized eigenvalue problem is solved for the mass eigenvalue. The mass eigenvalue problem is solved for multiple values for the coupling strength while the number of particle states and polynomial basis order are increased. Convergence of the mass eigenvalue solutions is then obtained. Three mass ratios between the charged particle and neutral particles were studied. This includes a massive charged particle, equal masses and massive neutral particles. Relative probability between states can also be explored for more detailed understanding of the process of convergence with respect to the number of Fock sectors. The reliance on higher order particle states depended on how large the mass of the charge particle was. The higher the mass of the charged particle, the more the system depended on higher order particle states. The LFCC method solves this same mass eigenvalue problem using an exponential operator. This exponential operator can then be truncated instead to form a finite system of equations that can be solved using a built in system solver provided in most computational environments, such as MatLab and Mathematica. First approximation in the LFCC method allows for only one particle to be created by the new operator and proved to be not powerful enough to match the Fock state expansion. The second order approximation allowed one and two particles to be created by the new operator and converged to the Fock state expansion results. This showed the LFCC method to be a reliable replacement method for solving quantum field theory problems.

Expansion of the E138A mutation in newly diagnosed HIV-infected patients in Gran Canaria.

PubMed

Chamizo, Francisco; Gilarranz, Raúl; Tosco, Tomás; Carrillo, Deyanira; Holguín, África; Santana, Évora; Pérez-Arellano, Jose Luís; Hernández, Michele; Francés, Adela; Cárdenes, Miguel Ángel; Zarzalejos, Jose María; Pena-López, María José

2016-09-01

Molecular epidemiology allows us to know local HIV transmission and to design strategies of prevention. We studied 25 HIV newly diagnosed patients with the E138A mutation since the year 2010. Most transmission networks involved young and promiscuous men who have sex with men. Recent infection was only documented in patients grouped into the smaller clusters. Copyright © 2016 Elsevier Inc. All rights reserved.

Arrival and expansion of the invasive foraminifera Trochammina hadai Uchio in Padilla Bay, Washington

USGS Publications Warehouse

McGann, Mary; Grossman, Eric E.; Takesue, Renee K.; Penttila, Dan; Walsh, John P.; Corbett, Reide

2012-01-01

Trochammina hadai Uchio, a benthic foraminifera native to Japanese estuaries, was first identified as an invasive in 1995 in San Francisco Bay and later in 16 other west coast estuaries. To investigate the timing of the arrival and expansion of this invasive species in Padilla Bay, Washington, we analyzed the distribution of foraminifera in two surface samples collected in 1971, in nine surface samples collected by Scott in 1972–1973, as well as in two cores (Padilla Flats 3 and Padilla V1/V2) obtained in 2004. Trochanimina hadai, originally identified as the native Trochammina pacifica Cushman in several early foraminiferal studies, dominates the assemblage of most of the surface samples. In the Padilla V1/V2 and Padilla Flats 3 cores, the species' abundance follows a pattern of absence, first appearance, rapid expansion commonly seen shortly after the arrival of a successful biological invasion, setback, and second expansion. Using Q-mode cluster analysis, pre-expansion and expansion assemblages were identified. Pb-210 dating of these cores proved unsuccessful. However, based on T. hadai's first appearance occurring stratigraphically well above sedimentological changes in the cores that reflect deposition of sediments in the bay due to previous diversions of the Skagit River, and its dominance in the early 1970s surface samples, we conclude that the species arrived in Padilla Bay somewhere between the late 1800s and 1971. Trochammina hadai may have been introduced into the bay in the 1930s when oyster culturing began there or, at a minimum, ten years prior to its appearance in San Francisco Bay.

High Intensity Femtosecond XUV Pulse Interactions with Atomic Clusters: Final Report

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

Ditmire, Todd

We propose to expand our recent studies on the interactions of intense extreme ultraviolet (XUV) femtosecond pulses with atomic and molecular clusters. The work described follows directly from work performed under BES support for the past grant period. During this period we upgraded the THOR laser at UT Austin by replacing the regenerative amplifier with optical parametric amplification (OPA) using BBO crystals. This increased the contrast of the laser, the total laser energy to ~1.2 J , and decreased the pulse width to below 30 fs. We built a new all reflective XUV harmonic beam line into expanded lab space. This enabled an increase influence by a factor ofmore » 25 and an increase in the intensity by a factor of 50. The goal of the program proposed in this renewal is to extend this class of experiments to available higher XUV intensity and a greater range of wavelengths. In particular we plan to perform experiments to confirm our hypothesis about the origin of the high charge states in these exploding clusters, an effect which we ascribe to plasma continuum lowering (ionization potential depression) in a cluster nano-­plasma. To do this we will perform experiments in which XUV pulses of carefully chosen wavelength irradiate clusters composed of only low-Z atoms and clusters with a mixture of this low-­Z atom with higher Z atoms. The latter clusters will exhibit higher electron densities and will serve to lower the ionization potential further than in the clusters composed only of low Z atoms. This should have a significant effect on the charge states produced in the exploding cluster. We will also explore the transition of explosions in these XUV irradiated clusters from hydrodynamic expansion to Coulomb explosion. The work proposed here will explore clusters of a wider range of constituents, including clusters from solids. Experiments on clusters from solids will be enabled by development we performed during the past grant period in which we constructed and tested a cluster generator based on the Laser Ablation of Microparticles (LAM) method.« less

Nanosecond laser-cluster interactions at 109-1012 W/cm 2

NASA Astrophysics Data System (ADS)

Singh, Rohtash; Tripathi, V. K.; Vatsa, R. K.; Das, D.

2017-08-01

An analytical model and a numerical code are developed to study the evolution of multiple charge states of ions by irradiating clusters of atoms of a high atomic number (e.g., Xe) by 1.06 μm and 0.53 μm nanosecond laser pulses of an intensity in the range of 109-1012 W/cm 2 . The laser turns clusters into plasma nanoballs. Initially, the momentum randomizing collisions of electrons are with neutrals, but soon these are taken over by collisions with ions. The ionization of an ion to the next higher state of ionization is taken to be caused by an energetic free electron impact, and the rates of impact ionization are suitably modelled by having an inverse exponential dependence of ionizing collision frequency on the ratio of ionization potential to electron temperature. Cluster expansion led adiabatic cooling is a major limiting mechanism on electron temperature. In the intensity range considered, ionization states up to 7 are expected with nanosecond pulses. Another possible mechanism, filamentation of the laser, has also been considered to account for the observation of higher charged states. However, filamentation is seen to be insufficient to cause substantial local enhancement in the intensity to affect electron heating rates.

A Network-Based Algorithm for Clustering Multivariate Repeated Measures Data

NASA Technical Reports Server (NTRS)

Koslovsky, Matthew; Arellano, John; Schaefer, Caroline; Feiveson, Alan; Young, Millennia; Lee, Stuart

2017-01-01

The National Aeronautics and Space Administration (NASA) Astronaut Corps is a unique occupational cohort for which vast amounts of measures data have been collected repeatedly in research or operational studies pre-, in-, and post-flight, as well as during multiple clinical care visits. In exploratory analyses aimed at generating hypotheses regarding physiological changes associated with spaceflight exposure, such as impaired vision, it is of interest to identify anomalies and trends across these expansive datasets. Multivariate clustering algorithms for repeated measures data may help parse the data to identify homogeneous groups of astronauts that have higher risks for a particular physiological change. However, available clustering methods may not be able to accommodate the complex data structures found in NASA data, since the methods often rely on strict model assumptions, require equally-spaced and balanced assessment times, cannot accommodate missing data or differing time scales across variables, and cannot process continuous and discrete data simultaneously. To fill this gap, we propose a network-based, multivariate clustering algorithm for repeated measures data that can be tailored to fit various research settings. Using simulated data, we demonstrate how our method can be used to identify patterns in complex data structures found in practice.

Density-functional theory study of ionic inhomogeneity in metal clusters using SC-ISJM

NASA Astrophysics Data System (ADS)

Payami, Mahmoud; Mahmoodi, Tahereh

2017-12-01

In this work we have applied the recently formulated self-compressed inhomogeneous stabilized jellium model [51] to describe the equilibrium electronic and geometric properties of atomic-closed-shell simple metal clusters of AlN (N = 13, 19, 43, 55, 79, 87, 135, 141), NaN, and CsN (N = 9, 15, 27, 51, 59, 65, 89, 113). To validate the results, we have also performed first-principles pseudo-potential calculations and used them as our reference. In the model, we have considered two regions consisting of ;surface; and ;inner; ones, the border separating them being sharp. This generalization makes possible to decouple the relaxations of different parts of the system. The results show that the present model correctly predicts the size reductions seen in most of the clusters. It also predicts increase in size of some clusters, as observed from first-principles results. Moreover, the changes in inter-layer distances, being as contractions or expansions, are in good agreement with the atomic simulation results. For a more realistic description of the properties, it is possible to improve the method of choosing the surface thicknesses or generalize the model to include more regions than just two.

Cluster formation in liverwort-associated methylobacteria and its implications.

PubMed

Kutschera, U; Thomas, J; Hornschuh, M

2007-08-01

Pink-pigmented methylotropic bacteria of the genus Methylobacterium inhabit the surfaces of plant organs. In bryophytes, these methylobacteria enhance cell growth, but the nature of this plant-microbe interaction is largely unknown. In this study, methylobacteria were isolated from the upper surface of the free-living thalli of the liverwort Marchantia polymorpha L. Identification of one strain by 16S ribosomal RNA (rRNA) gene-targeted polymerase chain reaction (PCR) and other data show that these microbes represent an undescribed species of the genus Methylobacterium (Methylobacterium sp.). The growth-promoting activity of these wild-type methylobacteria was tested and compared with that of the type strain Methylobacterium mesophilicum. Both types of methylobacteria stimulated surface expansion of isolated gemmae from Marchantia polymorpha by about 350%. When suspended in water, the liverwort-associated bacteria (Methylobacterium sp.) formed dense clusters of up to 600 cells. In liquid cultures of Methylobacterium mesophilicum, single cells were observed, but no clustering occurred. We suggest that the liverwort-associated methylobacteria are co-evolved symbionts of the plants: Cluster formation may be a behavior that enhances the survival of the epiphytic microbes during periods of drought of these desiccation-tolerant lower plants.

Cluster formation in liverwort-associated methylobacteria and its implications

NASA Astrophysics Data System (ADS)

Kutschera, U.; Thomas, J.; Hornschuh, M.

2007-08-01

Pink-pigmented methylotropic bacteria of the genus Methylobacterium inhabit the surfaces of plant organs. In bryophytes, these methylobacteria enhance cell growth, but the nature of this plant-microbe interaction is largely unknown. In this study, methylobacteria were isolated from the upper surface of the free-living thalli of the liverwort Marchantia polymorpha L. Identification of one strain by 16S ribosomal RNA (rRNA) gene-targeted polymerase chain reaction (PCR) and other data show that these microbes represent an undescribed species of the genus Methylobacterium ( Methylobacterium sp.). The growth-promoting activity of these wild-type methylobacteria was tested and compared with that of the type strain Methylobacterium mesophilicum. Both types of methylobacteria stimulated surface expansion of isolated gemmae from Marchantia polymorpha by about 350%. When suspended in water, the liverwort-associated bacteria ( Methylobacterium sp.) formed dense clusters of up to 600 cells. In liquid cultures of Methylobacterium mesophilicum, single cells were observed, but no clustering occurred. We suggest that the liverwort-associated methylobacteria are co-evolved symbionts of the plants: Cluster formation may be a behavior that enhances the survival of the epiphytic microbes during periods of drought of these desiccation-tolerant lower plants.

Structural and functional annotation of the porcine immunome

PubMed Central

2013-01-01

Background The domestic pig is known as an excellent model for human immunology and the two species share many pathogens. Susceptibility to infectious disease is one of the major constraints on swine performance, yet the structure and function of genes comprising the pig immunome are not well-characterized. The completion of the pig genome provides the opportunity to annotate the pig immunome, and compare and contrast pig and human immune systems. Results The Immune Response Annotation Group (IRAG) used computational curation and manual annotation of the swine genome assembly 10.2 (Sscrofa10.2) to refine the currently available automated annotation of 1,369 immunity-related genes through sequence-based comparison to genes in other species. Within these genes, we annotated 3,472 transcripts. Annotation provided evidence for gene expansions in several immune response families, and identified artiodactyl-specific expansions in the cathelicidin and type 1 Interferon families. We found gene duplications for 18 genes, including 13 immune response genes and five non-immune response genes discovered in the annotation process. Manual annotation provided evidence for many new alternative splice variants and 8 gene duplications. Over 1,100 transcripts without porcine sequence evidence were detected using cross-species annotation. We used a functional approach to discover and accurately annotate porcine immune response genes. A co-expression clustering analysis of transcriptomic data from selected experimental infections or immune stimulations of blood, macrophages or lymph nodes identified a large cluster of genes that exhibited a correlated positive response upon infection across multiple pathogens or immune stimuli. Interestingly, this gene cluster (cluster 4) is enriched for known general human immune response genes, yet contains many un-annotated porcine genes. A phylogenetic analysis of the encoded proteins of cluster 4 genes showed that 15% exhibited an accelerated evolution as compared to 4.1% across the entire genome. Conclusions This extensive annotation dramatically extends the genome-based knowledge of the molecular genetics and structure of a major portion of the porcine immunome. Our complementary functional approach using co-expression during immune response has provided new putative immune response annotation for over 500 porcine genes. Our phylogenetic analysis of this core immunome cluster confirms rapid evolutionary change in this set of genes, and that, as in other species, such genes are important components of the pig’s adaptation to pathogen challenge over evolutionary time. These comprehensive and integrated analyses increase the value of the porcine genome sequence and provide important tools for global analyses and data-mining of the porcine immune response. PMID:23676093

Dark energy domination in the Virgocentric flow

NASA Astrophysics Data System (ADS)

Chernin, A. D.; Karachentsev, I. D.; Nasonova, O. G.; Teerikorpi, P.; Valtonen, M. J.; Dolgachev, V. P.; Domozhilova, L. M.; Byrd, G. G.

2010-09-01

Context. The standard ΛCDM cosmological model implies that all celestial bodies are embedded in a perfectly uniform dark energy background, represented by Einstein's cosmological constant, and experience its repulsive antigravity action. Aims: Can dark energy have strong dynamical effects on small cosmic scales as well as globally? Continuing our efforts to clarify this question, we now focus on the Virgo Cluster and the flow of expansion around it. Methods: We interpret the Hubble diagram from a new database of velocities and distances of galaxies in the cluster and its environment, using a nonlinear analytical model, which incorporates the antigravity force in terms of Newtonian mechanics. The key parameter is the zero-gravity radius, the distance at which gravity and antigravity are in balance. Results: 1. The interplay between the gravity of the cluster and the antigravity of the dark energy background determines the kinematical structure of the system and controls its evolution. 2. The gravity dominates the quasi-stationary bound cluster, while the antigravity controls the Virgocentric flow, bringing order and regularity to the flow, which reaches linearity and the global Hubble rate at distances ⪆15 Mpc. 3. The cluster and the flow form a system similar to the Local Group and its outflow. In the velocity-distance diagram, the cluster-flow structure reproduces the group-flow structure with a scaling factor of about 10; the zero-gravity radius for the cluster system is also 10 times larger. Conclusions: The phase and dynamical similarity of the systems on the scales of 1-30 Mpc suggests that a two-component pattern may be universal for groups and clusters: a quasi-stationary bound central component and an expanding outflow around it, caused by the nonlinear gravity-antigravity interplay with the dark energy dominating in the flow component.

Early dynamical evolution of substructured stellar clusters

NASA Astrophysics Data System (ADS)

Dorval, Julien; Boily, Christian

2015-08-01

It is now widely accepted that stellar clusters form with a high level of substructure (Kuhn et al. 2014, Bate 2009), inherited from the molecular cloud and the star formation process. Evidence from observations and simulations also indicate the stars in such young clusters form a subvirial system (Kirk et al. 2007, Maschberger et al. 2010). The subsequent dynamical evolution can cause important mass loss, ejecting a large part of the birth population in the field. It can also imprint the stellar population and still be inferred from observations of evolved clusters. Nbody simulations allow a better understanding of these early twists and turns, given realistic initial conditions. Nowadays, substructured, clumpy young clusters are usually obtained through pseudo-fractal growth (Goodwin et al. 2004) and velocity inheritance. Such models are visually realistics and are very useful, they are however somewhat artificial in their velocity distribution. I introduce a new way to create clumpy initial conditions through a "Hubble expansion" which naturally produces self consistent clumps, velocity-wise. A velocity distribution analysis shows the new method produces realistic models, consistent with the dynamical state of the newly created cores in hydrodynamic simulation of cluster formation (Klessen & Burkert 2000). I use these initial conditions to investigate the dynamical evolution of young subvirial clusters, up to 80000 stars. I find an overall soft evolution, with hierarchical merging leading to a high level of mass segregation. I investigate the influence of the mass function on the fate of the cluster, specifically on the amount of mass loss induced by the early violent relaxation. Using a new binary detection algorithm, I also find a strong processing of the native binary population.

Critical properties of the classical XY and classical Heisenberg models: A renormalization group study

NASA Astrophysics Data System (ADS)

de Sousa, J. Ricardo; de Albuquerque, Douglas F.

1997-02-01

By using two approaches of renormalization group (RG), mean field RG (MFRG) and effective field RG (EFRG), we study the critical properties of the simple cubic lattice classical XY and classical Heisenberg models. The methods are illustrated by employing its simplest approximation version in which small clusters with one ( N‧ = 1) and two ( N = 2) spins are used. The thermal and magnetic critical exponents, Yt and Yh, and the critical parameter Kc are numerically obtained and are compared with more accurate methods (Monte Carlo, series expansion and ε-expansion). The results presented in this work are in excellent agreement with these sophisticated methods. We have also shown that the exponent Yh does not depend on the symmetry n of the Hamiltonian, hence the criteria of universality for this exponent is only a function of the dimension d.

The impact of clinical, demographic and risk factors on rates of HIV transmission: a population-based phylogenetic analysis in British Columbia, Canada.

PubMed

Poon, Art F Y; Joy, Jeffrey B; Woods, Conan K; Shurgold, Susan; Colley, Guillaume; Brumme, Chanson J; Hogg, Robert S; Montaner, Julio S G; Harrigan, P Richard

2015-03-15

The diversification of human immunodeficiency virus (HIV) is shaped by its transmission history. We therefore used a population based province wide HIV drug resistance database in British Columbia (BC), Canada, to evaluate the impact of clinical, demographic, and behavioral factors on rates of HIV transmission. We reconstructed molecular phylogenies from 27,296 anonymized bulk HIV pol sequences representing 7747 individuals in BC-about half the estimated HIV prevalence in BC. Infections were grouped into clusters based on phylogenetic distances, as a proxy for variation in transmission rates. Rates of cluster expansion were reconstructed from estimated dates of HIV seroconversion. Our criteria grouped 4431 individuals into 744 clusters largely separated with respect to risk factors, including large established clusters predominated by injection drug users and more-recently emerging clusters comprising men who have sex with men. The mean log10 viral load of an individual's phylogenetic neighborhood (composed of 5 other individuals with shortest phylogenetic distances) increased their odds of appearing in a cluster by >2-fold per log10 viruses per milliliter. Hotspots of ongoing HIV transmission can be characterized in near real time by the secondary analysis of HIV resistance genotypes, providing an important potential resource for targeting public health initiatives for HIV prevention. © The Author 2014. Published by Oxford University Press on behalf of the Infectious Diseases Society of America. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Cosmology with galaxy cluster phase spaces

NASA Astrophysics Data System (ADS)

Stark, Alejo; Miller, Christopher J.; Huterer, Dragan

2017-07-01

We present a novel approach to constrain accelerating cosmologies with galaxy cluster phase spaces. With the Fisher matrix formalism we forecast constraints on the cosmological parameters that describe the cosmological expansion history. We find that our probe has the potential of providing constraints comparable to, or even stronger than, those from other cosmological probes. More specifically, with 1000 (100) clusters uniformly distributed in the redshift range 0 ≤z ≤0.8 , after applying a conservative 80% mass scatter prior on each cluster and marginalizing over all other parameters, we forecast 1 σ constraints on the dark energy equation of state w and matter density parameter ΩM of σw=0.138 (0.431 ) and σΩM=0.007(0.025 ) in a flat universe. Assuming 40% mass scatter and adding a prior on the Hubble constant we can achieve a constraint on the Chevallier-Polarski-Linder parametrization of the dark energy equation of state parameters w0 and wa with 100 clusters in the same redshift range: σw 0=0.191 and σwa=2.712. Dropping the assumption of flatness and assuming w =-1 we also attain competitive constraints on the matter and dark energy density parameters: σΩ M=0.101 and σΩ Λ=0.197 for 100 clusters uniformly distributed in the range 0 ≤z ≤0.8 after applying a prior on the Hubble constant. We also discuss various observational strategies for tightening constraints in both the near and far future.

Transition from HEU to LEU fuel in Romania`s 14-MW TRIGA reactor

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

Bretscher, M.M.; Snelgrove, J.L.

1991-12-31

The 14-MW TRIGA steady state reactor (SSR) located in Pitesti, Romania, first went critical in the fall of 1979. Initially, the core configuration for full power operation used 29 fuel clusters each containing a 5 {times} 5 square array of HEU (10 wt%) -- ZrH -- Er (2.8 wt%) fuel-moderator rods (1.295 cm o.d.) clad in Incology. With a total inventory of 35 HEU fuel clusters, burnup considerations required a gradual expansion of the core from 29 to 32 and finally to 35 clusters before the reactor was shut down because of insufficient excess reactivity. At this time each ofmore » the original 29 fuel clusters had an overage {sup 235}U burnup in the range from 50 to 62%. Because of the US policy regarding the export of highly enriched uranium, fresh HEU TRIGA replacement fuel is not available. After a number of safety-related measurements, the SSR is expected to resume full power operation in the near future using a mixed core containing five LEU TRIGA clusters of the same geometry as the original fuel but with fuel-moderator rods containing 45 wt% U (19.7% {sup 235}U enrichment) and 1.1 wt% Er. Rods for 14 additional LEU fuel clusters will be fabricated by General Atomics. In support of the SSR mixed core operation numerous neutronic calculations have been performed. This paper presents some of the results of those calculations.« less

Reversing cooling flows with AGN jets: shock waves, rarefaction waves and trailing outflows

NASA Astrophysics Data System (ADS)

Guo, Fulai; Duan, Xiaodong; Yuan, Ye-Fei

2018-01-01

The cooling flow problem is one of the central problems in galaxy clusters, and active galactic nucleus (AGN) feedback is considered to play a key role in offsetting cooling. However, how AGN jets heat and suppress cooling flows remains highly debated. Using an idealized simulation of a cool-core cluster, we study the development of central cooling catastrophe and how a subsequent powerful AGN jet event averts cooling flows, with a focus on complex gasdynamical processes involved. We find that the jet drives a bow shock, which reverses cooling inflows and overheats inner cool-core regions. The shocked gas moves outward in a rarefaction wave, which rarefies the dense core and adiabatically transports a significant fraction of heated energy to outer regions. As the rarefaction wave propagates away, inflows resume in the cluster core, but a trailing outflow is uplifted by the AGN bubble, preventing gas accumulation and catastrophic cooling in central regions. Inflows and trailing outflows constitute meridional circulations in the cluster core. At later times, trailing outflows fall back to the cluster centre, triggering central cooling catastrophe and potentially a new generation of AGN feedback. We thus envisage a picture of cool cluster cores going through cycles of cooling-induced contraction and AGN-induced expansion. This picture naturally predicts an anti-correlation between the gas fraction (or X-ray luminosity) of cool cores and the central gas entropy, which may be tested by X-ray observations.

A quasi-static approach to structure formation in black hole universes

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

Durk, Jessie; Clifton, Timothy, E-mail: j.durk@qmul.ac.uk, E-mail: t.clifton@qmul.ac.uk

Motivated by the existence of hierarchies of structure in the Universe, we present four new families of exact initial data for inhomogeneous cosmological models at their maximum of expansion. These data generalise existing black hole lattice models to situations that contain clusters of masses, and hence allow the consequences of cosmological structures to be considered in a well-defined and non-perturbative fashion. The degree of clustering is controlled by a parameter λ, in such a way that for λ ∼ 0 or 1 we have very tightly clustered masses, whilst for λ ∼ 0.5 all masses are separated by cosmological distancemore » scales. We study the consequences of structure formation on the total net mass in each of our clusters, as well as calculating the cosmological consequences of the interaction energies both within and between clusters. The locations of the shared horizons that appear around groups of black holes, when they are brought sufficiently close together, are also identified and studied. We find that clustering can have surprisingly large effects on the scale of the cosmology, with models that contain thousands of black holes sometimes being as little as 30% of the size of comparable Friedmann models with the same total proper mass. This deficit is comparable to what might be expected to occur from neglecting gravitational interaction energies in Friedmann cosmology, and suggests that these quantities may have a significant influence on the properties of the large-scale cosmology.« less

Redshift Space Distortion on the Small Scale Clustering of Structure

NASA Astrophysics Data System (ADS)

Park, Hyunbae; Sabiu, Cristiano; Li, Xiao-dong; Park, Changbom; Kim, Juhan

2018-01-01

The positions of galaxies in comoving Cartesian space varies under different cosmological parameter choices, inducing a redshift-dependent scaling in the galaxy distribution. The shape of the two-point correlation of galaxies exhibits a significant redshift evolution when the galaxy sample is analyzed under a cosmology differing from the true, simulated one. In our previous works, we can made use of this geometrical distortion to constrain the values of cosmological parameters governing the expansion history of the universe. This current work is a continuation of our previous works as a strategy to constrain cosmological parameters using redshift-invariant physical quantities. We now aim to understand the redshift evolution of the full shape of the small scale, anisotropic galaxy clustering and give a firmer theoretical footing to our previous works.

One-electron pseudo-potential investigation of NO(X2Π)-Arn clusters (n = 1,2,3,4)

NASA Astrophysics Data System (ADS)

Hammami, H.; Ben Mohamed, F. E.; Mohamed, D.; Ben El Hadj Rhouma, M.; Al Mogren, M. M.; Hochlaf, M.

2017-10-01

In this work, we investigate the minimal energy and low-lying isomers of the ground state of NOArn clusters using a hybrid pseudo-potential model, where a single electron quantum description is combined with the classical argon-argon pair potential and an expansion in terms of the Legendre polynomials. In such model, we use two centres of polarisation for NO+, where we considered for each nuclear configuration an analytic dipole polarisation for N+ and O+. The reliability of our model is checked by comparison of the NO(X2Π)-Ar potential energy surface with that deduced using the multireference configuration interaction (MRCI+Q) approach. The results of this formalism agree quite well with the MRCI ones over a wide range of nuclear arrangements.

The dynamics of superclusters - Initial determination of the mass density of the universe at large scales

NASA Technical Reports Server (NTRS)

Ford, H. C.; Ciardullo, R.; Harms, R. J.; Bartko, F.

1981-01-01

The radial velocities of cluster members of two rich, large superclusters have been measured in order to probe the supercluster mass densities, and simple evolutionary models have been computed to place limits upon the mass density within each supercluster. These superclusters represent true physical associations of size of about 100 Mpc seen presently at an early stage of evolution. One supercluster is weakly bound, the other probably barely bound, but possibly marginally unbound. Gravity has noticeably slowed the Hubble expansion of both superclusters. Galaxy surface-density counts and the density enhancement of Abell clusters within each supercluster were used to derive the ratio of mass densities of the superclusters to the mean field mass density. The results strongly exclude a closed universe.

FAR-FLUNG GALAXY CLUSTERS MAY REVEAL FATE OF UNIVERSE

NASA Technical Reports Server (NTRS)

2002-01-01

A selection of NASA Hubble Space Telescope snapshots of huge galaxy clusters that lie far away and far back in time. These are selected from a catalog of 92 new clusters uncovered during a six-year Hubble observing program known as the Medium Deep Survey. If the distances and masses of the clusters are confirmed by ground based telescopes, the survey may hold clues to how galaxies quickly formed into massive large-scale structures after the big bang, and what that may mean for the eventual fate of the expanding universe. The images are each a combination of two exposures in yellow and deep red taken with Hubble's Wide Field and Planetary Camera 2. Each cluster's distance is inferred from the reddening of the starlight, which is due to the expansion of space. Astronomers assume these clusters all formed early in the history of the universe. HST133617-00529 (left) This collection of spiral and elliptical galaxies lies an estimated 4 to 6 billion light-years away. It is in the constellation of Virgo not far from the 3rd magnitude star Zeta Virginis. The brighter galaxies in this cluster have red magnitudes between 20 and 22 near the limit of the Palomar Sky Survey. The bright blue galaxy (upper left) is probably a foreground galaxy, and not a cluster member. The larger of the galaxies in the cluster are probably about the size of our Milky Way Galaxy. The diagonal line at lower right is an artificial satellite trail. HST002013+28366 (upper right) This cluster of galaxies lies in the constellation of Andromeda a few degrees from the star Alpheratz in the northeast corner of the constellation Pegasus. It is at an estimated distance of 4 billion light-years, which means the light we are seeing from the cluster is as it appeared when the universe was roughly 2/3 of its present age. HST035528+09435 (lower right) At an estimated distance of about 7 to 10 billion light-years (z=1), this is one of the farthest clusters in the Hubble sample. The cluster lies in the constellation of Taurus. Credit: K. Ratnatunga, R. Griffiths (Carnegie Mellon University); and NASA

Analysis of the mutations induced by conazole fungicides in vivo.

PubMed

Ross, Jeffrey A; Leavitt, Sharon A

2010-05-01

The mouse liver tumorigenic conazole fungicides triadimefon and propiconazole have previously been shown to be in vivo mouse liver mutagens in the Big Blue transgenic mutation assay when administered in feed at tumorigenic doses, whereas the non-tumorigenic conazole myclobutanil was not mutagenic. DNA sequencing of the mutants recovered from each treatment group as well as from animals receiving control diet was conducted to gain additional insight into the mode of action by which tumorigenic conazoles induce mutations. Relative dinucleotide mutabilities (RDMs) were calculated for each possible dinucleotide in each treatment group and then examined by multivariate statistical analysis techniques. Unsupervised hierarchical clustering analysis of RDM values segregated two independent control groups together, along with the non-tumorigen myclobutanil. The two tumorigenic conazoles clustered together in a distinct grouping. Partitioning around mediods of RDM values into two clusters also groups the triadimefon and propiconazole together in one cluster and the two control groups and myclobutanil together in a second cluster. Principal component analysis of these results identifies two components that account for 88.3% of the variability in the points. Taken together, these results are consistent with the hypothesis that propiconazole- and triadimefon-induced mutations do not represent clonal expansion of background mutations and support the hypothesis that they arise from the accumulation of reactive electrophilic metabolic intermediates within the liver in vivo.

From solid solution to cluster formation of Fe and Cr in α-Zr

NASA Astrophysics Data System (ADS)

Burr, P. A.; Wenman, M. R.; Gault, B.; Moody, M. P.; Ivermark, M.; Rushton, M. J. D.; Preuss, M.; Edwards, L.; Grimes, R. W.

2015-12-01

To understand the mechanisms by which the re-solution of Fe and Cr additions increase the corrosion rate of irradiated Zr alloys, the solubility and clustering of Fe and Cr in model binary Zr alloys was investigated using a combination of experimental and modelling techniques - atom probe tomography (APT), x-ray diffraction (XRD), thermoelectric power (TEP) and density functional theory (DFT). Cr occupies both interstitial and substitutional sites in the α-Zr lattice; Fe favours interstitial sites, and a low-symmetry site that was not previously modelled is found to be the most favourable for Fe. Lattice expansion as a function of Fe and Cr content in the α-Zr matrix deviates from Vegard's law and is strongly anisotropic for Fe additions, expanding the c-axis while contracting the a-axis. Matrix content of solutes cannot be reliably estimated from lattice parameter measurements, instead a combination of TEP and APT was employed. Defect clusters form at higher solution concentrations, which induce a smaller lattice strain compared to the dilute defects. In the presence of a Zr vacancy, all two-atom clusters are more soluble than individual point defects and as many as four Fe or three Cr atoms could be accommodated in a single Zr vacancy. The Zr vacancy is critical for the increased apparent solubility of defect clusters; the implications for irradiation induced microstructure changes in Zr alloys are discussed.

Description and typology of intensive Chios dairy sheep farms in Greece.

PubMed

Gelasakis, A I; Valergakis, G E; Arsenos, G; Banos, G

2012-06-01

The aim was to assess the intensified dairy sheep farming systems of the Chios breed in Greece, establishing a typology that may properly describe and characterize them. The study included the total of the 66 farms of the Chios sheep breeders' cooperative Macedonia. Data were collected using a structured direct questionnaire for in-depth interviews, including questions properly selected to obtain a general description of farm characteristics and overall management practices. A multivariate statistical analysis was used on the data to obtain the most appropriate typology. Initially, principal component analysis was used to produce uncorrelated variables (principal components), which would be used for the consecutive cluster analysis. The number of clusters was decided using hierarchical cluster analysis, whereas, the farms were allocated in 4 clusters using k-means cluster analysis. The identified clusters were described and afterward compared using one-way ANOVA or a chi-squared test. The main differences were evident on land availability and use, facility and equipment availability and type, expansion rates, and application of preventive flock health programs. In general, cluster 1 included newly established, intensive, well-equipped, specialized farms and cluster 2 included well-established farms with balanced sheep and feed/crop production. In cluster 3 were assigned small flock farms focusing more on arable crops than on sheep farming with a tendency to evolve toward cluster 2, whereas cluster 4 included farms representing a rather conservative form of Chios sheep breeding with low/intermediate inputs and choosing not to focus on feed/crop production. In the studied set of farms, 4 different farmer attitudes were evident: 1) farming disrupts sheep breeding; feed should be purchased and economies of scale will decrease costs (mainly cluster 1), 2) only exercise/pasture land is necessary; at least part of the feed (pasture) must be home-grown to decrease costs (clusters 1 and 4), 3) providing pasture to sheep is essential; on-farm feed production decreases costs (mainly cluster 3), and 4) large-scale farming (feed production and cash crops) does not disrupt sheep breeding; all feed must be produced on-farm to decrease costs (mainly cluster 3). Conducting a profitability analysis among different clusters, exploring and discovering the most beneficial levels of intensified management and capital investment should now be considered. Copyright © 2012 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

[Dark matter and dark energy of the universe].

PubMed

Aguilar Peris, José

2005-01-01

At the turn of the 20th Century, the Universe was thought to consist of our solar system, the Sun, planets, satellites and comets, floating under the Milky Way. The astronomers were ignorant of the existence of galaxies, clusters, quasars and black holes. Over the last ten years the Cosmology has made remarkable progress in our understanding of the composition of the Universe: 23 per cent is in an unknown form called dark matter; 73 per cent in another form called dark energy; 3 per cent is made of free hydrogen and helium atoms; 0.5 per cent makes up all the light we see in the night including the stars, clusters and superclusters; 0.3 per cent is in free neutrino particles; and finally, 0.03 per cent is in the heavier nuclei of which the Sun, the Earth and ourselves are made. In this work we study specially the dark matter and the dark energy. The first one appears to be attached to galaxies, and astronomers agree that it is cold, meaning that the particles that make up that matter are not moving fast. Very recently astronomers discovered that a tremendous amount of the so-cahled dark energy exists and that it is pushing and accelerating the expansion of the Universe. Should this expansion continue for another 14,000 million years, the sky will darken with only a handful of galaxies remaining visible.

Y-chromosome descent clusters and male differential reproductive success: young lineage expansions dominate Asian pastoral nomadic populations

PubMed Central

Balaresque, Patricia; Poulet, Nicolas; Cussat-Blanc, Sylvain; Gerard, Patrice; Quintana-Murci, Lluis; Heyer, Evelyne; Jobling, Mark A

2015-01-01

High-frequency microsatellite haplotypes of the male-specific Y-chromosome can signal past episodes of high reproductive success of particular men and their patrilineal descendants. Previously, two examples of such successful Y-lineages have been described in Asia, both associated with Altaic-speaking pastoral nomadic societies, and putatively linked to dynasties descending, respectively, from Genghis Khan and Giocangga. Here we surveyed a total of 5321 Y-chromosomes from 127 Asian populations, including novel Y-SNP and microsatellite data on 461 Central Asian males, to ask whether additional lineage expansions could be identified. Based on the most frequent eight-microsatellite haplotypes, we objectively defined 11 descent clusters (DCs), each within a specific haplogroup, that represent likely past instances of high male reproductive success, including the two previously identified cases. Analysis of the geographical patterns and ages of these DCs and their associated cultural characteristics showed that the most successful lineages are found both among sedentary agriculturalists and pastoral nomads, and expanded between 2100 BCE and 1100 CE. However, those with recent origins in the historical period are almost exclusively found in Altaic-speaking pastoral nomadic populations, which may reflect a shift in political organisation in pastoralist economies and a greater ease of transmission of Y-chromosomes through time and space facilitated by the use of horses. PMID:25585703

Evaluation of load flow and grid expansion in a unit-commitment and expansion optimization model SciGRID International Conference on Power Grid Modelling

NASA Astrophysics Data System (ADS)

Senkpiel, Charlotte; Biener, Wolfgang; Shammugam, Shivenes; Längle, Sven

2018-02-01

Energy system models serve as a basis for long term system planning. Joint optimization of electricity generating technologies, storage systems and the electricity grid leads to lower total system cost compared to an approach in which the grid expansion follows a given technology portfolio and their distribution. Modelers often face the problem of finding a good tradeoff between computational time and the level of detail that can be modeled. This paper analyses the differences between a transport model and a DC load flow model to evaluate the validity of using a simple but faster transport model within the system optimization model in terms of system reliability. The main findings in this paper are that a higher regional resolution of a system leads to better results compared to an approach in which regions are clustered as more overloads can be detected. An aggregation of lines between two model regions compared to a line sharp representation has little influence on grid expansion within a system optimizer. In a DC load flow model overloads can be detected in a line sharp case, which is therefore preferred. Overall the regions that need to reinforce the grid are identified within the system optimizer. Finally the paper recommends the usage of a load-flow model to test the validity of the model results.

Expansion of ribosomally produced natural products: a nitrile hydratase- and Nif11-related precursor family

PubMed Central

2010-01-01

Background A new family of natural products has been described in which cysteine, serine and threonine from ribosomally-produced peptides are converted to thiazoles, oxazoles and methyloxazoles, respectively. These metabolites and their biosynthetic gene clusters are now referred to as thiazole/oxazole-modified microcins (TOMM). As exemplified by microcin B17 and streptolysin S, TOMM precursors contain an N-terminal leader sequence and C-terminal core peptide. The leader sequence contains binding sites for the posttranslational modifying enzymes which subsequently act upon the core peptide. TOMM peptides are small and highly variable, frequently missed by gene-finders and occasionally situated far from the thiazole/oxazole forming genes. Thus, locating a substrate for a particular TOMM pathway can be a challenging endeavor. Results Examination of candidate TOMM precursors has revealed a subclass with an uncharacteristically long leader sequence closely related to the enzyme nitrile hydratase. Members of this nitrile hydratase leader peptide (NHLP) family lack the metal-binding residues required for catalysis. Instead, NHLP sequences display the classic Gly-Gly cleavage motif and have C-terminal regions rich in heterocyclizable residues. The NHLP family exhibits a correlated species distribution and local clustering with an ABC transport system. This study also provides evidence that a separate family, annotated as Nif11 nitrogen-fixing proteins, can serve as natural product precursors (N11P), but not always of the TOMM variety. Indeed, a number of cyanobacterial genomes show extensive N11P paralogous expansion, such as Nostoc, Prochlorococcus and Cyanothece, which replace the TOMM cluster with lanthionine biosynthetic machinery. Conclusions This study has united numerous TOMM gene clusters with their cognate substrates. These results suggest that two large protein families, the nitrile hydratases and Nif11, have been retailored for secondary metabolism. Precursors for TOMMs and lanthionine-containing peptides derived from larger proteins to which other functions are attributed, may be widespread. The functions of these natural products have yet to be elucidated, but it is probable that some will display valuable industrial or medical activities. PMID:20500830

Population structure and migration pattern of a conifer pathogen, Grosmannia clavigera, as influenced by its symbiont, the mountain pine beetle.

PubMed

Tsui, Clement K M; Roe, Amanda D; El-Kassaby, Yousry A; Rice, Adrianne V; Alamouti, Sepideh M; Sperling, Felix A H; Cooke, Janice E K; Bohlmann, Jörg; Hamelin, Richard C

2012-01-01

We investigated the population structure of Grosmannia clavigera (Gc), a fungal symbiont of the mountain pine beetle (MPB) that plays a crucial role in the establishment and reproductive success of this pathogen. This insect-fungal complex has destroyed over 16 million ha of lodgepole pine forests in Canada, the largest MPB epidemic in recorded history. During this current epidemic, MPB has expanded its range beyond historically recorded boundaries, both northward and eastward, and has now reached the jack pine of Alberta, potentially threatening the Canadian boreal forest. To better understand the dynamics between the beetle and its fungal symbiont, we sampled 19 populations in western North America and genotyped individuals from these populations with eight microsatellite markers. The fungus displayed high haplotype diversity, with over 250 unique haplotypes observed in 335 single spore isolates. Linkage equilibria in 13 of the 19 populations suggested that the fungus reproduces sexually. Bayesian clustering and distance analyses identified four genetic clusters that corresponded to four major geographical regions, which suggested that the epidemic arose from multiple geographical sources. A genetic cluster north of the Rocky Mountains, where the MPB has recently become established, experienced a population bottleneck, probably as a result of the recent range expansion. The two genetic clusters located north and west of the Rocky Mountains contained many fungal isolates admixed from all populations, possibly due to the massive movement of MPB during the epidemic. The general agreement in north-south differentiation of MPB and G. clavigera populations points to the fungal pathogen's dependence on the movement of its insect vector. In addition, the patterns of diversity and the individual assignment tests of the fungal associate suggest that migration across the Rocky Mountains occurred via a northeastern corridor, in accordance with meteorological patterns and observation of MPB movement data. Our results highlight the potential of this pathogen for both expansion and sexual reproduction, and also identify some possible barriers to gene flow. Understanding the ecological and evolutionary dynamics of this fungus-beetle association is important for the modelling and prediction of MPB epidemics. © 2011 Crown in the right of Canada.

Expansion patterns and parallaxes for planetary nebulae

NASA Astrophysics Data System (ADS)

Schönberner, D.; Balick, B.; Jacob, R.

2018-02-01

Aims: We aim to determine individual distances to a small number of rather round, quite regularly shaped planetary nebulae by combining their angular expansion in the plane of the sky with a spectroscopically measured expansion along the line of sight. Methods: We combined up to three epochs of Hubble Space Telescope imaging data and determined the angular proper motions of rim and shell edges and of other features. These results are combined with measured expansion speeds to determine individual distances by assuming that line of sight and sky-plane expansions are equal. We employed 1D radiation-hydrodynamics simulations of nebular evolution to correct for the difference between the spectroscopically measured expansion velocities of rim and shell and of their respective shock fronts. Results: Rim and shell are two independently expanding entities, driven by different physical mechanisms, although their model-based expansion timescales are quite similar. We derive good individual distances for 15 objects, and the main results are as follows: (i) distances derived from rim and shell agree well; (ii) comparison with the statistical distances in the literature gives reasonable agreement; (iii) our distances disagree with those derived by spectroscopic methods; (iv) central-star "plateau" luminosities range from about 2000 L⊙ to well below 10 000 L⊙, with a mean value at about 5000 L⊙, in excellent agreement with other samples of known distance (Galactic bulge, Magellanic Clouds, and K648 in the globular cluster M 15); (v) the central-star mass range is rather restricted: from about 0.53 to about 0.56 M⊙, with a mean value of 0.55 M⊙. Conclusions: The expansion measurements of nebular rim and shell edges confirm the predictions of radiation-hydrodynamics simulations and offer a reliable method for the evaluation of distances to suited objects. Results of this paper are based on observations made with the NASA/ESA Hubble Space Telescope in Cycle 16 (GO11122) and older data obtained from the Data Archive at the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5-26555.

GALAXY INFALL BY INTERACTING WITH ITS ENVIRONMENT: A COMPREHENSIVE STUDY OF 340 GALAXY CLUSTERS

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

Gu, Liyi; Wen, Zhonglue; Gandhi, Poshak

To study systematically the evolution of the angular extents of the galaxy, intracluster medium (ICM), and dark matter components in galaxy clusters, we compiled the optical and X-ray properties of a sample of 340 clusters with redshifts <0.5, based on all the available data from the Sloan Digital Sky Survey and Chandra / XMM-Newton . For each cluster, the member galaxies were determined primarily with photometric redshift measurements. The radial ICM mass distribution, as well as the total gravitational mass distribution, was derived from a spatially resolved spectral analysis of the X-ray data. When normalizing the radial profile of galaxymore » number to that of the ICM mass, the relative curve was found to depend significantly on the cluster redshift; it drops more steeply toward the outside in lower-redshift subsamples. The same evolution is found in the galaxy-to-total mass profile, while the ICM-to-total mass profile varies in an opposite way. The behavior of the galaxy-to-ICM distribution does not depend on the cluster mass, suggesting that the detected redshift dependence is not due to mass-related effects, such as sample selection bias. Also, it cannot be ascribed to various redshift-dependent systematic errors. We interpret that the galaxies, the ICM, and the dark matter components had similar angular distributions when a cluster was formed, while the galaxies traveling in the interior of the cluster have continuously fallen toward the center relative to the other components, and the ICM has slightly expanded relative to the dark matter although it suffers strong radiative loss. This cosmological galaxy infall, accompanied by an ICM expansion, can be explained by considering that the galaxies interact strongly with the ICM while they are moving through it. The interaction is considered to create a large energy flow of 10{sup 4445} erg s{sup 1} per cluster from the member galaxies to their environment, which is expected to continue over cosmological timescales.« less

Galaxy Infall by Interacting with Its Environment: A Comprehensive Study of 340 Galaxy Clusters

NASA Astrophysics Data System (ADS)

Gu, Liyi; Wen, Zhonglue; Gandhi, Poshak; Inada, Naohisa; Kawaharada, Madoka; Kodama, Tadayuki; Konami, Saori; Nakazawa, Kazuhiro; Xu, Haiguang; Makishima, Kazuo

2016-07-01

To study systematically the evolution of the angular extents of the galaxy, intracluster medium (ICM), and dark matter components in galaxy clusters, we compiled the optical and X-ray properties of a sample of 340 clusters with redshifts <0.5, based on all the available data from the Sloan Digital Sky Survey and Chandra/XMM-Newton. For each cluster, the member galaxies were determined primarily with photometric redshift measurements. The radial ICM mass distribution, as well as the total gravitational mass distribution, was derived from a spatially resolved spectral analysis of the X-ray data. When normalizing the radial profile of galaxy number to that of the ICM mass, the relative curve was found to depend significantly on the cluster redshift; it drops more steeply toward the outside in lower-redshift subsamples. The same evolution is found in the galaxy-to-total mass profile, while the ICM-to-total mass profile varies in an opposite way. The behavior of the galaxy-to-ICM distribution does not depend on the cluster mass, suggesting that the detected redshift dependence is not due to mass-related effects, such as sample selection bias. Also, it cannot be ascribed to various redshift-dependent systematic errors. We interpret that the galaxies, the ICM, and the dark matter components had similar angular distributions when a cluster was formed, while the galaxies traveling in the interior of the cluster have continuously fallen toward the center relative to the other components, and the ICM has slightly expanded relative to the dark matter although it suffers strong radiative loss. This cosmological galaxy infall, accompanied by an ICM expansion, can be explained by considering that the galaxies interact strongly with the ICM while they are moving through it. The interaction is considered to create a large energy flow of 1044-45 erg s-1 per cluster from the member galaxies to their environment, which is expected to continue over cosmological timescales.

Experimental and theoretical study of the pyrrole cluster photochemistry: Closing the {pi}{sigma}{sup *} dissociation pathway by complexation

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

Poterya, Viktoriya; Profant, Vaclav; Farnik, Michal

Photolysis of size selected pyrrole clusters has been investigated and compared to the photolysis of an isolated pyrrole molecule. Experimentally, size distributions of different mean cluster sizes (n=3 and n>>5) have been prepared in supersonic expansions and the clusters were photolyzed at 243 and 193 nm. The kinetic energy distributions of the H photofragments have been measured. The distributions exhibit a bimodal character with fast and slow H-fragment peaks similar to the spectra of the bare molecule. However, with increasing cluster size the slow component gains intensity with respect to the fast one. A similar effect is observed with increasingmore » the excitation energy from 243 to 193 nm. Theoretical calculations at the CASSCF/CASPT2 level have been performed for bare and complexed pyrroles (pyrrole is complexed with an argon atom and with another pyrrole unit). Combination of theoretical and experimental approaches leads to the conclusion that the direct dissociative pathway along the {pi}{sigma}{sup *} potential energy surface in the N-H stretch coordinate is closed by the presence of the solvent molecule. This pathway is an important channel leading to the fast H atoms in the dissociation of the bare molecule. The solvent molecule influences significantly the electronic structure in the Rydberg-type {pi}{sigma}{sup *} state while it has little influence on the valence states. The slow channel is mostly populated by the out-of-plane deformation mode which is also not influenced by solvation. We have also studied other possible reaction channels in pyrrole clusters (hydrogen transfer, dimerization). The present study shows that more insight into the bulk behavior of biologically relevant molecules can be gained from cluster studies.« less

The Low-mass Population in the Young Cluster Stock 8: Stellar Properties and Initial Mass Function

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

Jose, Jessy; Herczeg, Gregory J.; Fang, Qiliang

The evolution of H ii regions/supershells can trigger a new generation of stars/clusters at their peripheries, with environmental conditions that may affect the initial mass function, disk evolution, and star formation efficiency. In this paper we study the stellar content and star formation processes in the young cluster Stock 8, which itself is thought to be formed during the expansion of a supershell. We present deep optical photometry along with JHK and 3.6 and 4.5 μ m photometry from UKIDSS and Spitzer -IRAC. We use multicolor criteria to identify the candidate young stellar objects in the region. Using evolutionary models,more » we obtain a median log(age) of ∼6.5 (∼3.0 Myr) with an observed age spread of ∼0.25 dex for the cluster. Monte Carlo simulations of the population of Stock 8, based on estimates for the photometric uncertainty, differential reddening, binarity, and variability, indicate that these uncertainties introduce an age spread of ∼0.15 dex. The intrinsic age spread in the cluster is ∼0.2 dex. The fraction of young stellar objects surrounded by disks is ∼35%. The K -band luminosity function of Stock 8 is similar to that of the Trapezium cluster. The initial mass function (IMF) of Stock 8 has a Salpeter-like slope at >0.5 M {sub ⊙} and flattens and peaks at ∼0.4 M {sub ⊙}, below which it declines into the substellar regime. Although Stock 8 is surrounded by several massive stars, there seems to be no severe environmental effect in the form of the IMF due to the proximity of massive stars around the cluster.« less

Large-scale structure perturbation theory without losing stream crossing

NASA Astrophysics Data System (ADS)

McDonald, Patrick; Vlah, Zvonimir

2018-01-01

We suggest an approach to perturbative calculations of large-scale clustering in the Universe that includes from the start the stream crossing (multiple velocities for mass elements at a single position) that is lost in traditional calculations. Starting from a functional integral over displacement, the perturbative series expansion is in deviations from (truncated) Zel'dovich evolution, with terms that can be computed exactly even for stream-crossed displacements. We evaluate the one-loop formulas for displacement and density power spectra numerically in 1D, finding dramatic improvement in agreement with N-body simulations compared to the Zel'dovich power spectrum (which is exact in 1D up to stream crossing). Beyond 1D, our approach could represent an improvement over previous expansions even aside from the inclusion of stream crossing, but we have not investigated this numerically. In the process we show how to achieve effective-theory-like regulation of small-scale fluctuations without free parameters.

Gravitational vacuum energy in our recently accelerating universe

NASA Astrophysics Data System (ADS)

Bludman, Sidney

2009-04-01

We review current observations of the homogeneous cosmological expansion which, because they measure only kinematic variables, cannot determine the dynamics driving the recent accelerated expansion. The minimal fit to the data, the flat ACDM model, consisting of cold dark matter and a cosmological constant, interprets 4? geometrically as a classical spacetime curvature constant of nature, avoiding any reference to quantum vacuum energy. (The observed Uehling and Casimir effects measure forces due to QED vacuum polarization, but not any quantum material vacuum energies.) An Extended Anthropic Principle, that Dark Energy and Dark Gravity be indistinguishable, selects out flat ACDM. Prospective cosmic shear and galaxy clustering observations of the growth of fluctuations are intended to test whether the 'dark energy' driving the recent cosmological acceleration is static or moderately dynamic. Even if dynamic, observational differences between an additional negative-pressure material component within general relativity (Dark Energy) and low-curvature modifications of general relativity (Dark Gravity) will be extremely small.

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

Rivasseau, Vincent, E-mail: vincent.rivasseau@th.u-psud.fr, E-mail: adrian.tanasa@ens-lyon.org; Tanasa, Adrian, E-mail: vincent.rivasseau@th.u-psud.fr, E-mail: adrian.tanasa@ens-lyon.org

The Loop Vertex Expansion (LVE) is a quantum field theory (QFT) method which explicitly computes the Borel sum of Feynman perturbation series. This LVE relies in a crucial way on symmetric tree weights which define a measure on the set of spanning trees of any connected graph. In this paper we generalize this method by defining new tree weights. They depend on the choice of a partition of a set of vertices of the graph, and when the partition is non-trivial, they are no longer symmetric under permutation of vertices. Nevertheless we prove they have the required positivity property tomore » lead to a convergent LVE; in fact we formulate this positivity property precisely for the first time. Our generalized tree weights are inspired by the Brydges-Battle-Federbush work on cluster expansions and could be particularly suited to the computation of connected functions in QFT. Several concrete examples are explicitly given.« less

Structural, thermodynamic, and mechanical properties of WCu solid solutions

NASA Astrophysics Data System (ADS)

Liang, C. P.; Wu, C. Y.; Fan, J. L.; Gong, H. R.

2017-11-01

Various properties of Wsbnd Cu solid solutions are systematically investigated through a combined use of first-principles calculation, cluster expansion, special quasirandom structures (SQS), and lattice dynamics. It is shown that SQS are effective to unravel the intrinsic nature of solid solutions, and that BCC and FCC W100-xCux solid solutions are energetically more stable when 0 ≤ x ≤ 70 and 70 < x ≤ 100, respectively. Calculations also reveal that the Debye model should be appropriate to derive thermodynamic properties of Wsbnd Cu, and that the coefficients of thermal expansion of W100-xCux solid solutions are much lower than those of corresponding mechanical mixtures. In addition, the G/B values of W100-xCux solid solutions reach a minimum at x = 50, which is fundamentally due to the softening of phonons as well as strong chemical bonding between W and Cu with a mainly metallic feature.

The effect of AGN feedback on the X-ray morphologies of clusters: Simulations vs. observations

NASA Astrophysics Data System (ADS)

Chon, Gayoung; Puchwein, Ewald; Böhringer, Hans

2016-07-01

Clusters of galaxies probe the large-scale distribution of matter and are a useful tool to test the cosmological models by constraining cosmic structure growth and the expansion of the Universe. It is the scaling relations between mass observables and the true mass of a cluster through which we obtain the cosmological constraints by comparing to theoretical cluster mass functions. These scaling relations are, however, heavily influenced by cluster morphology. The presence of the slight tension in recent cosmological constraints on Ωm and σ8 based on the CMB and clusters has boosted the interests in looking for possible sources for the discrepancy. Therefore we study here the effect of active galactic nucleus (AGN) feedback as one of the major mechanisms modifying the cluster morphology influencing scaling relations. It is known that AGN feedback injects energies up to 1062 erg into the intracluster medium, controls the heating and cooling of a cluster, and re-distributes cold gas from the centre to outer radii. We have also learned that cluster simulations with AGN feedback can reproduce observed cluster properties, for example, the X-ray luminosity, temperature, and cooling rate at the centre better than without the AGN feedback. In this paper using cosmological hydrodynamical simulations we investigate how the AGN feedback changes the X-ray morphology of the simulated systems, and compare this to the observed Representative XMM-Newton Cluster Structure Survey (REXCESS) clusters. We apply two substructure measures, centre shifts (w) and power ratios (e.g. P3/P0), to characterise the cluster morphology, and find that our simulated clusters are more substructured than the observed clusters based on the values of w and P3/P0. We also show that the degree of this discrepancy is affected by the inclusion of AGN feedback. While the clusters simulated with the AGN feedback are in much better agreement with the REXCESS LX-T relation, they are also more substructured, which increases the tension with observations. When classified as non-relaxed or relaxed according to their w and P3/P0 values, we find that there are no relaxed clusters in the simulations with the AGN feedback. This suggests that not only global cluster properties, like LX and T, and radial profiles should be used to compare and to calibrate simulations with observations, but also substructure measures like centre shifts and power ratios. Finally, we discuss what changes in the simulations might ease the tension with observational constraints on these quantities.

Minimal spanning trees at the percolation threshold: A numerical calculation

NASA Astrophysics Data System (ADS)

Sweeney, Sean M.; Middleton, A. Alan

2013-09-01

The fractal dimension of minimal spanning trees on percolation clusters is estimated for dimensions d up to d=5. A robust analysis technique is developed for correlated data, as seen in such trees. This should be a robust method suitable for analyzing a wide array of randomly generated fractal structures. The trees analyzed using these techniques are built using a combination of Prim's and Kruskal's algorithms for finding minimal spanning trees. This combination reduces memory usage and allows for simulation of larger systems than would otherwise be possible. The path length fractal dimension ds of MSTs on critical percolation clusters is found to be compatible with the predictions of the perturbation expansion developed by T. S. Jackson and N. Read [Phys. Rev. EPLEEE81539-375510.1103/PhysRevE.81.021131 81, 021131 (2010)].

A systematic review of occupational health and safety interventions with economic analyses.

PubMed

Tompa, Emile; Dolinschi, Roman; de Oliveira, Claire; Irvin, Emma

2009-09-01

We reviewed the occupational health and safety intervention literature to synthesize evidence on financial merits of such interventions. A literature search included journal databases, existing systematic reviews, and studies identified by content experts. Studies meeting inclusion criteria were assessed for quality. Evidence was synthesized within industry-intervention type clusters. We found strong evidence that ergonomic and other musculoskeletal injury prevention interventions in manufacturing and warehousing are worth undertaking in terms of their financial merits. We also found strong evidence that multisector disability management interventions are worth undertaking. While the economic evaluation of interventions in this literature warrants further expansion, we found a sufficient number of studies to identify strong, moderate, and limited evidence in certain industry-intervention clusters. The review also provided insights into how the methodological quality of economic evaluations in this literature could be improved.

Model Selection for Monitoring CO2 Plume during Sequestration

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

2014-12-31

The model selection method developed as part of this project mainly includes four steps: (1) assessing the connectivity/dynamic characteristics of a large prior ensemble of models, (2) model clustering using multidimensional scaling coupled with k-mean clustering, (3) model selection using the Bayes' rule in the reduced model space, (4) model expansion using iterative resampling of the posterior models. The fourth step expresses one of the advantages of the method: it provides a built-in means of quantifying the uncertainty in predictions made with the selected models. In our application to plume monitoring, by expanding the posterior space of models, the finalmore » ensemble of representations of geological model can be used to assess the uncertainty in predicting the future displacement of the CO2 plume. The software implementation of this approach is attached here.« less

A Theoretical Study of the Luminosity-Temperature Relation for Clusters of Galaxies

NASA Astrophysics Data System (ADS)

Del Popolo, A.; Hiotelis, N.; Peñarrubia, J.

2005-07-01

A luminosity-temperature relation is derived for clusters of galaxies. The two models used take into account the angular momentum acquisition by the protostructures during their expansion and collapse. The first model is a modification of the self-similar model, while the second is a modification of the punctuated equilibria model of Cavaliere et al. In both models the mass-temperature relation (M-T) used is based on previous calculations of Del Popolo. We show that the above models lead, in X-rays, to a luminosity-temperature relation that scales as L~T5 at the scale of groups, flattening to L~T3 for rich clusters and converging to L~T2 at higher temperatures. However, a fundamental result of our paper is that the nonsimilarity in the L-T relation can be explained by a simple model that takes into account the amount of angular momentum of a protostructure. This result is in disagreement with the widely accepted idea that the nonsimilarity is due to nongravitating processes, such as heating and/or cooling.

Combined experimental and theoretical study of the benzocaine/Ar van der Waals system in supersonic expansions.

PubMed

León, Iker; Aguado, Edurne; Lesarri, Alberto; Fernández, José A; Castaño, Fernando

2009-02-12

The electronic spectra of Benzocaine x Ar(n), n = 0-4 were obtained using two-color resonance enhanced multiphoton ionization; the 1:1 and 1:2 clusters were investigated by ultraviolet/ultraviolet hole burning, stimulated emission pumping, and other laser spectroscopies. A single isomer was found for the 1:1 cluster, while two isomers of the 1:2 cluster were found: one with the two Ar atoms on the same side of the chromophore, and the other with the two Ar atoms sitting on opposite sides of the chromophore. The observed shifts point to the existence of a single isomer for the 1:3 and 1:4 species. Dissociation energies for the neutral ground and first excited electronic state and the ion ground electronic state of the complexes have been determined by the fragmentation threshold method and by ab initio calculations conducted at the MP2 level with 6-31++g(2d, p), 6-311++g(2d, p) and AUG-cc-pVTZ basis sets. The results are compared with those obtained for other similar systems.

Synthesis of Fe3O4 cluster microspheres/graphene aerogels composite as anode for high-performance lithium ion battery

NASA Astrophysics Data System (ADS)

Zhou, Shuai; Zhou, Yu; Jiang, Wei; Guo, Huajun; Wang, Zhixing; Li, Xinhai

2018-05-01

Iron oxides are considered as attractive electrode materials because of their capability of lithium storage, but their poor conductivity and large volume expansion lead to unsatisfactory cycling stability. We designed and synthesized a novel Fe3O4 cluster microspheres/Graphene aerogels composite (Fe3O4/GAs), where Fe3O4 nanoparticles were assembled into cluster microspheres and then embedded in 3D graphene aerogels framework. In the spheres, the sufficient free space between Fe3O4 nanoparticles could accommodate the volume change during cycling process. Graphene aerogel works as flexible and conductive matrix, which can not only significantly increase the mechanical stress, but also further improve the storage properties. The Fe3O4/GAs composite as an anode material exhibits high reversible capability and excellent cyclic capacity for lithium ion batteries (LIBs). A reversible capability of 650 mAh g-1 after 500 cycles at a current density of 1 A g-1 can be maintained. The superior storage capabilities of the composites make them potential anode materials for LIBs.

Patient-perceived changes in the system of values after cancer diagnosis.

PubMed

Greszta, Elżbieta; Siemińska, Maria J

2011-03-01

A cross-sectional study investigated changes in patients' value systems following a diagnosis of cancer. Fifty patients at 1 to 6 months following cancer diagnosis, were asked to compare their current values with their recollection of past values. Using the Rokeach Value Survey we obtained statistically significant results showing that twenty-seven out of thirty-six values changed their importance from the patients' perspective: 16 values significantly increased, while 11 values significantly decreased in importance. Changes with respect to nine values were insignificant. We indentified clusters of values increasing in importance the most: Religious morality (Salvation, Forgiving, Helpful, Clean), Personal orientation (Self-Respect, True Friendship, Happiness), Self-constriction (Self-Controlled, Obedient, Honest), Family security (Family Security, Responsible), and Delayed gratification (Wisdom, Inner Harmony). We also observed that the following value clusters decreased in importance: Immediate gratification (An Exciting Life, Pleasure, A Comfortable Life); Self-expansion (Capable, Ambitious, Broadminded), Competence (A Sense of Accomplishment, Imaginative, Intellectual). The remaining values belonged to clusters that as a group changed slightly or not at all. Practical implications of the study are discussed.

Reaction Rate of Small Diffusing Molecules on a Cylindrical Membrane

NASA Astrophysics Data System (ADS)

Straube, Ronny; Ward, Michael J.; Falcke, Martin

2007-10-01

Biomembranes consist of a lipid bi-layer into which proteins are embedded to fulfill numerous tasks in localized regions of the membrane. Often, the proteins have to reach these regions by simple diffusion. Motivated by the observation that IP3 receptor channels (IP3R) form clusters on the surface of the endoplasmic reticulum (ER) during ATP-induced calcium release, the reaction rate of small diffusing molecules on a cylindrical membrane is calculated based on the Smoluchowski approach. In this way, the cylindrical topology of the tubular ER is explicitly taken into account. The problem can be reduced to the solution of the diffusion equation on a finite cylindrical surface containing a small absorbing hole. The solution is constructed by matching appropriate `inner' and `outer' asymptotic expansions. The asymptotic results are compared with those from numerical simulations and excellent agreement is obtained. For realistic parameter sets, we find reaction rates in the range of experimentally measured clustering rates of IP3R. This supports the idea that clusters are formed by a purely diffusion limited process.

Quantitative comparison of alternative methods for coarse-graining biological networks

PubMed Central

Bowman, Gregory R.; Meng, Luming; Huang, Xuhui

2013-01-01

Markov models and master equations are a powerful means of modeling dynamic processes like protein conformational changes. However, these models are often difficult to understand because of the enormous number of components and connections between them. Therefore, a variety of methods have been developed to facilitate understanding by coarse-graining these complex models. Here, we employ Bayesian model comparison to determine which of these coarse-graining methods provides the models that are most faithful to the original set of states. We find that the Bayesian agglomerative clustering engine and the hierarchical Nyström expansion graph (HNEG) typically provide the best performance. Surprisingly, the original Perron cluster cluster analysis (PCCA) method often provides the next best results, outperforming the newer PCCA+ method and the most probable paths algorithm. We also show that the differences between the models are qualitatively significant, rather than being minor shifts in the boundaries between states. The performance of the methods correlates well with the entropy of the resulting coarse-grainings, suggesting that finding states with more similar populations (i.e., avoiding low population states that may just be noise) gives better results. PMID:24089717

A second generation distributed point polarizable water model.

PubMed

Kumar, Revati; Wang, Fang-Fang; Jenness, Glen R; Jordan, Kenneth D

2010-01-07

A distributed point polarizable model (DPP2) for water, with explicit terms for charge penetration, induction, and charge transfer, is introduced. The DPP2 model accurately describes the interaction energies in small and large water clusters and also gives an average internal energy per molecule and radial distribution functions of liquid water in good agreement with experiment. A key to the success of the model is its accurate description of the individual terms in the n-body expansion of the interaction energies.

Euchromatic Transposon Insertions Trigger Production of Novel Pi- and Endo-siRNAs at the Target Sites in the Drosophila Germline

PubMed Central

Olovnikov, Ivan; Abramov, Yuri; Kalmykova, Alla

2014-01-01

The control of transposable element (TE) activity in germ cells provides genome integrity over generations. A distinct small RNA–mediated pathway utilizing Piwi-interacting RNAs (piRNAs) suppresses TE expression in gonads of metazoans. In the fly, primary piRNAs derive from so-called piRNA clusters, which are enriched in damaged repeated sequences. These piRNAs launch a cycle of TE and piRNA cluster transcript cleavages resulting in the amplification of piRNA and TE silencing. Using genome-wide comparison of TE insertions and ovarian small RNA libraries from two Drosophila strains, we found that individual TEs inserted into euchromatic loci form novel dual-stranded piRNA clusters. Formation of the piRNA-generating loci by active individual TEs provides a more potent silencing response to the TE expansion. Like all piRNA clusters, individual TEs are also capable of triggering the production of endogenous small interfering (endo-si) RNAs. Small RNA production by individual TEs spreads into the flanking genomic regions including coding cellular genes. We show that formation of TE-associated small RNA clusters can down-regulate expression of nearby genes in ovaries. Integration of TEs into the 3′ untranslated region of actively transcribed genes induces piRNA production towards the 3′-end of transcripts, causing the appearance of genic piRNA clusters, a phenomenon that has been reported in different organisms. These data suggest a significant role of TE-associated small RNAs in the evolution of regulatory networks in the germline. PMID:24516406

In vitro expansion and differentiation of rat pancreatic duct-derived stem cells into insulin secreting cells using a dynamicthree-dimensional cell culture system.

PubMed

Chen, X C; Liu, H; Li, H; Cheng, Y; Yang, L; Liu, Y F

2016-06-27

In this study, a dynamic three-dimensional cell culture technology was used to expand and differentiate rat pancreatic duct-derived stem cells (PDSCs) into islet-like cell clusters that can secrete insulin. PDSCs were isolated from rat pancreatic tissues by in situ collagenase digestion and density gradient centrifugation. Using a dynamic three-dimensional culture technique, the cells were expanded and differentiated into functional islet-like cell clusters, which were characterized by morphological and phenotype analyses. After maintaining 1 x 108 isolated rat PDSCs in a dynamic three-dimensional cell culture for 7 days, 1.5 x 109 cells could be harvested. Passaged PDSCs expressed markers of pancreatic endocrine progenitors, including CD29 (86.17%), CD73 (90.73%), CD90 (84.13%), CD105 (78.28%), and Pdx-1. Following 14 additional days of culture in serum-free medium with nicotinamide, keratinocyte growth factor (KGF), and b fibroblast growth factor (FGF), the cells were differentiated into islet-like cell clusters (ICCs). The ICC morphology reflected that of fused cell clusters. During the late stage of differentiation, representative clusters were non-adherent and expressed insulin indicated by dithizone (DTZ)-positive staining. Insulin was detected in the extracellular fluid and cytoplasm of ICCs after 14 days of differentiation. Additionally, insulin levels were significantly higher at this time compared with the levels exhibited by PDSCs before differentiation (P < 0.01). By using a dynamic three-dimensional cell culture system, PDSCs can be expanded in vitro and can differentiate into functional islet-like cell clusters.

MYStIX: Dynamical evolution of young clusters

NASA Astrophysics Data System (ADS)

Kuhn, Michael A.

2014-08-01

The spatial structure of young stellar clusters in Galactic star-forming regions provides insight into these clusters’ dynamical evolution---a topic with implications for open questions in star-formation and cluster survival. The Massive Young Star-Forming Complex Study in Infrared and X-ray (MYStIX) provides a sample of >30,000 young stars in star-forming regions (d<3.6 kpc) that contain at least one O-type star. We use the finite mixture model analysis to identify subclusters of stars and determine their properties: including subcluster radii, intrinsic numbers of stars, central density, ellipticity, obscuration, and age. In 17 MYStIX regions we find 142 subclusters, with a diverse radii and densities and age spreads of up to ~1 Myr in a region. There is a strong negative correlation between subcluster radius and density, which indicates that embedded subclusters expand but also gain stars as they age. Subcluster expansion is also shown by a positive radius--age correlation, which indicates that subclusters are expanding at <1 km/s. The subcluster ellipticity distribution and number--density relation show signs of a hierarchical merger scenario, whereby young stellar clusters are built up through mergers of smaller clumps, causing evolution from a clumpy spatial distribution of stars (seen in some regions) to a simpler distribution of stars (seen in other regions). Many of the simple young stellar clusters show signs of dynamically relaxation, even though they are not old enough for this to have occurred through two-body interactions. However, this apparent contradiction might be explained if small subcluster, which have shorter dynamical relaxation times, can produce dynamically relaxed clusters through hierarchical mergers.

Expressed sequence tags from poplar wood tissues--a comparative analysis from multiple libraries.

PubMed

Déjardin, A; Leplé, J-C; Lesage-Descauses, M-C; Costa, G; Pilate, G

2004-01-01

Xylogenesis involves successive developmental processes--cambial division, cell expansion and differentiation, cell death--each occurring along a gradient from the cambium to the pith of the stem. Taking advantage of the high level of organisation of wood tissues, we isolated cambial zone (CZ), differentiating xylem (DX) and mature xylem (MX) from both tension wood (TW) and opposite wood (OW) of bent poplars. Four different cDNA libraries were then constructed and used to generate 10,062 EST, reflecting the genes expressed in the different wood tissues. For the most abundant clusters, the EST distributions were compared between libraries in order to identify genes specific or over-represented at some specific developmental stages. They clearly showed a developmental shift between CZ and DX, whereas there is a continuity of development between DX and MX. CZ was mainly characterized by clusters of genes involved in cell cycle, protein synthesis and fate. Interestingly, two clusters with no assigned function were found specific to the cambial zone. In DX and MX, clusters were mostly involved in methylation of lignin precursors and microtubule cytoskeleton. In addition, in DX, EST from TW and OW were compared: five clusters of arabinogalactan proteins, one for sucrose synthase and one for fructokinase were specific or over-represented in TW. Moreover, a putative transcription factor and a cluster of unknown function were also identified in DX-TW. The informative comparison of multiple libraries prepared from wood tissues led to the identification of genes--some with still unknown functions--putatively involved in xylogenesis and tension wood formation.

Plasma hydrodynamics of the intense laser-cluster interaction*

NASA Astrophysics Data System (ADS)

Milchberg, Howard

2002-11-01

We present a 1D hydrodynamic model of the intense laser-cluster interaction in which the laser field is treated self-consistently. We find that for clusters initially as small as 25Å in radius, for which the hydrodynamic model is appropriate, nonuniform expansion of the heated material results in long-time resonance of the laser field at the critical density plasma layer. A significant result of this is that the ponderomotive force, which is enhanced at the critical density surface, can be large enough to strongly modify the plasma hydrodynamics, even at laser intensities as low as 10^15 W/cm^2 for 800 nm laser pulses. Recent experiments in EUV and x-ray generation as a function of laser pulsewidth [1], and femtosecond time-resolved measurements of cluster transient polarizability [2] provide strong support for the basic physics of this model. Recent results using a 2D hybrid fluid/PIC code show qualitative agreement with the 1D hydrocode [3]. *Work supported by the National Science Foundation and the EUV-LLC. 1. E. Parra, I. Alexeev, J. Fan, K. Kim, S.J. McNaught, and H. M. Milchberg, Phys. Rev. E 62, R5931 (2000). 2. K.Y. Kim, I. Alexeev, E. Parra, and H.M. Milchberg, submitted for publication. 3. T. Taguchi, T. Antonsen, and H.M Milchberg, this meeting.

Photoinduced electron transfer and solvation in iodide-doped acetonitrile clusters.

PubMed

Ehrler, Oli T; Griffin, Graham B; Young, Ryan M; Neumark, Daniel M

2009-04-02

We have used ultrafast time-resolved photoelectron imaging to measure charge transfer dynamics in iodide-doped acetonitrile clusters I(-)(CH(3)CN)(n) with n = 5-10. Strong modulations of vertical detachment energies were observed following charge transfer from the halide, allowing interpretation of the ongoing dynamics. We observe a sharp drop in the vertical detachment energy (VDE) within 300-400 fs, followed by a biexponential increase that is complete by approximately 10 ps. Comparison to theory suggests that the iodide is internally solvated and that photodetachment results in formation of a diffuse electron cloud in a confined cavity. We interpret the initial drop in VDE as a combination of expansion of the cavity and localization of the excess electron on one or two solvent molecules. The subsequent increase in VDE is attributed to a combination of the I atom leaving the cavity and rearrangement of the acetonitrile molecules to solvate the electron. The n = 5-8 clusters then show a drop in VDE of around 50 meV on a much longer time scale. The long-time VDEs are consistent with those of (CH(3)CN)(n)(-) clusters with internally solvated electrons. Although the excited-state created by the pump pulse decays by emission of a slow electron, no such decay is seen by 200 ps.

Analysis of earthquake clustering and source spectra in the Salton Sea Geothermal Field

NASA Astrophysics Data System (ADS)

Cheng, Y.; Chen, X.

2015-12-01

The Salton Sea Geothermal field is located within the tectonic step-over between San Andreas Fault and Imperial Fault. Since the 1980s, geothermal energy exploration has resulted with step-like increase of microearthquake activities, which mirror the expansion of geothermal field. Distinguishing naturally occurred and induced seismicity, and their corresponding characteristics (e.g., energy release) is important for hazard assessment. Between 2008 and 2014, seismic data recorded by a local borehole array were provided public access from CalEnergy through SCEC data center; and the high quality local recording of over 7000 microearthquakes provides unique opportunity to sort out characteristics of induced versus natural activities. We obtain high-resolution earthquake location using improved S-wave picks, waveform cross-correlation and a new 3D velocity model. We then develop method to identify spatial-temporally isolated earthquake clusters. These clusters are classified into aftershock-type, swarm-type, and mixed-type (aftershock-like, with low skew, low magnitude and shorter duration), based on the relative timing of largest earthquakes and moment-release. The mixed-type clusters are mostly located at 3 - 4 km depth near injection well; while aftershock-type clusters and swarm-type clusters also occur further from injection well. By counting number of aftershocks within 1day following mainshock in each cluster, we find that the mixed-type clusters have much higher aftershock productivity compared with other types and historic M4 earthquakes. We analyze detailed spatial variation of 'b-value'. We find that the mixed-type clusters are mostly located within high b-value patches, while large (M>3) earthquakes and other types of clusters are located within low b-value patches. We are currently processing P and S-wave spectra to analyze the spatial-temporal correlation of earthquake stress parameter and seismicity characteristics. Preliminary results suggest that the mixed-type clusters and high b-value patches are spatially correlated with low stress drop earthquakes, indicating high-productivity microearthquakes within low differential stress region, potentially due to deeper injection activities.

Cosmology with gamma-ray bursts. II. Cosmography challenges and cosmological scenarios for the accelerated Universe

NASA Astrophysics Data System (ADS)

Demianski, Marek; Piedipalumbo, Ester; Sawant, Disha; Amati, Lorenzo

2017-02-01

Context. Explaining the accelerated expansion of the Universe is one of the fundamental challenges in physics today. Cosmography provides information about the evolution of the universe derived from measured distances, assuming only that the space time geometry is described by the Friedman-Lemaitre-Robertson-Walker metric, and adopting an approach that effectively uses only Taylor expansions of basic observables. Aims: We perform a high-redshift analysis to constrain the cosmographic expansion up to the fifth order. It is based on the Union2 type Ia supernovae data set, the gamma-ray burst Hubble diagram, a data set of 28 independent measurements of the Hubble parameter, baryon acoustic oscillations measurements from galaxy clustering and the Lyman-α forest in the SDSS-III Baryon Oscillation Spectroscopic Survey (BOSS), and some Gaussian priors on h and ΩM. Methods: We performed a statistical analysis and explored the probability distributions of the cosmographic parameters. By building up their regions of confidence, we maximized our likelihood function using the Markov chain Monte Carlo method. Results: Our high-redshift analysis confirms that the expansion of the Universe currently accelerates; the estimation of the jerk parameter indicates a possible deviation from the standard ΛCDM cosmological model. Moreover, we investigate implications of our results for the reconstruction of the dark energy equation of state (EOS) by comparing the standard technique of cosmography with an alternative approach based on generalized Padé approximations of the same observables. Because these expansions converge better, is possible to improve the constraints on the cosmographic parameters and also on the dark matter EOS. Conclusions: The estimation of the jerk and the DE parameters indicates at 1σ a possible deviation from the ΛCDM cosmological model.

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

Darling, Jeremy, E-mail: jdarling@colorado.edu

Objects and structures gravitationally decoupled from the Hubble expansion will appear to shrink in angular size as the universe expands. Observations of extragalactic proper motions can thus directly reveal the cosmic expansion. Relatively static structures such as galaxies or galaxy clusters can potentially be used to measure the Hubble constant, and test masses in large scale structures can measure the overdensity. Since recession velocities and angular separations can be precisely measured, apparent proper motions can also provide geometric distance measurements to static structures. The apparent fractional angular compression of static objects is 15 μas yr{sup –1} in the local universe;more » this motion is modulated by the overdensity in dynamic expansion-decoupled structures. We use the Titov et al. quasar proper motion catalog to examine the pairwise proper motion of a sparse network of test masses. Small-separation pairs (<200 Mpc comoving) are too few to measure the expected effect, yielding an inconclusive 8.3 ± 14.9 μas yr{sup –1}. Large-separation pairs (200-1500 Mpc) show no net convergence or divergence for z < 1, –2.7 ± 3.7 μas yr{sup –1}, consistent with pure Hubble expansion and significantly inconsistent with static structures, as expected. For all pairs a 'null test' gives –0.36 ± 0.62 μas yr{sup –1}, consistent with Hubble expansion and excludes a static locus at ∼5-10σ significance for z ≅ 0.5-2.0. The observed large-separation pairs provide a reference frame for small-separation pairs that will significantly deviate from the Hubble flow. The current limitation is the number of small-separation objects with precise astrometry, but Gaia will address this and will likely detect the cosmic recession.« less

Repeated range expansions and inter-/postglacial recolonization routes of Sargentodoxa cuneata (Oliv.) Rehd. et Wils. (Lardizabalaceae) in subtropical China revealed by chloroplast phylogeography.

PubMed

Tian, Shuang; Lei, Shu-Qing; Hu, Wan; Deng, Ling-Li; Li, Bo; Meng, Qing-Lin; Soltis, Douglas E; Soltis, Pamela S; Fan, Deng-Mei; Zhang, Zhi-Yong

2015-04-01

Most plant phylogeographic studies in subtropical China have stressed the importance of multiple refugia and limited admixture among refugia. Little attention has been paid to range expansion and recolonization routes in this region. In this study, we implemented a phylogeographic survey on Sargentodoxa cuneata, a widespread woody deciduous climber in subtropical China to determine if it conforms to the expansion-contraction (EC) model during the Pleistocene. Sequence variation of two chloroplast intergenic spacers (IGSs) in 369 individuals from 54 populations of S. cuneata was examined. Twenty-six chloroplast haplotypes were recovered. One of these (H5) occurred across the range of S. cuneata and was absent from only 13 populations. Sixteen of the 26 haplotypes were connected to H5 by one mutation and displayed a star-like pattern in the haplotype network. All chloroplast haplotypes clustered into two lineages (A and B) in a Bayesian tree, and most haplotypes (18 out of 26) originated during the mid-Pleistocene (0.63-1.07Ma). Demographic analyses detected a recent range expansion that occurred at 95.98ka (CI: 61.7-112.53ka) for Lineage A. The genetic signature of an ancient range expansion after the Middle Pleistocene Transition (MPT) was also evident. Three recolonization routes were identified in subtropical China. The results suggest that temperate plants in subtropical China may conform to the EC model to some extent. However, the genetic signature from multiple historical processes may complicate the phylogeographic patterns of organisms in the region due to the mild Pleistocene climate. This study provides a new perspective for understanding the evolutionary history of temperate plants in subtropical China. Copyright © 2015 Elsevier Inc. All rights reserved.

Quantifying innovation in surgery.

PubMed

Hughes-Hallett, Archie; Mayer, Erik K; Marcus, Hani J; Cundy, Thomas P; Pratt, Philip J; Parston, Greg; Vale, Justin A; Darzi, Ara W

2014-08-01

The objectives of this study were to assess the applicability of patents and publications as metrics of surgical technology and innovation; evaluate the historical relationship between patents and publications; develop a methodology that can be used to determine the rate of innovation growth in any given health care technology. The study of health care innovation represents an emerging academic field, yet it is limited by a lack of valid scientific methods for quantitative analysis. This article explores and cross-validates 2 innovation metrics using surgical technology as an exemplar. Electronic patenting databases and the MEDLINE database were searched between 1980 and 2010 for "surgeon" OR "surgical" OR "surgery." Resulting patent codes were grouped into technology clusters. Growth curves were plotted for these technology clusters to establish the rate and characteristics of growth. The initial search retrieved 52,046 patents and 1,801,075 publications. The top performing technology cluster of the last 30 years was minimally invasive surgery. Robotic surgery, surgical staplers, and image guidance were the most emergent technology clusters. When examining the growth curves for these clusters they were found to follow an S-shaped pattern of growth, with the emergent technologies lying on the exponential phases of their respective growth curves. In addition, publication and patent counts were closely correlated in areas of technology expansion. This article demonstrates the utility of publically available patent and publication data to quantify innovations within surgical technology and proposes a novel methodology for assessing and forecasting areas of technological innovation.

The Important Role of FLT3-L in Ex Vivo Expansion of Hematopoietic Stem Cells following Co-Culture with Mesenchymal Stem Cells.

PubMed

Oubari, Farhad; Amirizade, Naser; Mohammadpour, Hemn; Nakhlestani, Mozhdeh; Zarif, Mahin Nikougoftar

2015-01-01

Hematopoietic stem cells (HSCs) transplantation using umbilical cord blood (UCB) has improved during the last decade. Because of cell limitations, several studies focused on the ex vivo expansion of HSCs. Numerous investigations were performed to introduce the best cytokine cocktails for HSC expansion The majority used the Fms-related tyrosine kinase 3 ligand (FLT3-L) as a critical component. According to FLT3-L biology, in this study we have investigated the hypothesis that FLT3-L only effectively induces HSCs expansion in the presence of a mesenchymal stem cell (MSC) feeder. In this experimental study, HSCs and MSCs were isolated from UCB and placenta, respectively. HSCs were cultured in different culture conditions in the presence and absence of MSC feeder and cytokines. After ten days of culture, total nucleated cell count (TNC), cluster of differentiation 34+(CD34(+)) cell count, colony forming unit assay (CFU), long-term culture initiating cell (LTC-IC), homeobox protein B4 (HoxB4) mRNA and surface CD49d expression were evaluated. The fold increase for some culture conditions was compared by the t test. HSCs expanded in the presence of cytokines and MSCs feeder. The rate of expansion in the co-culture condition was two-fold more than culture with cytokines (P<0.05). FLT3-L could expand HSCs in the co-culture condition at a level of 20-fold equal to the presence of stem cell factor (SCF), thrombopoietin (TPO) and FLT3-L without feeder cells. The number of extracted colonies from LTC-IC and CD49d expression compared with a cytokine cocktail condition meaningfully increased (P<0.05). FLT3-L co-culture with MSCs can induce high yield expansion of HSCs and be a substitute for the universal cocktail of SCF, TPO and FLT3-L in feeder-free culture.

Characterization of a Large Cluster of Influenza A(H1N1)pdm09 Viruses Cross-Resistant to Oseltamivir and Peramivir during the 2013-2014 Influenza Season in Japan

PubMed Central

Takashita, Emi; Kiso, Maki; Fujisaki, Seiichiro; Yokoyama, Masaru; Nakamura, Kazuya; Shirakura, Masayuki; Sato, Hironori; Odagiri, Takato; Kawaoka, Yoshihiro

2015-01-01

Between September 2013 and July 2014, 2,482 influenza 2009 pandemic A(H1N1) [A(H1N1)pdm09] viruses were screened in Japan for the H275Y substitution in their neuraminidase (NA) protein, which confers cross-resistance to oseltamivir and peramivir. We found that a large cluster of the H275Y mutant virus was present prior to the main influenza season in Sapporo/Hokkaido, with the detection rate for this mutant virus reaching 29% in this area. Phylogenetic analysis suggested the clonal expansion of a single mutant virus in Sapporo/Hokkaido. To understand the reason for this large cluster, we examined the in vitro and in vivo properties of the mutant virus. We found that it grew well in cell culture, with growth comparable to that of the wild-type virus. The cluster virus also replicated well in the upper respiratory tract of ferrets and was transmitted efficiently between ferrets by way of respiratory droplets. Almost all recently circulating A(H1N1)pdm09 viruses, including the cluster virus, possessed two substitutions in NA, V241I and N369K, which are known to increase replication and transmission fitness. A structural analysis of NA predicted that a third substitution (N386K) in the NA of the cluster virus destabilized the mutant NA structure in the presence of the V241I and N369K substitutions. Our results suggest that the cluster virus retained viral fitness to spread among humans and, accordingly, caused the large cluster in Sapporo/Hokkaido. However, the mutant NA structure was less stable than that of the wild-type virus. Therefore, once the wild-type virus began to circulate in the community, the mutant virus could not compete and faded out. PMID:25691635

Independent-Cluster Parametrizations of Wave Functions in Model Field Theories III. The Coupled-Cluster Phase Spaces and Their Geometrical Structure

NASA Astrophysics Data System (ADS)

Arponen, J. S.; Bishop, R. F.

1993-11-01

In this third paper of a series we study the structure of the phase spaces of the independent-cluster methods. These phase spaces are classical symplectic manifolds which provide faithful descriptions of the quantum mechanical pure states of an arbitrary system. They are "superspaces" in the sense that the full physical many-body or field-theoretic system is described by a point of the space, in contrast to "ordinary" spaces for which the state of the physical system is described rather by the whole space itself. We focus attention on the normal and extended coupled-cluster methods (NCCM and ECCM). Both methods provide parametrizations of the Hilbert space which take into account in increasing degrees of completeness the connectivity properties of the associated perturbative diagram structure. This corresponds to an increasing incorporation of locality into the description of the quantum system. As a result the degree of nonlinearity increases in the dynamical equations that govern the temporal evolution and determine the equilibrium state. Because of the nonlinearity, the structure of the manifold becomes geometrically complicated. We analyse the neighbourhood of the ground state of the one-mode anharmonic bosonic field theory and derive the nonlinear expansion beyond the linear response regime. The expansion is given in terms of normal-mode amplitudes, which provide the best local coordinate system close to the ground state. We generalize the treatment to other nonequilibrium states by considering the similarly defined normal coordinates around the corresponding phase space point. It is pointed out that the coupled-cluster method (CCM) maps display such features as (an)holonomy, or geometric phase. For example, a physical state may be represented by a number of different points on the CCM manifold. For this reason the whole phase spaces in the NCCM or ECCM cannot be covered by a single chart. To account for this non-Euclidean nature we introduce a suitable pseudo-Riemannian metric structure which is compatible with an important subset of all canonical transformations. It is then shown that the phase space of the configuration-interaction method is flat, namely the complex Euclidean space; that the NCCM manifold has zero curvature even though its Reimann tensor does not vanish; and that the ECCM manifold is intrinsically curved. It is pointed out that with the present metrization many of the dimensions of the ECCM phase space are effectively compactified and that the overall topological structure of the space is related to the distribution of the zeros of the Bargmann wave function.

Genomic and transcriptomic analysis of the endophytic fungus Pestalotiopsis fici reveals its lifestyle and high potential for synthesis of natural products.

PubMed

Wang, Xiuna; Zhang, Xiaoling; Liu, Ling; Xiang, Meichun; Wang, Wenzhao; Sun, Xiang; Che, Yongsheng; Guo, Liangdong; Liu, Gang; Guo, Liyun; Wang, Chengshu; Yin, Wen-Bing; Stadler, Marc; Zhang, Xinyu; Liu, Xingzhong

2015-01-27

In recent years, the genus Pestalotiopsis is receiving increasing attention, not only because of its economic impact as a plant pathogen but also as a commonly isolated endophyte which is an important source of bioactive natural products. Pestalotiopsis fici Steyaert W106-1/CGMCC3.15140 as an endophyte of tea produces numerous novel secondary metabolites, including chloropupukeananin, a derivative of chlorinated pupukeanane that is first discovered in fungi. Some of them might be important as the drug leads for future pharmaceutics. Here, we report the genome sequence of the endophytic fungus of tea Pestalotiopsis fici W106-1/CGMCC3.15140. The abundant carbohydrate-active enzymes especially significantly expanding pectinases allow the fungus to utilize the limited intercellular nutrients within the host plants, suggesting adaptation of the fungus to endophytic lifestyle. The P. fici genome encodes a rich set of secondary metabolite synthesis genes, including 27 polyketide synthases (PKSs), 12 non-ribosomal peptide synthases (NRPSs), five dimethylallyl tryptophan synthases, four putative PKS-like enzymes, 15 putative NRPS-like enzymes, 15 terpenoid synthases, seven terpenoid cyclases, seven fatty-acid synthases, and five hybrids of PKS-NRPS. The majority of these core enzymes distributed into 74 secondary metabolite clusters. The putative Diels-Alderase genes have undergone expansion. The significant expansion of pectinase encoding genes provides essential insight in the life strategy of endophytes, and richness of gene clusters for secondary metabolites reveals high potential of natural products of endophytic fungi.

Impact of higher order diagrams on phase equilibrium calculations for small molecules using lattice cluster theory

NASA Astrophysics Data System (ADS)

Zimmermann, Patrick; Walowski, Christoph; Enders, Sabine

2018-03-01

The Lattice Cluster Theory (LCT) provides a powerful tool to predict thermodynamic properties of large molecules (e.g., polymers) of different molecular architectures. When the pure-component parameters of a certain compound have been derived by adjustment to experimental data and the number of atoms is held constant within the molecule so that only the architecture is changed, the LCT is capable of predicting the properties of isomers without further parameter adjustment just based on the incorporation of molecular architecture. Trying to predict the thermodynamic properties of smaller molecules, one might face some challenges, which are addressed in this contribution. After factoring out the mean field term of the partition function, the LCT poses an expression that involves corrections to the mean field depending on molecular architecture, resulting in the free energy formally being expressed as a double series expansion in lattice coordination number z and interaction energy ɛ ˜ . In the process of deriving all contributing sub-structures within a molecule, some parts have been neglected to this point due to the double series expansion being truncated after the order ɛ˜ 2z-2. We consider the neglected parts that are of the order z-3 and reformulate the expression for the free energy within the LCT to achieve a higher predictive capability of the theory when it comes to small isomers and compressible systems. The modified version was successfully applied for phase equilibrium calculations of binary mixtures composed of linear and branched alkanes.

Study on the mapping of dark matter clustering from real space to redshift space

NASA Astrophysics Data System (ADS)

Zheng, Yi; Song, Yong-Seon

2016-08-01

The mapping of dark matter clustering from real space to redshift space introduces the anisotropic property to the measured density power spectrum in redshift space, known as the redshift space distortion effect. The mapping formula is intrinsically non-linear, which is complicated by the higher order polynomials due to indefinite cross correlations between the density and velocity fields, and the Finger-of-God effect due to the randomness of the peculiar velocity field. Whilst the full higher order polynomials remain unknown, the other systematics can be controlled consistently within the same order truncation in the expansion of the mapping formula, as shown in this paper. The systematic due to the unknown non-linear density and velocity fields is removed by separately measuring all terms in the expansion directly using simulations. The uncertainty caused by the velocity randomness is controlled by splitting the FoG term into two pieces, 1) the ``one-point" FoG term being independent of the separation vector between two different points, and 2) the ``correlated" FoG term appearing as an indefinite polynomials which is expanded in the same order as all other perturbative polynomials. Using 100 realizations of simulations, we find that the Gaussian FoG function with only one scale-independent free parameter works quite well, and that our new mapping formulation accurately reproduces the observed 2-dimensional density power spectrum in redshift space at the smallest scales by far, up to k~ 0.2 Mpc-1, considering the resolution of future experiments.

Craniometric relationships among medieval Central European populations: implications for Croat migration and expansion.

PubMed

Slaus, Mario; Tomicić, Zeljko; Uglesić, Ante; Jurić, Radomir

2004-08-01

To determine the ethnic composition of the early medieval Croats, the location from which they migrated to the east coast of the Adriatic, and to separate early medieval Croats from Bijelo brdo culture members, using principal components analysis and discriminant function analysis of craniometric data from Central and South-East European medieval archaeological sites. Mean male values for 8 cranial measurements from 39 European and 5 Iranian sites were analyzed by principal components analysis. Raw data for 17 cranial measurements for 103 female and 112 male skulls were used to develop discriminant functions. The scatter-plot of the analyzed sites on the first 2 principal components showed a pattern of intergroup relationships consistent with geographical and archaeological information not included in the data set. The first 2 principal components separated the sites into 4 distinct clusters: Avaroslav sites west of the Danube, Avaroslav sites east of the Danube, Bijelo brdo sites, and Polish sites. All early medieval Croat sites were located in the cluster of Polish sites. Two discriminant functions successfully differentiated between early medieval Croats and Bijelo brdo members. Overall accuracies were high -- 89.3% for males, and 97.1% for females. Early medieval Croats seem to be of Slavic ancestry, and at one time shared a common homeland with medieval Poles. Application of unstandardized discriminant function coefficients to unclassified crania from 18 sites showed an expansion of early medieval Croats into continental Croatia during the 10th to 13th century.

Quantifying the legacy of the Chinese Neolithic on the maternal genetic heritage of Taiwan and Island Southeast Asia.

PubMed

Brandão, Andreia; Eng, Ken Khong; Rito, Teresa; Cavadas, Bruno; Bulbeck, David; Gandini, Francesca; Pala, Maria; Mormina, Maru; Hudson, Bob; White, Joyce; Ko, Tsang-Ming; Saidin, Mokhtar; Zafarina, Zainuddin; Oppenheimer, Stephen; Richards, Martin B; Pereira, Luísa; Soares, Pedro

2016-04-01

There has been a long-standing debate concerning the extent to which the spread of Neolithic ceramics and Malay-Polynesian languages in Island Southeast Asia (ISEA) were coupled to an agriculturally driven demic dispersal out of Taiwan 4000 years ago (4 ka). We previously addressed this question using founder analysis of mitochondrial DNA (mtDNA) control-region sequences to identify major lineage clusters most likely to have dispersed from Taiwan into ISEA, proposing that the dispersal had a relatively minor impact on the extant genetic structure of ISEA, and that the role of agriculture in the expansion of the Austronesian languages was therefore likely to have been correspondingly minor. Here we test these conclusions by sequencing whole mtDNAs from across Taiwan and ISEA, using their higher chronological precision to resolve the overall proportion that participated in the "out-of-Taiwan" mid-Holocene dispersal as opposed to earlier, postglacial expansions in the Early Holocene. We show that, in total, about 20% of mtDNA lineages in the modern ISEA pool result from the "out-of-Taiwan" dispersal, with most of the remainder signifying earlier processes, mainly due to sea-level rises after the Last Glacial Maximum. Notably, we show that every one of these founder clusters previously entered Taiwan from China, 6-7 ka, where rice-farming originated, and remained distinct from the indigenous Taiwanese population until after the subsequent dispersal into ISEA.

Dynamical evolution and spatial mixing of multiple population globular clusters

NASA Astrophysics Data System (ADS)

Vesperini, Enrico; McMillan, Stephen L. W.; D'Antona, Francesca; D'Ercole, Annibale

2013-03-01

Numerous spectroscopic and photometric observational studies have provided strong evidence for the widespread presence of multiple stellar populations in globular clusters. In this paper, we study the long-term dynamical evolution of multiple population clusters, focusing on the evolution of the spatial distributions of the first- (FG) and second-generation (SG) stars. In previous studies, we have suggested that SG stars formed from the ejecta of FG AGB stars are expected initially to be concentrated in the cluster inner regions. Here, by means of N-body simulations, we explore the time-scales and the dynamics of the spatial mixing of the FG and the SG populations and their dependence on the SG initial concentration. Our simulations show that, as the evolution proceeds, the radial profile of the SG/FG number ratio, NSG/NFG, is characterized by three regions: (1) a flat inner part; (2) a declining part in which FG stars are increasingly dominant and (3) an outer region where the NSG/NFG profile flattens again (the NSG/NFG profile may rise slightly again in the outermost cluster regions). Until mixing is complete and the NSG/NFG profile is flat over the entire cluster, the radial variation of NSG/NFG implies that the fraction of SG stars determined by observations covering a limited range of radial distances is not, in general, equal to the SG global fraction, (NSG/NFG)glob. The distance at which NSG/NFG equals (NSG/NFG)glob is approximately between 1 and 2 cluster half-mass radii. The time-scale for complete mixing depends on the SG initial concentration, but in all cases complete mixing is expected only for clusters in advanced evolutionary phases, having lost at least 60-70 per cent of their mass due to two-body relaxation (in addition to the early FG loss due to the cluster expansion triggered by SNII ejecta and gas expulsion).The results of our simulations suggest that in many Galactic globular clusters the SG should still be more spatially concentrated than the FG.

Visualizing Dataflow Graphs of Deep Learning Models in TensorFlow.

PubMed

Wongsuphasawat, Kanit; Smilkov, Daniel; Wexler, James; Wilson, Jimbo; Mane, Dandelion; Fritz, Doug; Krishnan, Dilip; Viegas, Fernanda B; Wattenberg, Martin

2018-01-01

We present a design study of the TensorFlow Graph Visualizer, part of the TensorFlow machine intelligence platform. This tool helps users understand complex machine learning architectures by visualizing their underlying dataflow graphs. The tool works by applying a series of graph transformations that enable standard layout techniques to produce a legible interactive diagram. To declutter the graph, we decouple non-critical nodes from the layout. To provide an overview, we build a clustered graph using the hierarchical structure annotated in the source code. To support exploration of nested structure on demand, we perform edge bundling to enable stable and responsive cluster expansion. Finally, we detect and highlight repeated structures to emphasize a model's modular composition. To demonstrate the utility of the visualizer, we describe example usage scenarios and report user feedback. Overall, users find the visualizer useful for understanding, debugging, and sharing the structures of their models.

Highly Charged Rydberg Ions from the Coulomb Explosion of Clusters

NASA Astrophysics Data System (ADS)

Komar, D.; Kazak, L.; Almassarani, M.; Meiwes-Broer, K.-H.; Tiggesbäumker, J.

2018-03-01

Ion emission from a nanoplasma produced in the interaction of intense optical laser pulses with argon clusters is studied resolving simultaneously charge states and recoil energies. By applying appropriate static electric fields we observe that a significant fraction of the ions Arq + (q =1 - 7 ) has electrons with binding energies lower than 150 meV; i.e., nRyd≥15 levels are populated. Charge state changes observed on a μ s time scale can be attributed to electron emission due to autoionizing Rydberg states, indicating that high-ℓ Rydberg levels are populated as well. The experiments support theoretical predictions that a significant fraction of delocalized electrons, which are bound with hundreds of eV to the nanoplasma after the laser exposure, fill up meV bound ion states in the adiabatic expansion. We expect the process to be relevant for the long-term evolution of expanding laser-induced dense plasmas in general.

A relativistic coupled-cluster interaction potential and rovibrational constants for the xenon dimer

NASA Astrophysics Data System (ADS)

Jerabek, Paul; Smits, Odile; Pahl, Elke; Schwerdtfeger, Peter

2018-01-01

An accurate potential energy curve has been derived for the xenon dimer using state-of-the-art relativistic coupled-cluster theory up to quadruple excitations accounting for both basis set superposition and incompleteness errors. The data obtained is fitted to a computationally efficient extended Lennard-Jones potential form and to a modified Tang-Toennies potential function treating the short- and long-range part separately. The vibrational spectrum of Xe2 obtained from a numerical solution of the rovibrational Schrödinger equation and subsequently derived spectroscopic constants are in excellent agreement with experimental values. We further present solid-state calculations for xenon using a static many-body expansion up to fourth-order in the xenon interaction potential including dynamic effects within the Einstein approximation. Again we find very good agreement with the experimental (face-centred cubic) lattice constant and cohesive energy.

Light {xi} hypernuclei in four-body cluster models

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

Hiyama, E.; Yamamoto, Y.; Motoba, T.

Detailed structure calculations in {sub {xi}{sup -}}{sup 12}Be, {sub {xi}{sup -}}{sup 5}H, {sub {xi}{sup -}}{sup 9}Li, {sub {xi}{sup -}}{sup 7}H, and {sub {xi}{sup -}}{sup 10}Li are performed within the framework of the microscopic two-, three-, and four-body cluster models using the Gaussian expansion method. We adopted effective {xi}N interactions derived from the Nijmegen interaction models, which give rise to substantially attractive {xi}-nucleus potentials in accordance with the experimental indications. {sub {xi}{sup -}}{sup 7}H and {sub {xi}{sup -}}{sup 10}Li are predicted to have bound states. we propose to observe the bound states in future (K{sup -},K{sup +}) experiments using {sup 7}Limore » and {sup 10}B targets in addition to the standard {sup 12}C target. The experimental confirmation of these states will provide information on the spin- and isospin-averaged {xi}N interaction.« less

Einstein's Theory Fights off Challengers

NASA Astrophysics Data System (ADS)

2010-04-01

Two new and independent studies have put Einstein's General Theory of Relativity to the test like never before. These results, made using NASA's Chandra X-ray Observatory, show Einstein's theory is still the best game in town. Each team of scientists took advantage of extensive Chandra observations of galaxy clusters, the largest objects in the Universe bound together by gravity. One result undercuts a rival gravity model to General Relativity, while the other shows that Einstein's theory works over a vast range of times and distances across the cosmos. The first finding significantly weakens a competitor to General Relativity known as "f(R) gravity". "If General Relativity were the heavyweight boxing champion, this other theory was hoping to be the upstart contender," said Fabian Schmidt of the California Institute of Technology in Pasadena, who led the study. "Our work shows that the chances of its upsetting the champ are very slim." In recent years, physicists have turned their attention to competing theories to General Relativity as a possible explanation for the accelerated expansion of the universe. Currently, the most popular explanation for the acceleration is the so-called cosmological constant, which can be understood as energy that exists in empty space. This energy is referred to as dark energy to emphasize that it cannot be directly detected. In the f(R) theory, the cosmic acceleration comes not from an exotic form of energy but from a modification of the gravitational force. The modified force also affects the rate at which small enhancements of matter can grow over the eons to become massive clusters of galaxies, opening up the possibility of a sensitive test of the theory. Schmidt and colleagues used mass estimates of 49 galaxy clusters in the local universe from Chandra observations, and compared them with theoretical model predictions and studies of supernovas, the cosmic microwave background, and the large-scale distribution of galaxies. They found no evidence that gravity is different from General Relativity on scales larger than 130 million light years. This limit corresponds to a hundred-fold improvement on the bounds of the modified gravitational force's range that can be set without using the cluster data. "This is the strongest ever constraint set on an alternative to General Relativity on such large distance scales," said Schmidt. "Our results show that we can probe gravity stringently on cosmological scales by using observations of galaxy clusters." The reason for this dramatic improvement in constraints can be traced to the greatly enhanced gravitational forces acting in clusters as opposed to the universal background expansion of the universe. The cluster-growth technique also promises to be a good probe of other modified gravity scenarios, such as models motivated by higher-dimensional theories and string theory. A second, independent study also bolsters General Relativity by directly testing it across cosmological distances and times. Up until now, General Relativity had been verified only using experiments from laboratory to Solar System scales, leaving the door open to the possibility that General Relativity breaks down on much larger scales. To probe this question, a group at Stanford University compared Chandra observations of how rapidly galaxy clusters have grown over time to the predictions of General Relativity. The result is nearly complete agreement between observation and theory. "Einstein's theory succeeds again, this time in calculating how many massive clusters have formed under gravity's pull over the last five billion years," said David Rapetti of the Kavli Institute for Particle Astrophysics and Cosmology (KIPAC) at Stanford University and SLAC National Accelerator Laboratory, who led the new study. "Excitingly and reassuringly, our results are the most robust consistency test of General Relativity yet carried out on cosmological scales." Rapetti and his colleagues based their results on a sample of 238 clusters detected across the whole sky by the now-defunct ROSAT X-ray telescope. These data were enhanced by detailed mass measurements for 71 distant clusters using Chandra, and 23 relatively nearby clusters using ROSAT, and combined with studies of supernovas, the cosmic microwave background, the distribution of galaxies and distance estimates to galaxy clusters. Galaxy clusters are important objects in the quest to understand the Universe as a whole. Because the observations of the masses of galaxy clusters are directly sensitive to the properties of gravity, they provide crucial information. Other techniques such as observations of supernovas or the distribution of galaxies measure cosmic distances, which depend only on the expansion rate of the universe. In contrast, the cluster technique used by Rapetti and his colleagues measure in addition the growth rate of the cosmic structure, as driven by gravity. "Cosmic acceleration represents a great challenge to our modern understanding of physics," said Rapetti's co-author Adam Mantz of NASA's Goddard Space Flight Center in Maryland. "Measurements of acceleration have highlighted how little we know about gravity at cosmic scales, but we're now starting to push back our ignorance." The paper by Fabian Schmidt was published in Physics Review D, Volume 80 in October 2009 and is co-authored by Alexey Vikhlinin of the Harvard-Smithsonian Center for Astrophysics in Cambridge, Massachusetts, and Wayne Hu of the University of Chicago, Illinois. The paper by David Rapetti was recently accepted for publication in the Monthly Notices of the Royal Astronomical Society and is co-authored by Mantz, Steve Allen of KIPAC at Stanford and Harald Ebeling of the Institute for Astronomy in Hawaii. NASA's Marshall Space Flight Center in Huntsville, Ala., manages the Chandra program for NASA's Science Mission Directorate in Washington. The Smithsonian Astrophysical Observatory controls Chandra's science and flight operations from Cambridge, Mass. More information, including images and other multimedia, can be found at: http://chandra.harvard.edu and http://chandra.nasa.gov

Molecular characterization and population structure study of cambuci: strategy for conservation and genetic improvement.

PubMed

Santos, D N; Nunes, C F; Setotaw, T A; Pio, R; Pasqual, M; Cançado, G M A

2016-12-19

Cambuci (Campomanesia phaea) belongs to the Myrtaceae family and is native to the Atlantic Forest of Brazil. It has ecological and social appeal but is exposed to problems associated with environmental degradation and expansion of agricultural activities in the region. Comprehensive studies on this species are rare, making its conservation and genetic improvement difficult. Thus, it is important to develop research activities to understand the current situation of the species as well as to make recommendations for its conservation and use. This study was performed to characterize the cambuci accessions found in the germplasm bank of Coordenadoria de Assistência Técnica Integral using inter-simple sequence repeat markers, with the goal of understanding the plant's population structure. The results showed the existence of some level of genetic diversity among the cambuci accessions that could be exploited for the genetic improvement of the species. Principal coordinate analysis and discriminant analysis clustered the 80 accessions into three groups, whereas Bayesian model-based clustering analysis clustered them into two groups. The formation of two cluster groups and the high membership coefficients within the groups pointed out the importance of further collection to cover more areas and more genetic variability within the species. The study also showed the lack of conservation activities; therefore, more attention from the appropriate organizations is needed to plan and implement natural and ex situ conservation activities.

TECHNOLOGICAL INNOVATION IN NEUROSURGERY: A QUANTITATIVE STUDY

PubMed Central

Marcus, Hani J; Hughes-Hallett, Archie; Kwasnicki, Richard M; Darzi, Ara; Yang, Guang-Zhong; Nandi, Dipankar

2015-01-01

Object Technological innovation within healthcare may be defined as the introduction of a new technology that initiates a change in clinical practice. Neurosurgery is a particularly technologically intensive surgical discipline, and new technologies have preceded many of the major advances in operative neurosurgical technique. The aim of the present study was to quantitatively evaluate technological innovation in neurosurgery using patents and peer-reviewed publications as metrics of technology development and clinical translation respectively. Methods A patent database was searched between 1960 and 2010 using the search terms “neurosurgeon” OR “neurosurgical” OR “neurosurgery”. The top 50 performing patent codes were then grouped into technology clusters. Patent and publication growth curves were then generated for these technology clusters. A top performing technology cluster was then selected as an exemplar for more detailed analysis of individual patents. Results In all, 11,672 patents and 208,203 publications relating to neurosurgery were identified. The top performing technology clusters over the 50 years were: image guidance devices, clinical neurophysiology devices, neuromodulation devices, operating microscopes and endoscopes. Image guidance and neuromodulation devices demonstrated a highly correlated rapid rise in patents and publications, suggesting they are areas of technology expansion. In-depth analysis of neuromodulation patents revealed that the majority of high performing patents were related to Deep Brain Stimulation (DBS). Conclusions Patent and publication data may be used to quantitatively evaluate technological innovation in neurosurgery. PMID:25699414

The Gaia-ESO Survey: dynamical models of flattened, rotating globular clusters

NASA Astrophysics Data System (ADS)

Jeffreson, S. M. R.; Sanders, J. L.; Evans, N. W.; Williams, A. A.; Gilmore, G. F.; Bayo, A.; Bragaglia, A.; Casey, A. R.; Flaccomio, E.; Franciosini, E.; Hourihane, A.; Jackson, R. J.; Jeffries, R. D.; Jofré, P.; Koposov, S.; Lardo, C.; Lewis, J.; Magrini, L.; Morbidelli, L.; Pancino, E.; Randich, S.; Sacco, G. G.; Worley, C. C.; Zaggia, S.

2017-08-01

We present a family of self-consistent axisymmetric rotating globular cluster models which are fitted to spectroscopic data for NGC 362, NGC 1851, NGC 2808, NGC 4372, NGC 5927 and NGC 6752 to provide constraints on their physical and kinematic properties, including their rotation signals. They are constructed by flattening Modified Plummer profiles, which have the same asymptotic behaviour as classical Plummer models, but can provide better fits to young clusters due to a slower turnover in the density profile. The models are in dynamical equilibrium as they depend solely on the action variables. We employ a fully Bayesian scheme to investigate the uncertainty in our model parameters (including mass-to-light ratios and inclination angles) and evaluate the Bayesian evidence ratio for rotating to non-rotating models. We find convincing levels of rotation only in NGC 2808. In the other clusters, there is just a hint of rotation (in particular, NGC 4372 and NGC 5927), as the data quality does not allow us to draw strong conclusions. Where rotation is present, we find that it is confined to the central regions, within radii of R ≤ 2rh. As part of this work, we have developed a novel q-Gaussian basis expansion of the line-of-sight velocity distributions, from which general models can be constructed via interpolation on the basis coefficients.

Ostwald ripening theory

NASA Technical Reports Server (NTRS)

Baird, J. K.

1986-01-01

The Ostwald-ripening theory is deduced and discussed starting from the fundamental principles such as Ising model concept, Mayer cluster expansion, Langer condensation point theory, Ginzburg-Landau free energy, Stillinger cutoff-pair potential, LSW-theory and MLSW-theory. Mathematical intricacies are reduced to an understanding version. Comparison of selected works, from 1949 to 1984, on solution of diffusion equation with and without sink/sources term(s) is presented. Kahlweit's 1980 work and Marqusee-Ross' 1954 work are more emphasized. Odijk and Lekkerkerker's 1985 work on rodlike macromolecules is introduced in order to simulate interested investigators.

Studies of dark energy with X-ray observatories.

PubMed

Vikhlinin, Alexey

2010-04-20

I review the contribution of Chandra X-ray Observatory to studies of dark energy. There are two broad classes of observable effects of dark energy: evolution of the expansion rate of the Universe, and slow down in the rate of growth of cosmic structures. Chandra has detected and measured both of these effects through observations of galaxy clusters. A combination of the Chandra results with other cosmological datasets leads to 5% constraints on the dark energy equation-of-state parameter, and limits possible deviations of gravity on large scales from general relativity.

A versatile, pulsed anion source utilizing plasma-entrainment: Characterization and applications

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

Lu, Yu-Ju; Lehman, Julia H.; Lineberger, W. Carl, E-mail: wcl@jila.colorado.edu

2015-01-28

A novel pulsed anion source has been developed, using plasma entrainment into a supersonic expansion. A pulsed discharge source perpendicular to the main gas expansion greatly reduces unwanted “heating” of the main expansion, a major setback in many pulsed anion sources in use today. The design principles and construction information are described and several examples demonstrate the range of applicability of this anion source. Large OH{sup −}(Ar){sub n} clusters can be generated, with over 40 Ar solvating OH{sup −}. The solvation energy of OH{sup −}(Ar){sub n}, where n = 1-3, 7, 12, and 18, is derived from photoelectron spectroscopy andmore » shows that by n = 12-18, each Ar is bound by about 10 meV. In addition, cis– and trans– HOCO{sup −} are generated through rational anion synthesis (OH{sup −} + CO + M → HOCO{sup −} + M) and the photoelectron spectra compared with previous results. These results, along with several further proof-of-principle experiments on solvation and transient anion synthesis, demonstrate the ability of this source to efficiently produce cold anions. With modifications to two standard General Valve assemblies and very little maintenance, this anion source provides a versatile and straightforward addition to a wide array of experiments.« less

Nppa and Nppb act redundantly during zebrafish cardiac development to confine AVC marker expression and reduce cardiac jelly volume.

PubMed

Grassini, Daniela R; Lagendijk, Anne K; De Angelis, Jessica E; Da Silva, Jason; Jeanes, Angela; Zettler, Nicole; Bower, Neil I; Hogan, Benjamin M; Smith, Kelly A

2018-05-11

Atrial natriuretic peptide ( nppa/anf ) and brain natriuretic peptide ( nppb/bnp ) form a gene cluster with expression in the chambers of the developing heart. Despite restricted expression, a function in cardiac development has not been demonstrated by mutant analysis. This is attributed to functional redundancy however their genomic location in cis has impeded formal analysis. Using genome-editing, we generated mutants for nppa and nppb and found single mutants indistinguishable from wildtype whereas nppa / nppb double mutants display heart morphogenesis defects and pericardial oedema. Analysis of atrioventricular canal (AVC) markers show expansion of bmp4 , tbx2b, has2 and versican expression into the atrium of double mutants. This expanded expression correlates with increased extracellular matrix in the atrium. Using a biosensor for Hyaluronic acid to measure the cardiac jelly (cardiac extracellular matrix), we confirm cardiac jelly expansion in nppa / nppb double mutants. Finally, bmp4 knockdown rescues the expansion of has2 expression and cardiac jelly in double mutants. This definitively shows that nppa and nppb function redundantly during cardiac development to restrict gene expression to the AVC, preventing excessive cardiac jelly synthesis in the atrial chamber. © 2018. Published by The Company of Biologists Ltd.

The Laniakea supercluster of galaxies.

PubMed

Tully, R Brent; Courtois, Hélène; Hoffman, Yehuda; Pomarède, Daniel

2014-09-04

Galaxies congregate in clusters and along filaments, and are missing from large regions referred to as voids. These structures are seen in maps derived from spectroscopic surveys that reveal networks of structure that are interconnected with no clear boundaries. Extended regions with a high concentration of galaxies are called 'superclusters', although this term is not precise. There is, however, another way to analyse the structure. If the distance to each galaxy from Earth is directly measured, then the peculiar velocity can be derived from the subtraction of the mean cosmic expansion, the product of distance times the Hubble constant, from observed velocity. The peculiar velocity is the line-of-sight departure from the cosmic expansion and arises from gravitational perturbations; a map of peculiar velocities can be translated into a map of the distribution of matter. Here we report a map of structure made using a catalogue of peculiar velocities. We find locations where peculiar velocity flows diverge, as water does at watershed divides, and we trace the surface of divergent points that surrounds us. Within the volume enclosed by this surface, the motions of galaxies are inward after removal of the mean cosmic expansion and long range flows. We define a supercluster to be the volume within such a surface, and so we are defining the extent of our home supercluster, which we call Laniakea.

Population Structure of Mountain Pine Beetle Symbiont Leptographium longiclavatum and the Implication on the Multipartite Beetle-Fungi Relationships

PubMed Central

Tsui, Clement Kin-Ming; Farfan, Lina; Roe, Amanda D.; Rice, Adrianne V.; Cooke, Janice E. K.; El-Kassaby, Yousry A.; Hamelin, Richard C.

2014-01-01

Over 18 million ha of forests have been destroyed in the past decade in Canada by the mountain pine beetle (MPB) and its fungal symbionts. Understanding their population dynamics is critical to improving modeling of beetle epidemics and providing potential clues to predict population expansion. Leptographium longiclavatum and Grosmannia clavigera are fungal symbionts of MPB that aid the beetle to colonize and kill their pine hosts. We investigated the genetic structure and demographic expansion of L. longiclavatum in populations established within the historic distribution range and in the newly colonized regions. We identified three genetic clusters/populations that coincide with independent geographic locations. The genetic profiles of the recently established populations in northern British Columbia (BC) and Alberta suggest that they originated from central and southern BC. Approximate Bayesian Computation supports the scenario that this recent expansion represents an admixture of individuals originating from BC and the Rocky Mountains. Highly significant correlations were found among genetic distance matrices of L. longiclavatum, G. clavigera, and MPB. This highlights the concordance of demographic processes in these interacting organisms sharing a highly specialized niche and supports the hypothesis of long-term multipartite beetle-fungus co-evolutionary history and mutualistic relationships. PMID:25153489

Two Years and Five Images of Supernova Refsdal

NASA Astrophysics Data System (ADS)

Kelly, Patrick

2017-01-01

In 1964, Sjur Refsdal hypothesized that a supernova (SN) whose light takes multiple paths to reach us around a strong gravitational lens could be used as a highly powerful probe. For such a system, the time delays between the images of the SN should depend sensitively on the cosmic expansion rate and the distribution of matter within the lens. I will present observations of the first strongly lensed SN resolved into multiple images, which was found in near-infrared imaging taken in early November 2014 with the Hubble Space Telescope (HST). SN `Refsdal' appeared in an Einstein cross configuration around an early-type galaxy in the MACS J1149.6+2223 cluster (z=0.54), and its light curve and spectrum are broadly similar to those of the peculiar and well-studied SN 1987A. Models of the cluster potential predicted that the SN would reappear within two years in a different image of its spiral host galaxy (z=1.49) closer to the cluster's center. In early December 2015, we detected the new image of the SN with the HST, and we anticipate being able to measure its relative time delay with a 1-2% precision, providing a rare test of blind model predictions.

Towards a Unified Quark-Hadron-Matter Equation of State for Applications in Astrophysics and Heavy-Ion Collisions

NASA Astrophysics Data System (ADS)

Bastian, Niels-Uwe; Blaschke, David; Fischer, Tobias; Röpke, Gerd

2018-05-01

We outline an approach to a unified equation of state for quark-hadron matter on the basis of a $\\Phi-$derivable approach to the generalized Beth-Uhlenbeck equation of state for a cluster decomposition of thermodynamic quantities like the density. To this end we summarize the cluster virial expansion for nuclear matter and demonstrate the equivalence of the Green's function approach and the $\\Phi-$derivable formulation. For an example, the formation and dissociation of deuterons in nuclear matter is discussed. We formulate the cluster $\\Phi-$derivable approach to quark-hadron matter which allows to take into account the specifics of chiral symmetry restoration and deconfinement in triggering the Mott-dissociation of hadrons. This approach unifies the description of a strongly coupled quark-gluon plasma with that of a medium-modified hadron resonance gas description which are contained as limiting cases. The developed formalism shall replace the common two-phase approach to the description of the deconfinement and chiral phase transition that requires a phase transition construction between separately developed equations of state for hadronic and quark matter phases. Applications to the phenomenology of heavy-ion collisions and astrophysics are outlined.

De novo piRNA cluster formation in the Drosophila germ line triggered by transgenes containing a transcribed transposon fragment.

PubMed

Olovnikov, Ivan; Ryazansky, Sergei; Shpiz, Sergey; Lavrov, Sergey; Abramov, Yuri; Vaury, Chantal; Jensen, Silke; Kalmykova, Alla

2013-06-01

PIWI-interacting RNAs (piRNAs) provide defence against transposable element (TE) expansion in the germ line of metazoans. piRNAs are processed from the transcripts encoded by specialized heterochromatic clusters enriched in damaged copies of transposons. How these regions are recognized as a source of piRNAs is still elusive. The aim of this study is to determine how transgenes that contain a fragment of the Long Interspersed Nuclear Elements (LINE)-like I transposon lead to an acquired TE resistance in Drosophila. We show that such transgenes, being inserted in unique euchromatic regions that normally do not produce small RNAs, become de novo bidirectional piRNA clusters that silence I-element activity in the germ line. Strikingly, small RNAs of both polarities are generated from the entire transgene and flanking genomic sequences--not only from the transposon fragment. Chromatin immunoprecipitation analysis shows that in ovaries, the trimethylated histone 3 lysine 9 (H3K9me3) mark associates with transgenes producing piRNAs. We show that transgene-derived hsp70 piRNAs stimulate in trans cleavage of cognate endogenous transcripts with subsequent processing of the non-homologous parts of these transcripts into piRNAs.

Large Magnetovolume Effect Induced by Embedding Ferromagnetic Clusters into Antiferromagnetic Matrix of Cobaltite Perovskite.

PubMed

Miao, Ping; Lin, Xiaohuan; Koda, Akihiro; Lee, Sanghyun; Ishikawa, Yoshihisa; Torii, Shuki; Yonemura, Masao; Mochiku, Takashi; Sagayama, Hajime; Itoh, Shinichi; Ikeda, Kazutaka; Otomo, Toshiya; Wang, Yinxia; Kadono, Ryosuke; Kamiyama, Takashi

2017-07-01

Materials that show negative thermal expansion (NTE) have significant industrial merit because they can be used to fabricate composites whose dimensions remain invariant upon heating. In some materials, NTE is concomitant with the spontaneous magnetization due to the magnetovolume effect (MVE). Here the authors report a new class of MVE material; namely, a layered perovskite PrBaCo 2 O 5.5+ x (0 ≤ x ≤ 0.41), in which strong NTE [β ≈ -3.6 × 10 -5 K -1 (90-110 K) at x = 0.24] is triggered by embedding ferromagnetic (F) clusters into the antiferromagnetic (AF) matrix. The strongest MVE is found near the boundary between F and AF phases in the phase diagram, indicating the essential role of competition between the F-clusters and the AF-matrix. Furthermore, the MVE is not limited to the PrBaCo 2 O 5.5+ x but is also observed in the NdBaCo 2 O 5.5+ x . The present study provides a new approach to obtaining MVE and offers a path to the design of NTE materials. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Cluster of Stars in Kepler Sight

NASA Image and Video Library

2009-04-16

This image zooms into a small portion of NASA Kepler full field of view, an expansive, 100-square-degree patch of sky in our Milky Way galaxy. An eight-billion-year-old cluster of stars 13,000 light-years from Earth, called NGC 6791, can be seen in the image. Clusters are families of stars that form together out of the same gas cloud. This particular cluster is called an open cluster, because the stars are loosely bound and have started to spread out from each other. The area pictured is 0.2 percent of Kepler's full field of view, and shows hundreds of stars in the constellation Lyra. The image has been color-coded so that brighter stars appear white, and fainter stars, red. It is a 60-second exposure, taken on April 8, 2009, one day after the spacecraft's dust cover was jettisoned. Kepler was designed to hunt for planets like Earth. The mission will spend the next three-and-a-half years staring at the same stars, looking for periodic dips in brightness. Such dips occur when planets cross in front of their stars from our point of view in the galaxy, partially blocking the starlight. To achieve the level of precision needed to spot planets as small as Earth, Kepler's images are intentionally blurred slightly. This minimizes the number of saturated stars. Saturation, or "blooming," occurs when the brightest stars overload the individual pixels in the detectors, causing the signal to spill out into nearby pixels. http://photojournal.jpl.nasa.gov/catalog/PIA11986

Patterns of glaucomatous visual field loss in sita fields automatically identified using independent component analysis.

PubMed

Goldbaum, Michael H; Jang, Gil-Jin; Bowd, Chris; Hao, Jiucang; Zangwill, Linda M; Liebmann, Jeffrey; Girkin, Christopher; Jung, Tzyy-Ping; Weinreb, Robert N; Sample, Pamela A

2009-12-01

To determine if the patterns uncovered with variational Bayesian-independent component analysis-mixture model (VIM) applied to a large set of normal and glaucomatous fields obtained with the Swedish Interactive Thresholding Algorithm (SITA) are distinct, recognizable, and useful for modeling the severity of the field loss. SITA fields were obtained with the Humphrey Visual Field Analyzer (Carl Zeiss Meditec, Inc, Dublin, California) on 1,146 normal eyes and 939 glaucoma eyes from subjects followed by the Diagnostic Innovations in Glaucoma Study and the African Descent and Glaucoma Evaluation Study. VIM modifies independent component analysis (ICA) to develop separate sets of ICA axes in the cluster of normal fields and the 2 clusters of abnormal fields. Of 360 models, the model with the best separation of normal and glaucomatous fields was chosen for creating the maximally independent axes. Grayscale displays of fields generated by VIM on each axis were compared. SITA fields most closely associated with each axis and displayed in grayscale were evaluated for consistency of pattern at all severities. The best VIM model had 3 clusters. Cluster 1 (1,193) was mostly normal (1,089, 95% specificity) and had 2 axes. Cluster 2 (596) contained mildly abnormal fields (513) and 2 axes; cluster 3 (323) held mostly moderately to severely abnormal fields (322) and 5 axes. Sensitivity for clusters 2 and 3 combined was 88.9%. The VIM-generated field patterns differed from each other and resembled glaucomatous defects (eg, nasal step, arcuate, temporal wedge). SITA fields assigned to an axis resembled each other and the VIM-generated patterns for that axis. Pattern severity increased in the positive direction of each axis by expansion or deepening of the axis pattern. VIM worked well on SITA fields, separating them into distinctly different yet recognizable patterns of glaucomatous field defects. The axis and pattern properties make VIM a good candidate as a preliminary process for detecting progression.

Mitochondrial DNA Diversity of Modern, Ancient and Wild Sheep (Ovis gmelinii anatolica) from Turkey: New Insights on the Evolutionary History of Sheep

PubMed Central

Pişkin, Evangelia; Engin, Atilla; Özer, Füsun; Yüncü, Eren; Doğan, Şükrü Anıl; Togan, İnci

2013-01-01

In the present study, to contribute to the understanding of the evolutionary history of sheep, the mitochondrial (mt) DNA polymorphisms occurring in modern Turkish native domestic (n = 628), modern wild (Ovis gmelinii anatolica) (n = 30) and ancient domestic sheep from Oylum Höyük in Kilis (n = 33) were examined comparatively with the accumulated data in the literature. The lengths (75 bp/76 bp) of the second and subsequent repeat units of the mtDNA control region (CR) sequences differentiated the five haplogroups (HPGs) observed in the domestic sheep into two genetic clusters as was already implied by other mtDNA markers: the first cluster being composed of HPGs A, B, D and the second cluster harboring HPGs C, E. To manifest genetic relatedness between wild Ovis gmelinii and domestic sheep haplogroups, their partial cytochrome B sequences were examined together on a median-joining network. The two parallel but wider aforementioned clusters were observed also on the network of Ovis gmelenii individuals, within which domestic haplogroups were embedded. The Ovis gmelinii wilds of the present day appeared to be distributed on two partially overlapping geographic areas parallel to the genetic clusters that they belong to (the first cluster being in the western part of the overall distribution). Thus, the analyses suggested that the domestic sheep may be the products of two maternally distinct ancestral Ovis gmelinii populations. Furthermore, Ovis gmelinii anatolica individuals exhibited a haplotype of HPG A (n = 22) and another haplotype (n = 8) from the second cluster which was not observed among the modern domestic sheep. HPG E, with the newly observed members (n = 11), showed signs of expansion. Studies of ancient and modern mtDNA suggest that HPG C frequency increased in the Southeast Anatolia from 6% to 22% some time after the beginning of the Hellenistic period, 500 years Before Common Era (BCE). PMID:24349158

Mitochondrial DNA diversity of modern, ancient and wild sheep(Ovis gmelinii anatolica) from Turkey: new insights on the evolutionary history of sheep.

PubMed

Demirci, Sevgin; Koban Baştanlar, Evren; Dağtaş, Nihan Dilşad; Pişkin, Evangelia; Engin, Atilla; Ozer, Füsun; Yüncü, Eren; Doğan, Sükrü Anıl; Togan, Inci

2013-01-01

In the present study, to contribute to the understanding of the evolutionary history of sheep, the mitochondrial (mt) DNA polymorphisms occurring in modern Turkish native domestic (n = 628), modern wild (Ovis gmelinii anatolica) (n = 30) and ancient domestic sheep from Oylum Höyük in Kilis (n = 33) were examined comparatively with the accumulated data in the literature. The lengths (75 bp/76 bp) of the second and subsequent repeat units of the mtDNA control region (CR) sequences differentiated the five haplogroups (HPGs) observed in the domestic sheep into two genetic clusters as was already implied by other mtDNA markers: the first cluster being composed of HPGs A, B, D and the second cluster harboring HPGs C, E. To manifest genetic relatedness between wild Ovis gmelinii and domestic sheep haplogroups, their partial cytochrome B sequences were examined together on a median-joining network. The two parallel but wider aforementioned clusters were observed also on the network of Ovis gmelenii individuals, within which domestic haplogroups were embedded. The Ovis gmelinii wilds of the present day appeared to be distributed on two partially overlapping geographic areas parallel to the genetic clusters that they belong to (the first cluster being in the western part of the overall distribution). Thus, the analyses suggested that the domestic sheep may be the products of two maternally distinct ancestral Ovis gmelinii populations. Furthermore, Ovis gmelinii anatolica individuals exhibited a haplotype of HPG A (n = 22) and another haplotype (n = 8) from the second cluster which was not observed among the modern domestic sheep. HPG E, with the newly observed members (n = 11), showed signs of expansion. Studies of ancient and modern mtDNA suggest that HPG C frequency increased in the Southeast Anatolia from 6% to 22% some time after the beginning of the Hellenistic period, 500 years Before Common Era (BCE).

The effects of baryon physics, black holes and active galactic nucleus feedback on the mass distribution in clusters of galaxies

NASA Astrophysics Data System (ADS)

Martizzi, Davide; Teyssier, Romain; Moore, Ben; Wentz, Tina

2012-06-01

The spatial distribution of matter in clusters of galaxies is mainly determined by the dominant dark matter component; however, physical processes involving baryonic matter are able to modify it significantly. We analyse a set of 500 pc resolution cosmological simulations of a cluster of galaxies with mass comparable to Virgo, performed with the AMR code RAMSES. We compare the mass density profiles of the dark, stellar and gaseous matter components of the cluster that result from different assumptions for the subgrid baryonic physics and galaxy formation processes. First, the prediction of a gravity-only N-body simulation is compared to that of a hydrodynamical simulation with standard galaxy formation recipes, and then all results are compared to a hydrodynamical simulation which includes thermal active galactic nucleus (AGN) feedback from supermassive black holes (SMBHs). We find the usual effects of overcooling and adiabatic contraction in the run with standard galaxy formation physics, but very different results are found when implementing SMBHs and AGN feedback. Star formation is strongly quenched, producing lower stellar densities throughout the cluster, and much less cold gas is available for star formation at low redshifts. At redshift z= 0 we find a flat density core of radius 10 kpc in both the dark and stellar matter density profiles. We speculate on the possible formation mechanisms able to produce such cores and we conclude that they can be produced through the coupling of different processes: (I) dynamical friction from the decay of black hole orbits during galaxy mergers; (II) AGN-driven gas outflows producing fluctuations of the gravitational potential causing the removal of collisionless matter from the central region of the cluster; (III) adiabatic expansion in response to the slow expulsion of gas from the central region of the cluster during the quiescent mode of AGN activity.

Towards black-box calculations of tunneling splittings obtained from vibrational structure methods based on normal coordinates.

PubMed

Neff, Michael; Rauhut, Guntram

2014-02-05

Multidimensional potential energy surfaces obtained from explicitly correlated coupled-cluster calculations and further corrections for high-order correlation contributions, scalar relativistic effects and core-correlation energy contributions were generated in a fully automated fashion for the double-minimum benchmark systems OH3(+) and NH3. The black-box generation of the potentials is based on normal coordinates, which were used in the underlying multimode expansions of the potentials and the μ-tensor within the Watson operator. Normal coordinates are not the optimal choice for describing double-minimum potentials and the question remains if they can be used for accurate calculations at all. However, their unique definition is an appealing feature, which removes remaining errors in truncated potential expansions arising from different choices of curvilinear coordinate systems. Fully automated calculations are presented, which demonstrate, that the proposed scheme allows for the determination of energy levels and tunneling splittings as a routine application. Copyright © 2013 Elsevier B.V. All rights reserved.

The Gaussian streaming model and convolution Lagrangian effective field theory

DOE PAGES

Vlah, Zvonimir; Castorina, Emanuele; White, Martin

2016-12-05

We update the ingredients of the Gaussian streaming model (GSM) for the redshift-space clustering of biased tracers using the techniques of Lagrangian perturbation theory, effective field theory (EFT) and a generalized Lagrangian bias expansion. After relating the GSM to the cumulant expansion, we present new results for the real-space correlation function, mean pairwise velocity and pairwise velocity dispersion including counter terms from EFT and bias terms through third order in the linear density, its leading derivatives and its shear up to second order. We discuss the connection to the Gaussian peaks formalism. We compare the ingredients of the GSM tomore » a suite of large N-body simulations, and show the performance of the theory on the low order multipoles of the redshift-space correlation function and power spectrum. We highlight the importance of a general biasing scheme, which we find to be as important as higher-order corrections due to non-linear evolution for the halos we consider on the scales of interest to us.« less

Large-scale structure perturbation theory without losing stream crossing

DOE PAGES

McDonald, Patrick; Vlah, Zvonimir

2018-01-10

Here, we suggest an approach to perturbative calculations of large-scale clustering in the Universe that includes from the start the stream crossing (multiple velocities for mass elements at a single position) that is lost in traditional calculations. Starting from a functional integral over displacement, the perturbative series expansion is in deviations from (truncated) Zel’dovich evolution, with terms that can be computed exactly even for stream-crossed displacements. We evaluate the one-loop formulas for displacement and density power spectra numerically in 1D, finding dramatic improvement in agreement with N-body simulations compared to the Zel’dovich power spectrum (which is exact in 1D upmore » to stream crossing). Beyond 1D, our approach could represent an improvement over previous expansions even aside from the inclusion of stream crossing, but we have not investigated this numerically. In the process we show how to achieve effective-theory-like regulation of small-scale fluctuations without free parameters.« less

Large-scale structure perturbation theory without losing stream crossing

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

McDonald, Patrick; Vlah, Zvonimir

Here, we suggest an approach to perturbative calculations of large-scale clustering in the Universe that includes from the start the stream crossing (multiple velocities for mass elements at a single position) that is lost in traditional calculations. Starting from a functional integral over displacement, the perturbative series expansion is in deviations from (truncated) Zel’dovich evolution, with terms that can be computed exactly even for stream-crossed displacements. We evaluate the one-loop formulas for displacement and density power spectra numerically in 1D, finding dramatic improvement in agreement with N-body simulations compared to the Zel’dovich power spectrum (which is exact in 1D upmore » to stream crossing). Beyond 1D, our approach could represent an improvement over previous expansions even aside from the inclusion of stream crossing, but we have not investigated this numerically. In the process we show how to achieve effective-theory-like regulation of small-scale fluctuations without free parameters.« less

H0, q0 and the local velocity field. [Hubble and deceleration constants in Big Bang expansion

NASA Technical Reports Server (NTRS)

Sandage, A.; Tammann, G. A.

1982-01-01

An attempt is made to find a systematic deviation from linearity for distances that are under the control of the Virgo cluster, and to determine the value of the mean random motion about the systematic flow, in order to improve the measurement of the Hubble and the deceleration constants. The velocity-distance relation for large and intermediate distances is studied, and type I supernovae are calibrated relatively as distance indicators and absolutely to obtain a new value for the Hubble constant. Methods of determining the deceleration constant are assessed, including determination from direct measurement, mean luminosity density, virgocentric motion, and the time scale test. The very local velocity field is investigated, and a solution is preferred with a random peculiar radial velocity of very nearby field galaxies of 90-100 km/s, and a Virgocentric motion of the local group of 220 km/s, leading to an underlying expansion rate of 55, in satisfactory agreement with the global value.

Using "big data" to optimally model hydrology and water quality across expansive regions

USGS Publications Warehouse

Roehl, E.A.; Cook, J.B.; Conrads, P.A.

2009-01-01

This paper describes a new divide and conquer approach that leverages big environmental data, utilizing all available categorical and time-series data without subjectivity, to empirically model hydrologic and water-quality behaviors across expansive regions. The approach decomposes large, intractable problems into smaller ones that are optimally solved; decomposes complex signals into behavioral components that are easier to model with "sub- models"; and employs a sequence of numerically optimizing algorithms that include time-series clustering, nonlinear, multivariate sensitivity analysis and predictive modeling using multi-layer perceptron artificial neural networks, and classification for selecting the best sub-models to make predictions at new sites. This approach has many advantages over traditional modeling approaches, including being faster and less expensive, more comprehensive in its use of available data, and more accurate in representing a system's physical processes. This paper describes the application of the approach to model groundwater levels in Florida, stream temperatures across Western Oregon and Wisconsin, and water depths in the Florida Everglades. ?? 2009 ASCE.

A New Thermal Treatment Process of Low Value Volcanic Glass towards the Production of Expanded Material and its Use on CNTs’ Synthesis as Substrate Material

NASA Astrophysics Data System (ADS)

Angelopoulos, Panagiotis M.; Samouhos, Michail; Taxiarchou, Maria; Tsakiridis, P.; Haggman, John; Joyce, Paul

2018-05-01

Pitchstone is a naturally occurring volcanic glass that contains considerable amount of chemically bound water (> 6 % wt). Due to its high water content, its direct thermal processing in conventional expansion furnaces towards the production of lightweight material, similar to expanded perlite, is practically impossible. In the current research paper a sophisticated 2 stage process is presented that consists of a partial dehydration and an expansion stage towards the production of high quality expanded material. After proper treatment, low-value volcanic glass is transformed to frothy, lightweight material of closed external surface and apparent density of 52 kg·m-3 that can be used in various branches of the industry. The material produced is used as substrate for the development of multiwall CNTs through CVD method. Dense multiwall CNT clusters were identified on expanded pitchstone surface, thus rendering the material suitable for such application.

The Gaussian streaming model and convolution Lagrangian effective field theory

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

Vlah, Zvonimir; Castorina, Emanuele; White, Martin, E-mail: zvlah@stanford.edu, E-mail: ecastorina@berkeley.edu, E-mail: mwhite@berkeley.edu

We update the ingredients of the Gaussian streaming model (GSM) for the redshift-space clustering of biased tracers using the techniques of Lagrangian perturbation theory, effective field theory (EFT) and a generalized Lagrangian bias expansion. After relating the GSM to the cumulant expansion, we present new results for the real-space correlation function, mean pairwise velocity and pairwise velocity dispersion including counter terms from EFT and bias terms through third order in the linear density, its leading derivatives and its shear up to second order. We discuss the connection to the Gaussian peaks formalism. We compare the ingredients of the GSM tomore » a suite of large N-body simulations, and show the performance of the theory on the low order multipoles of the redshift-space correlation function and power spectrum. We highlight the importance of a general biasing scheme, which we find to be as important as higher-order corrections due to non-linear evolution for the halos we consider on the scales of interest to us.« less

Canonical partition functions: ideal quantum gases, interacting classical gases, and interacting quantum gases

NASA Astrophysics Data System (ADS)

Zhou, Chi-Chun; Dai, Wu-Sheng

2018-02-01

In statistical mechanics, for a system with a fixed number of particles, e.g. a finite-size system, strictly speaking, the thermodynamic quantity needs to be calculated in the canonical ensemble. Nevertheless, the calculation of the canonical partition function is difficult. In this paper, based on the mathematical theory of the symmetric function, we suggest a method for the calculation of the canonical partition function of ideal quantum gases, including ideal Bose, Fermi, and Gentile gases. Moreover, we express the canonical partition functions of interacting classical and quantum gases given by the classical and quantum cluster expansion methods in terms of the Bell polynomial in mathematics. The virial coefficients of ideal Bose, Fermi, and Gentile gases are calculated from the exact canonical partition function. The virial coefficients of interacting classical and quantum gases are calculated from the canonical partition function by using the expansion of the Bell polynomial, rather than calculated from the grand canonical potential.

A correlation between the cosmic microwave background and large-scale structure in the Universe.

PubMed

Boughn, Stephen; Crittenden, Robert

2004-01-01

Observations of distant supernovae and the fluctuations in the cosmic microwave background (CMB) indicate that the expansion of the Universe may be accelerating under the action of a 'cosmological constant' or some other form of 'dark energy'. This dark energy now appears to dominate the Universe and not only alters its expansion rate, but also affects the evolution of fluctuations in the density of matter, slowing down the gravitational collapse of material (into, for example, clusters of galaxies) in recent times. Additional fluctuations in the temperature of CMB photons are induced as they pass through large-scale structures and these fluctuations are necessarily correlated with the distribution of relatively nearby matter. Here we report the detection of correlations between recent CMB data and two probes of large-scale structure: the X-ray background and the distribution of radio galaxies. These correlations are consistent with those predicted by dark energy, indicating that we are seeing the imprint of dark energy on the growth of structure in the Universe.

Modified Fourth-Order Kinetic Energy Gradient Expansion with Hartree Potential-Dependent Coefficients.

PubMed

Constantin, Lucian A; Fabiano, Eduardo; Della Sala, Fabio

2017-09-12

Using the semiclassical neutral atom theory, we developed a modified fourth-order kinetic energy (KE) gradient expansion (GE4m) that keeps unchanged all the linear-response terms of the uniform electron gas and gives a significant improvement with respect to the known semilocal functionals for both large atoms and jellium surfaces. On the other hand, GE4m is not accurate for light atoms; thus, we modified the GE4m coefficients making them dependent on a novel ingredient, the reduced Hartree potential, recently introduced in the Journal of Chemical Physics 2016, 145, 084110, in the context of exchange functionals. The resulting KE gradient expansion functional, named uGE4m, belongs to the novel class of u-meta-generalized-gradient-approximations (uMGGA) whose members depend on the conventional ingredients (i.e., the reduced gradient and Laplacian of the density) as well as on the reduced Hartree potential. To test uGE4m, we defined an appropriate benchmark (including total KE and KE differences for atoms, molecules and jellium clusters) for gradient expansion functionals, that is, including only those systems which are mainly described by a slowly varying density regime. While most of the GGA and meta-GGA KE functionals (we tested 18 of them) are accurate for some properties and inaccurate for others, uGE4m shows a consistently good performance for all the properties considered. This represents a qualitative boost in the KE functional development and highlights the importance of the reduced Hartree potential for the construction of next-generation KE functionals.

Expansion of the receptor-like kinase/Pelle gene family and receptor-like proteins in Arabidopsis.

PubMed

Shiu, Shin Han; Bleecker, Anthony B

2003-06-01

Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases. They control a wide range of physiological responses in plants and belong to one of the largest gene families in the Arabidopsis genome with more than 600 members. Interestingly, this gene family constitutes 60% of all kinases in Arabidopsis and accounts for nearly all transmembrane kinases in Arabidopsis. Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages. The RLK/Pelle family can be divided into several subfamilies based on three independent criteria: the phylogeny based on kinase domain sequences, the extracellular domain identities, and intron locations and phases. A large number of receptor-like proteins (RLPs) resembling the extracellular domains of RLKs are also found in the Arabidopsis genome. However, not all RLK subfamilies have corresponding RLPs. Several RLK/Pelle subfamilies have undergone differential expansions. More than 33% of the RLK/Pelle members are found in tandem clusters, substantially higher than the genome average. In addition, 470 of the RLK/Pelle family members are located within the segmentally duplicated regions in the Arabidopsis genome and 268 of them have a close relative in the corresponding regions. Therefore, tandem duplications and segmental/whole-genome duplications represent two of the major mechanisms for the expansion of the RLK/Pelle family in Arabidopsis.

Postglacial expansion pathways of red mangrove, Rhizophora mangle, in the Caribbean Basin and Florida.

PubMed

Kennedy, John Paul; Pil, Maria W; Proffitt, C Edward; Boeger, Walter A; Stanford, Alice M; Devlin, Donna J

2016-02-01

The Last Glacial Maximum (LGM) was a period of massive range contraction. Post-LGM, water-dispersed coastal species, including the red mangrove (Rhizophora mangle), expanded poleward as propagules were transported by ocean currents. We assessed postglacial marine expansion pathways for R. mangle within the Caribbean Basin and Florida. Six microsatellite loci were used to genotype 237 individuals from nine R. mangle populations in the Caribbean, Florida, and Northwest Africa. We evaluated genetic variation, population structure, gene flow along alternative post-LGM expansion pathways to Florida, and potential long-distance dispersal (LDD) from West Africa to Caribbean islands. These R. mangle populations had substantial genetic structure (FST = 0.37, P < 0.0001) with three discrete population clusters (Caribbean mainland, Caribbean islands, and Florida). Genetic connectivity along the mainland pathway (Caribbean mainland to Florida) vs. limited gene dispersal along the Antilles Island pathway (Caribbean islands to Florida) supported Florida recolonization from Caribbean mainland sources. Genetic similarity of Northwest Africa and two Caribbean islands provided evidence for trans-Atlantic LDD. We did not find a pattern of decreasing genetic diversity with latitude. We outline a complex expansion history for R. mangle, with discrete pathways of recolonization for Florida and Caribbean islands. Contrary to expectation, connectivity to putative Caribbean mainland refugial populations via ocean currents, and not latitude, appears to dictate genetic diversity within Caribbean island and Florida R. mangle. These findings provide a framework for further investigation of additional water-dispersed neotropical species, and insights for management initiatives. © 2016 Botanical Society of America.

Spatio-temporal modeling of the African swine fever epidemic in the Russian Federation, 2007-2012.

PubMed

Korennoy, F I; Gulenkin, V M; Malone, J B; Mores, C N; Dudnikov, S A; Stevenson, M A

2014-10-01

In 2007 African swine fever (ASF) entered Georgia and in the same year the disease entered the Russian Federation. From 2007 to 2012 ASF spread throughout the southern region of the Russian Federation. At the same time several cases of ASF were detected in the central and northern regions of the Russian Federation, forming a northern cluster of outbreaks in 2011. This northern cluster is of concern because of its proximity to mainland Europe. The aim of this study was to use details of recorded ASF outbreaks and human and swine population details to estimate the spatial distribution of ASF risk in the southern region of the European part of the Russian Federation. Our model of ASF risk was comprised of two components. The first was an estimate of ASF suitability scores calculated using maximum entropy methods. The second was an estimate of ASF risk as a function of Euclidean distance from index cases. An exponential distribution fitted to a frequency histogram of the Euclidean distance between consecutive ASF cases had a mean value of 156 km, a distance greater than the surveillance zone radius of 100-150 km stated in the ASF control regulations for the Russian Federation. We show that the spatial and temporal risk of ASF expansion is related to the suitability of the area of potential expansion, which is in turn a function of socio-economic and geographic variables. We propose that the methodology presented in this paper provides a useful tool to optimize surveillance for ASF in affected areas. Copyright © 2014 Elsevier Ltd. All rights reserved.

Spatio-temporal modeling of the African swine fever epidemic in the Russian Federation, 2007–2012

PubMed Central

Korennoy, F.I.; Gulenkin, V.M.; Malone, J.B.; Mores, C.N.; Dudnikov, S.A.; Stevenson, M.A.

2015-01-01

In 2007 African swine fever (ASF) entered Georgia and in the same year the disease entered the Russian Federation. From 2007 to 2012 ASF spread throughout the southern region of the Russian Federation. At the same time several cases of ASF were detected in the central and northern regions of the Russian Federation, forming a northern cluster of outbreaks in 2011. This northern cluster is of concern because of its proximity to mainland Europe. The aim of this study was to use details of recorded ASF outbreaks and human and swine population details to estimate the spatial distribution of ASF risk in the southern region of the European part of the Russian Federation. Our model of ASF risk was comprised of two components. The first was an estimate of ASF suitability scores calculated using maximum entropy methods. The second was an estimate of ASF risk as a function of Euclidean distance from index cases. An exponential distribution fitted to a frequency histogram of the Euclidean distance between consecutive ASF cases had a mean value of 156 km, a distance greater than the surveillance zone radius of 100–150 km stated in the ASF control regulations for the Russian Federation. We show that the spatial and temporal risk of ASF expansion is related to the suitability of the area of potential expansion, which is in turn a function of socio-economic and geographic variables. We propose that the methodology presented in this paper provides a useful tool to optimize surveillance for ASF in affected areas. PMID:25457602

Mitochondrial DNA diversity in two ethnic groups in southeastern Kenya: perspectives from the northeastern periphery of the Bantu expansion

PubMed Central

Batai, Ken; Babrowski, Kara B.; Arroyo, Juan Pablo; Kusimba, Chapurukha M.; Williams, Sloan R.

2013-01-01

The Bantu languages are widely distributed throughout sub-Saharan Africa. Genetic research supports linguists and historians who argue that migration played an important role in the spread of this language family, but the genetic data also indicates a more complex process involving substantial gene flow with resident populations. In order to understand the Bantu expansion process in east Africa, mtDNA hypervariable region I variation in 352 individuals from the Taita and Mijikenda ethnic groups was analyzed, and we evaluated the interactions that took place between the Bantu- and non-Bantu-speaking populations in east Africa. The Taita and Mijikenda are Bantu-speaking agropastoralists from southeastern Kenya, at least some of whose ancestors probably migrated into the area as part of Bantu migrations that began around 3,000 BCE. Our analyses indicate that they show some distinctive differences that reflect their unique cultural histories. The Taita are genetically more diverse than the Mijikenda with larger estimates of genetic diversity. The Taita cluster with other east African groups, having high frequencies of haplogroups from that region, while the Mijikenda have high frequencies of central African haplogroups and cluster more closely with central African Bantu-speaking groups. The non-Bantu speakers who lived in southeastern Kenya before Bantu speaking groups arrived were at least partially incorporated into what are now Bantu-speaking Taita groups. In contrast, gene flow from non-Bantu speakers into the Mijikenda was more limited. These results suggest a more complex demographic history where the nature of Bantu and non-Bantu interactions varied throughout the area. PMID:23382080

Adaptive evolution of voltage-gated sodium channels: The first 800 million years

PubMed Central

Zakon, Harold H.

2012-01-01

Voltage-gated Na+-permeable (Nav) channels form the basis for electrical excitability in animals. Nav channels evolved from Ca2+ channels and were present in the common ancestor of choanoflagellates and animals, although this channel was likely permeable to both Na+ and Ca2+. Thus, like many other neuronal channels and receptors, Nav channels predated neurons. Invertebrates possess two Nav channels (Nav1 and Nav2), whereas vertebrate Nav channels are of the Nav1 family. Approximately 500 Mya in early chordates Nav channels evolved a motif that allowed them to cluster at axon initial segments, 50 million years later with the evolution of myelin, Nav channels “capitalized” on this property and clustered at nodes of Ranvier. The enhancement of conduction velocity along with the evolution of jaws likely made early gnathostomes fierce predators and the dominant vertebrates in the ocean. Later in vertebrate evolution, the Nav channel gene family expanded in parallel in tetrapods and teleosts (∼9 to 10 genes in amniotes, 8 in teleosts). This expansion occurred during or after the late Devonian extinction, when teleosts and tetrapods each diversified in their respective habitats, and coincided with an increase in the number of telencephalic nuclei in both groups. The expansion of Nav channels may have allowed for more sophisticated neural computation and tailoring of Nav channel kinetics with potassium channel kinetics to enhance energy savings. Nav channels show adaptive sequence evolution for increasing diversity in communication signals (electric fish), in protection against lethal Nav channel toxins (snakes, newts, pufferfish, insects), and in specialized habitats (naked mole rats). PMID:22723361

Child psychiatry: A scientometric analysis 1980-2016

PubMed Central

Naveed, Sadiq; Waqas, Ahmed; Majeed, Salman; Zeshan, Muhammad; Jahan, Nusrat; Haaris Sheikh, Muhammad

2017-01-01

Background: The field of child and adolescent psychiatry lags behind adult psychiatry significantly. In recent years, it has witnessed a significant increase in the publication of journals and articles. This study provides a detailed bibliometric analysis of articles published from 1980 to 2016, in the top seven journals of child and adolescent psychiatry. Methods: Using the Web of Science core collection, we selected 9,719 research papers published in seven psychiatric journals from 1980 to 2016. We utilized the Web of Science Analytics tool and Network Analysis Interface for Literature Studies (NAILS) Project scripts to delineate the general trends of publication in these journals. Then, co-citation analysis and hierarchical cluster analysis was performed using CiteSpace to map important papers, landmark theories and foci of research in child and adolescent psychiatry. Results: The field of child and adolescent psychiatry has experienced an increasing trend in research, which was reflected in the results of this study. Hierarchical cluster analysis revealed that the research foci in psychiatry were primarily studies related to the design of psychometric instruments, checklists, taxonomy, attention deficit hyperactivity disorder (ADHD), depression, PTSD, social phobia, and psychopharmacology. Moreover, several landmark studies, including the validation of a child behavior checklist, Ainsworth's empirical evidence of Bowlby's attachment theory, and adult outcomes of childhood dysregulation were published. This study also reports rapid expansion and innovation in research areas in the field of child and adolescent psychiatry from 1980-2016. Conclusions: Rapid expansion and innovation in research areas in the field of child and adolescent psychiatry has been observed, from 1980 to 2016. PMID:28944045

Estimating the age of Hb G-Coushatta [β22(B4)Glu→Ala] mutation by haplotypes of β-globin gene cluster in Denizli, Turkey.

PubMed

Ozturk, Onur; Arikan, Sanem; Atalay, Ayfer; Atalay, Erol O

2018-05-01

Hb G-Coushatta variant was reported from various populations' parts of the world such as Thai, Korea, Algeria, Thailand, China, Japan and Turkey. In our study, we aimed to discuss the possible historical relationships of the Hb G-Coushatta mutation with the possible migration routes of the world. For this purpose, associated haplotypes were determined using polymorphic loci in the beta globin gene cluster of hemoglobin G-Coushatta and normal populations in Denizli, Turkey. We performed statistical analysis such as haplotype analysis, Hardy-Weinberg equilibrium, measurement of genetic diversity and population differentiation parameters, analysis of molecular variance using F-statistics, historical-demographic analyses, mismatch distribution analysis of both populations and applied the test statistics in Arlequin ver. 3.5 software program. The diversity of haplotypes has been shown to indicate different genetic origins for two populations. However, AMOVA results, molecular diversity parameters and population demographic expansion times showed that the Hb G-Coushatta mutation develops on the normal population gene pool. Our estimated τ values showed the average time since the demographic expansion for normal and Hb G-Coushatta populations ranged from approximately 42,000 to 38,000 ybp, respectively. Our data suggest that Hb G-Coushatta population originate in normal population in Denizli, Turkey. These results support the hypothesis that the multiple origin of Hb G-Coushatta and indicate that mutation may have been triggered the formation of new variants on beta globin haplotypes. © 2018 The Authors. Molecular Genetics & Genomic Medicine published by Wiley Periodicals, Inc.

Combining DFT, Cluster Expansions, and KMC to Model Point Defects in Alloys

NASA Astrophysics Data System (ADS)

Modine, N. A.; Wright, A. F.; Lee, S. R.; Foiles, S. M.; Battaile, C. C.; Thomas, J. C.; van der Ven, A.

In an alloy, defect energies are sensitive to the occupations of nearby atomic sites, which leads to a distribution of defect properties. When radiation-induced defects diffuse from their initially non-equilibrium locations, this distribution becomes time-dependent. The defects can become trapped in energetically favorable regions of the alloy leading to a diffusion rate that slows dramatically with time. Density Functional Theory (DFT) allows the accurate determination of ground state and transition state energies for a defect in a particular alloy environment but requires thousands of processing hours for each such calculation. Kinetic Monte-Carlo (KMC) can be used to model defect diffusion and the changing distribution of defect properties but requires energy evaluations for millions of local environments. We have used the Cluster Expansion (CE) formalism to ``glue'' together these seemingly incompatible methods. The occupation of each alloy site is represented by an Ising-like variable, and products of these variables are used to expand quantities of interest. Once a CE is fit to a training set of DFT energies, it allows very rapid evaluation of the energy for an arbitrary configuration, while maintaining the accuracy of the underlying DFT calculations. These energy evaluations are then used to drive our KMC simulations. We will demonstrate the application of our DFT/MC/KMC approach to model thermal and carrier-induced diffusion of intrinsic point defects in III-V alloys. Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's National Nuclear Security Administration under Contract DE.

Glaciation Effects on the Phylogeographic Structure of Oligoryzomys longicaudatus (Rodentia: Sigmodontinae) in the Southern Andes

PubMed Central

Palma, R. Eduardo; Boric-Bargetto, Dusan; Torres-Pérez, Fernando; Hernández, Cristián E.; Yates, Terry L.

2012-01-01

The long-tailed pygmy rice rat Oligoryzomys longicaudatus (Sigmodontinae), the major reservoir of Hantavirus in Chile and Patagonian Argentina, is widely distributed in the Mediterranean, Temperate and Patagonian Forests of Chile, as well as in adjacent areas in southern Argentina. We used molecular data to evaluate the effects of the last glacial event on the phylogeographic structure of this species. We examined if historical Pleistocene events had affected genetic variation and spatial distribution of this species along its distributional range. We sampled 223 individuals representing 47 localities along the species range, and sequenced the hypervariable domain I of the mtDNA control region. Aligned sequences were analyzed using haplotype network, Bayesian population structure and demographic analyses. Analysis of population structure and the haplotype network inferred three genetic clusters along the distribution of O. longicaudatus that mostly agreed with the three major ecogeographic regions in Chile: Mediterranean, Temperate Forests and Patagonian Forests. Bayesian Skyline Plots showed constant population sizes through time in all three clusters followed by an increase after and during the Last Glacial Maximum (LGM; between 26,000–13,000 years ago). Neutrality tests and the “g” parameter also suggest that populations of O. longicaudatus experienced demographic expansion across the species entire range. Past climate shifts have influenced population structure and lineage variation of O. longicaudatus. This species remained in refugia areas during Pleistocene times in southern Temperate Forests (and adjacent areas in Patagonia). From these refugia, O. longicaudatus experienced demographic expansions into Patagonian Forests and central Mediterranean Chile using glacial retreats. PMID:22396751

Inverse Compton Scattering in Mildly Relativistic Plasma

NASA Technical Reports Server (NTRS)

Molnar, S. M.; Birkinshaw, M.

1998-01-01

We investigated the effect of inverse Compton scattering in mildly relativistic static and moving plasmas with low optical depth using Monte Carlo simulations, and calculated the Sunyaev-Zel'dovich effect in the cosmic background radiation. Our semi-analytic method is based on a separation of photon diffusion in frequency and real space. We use Monte Carlo simulation to derive the intensity and frequency of the scattered photons for a monochromatic incoming radiation. The outgoing spectrum is determined by integrating over the spectrum of the incoming radiation using the intensity to determine the correct weight. This method makes it possible to study the emerging radiation as a function of frequency and direction. As a first application we have studied the effects of finite optical depth and gas infall on the Sunyaev-Zel'dovich effect (not possible with the extended Kompaneets equation) and discuss the parameter range in which the Boltzmann equation and its expansions can be used. For high temperature clusters (k(sub B)T(sub e) greater than or approximately equal to 15 keV) relativistic corrections based on a fifth order expansion of the extended Kompaneets equation seriously underestimate the Sunyaev-Zel'dovich effect at high frequencies. The contribution from plasma infall is less important for reasonable velocities. We give a convenient analytical expression for the dependence of the cross-over frequency on temperature, optical depth, and gas infall speed. Optical depth effects are often more important than relativistic corrections, and should be taken into account for high-precision work, but are smaller than the typical kinematic effect from cluster radial velocities.

Analysis of Copy Number Variation in the Abp Gene Regions of Two House Mouse Subspecies Suggests Divergence during the Gene Family Expansions

PubMed Central

Pezer, Željka; Chung, Amanda G.; Karn, Robert C.

2017-01-01

Abstract The Androgen-binding protein (Abp) gene region of the mouse genome contains 64 genes, some encoding pheromones that influence assortative mating between mice from different subspecies. Using CNVnator and quantitative PCR, we explored copy number variation in this gene family in natural populations of Mus musculus domesticus (Mmd) and Mus musculus musculus (Mmm), two subspecies of house mice that form a narrow hybrid zone in Central Europe. We found that copy number variation in the center of the Abp gene region is very common in wild Mmd, primarily representing the presence/absence of the final duplications described for the mouse genome. Clustering of Mmd individuals based on this variation did not reflect their geographical origin, suggesting no population divergence in the Abp gene cluster. However, copy number variation patterns differ substantially between Mmd and other mouse taxa. Large blocks of Abp genes are absent in Mmm, Mus musculus castaneus and an outgroup, Mus spretus, although with differences in variation and breakpoint locations. Our analysis calls into question the reliance on a reference genome for interpreting the detailed organization of genes in taxa more distant from the Mmd reference genome. The polymorphic nature of the gene family expansion in all four taxa suggests that the number of Abp genes, especially in the central gene region, is not critical to the survival and reproduction of the mouse. However, Abp haplotypes of variable length may serve as a source of raw genetic material for new signals influencing reproductive communication and thus speciation of mice. PMID:28575204

Glaciation effects on the phylogeographic structure of Oligoryzomys longicaudatus (Rodentia: Sigmodontinae) in the southern Andes.

PubMed

Palma, R Eduardo; Boric-Bargetto, Dusan; Torres-Pérez, Fernando; Hernández, Cristián E; Yates, Terry L

2012-01-01

The long-tailed pygmy rice rat Oligoryzomys longicaudatus (Sigmodontinae), the major reservoir of Hantavirus in Chile and Patagonian Argentina, is widely distributed in the Mediterranean, Temperate and Patagonian Forests of Chile, as well as in adjacent areas in southern Argentina. We used molecular data to evaluate the effects of the last glacial event on the phylogeographic structure of this species. We examined if historical Pleistocene events had affected genetic variation and spatial distribution of this species along its distributional range. We sampled 223 individuals representing 47 localities along the species range, and sequenced the hypervariable domain I of the mtDNA control region. Aligned sequences were analyzed using haplotype network, bayesian population structure and demographic analyses. Analysis of population structure and the haplotype network inferred three genetic clusters along the distribution of O. longicaudatus that mostly agreed with the three major ecogeographic regions in Chile: Mediterranean, Temperate Forests and Patagonian Forests. Bayesian Skyline Plots showed constant population sizes through time in all three clusters followed by an increase after and during the Last Glacial Maximum (LGM; between 26,000-13,000 years ago). Neutrality tests and the "g" parameter also suggest that populations of O. longicaudatus experienced demographic expansion across the species entire range. Past climate shifts have influenced population structure and lineage variation of O. longicaudatus. This species remained in refugia areas during Pleistocene times in southern Temperate Forests (and adjacent areas in Patagonia). From these refugia, O. longicaudatus experienced demographic expansions into Patagonian Forests and central Mediterranean Chile using glacial retreats.

Ab initio investigation of Ti2Al(C,N) solid solutions

NASA Astrophysics Data System (ADS)

Arróyave, Raymundo; Radovic, Miladin

2011-10-01

Mn+1AXn phases (M: early transition metal, A: IIIA- or IVA-group element, X: carbon or nitrogen) are layered ternary compounds that possess both metal- and ceramic-like properties with numerous potential applications in bulk and thin film forms, particularly under high-temperature conditions. In this work, we use the cluster expansion formalism to investigate the energetics of C-N interactions across the entire Ti2AlC-Ti2AlN composition range. It is shown that there is a definite tendency for ordering in the C,N sublattice. However, the molar volume and bulk modulus of the ordered structures found along the Ti2AlC-Ti2AlN composition range show small deviations from the (linear) rule of mixing, indicating that despite the ordering tendencies, the C-N interactions are not strong and the solution becomes disordered at relatively low temperatures. Random solid solutions of Ti2AlC1-xNx are simulated using special quasirandom structures (SQS) with x=0.25, 0.50, and 0.75. The thermodynamic properties of these structures are compared to those of the structures found to belong to the ground state through the cluster expansion approach. It is found that the structural properties of these approximations to random alloys do not deviate significantly from Vegard's law. The trend in the structural parameters of these SQS are found to agree well with available experimental data and the predictions of the bulk modulus suggest a very weak alloying effect—with respect to Vegard's law—on the elastic properties of Ti2AlC1-xNx.

Study on the mapping of dark matter clustering from real space to redshift space

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

Zheng, Yi; Song, Yong-Seon, E-mail: yizheng@kasi.re.kr, E-mail: ysong@kasi.re.kr

The mapping of dark matter clustering from real space to redshift space introduces the anisotropic property to the measured density power spectrum in redshift space, known as the redshift space distortion effect. The mapping formula is intrinsically non-linear, which is complicated by the higher order polynomials due to indefinite cross correlations between the density and velocity fields, and the Finger-of-God effect due to the randomness of the peculiar velocity field. Whilst the full higher order polynomials remain unknown, the other systematics can be controlled consistently within the same order truncation in the expansion of the mapping formula, as shown inmore » this paper. The systematic due to the unknown non-linear density and velocity fields is removed by separately measuring all terms in the expansion directly using simulations. The uncertainty caused by the velocity randomness is controlled by splitting the FoG term into two pieces, 1) the ''one-point' FoG term being independent of the separation vector between two different points, and 2) the ''correlated' FoG term appearing as an indefinite polynomials which is expanded in the same order as all other perturbative polynomials. Using 100 realizations of simulations, we find that the Gaussian FoG function with only one scale-independent free parameter works quite well, and that our new mapping formulation accurately reproduces the observed 2-dimensional density power spectrum in redshift space at the smallest scales by far, up to k ∼ 0.2 Mpc{sup -1}, considering the resolution of future experiments.« less

Genomic analysis reveals extensive gene duplication within the bovine TRB locus

PubMed Central

Connelley, Timothy; Aerts, Jan; Law, Andy; Morrison, W Ivan

2009-01-01

Background Diverse TR and IG repertoires are generated by V(D)J somatic recombination. Genomic studies have been pivotal in cataloguing the V, D, J and C genes present in the various TR/IG loci and describing how duplication events have expanded the number of these genes. Such studies have also provided insights into the evolution of these loci and the complex mechanisms that regulate TR/IG expression. In this study we analyze the sequence of the third bovine genome assembly to characterize the germline repertoire of bovine TRB genes and compare the organization, evolution and regulatory structure of the bovine TRB locus with that of humans and mice. Results The TRB locus in the third bovine genome assembly is distributed over 5 scaffolds, extending to ~730 Kb. The available sequence contains 134 TRBV genes, assigned to 24 subgroups, and 3 clusters of DJC genes, each comprising a single TRBD gene, 5–7 TRBJ genes and a single TRBC gene. Seventy-nine of the TRBV genes are predicted to be functional. Comparison with the human and murine TRB loci shows that the gene order, as well as the sequences of non-coding elements that regulate TRB expression, are highly conserved in the bovine. Dot-plot analyses demonstrate that expansion of the genomic TRBV repertoire has occurred via a complex and extensive series of duplications, predominantly involving DNA blocks containing multiple genes. These duplication events have resulted in massive expansion of several TRBV subgroups, most notably TRBV6, 9 and 21 which contain 40, 35 and 16 members respectively. Similarly, duplication has lead to the generation of a third DJC cluster. Analyses of cDNA data confirms the diversity of the TRBV genes and, in addition, identifies a substantial number of TRBV genes, predominantly from the larger subgroups, which are still absent from the genome assembly. The observed gene duplication within the bovine TRB locus has created a repertoire of phylogenetically diverse functional TRBV genes, which is substantially larger than that described for humans and mice. Conclusion The analyses completed in this study reveal that, although the gene content and organization of the bovine TRB locus are broadly similar to that of humans and mice, multiple duplication events have led to a marked expansion in the number of TRB genes. Similar expansions in other ruminant TR loci suggest strong evolutionary pressures in this lineage have selected for the development of enlarged sets of TR genes that can contribute to diverse TR repertoires. PMID:19393068

Experimental and theoretical study of the microsolvation of sodium atoms in methanol clusters: differences and similarities to sodium-water and sodium-ammonia.

PubMed

Dauster, Ingo; Suhm, Martin A; Buck, Udo; Zeuch, Thomas

2008-01-07

Methanol clusters are generated in a continuous He-seeded supersonic expansion and doped with sodium atoms in a pick-up cell. By this method, clusters of the type Na(CH(3)OH)(n) are formed and subsequently photoionized by applying a tunable dye-laser system. The microsolvation process of the Na 3s electron is studied by determining the ionization potentials (IPs) of these clusters size-selectively for n = 2-40. A decrease is found from n = 2 to 6 and a constant value of 3.19 +/- 0.07 eV for n = 6-40. The experimentally-determined ionization potentials are compared with ionization potentials derived from quantum-chemical calculations, assuming limiting vertical and adiabatic processes. In the first case, energy differences are calculated between the neutral and the ionized cationic clusters of the same geometry. In the second case, the ionized clusters are used in their optimized relaxed geometry. These energy differences and relative stabilities of isomeric clusters vary significantly with the applied quantum-chemical method (B3LYP or MP2). The comparison with the experiment for n = 2-7 reveals strong variations of the ionization potential with the cluster structure indicating that structural diversity and non-vertical pathways give significant signal contributions at the threshold. Based on these findings, a possible explanation for the remarkable difference in IP evolutions of methanol or water and ammonia is presented: for methanol and water a rather localized surface or semi-internal Na 3s electron is excited to either high Rydberg or more localized states below the vertical ionization threshold. This excitation is followed by a local structural relaxation that couples to an autoionization process. For small clusters with n < 6 for methanol and n < 4 for water the addition of solvent molecules leads to larger solvent-metal-ion interaction energies, which consequently lead to lower ionization thresholds. For n = 6 (methanol) and n = 4 (water) this effect comes to a halt, which may be connected with the completion of the first cationic solvation shell limiting the release of local relaxation energy. For Na(NH(3))(n), a largely delocalized and internal electron is excited to autoionizing electronic states, a process that is no longer local and consequently may depend on cluster size up to very large n.

Impact of gas backing pressure and geometry of conical nozzle on the formation of methane clusters in supersonic jets.

PubMed

Lu, Haiyang; Chen, Guanglong; Ni, Guoquan; Li, Ruxin; Xu, Zhizhan

2010-01-14

We present an experimental investigation of the dependence of the production of large methane clusters on the cluster source conditions. The clusters were produced at room temperature through supersonic expansion of methane gas at the backing pressures P(0) ranging from 10 to 84 bar using five conical nozzles of different geometries. The cluster size was characterized by Rayleigh scattering measurements and calibrated with Coulomb explosion of the clusters at P(0) = 44 bar subjected to an ultraintense laser pulse. A quantitative evaluation of the performance of the conical nozzles against the nozzle geometry and the backing pressure was made by introducing a parameter delta. Differ from the idealized case where the performance of the conical nozzle can be described by the equivalent sonic nozzle of diameter d(eq), in the present work, the "effective equivalent sonic-nozzle diameter" of the conical nozzle defined by d(eq)* = deltad(eq) is introduced. delta represents the deviation of the performance in cluster formation of the conical nozzles from that predicted on the basis of the concept of the equivalent diameter d(eq) = d/tan alpha, with d being the throat diameter, and alpha the half-opening angle of the conical nozzle. Experimental results show that the cluster growth process will be restricted when the gas backing pressure P(0) is higher and/or d/tan alpha of the conical nozzle becomes larger, resulting in smaller delta. From the experimental data, delta can be expressed by an empirical relation delta = A/[P(0)(B)(d/tan alpha)(1.36)], where A = 8.4 and B = 0.26 for 24 bar

Understanding Dark Energy

NASA Astrophysics Data System (ADS)

Greyber, Howard

2009-11-01

By careful analysis of the data from the WMAP satellite, scientists were surprised to determine that about 70% of the matter in our universe is in some unknown form, and labeled it Dark Energy. Earlier, in 1998, two separate international groups of astronomers studying Ia supernovae were even more surprised to be forced to conclude that an amazing smooth transition occurred, from the expected slowing down of the expansion of our universe (due to normal positive gravitation) to an accelerating expansion of the universe that began at at a big bang age of the universe of about nine billion years. In 1918 Albert Einstein stated that his Lambda term in his theory of general relativity was ees,``the energy of empty space,'' and represented a negative pressure and thus a negative gravity force. However my 2004 ``Strong'' Magnetic Field model (SMF) for the origin of magnetic fields at Combination Time (Astro-ph0509223 and 0509222) in our big bang universe produces a unique topology for Superclusters, having almost all the mass, visible and invisible, i.e. from clusters of galaxies down to particles with mass, on the surface of an ellipsoid surrounding a growing very high vacuum. If I hypothesize, with Einstein, that there exists a constant ees force per unit volume, then, gradually, as the universe expands from Combination Time, two effects occur (a) the volume of the central high vacuum region increases, and (b) the density of positive gravity particles in the central region of each Supercluster in our universe decreases dramatically. Thus eventually Einstein's general relativity theory's repulsive gravity of the central very high vacuum region becomes larger than the positive gravitational attraction of all the clusters of galaxies, galaxies, quasars, stars and plasma on the Supercluster shell, and the observed accelerating expansion of our universe occurs. This assumes that our universe is made up mostly of such Superclusters. It is conceivable that the high vacuum region between Superclusters also plays a role in adding extra repulsive gravity force. Note that cosmologist Stephen Hawking comments on his website that ``There is no reason to rule out negative pressure. This is just tension.''

Furrow microtubules and localized exocytosis in cleaving Xenopus laevis embryos

NASA Technical Reports Server (NTRS)

Danilchik, Michael V.; Bedrick, Steven D.; Brown, Elizabeth E.; Ray, Kimberly

2003-01-01

In dividing Xenopus eggs, furrowing is accompanied by expansion of a new domain of plasma membrane in the cleavage plane. The source of the new membrane is known to include a store of oogenetically produced exocytotic vesicles, but the site where their exocytosis occurs has not been described. Previous work revealed a V-shaped array of microtubule bundles at the base of advancing furrows. Cold shock or exposure to nocodazole halted expansion of the new membrane domain, which suggests that these microtubules are involved in the localized exocytosis. In the present report, scanning electron microscopy revealed collections of pits or craters, up to approximately 1.5 micro m in diameter. These pits are evidently fusion pores at sites of recent exocytosis, clustered in the immediate vicinity of the deepening furrow base and therefore near the furrow microtubules. Confocal microscopy near the furrow base of live embryos labeled with the membrane dye FM1-43 captured time-lapse sequences of individual exocytotic events in which irregular patches of approximately 20 micro m(2) of unlabeled membrane abruptly displaced pre-existing FM1-43-labeled surface. In some cases, stable fusion pores, approximately 2 micro m in diameter, were seen at the surface for up to several minutes before suddenly delivering patches of unlabeled membrane. To test whether the presence of furrow microtubule bundles near the surface plays a role in directing or concentrating this localized exocytosis, membrane expansion was examined in embryos exposed to D(2)O to induce formation of microtubule monasters randomly under the surface. D(2)O treatment resulted in a rapid, uniform expansion of the egg surface via random, ectopic exocytosis of vesicles. This D(2)O-induced membrane expansion was completely blocked with nocodazole, indicating that the ectopic exocytosis was microtubule-dependent. Results indicate that exocytotic vesicles are present throughout the egg subcortex, and that the presence of microtubules near the surface is sufficient to mobilize them for exocytosis at the end of the cell cycle.

Technological innovation in neurosurgery: a quantitative study.

PubMed

Marcus, Hani J; Hughes-Hallett, Archie; Kwasnicki, Richard M; Darzi, Ara; Yang, Guang-Zhong; Nandi, Dipankar

2015-07-01

Technological innovation within health care may be defined as the introduction of a new technology that initiates a change in clinical practice. Neurosurgery is a particularly technology-intensive surgical discipline, and new technologies have preceded many of the major advances in operative neurosurgical techniques. The aim of the present study was to quantitatively evaluate technological innovation in neurosurgery using patents and peer-reviewed publications as metrics of technology development and clinical translation, respectively. The authors searched a patent database for articles published between 1960 and 2010 using the Boolean search term "neurosurgeon OR neurosurgical OR neurosurgery." The top 50 performing patent codes were then grouped into technology clusters. Patent and publication growth curves were then generated for these technology clusters. A top-performing technology cluster was then selected as an exemplar for a more detailed analysis of individual patents. In all, 11,672 patents and 208,203 publications related to neurosurgery were identified. The top-performing technology clusters during these 50 years were image-guidance devices, clinical neurophysiology devices, neuromodulation devices, operating microscopes, and endoscopes. In relation to image-guidance and neuromodulation devices, the authors found a highly correlated rapid rise in the numbers of patents and publications, which suggests that these are areas of technology expansion. An in-depth analysis of neuromodulation-device patents revealed that the majority of well-performing patents were related to deep brain stimulation. Patent and publication data may be used to quantitatively evaluate technological innovation in neurosurgery.

The near-infrared Tully-Fisher relation - A preliminary study of the Coma and Abell 400 clusters

NASA Technical Reports Server (NTRS)

Guhathakurta, Puragra; Bernstein, Gary; Raychaudhury, Somak; Haynes, Martha; Giovanelli, Riccardo; Herter, Terry; Vogt, Nicole

1993-01-01

We have started a large project to study the NIR Tully-Fisher (TF) relation using H- and I-band surface photometry of spiral galaxies. A preliminary study of 20 spirals in the Coma and Abell 400 clusters is presented. The NIR images have been used to derive accurate inclinations and total magnitudes, and rotational linewidths are measured from high-quality 21-cm Arecibo data. The scatter in the Coma TF plot is found to be 0.19 mag in the H band and 0.20 mag in the I band for a set of 13 galaxies, if we assume that they are all at the same distance. The deviation of the Coma galaxies from the best-fit Tully-Fisher relation is correlated with their redshift, indicating that some of the galaxies are not bound to the cluster. Indeed, if we treat all the galaxies in the Coma sample as undergoing free Hubble expansion, the TF scatter drops to 0.12 and 0.13 mag for the H- and I-band datasets, respectively. The Abell 400 sample is best fit by a common distance model, yielding a scatter of 0.12 mag for seven galaxies in H using a fixed TF slope. We are in the process of studying cluster and field spirals out to about 10,000 km/s in order to calibrate the NIR TF relation and will apply it to more nearby galaxies to measure the peculiar velocity field in the local universe.

Postglacial recolonization history of the European crabapple (Malus sylvestris Mill.), a wild contributor to the domesticated apple.

PubMed

Cornille, A; Giraud, T; Bellard, C; Tellier, A; Le Cam, B; Smulders, M J M; Kleinschmit, J; Roldan-Ruiz, I; Gladieux, P

2013-04-01

Understanding the way in which the climatic oscillations of the Quaternary Period have shaped the distribution and genetic structure of extant tree species provides insight into the processes driving species diversification, distribution and survival. Deciphering the genetic consequences of past climatic change is also critical for the conservation and sustainable management of forest and tree genetic resources, a timely endeavour as the Earth heads into a period of fast climate change. We used a combination of genetic data and ecological niche models to investigate the historical patterns of biogeographic range expansion of a wild fruit tree, the European crabapple (Malus sylvestris), a wild contributor to the domesticated apple. Both climatic predictions for the last glacial maximum and analyses of microsatellite variation indicated that M. sylvestris experienced range contraction and fragmentation. Bayesian clustering analyses revealed a clear pattern of genetic structure, with one genetic cluster spanning a large area in Western Europe and two other genetic clusters with a more limited distribution range in Eastern Europe, one around the Carpathian Mountains and the other restricted to the Balkan Peninsula. Approximate Bayesian computation appeared to be a powerful technique for inferring the history of these clusters, supporting a scenario of simultaneous differentiation of three separate glacial refugia. Admixture between these three populations was found in their suture zones. A weak isolation by distance pattern was detected within each population, indicating a high extent of historical gene flow for the European crabapple. © 2013 Blackwell Publishing Ltd.

Grand unification scale primordial black holes: consequences and constraints.

PubMed

Anantua, Richard; Easther, Richard; Giblin, John T

2009-09-11

A population of very light primordial black holes which evaporate before nucleosynthesis begins is unconstrained unless the decaying black holes leave stable relics. We show that gravitons Hawking radiated from these black holes would source a substantial stochastic background of high frequency gravititational waves (10(12) Hz or more) in the present Universe. These black holes may lead to a transient period of matter-dominated expansion. In this case the primordial Universe could be temporarily dominated by large clusters of "Hawking stars" and the resulting gravitational wave spectrum is independent of the initial number density of primordial black holes.

Proceedings of the Chemical Research and Development Center’s Scientific Conference on Obscuration and Aerosol Research (1984) Held on 25-29 June 1984 at Aberdeen Proving Ground, Maryland.

DTIC Science & Technology

1985-06-01

early enough in the expansion to effect cluster growth. The gas-phase heat of dinerisation of sulfur dioxide is determined to be 4.3 t 0.3 kcal/mole...tubing and a roundbottom flask; the total volume is approximately one liter; heating is performed resistively. The temperature in the chamber is...noszles were used in the experiments ranging frou 100 to 300 us in diameter. These A vere convergent glass tubes that incorporated an annular heating

Non-gaussian statistics of pencil beam surveys

NASA Technical Reports Server (NTRS)

Amendola, Luca

1994-01-01

We study the effect of the non-Gaussian clustering of galaxies on the statistics of pencil beam surveys. We derive the probability from the power spectrum peaks by means of Edgeworth expansion and find that the higher order moments of the galaxy distribution play a dominant role. The probability of obtaining the 128 Mpc/h periodicity found in pencil beam surveys is raised by more than one order of magnitude, up to 1%. Further data are needed to decide if non-Gaussian distribution alone is sufficient to explain the 128 Mpc/h periodicity, or if extra large-scale power is necessary.

Perturbation theory of nuclear matter with a microscopic effective interaction

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

Benhar, Omar; Lovato, Alessandro

Here, an updated and improved version of the effective interaction based on the Argonne-Urbana nuclear Hamiltonian, derived using the formalism of correlated basis functions and the cluster expansion technique, is employed to obtain a number of properties of cold nuclear matter at arbitrary neutron excess within the formalism of many-body perturbation theory. The numerical results, including the ground-state energy per nucleon, the symmetry energy, the pressure, the compressibility, and the single-particle spectrum, are discussed in the context of the available empirical information, obtained from measured nuclear properties and heavy-ion collisions.

Perturbation theory of nuclear matter with a microscopic effective interaction

DOE PAGES

Benhar, Omar; Lovato, Alessandro

2017-11-01

Here, an updated and improved version of the effective interaction based on the Argonne-Urbana nuclear Hamiltonian, derived using the formalism of correlated basis functions and the cluster expansion technique, is employed to obtain a number of properties of cold nuclear matter at arbitrary neutron excess within the formalism of many-body perturbation theory. The numerical results, including the ground-state energy per nucleon, the symmetry energy, the pressure, the compressibility, and the single-particle spectrum, are discussed in the context of the available empirical information, obtained from measured nuclear properties and heavy-ion collisions.

Chromospheres and mass loss in metal-deficient giant stars

NASA Technical Reports Server (NTRS)

Dupree, A. K.; Hartmann, L.; Avrett, E. H.

1984-01-01

Semiempirical atmospheric models indicate that the characteristic emission in the wings of the H-alpha line observed in Population II giant stars can arise naturally within static chromospheres. Radial expansion gives an asymmetric, blueshifted H-alpha core accompanied by greater emission in the red line wing than in the blue wing. Wind models with extended atmospheres suggest mass loss rates much smaller than 2 x 10 to the -9th solar mass per yr. Thus H-alpha provides no evidence that steady mass loss can significantly affect the evolution of stars on the red giant branch of globular clusters.

Strategies for achieving sustained competitive advantage.

PubMed

Schlosser, J R

1987-06-01

Sound strategic planning, even in the midst of unprecedented uncertainty and turmoil, is a critical element of every successful health care organization's action plan. The author examines how one organization has responded to the changing demands of the marketplace and a dramatically changed reimbursement system through appropriate strategic planning, selective downsizing on certain fronts and new product development expansion on others. The result is an organization molded to the new environment. It is no longer based on an illness-model hospital but rather focuses on a vertically integrated multi-health cluster intent on capturing market share by providing a single source continuum of health care.

Quantum Quenches and Relaxation Dynamics in the Thermodynamic Limit

NASA Astrophysics Data System (ADS)

Mallayya, Krishnanand; Rigol, Marcos

2018-02-01

We implement numerical linked cluster expansions (NLCEs) to study dynamics of lattice systems following quantum quenches, and focus on a hard-core boson model in one-dimensional lattices. We find that, in the nonintegrable regime and within the accessible times, local observables exhibit exponential relaxation. We determine the relaxation rate as one departs from the integrable point and show that it scales quadratically with the strength of the integrability breaking perturbation. We compare the NLCE results with those from exact diagonalization calculations on finite chains with periodic boundary conditions, and show that NLCEs are far more accurate.

Dielectric response in Bloch’s hydrodynamic model of an electron-ion plasma

NASA Astrophysics Data System (ADS)

Ishikawa, K.; Felderhof, B. U.

The linear response of an electron-ion plasma to an applied oscillating electric field is studied within the framework of Bloch’s classical hydrodynamic model. The ions are assumed to be fixed in space and distributed according to a known probability distribution. The linearized equations of motion for electron density and flow velocity are studied with the aid of a multiple scattering analysis and cluster expansion. This allows systematic reduction of the many-ion problem to a composition of few-ion problems, and shows how the longitudinal dielectric response function can in principle be calculated.

The phenetic structure of Aedes albopictus.

PubMed

Morales Vargas, Ronald Enrique; Phumala-Morales, Noppawan; Tsunoda, Takashi; Apiwathnasorn, Chamnan; Dujardin, Jean-Pierre

2013-01-01

The large and recent migrations of the main vector of the Chikungunya virus, Aedes albopictus, raise questions about the epidemiological impact of possible microevolutionary changes in new territories. Quantitative traits are suitable to detect such changes as induced by environmental adaptations, local competition and founder effects. Using landmark-based geometric morphometrics, we compared the size and shape of 22 populations (1572 females) of Ae. albopictus. The collection sites covered five countries around the world, with special emphasis on Asia, which is assumed to be the origin of the vector. Some collections came from places where an important epidemic outbreak of Chikungunya has recently occurred. Quantitative comparisons were based on 18 anatomical landmarks on the wing. To contrast geographic and possible interspecific shape variation, close species were introduced in the sample, namely five Aedes riversi and nine Ae. flavopictus from Japan. The three species had similar size, but they were clearly separated by shape. Within Ae. albopictus, there was general agreement on size variation with the available climatic data. Shape variation was less related to climatic data than to either geography or a known itinerary of past territorial expansion. Thus, two main clusters were distinguished by wing shape variation: the first one composed of the Southeast Asian sample, the second one grouping Japan, Florida, Hawaii and the Reunion Island samples. The Southeast Asian countries, assumed to be at the origin of the geographic expansion of the mosquito, had similar wings and constituted a distinct group where localities clustered into northern and southern localities. Contrasting with this homogeneous group, very distant localities such as United States (US) and Japan shared a common shape pattern. The US Ae. albopictus samples (Hawaii and Florida) were indeed very similar to the Japanese samples, with Florida behaving exactly like a northern Japanese locality, close to Tokyo and Yokohama. Shape proximity among these distant areas could be explained by a common and relatively recent ancestor, as generally suggested in the literature. The three Reunion Island samples conformed a group external to the Southeast Asian countries, loosely connected to the remaining localities. Thus, areas where recent epidemics took place, the Reunion Island and the southernmost localities of Thailand, did not cluster together, but represented separate groups. In sum, the size of the wing was apparently under the influence of climatic factors, while its shape could contribute information on species and geographic differences. Apparent departures from expectations based on geography were explained by known past and present migratory routes. These patterns of shape variation were compatible with genetic drift, suggesting microevolutionary changes probably induced by the expansion of the Ae. albopictus mosquito. Copyright © 2012 Elsevier B.V. All rights reserved.

The population of submillimeter galaxies and its impact on the detection of the Sunyaev-Zel'Dovich Effect

NASA Astrophysics Data System (ADS)

Downes, Thomas Patrick

The population of submillimeter galaxies (SMGs) informs models of the formation of structure in the universe. It is likely that SMGs are the progenitors of systems like the Milky Way because their spectra imply the high star formation rates necessary to form the requisite number of stars. Until recently millimeter/submillimeter experiments did not have the sensitivity to image both wide and deep to distinguish between competing models of galaxy evolution. AzTEC is an array instrument operating at 1.1mm that has the necessary sensitivity and dedicated telescope time and has begun making groundbreaking contributions to the field. Furthermore, SMGs are an expected foreground to the detection of the Sunyaev-Zel'dovich Effect (SZE) in clusters of galaxies. In particular, at wavelengths longer than 1.4mm the positive flux of SMGs below an instrument's sensitivity threshold will counteract the decrement expected from the SZE. The detection of galaxy clusters is a promising approach to understanding the expansion history of the universe and putting constraints on s 8 as well as on the properties the dark energy. We present below the results of an analysis of AzTEC surveys for SMGs in galaxy cluster environments as well as "blank" fields far away from clusters. We compare the two results and those of previous surveys and estimate their implications for the ability of a blind survey at 2mm to detect the SZE in clusters. We find that the noise contributions of SMGs to SZE detection are small compared to the sensitivity of existing surveys, such as that of the South Pole Telescope.

Identifying nearby field T dwarfs in the UKIDSS Galactic Clusters Survey

NASA Astrophysics Data System (ADS)

Lodieu, N.; Burningham, B.; Hambly, N. C.; Pinfield, D. J.

2009-07-01

We present the discovery of two new late-T dwarfs identified in the UKIRT Infrared Deep Sky Survey (UKIDSS) Galactic Clusters Survey (GCS) Data Release 2 (DR2). These T dwarfs are nearby old T dwarfs along the line of sight to star-forming regions and open clusters targeted by the UKIDSS GCS. They are found towards the αPer cluster and Orion complex, respectively, from a search in 54deg2 surveyed in five filters. Photometric candidates were picked up in two-colour diagrams, in a very similar manner to candidates extracted from the UKIDSS Large Area Survey (LAS) but taking advantage of the Z filter employed by the GCS. Both candidates exhibit near-infrared J-band spectra with strong methane and water absorption bands characteristic of late-T dwarfs. We derive spectral types of T6.5 +/- 0.5 and T7 +/- 1 and estimate photometric distances less than 50 pc for UGCS J030013.86+490142.5 and UGCS J053022.52-052447.4, respectively. The space density of T dwarfs found in the GCS seems consistent with discoveries in the larger areal coverage of the UKIDSS LAS, indicating one T dwarf in 6-11deg2. The final area surveyed by the GCS, 1000deg2 in five passbands, will allow expansion of the LAS search area by 25 per cent, increase the probability of finding ultracool brown dwarfs, and provide optimal estimates of contamination by old field brown dwarfs in deep surveys to identify such objects in open clusters and star-forming regions. Based on observations made with the United Kingdom Infrared Telescope, operated by the Joint Astronomy Centre on behalf of the U.K. Science Technology and Facility Council. E-mail: nlodieu@iac.es

Application of Hermitian time-dependent coupled-cluster response Ansätze of second order to excitation energies and frequency-dependent dipole polarizabilities

NASA Astrophysics Data System (ADS)

Wälz, Gero; Kats, Daniel; Usvyat, Denis; Korona, Tatiana; Schütz, Martin

2012-11-01

Linear-response methods, based on the time-dependent variational coupled-cluster or the unitary coupled-cluster model, and truncated at the second order according to the Møller-Plesset partitioning, i.e., the TD-VCC[2] and TD-UCC[2] linear-response methods, are presented and compared. For both of these methods a Hermitian eigenvalue problem has to be solved to obtain excitation energies and state eigenvectors. The excitation energies thus are guaranteed always to be real valued, and the eigenvectors are mutually orthogonal, in contrast to response theories based on “traditional” coupled-cluster models. It turned out that the TD-UCC[2] working equations for excitation energies and polarizabilities are equivalent to those of the second-order algebraic diagrammatic construction scheme ADC(2). Numerical tests are carried out by calculating TD-VCC[2] and TD-UCC[2] excitation energies and frequency-dependent dipole polarizabilities for several test systems and by comparing them to the corresponding values obtained from other second- and higher-order methods. It turns out that the TD-VCC[2] polarizabilities in the frequency regions away from the poles are of a similar accuracy as for other second-order methods, as expected from the perturbative analysis of the TD-VCC[2] polarizability expression. On the other hand, the TD-VCC[2] excitation energies are systematically too low relative to other second-order methods (including TD-UCC[2]). On the basis of these results and an analysis presented in this work, we conjecture that the perturbative expansion of the Jacobian converges more slowly for the TD-VCC formalism than for TD-UCC or for response theories based on traditional coupled-cluster models.

MASS OUTFLOW AND CHROMOSPHERIC ACTIVITY OF RED GIANT STARS IN GLOBULAR CLUSTERS. II. M13 AND M92

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

Meszaros, Sz.; Dupree, A. K.; Szalai, T.

High-resolution spectra of 123 red giant stars in the globular cluster M13 and 64 red giant stars in M92 were obtained with Hectochelle at the MMT telescope. Emission and line asymmetries in H{alpha} and Ca II K are identified, characterizing motions in the extended atmospheres and seeking differences attributable to metallicity in these clusters and M15. On the red giant branch, emission in H{alpha} generally appears in stars with T {sub eff} {approx}< 4500 K and log L/L {sub sun}{approx}> 2.75. Fainter stars showing emission are asymptotic giant branch (AGB) stars or perhaps binary stars. The line-bisector for H{alpha} revealsmore » the onset of chromospheric expansion in stars more luminous than log (L/L {sub sun}) {approx} 2.5 in all clusters, and this outflow velocity increases with stellar luminosity. However, the coolest giants in the metal-rich M13 show greatly reduced outflow in H{alpha} most probably due to decreased T {sub eff} and changing atmospheric structure. The Ca II K{sub 3} outflow velocities are larger than shown by H{alpha} at the same luminosity and signal accelerating outflows in the chromospheres. Stars clearly on the AGB show faster chromospheric outflows in H{alpha} than RGB objects. While the H{alpha} velocities on the RGB are similar for all metallicities, the AGB stars in the metal-poor M15 and M92 have higher outflow velocities than in the metal-rich M13. Comparison of these chromospheric line profiles in the paired metal-poor clusters, M15 and M92, shows remarkable similarities in the presence of emission and dynamical signatures, and does not reveal a source of the 'second-parameter' effect.« less

Defined, serum/feeder-free conditions for expansion and drug screening of primary B-acute lymphoblastic leukemia.

PubMed

Jiang, Zhiwu; Wu, Di; Ye, Wei; Weng, Jianyu; Lai, Peilong; Shi, Pengcheng; Guo, Xutao; Huang, Guohua; Deng, Qiuhua; Tang, Yanlai; Zhao, Hongyu; Cui, Shuzhong; Lin, Simiao; Wang, Suna; Li, Baiheng; Wu, Qiting; Li, Yangqiu; Liu, Pentao; Pei, Duanqing; Du, Xin; Yao, Yao; Li, Peng

2017-12-05

Functional screening for compounds represents a major hurdle in the development of rational therapeutics for B-acute lymphoblastic leukemia (B-ALL). In addition, using cell lines as valid models for evaluating responses to novel drug therapies raises serious concerns, as cell lines are prone to genotypic/phenotypic drift and loss of heterogeneity in vitro . Here, we reported that OP9 cells, not OP9-derived adipocytes (OP9TA), support the growth of primary B-ALL cells in vitro . To identify the factors from OP9 cells that support the growth of primary B-ALL cells, we performed RNA-Seq to analyze the gene expression profiles of OP9 and OP9TA cells. We thus developed a defined, serum/feeder-free condition (FI76V) that can support the expansion of a range of clinically distinct primary B-ALL cells that still maintain their leukemia-initiating ability. We demonstrated the suitability of high-throughput drug screening based on our B-ALL cultured conditions. Upon screening 378 kinase inhibitors, we identified a cluster of 17 kinase inhibitors that can efficiently kill B-ALL cells in vitro . Importantly, we demonstrated the synergistic cytotoxicity of dinaciclib/BTG226 to B-ALL cells. Taken together, we developed a defined condition for the ex vivo expansion of primary B-ALL cells that is suitable for high-throughput screening of novel compounds.

The spherical-harmonics representation for the interaction between diatomic molecules: The general case and applications to COsbnd CO and COsbnd HF

NASA Astrophysics Data System (ADS)

Barreto, Patricia R. P.; Cruz, Ana Claudia P. S.; Barreto, Rodrigo L. P.; Palazzetti, Federico; Albernaz, Alessandra F.; Lombardi, Andrea; Maciel, Glauciete S.; Aquilanti, Vincenzo

2017-07-01

The spherical-harmonics expansion is a mathematically rigorous procedure and a powerful tool for the representation of potential energy surfaces of interacting molecular systems, determining their spectroscopic and dynamical properties, specifically in van der Waals clusters, with applications also to classical and quantum molecular dynamics simulations. The technique consists in the construction (by ab initio or semiempirical methods) of the expanded potential interaction up to terms that provide the generation of a number of leading configurations sufficient to account for faithful geometrical representations. This paper reports the full general description of the method of the spherical-harmonics expansion as applied to diatomic-molecule - diatomic-molecule systems of increasing complexity: the presentation of the mathematical background is given for providing both the application to the prototypical cases considered previously (O2sbnd O2, N2sbnd N2, and N2sbnd O2 systems) and the generalization to: (i) the COsbnd CO system, where a characteristic feature is the lower symmetry order with respect to the cases studied before, requiring a larger number of expansion terms necessary to adequately represent the potential energy surface; and (ii) the COsbnd HF system, which exhibits the lowest order of symmetry among this class of aggregates and therefore the highest number of leading configurations.

Dark energy and modified gravity in the Effective Field Theory of Large-Scale Structure

NASA Astrophysics Data System (ADS)

Cusin, Giulia; Lewandowski, Matthew; Vernizzi, Filippo

2018-04-01

We develop an approach to compute observables beyond the linear regime of dark matter perturbations for general dark energy and modified gravity models. We do so by combining the Effective Field Theory of Dark Energy and Effective Field Theory of Large-Scale Structure approaches. In particular, we parametrize the linear and nonlinear effects of dark energy on dark matter clustering in terms of the Lagrangian terms introduced in a companion paper [1], focusing on Horndeski theories and assuming the quasi-static approximation. The Euler equation for dark matter is sourced, via the Newtonian potential, by new nonlinear vertices due to modified gravity and, as in the pure dark matter case, by the effects of short-scale physics in the form of the divergence of an effective stress tensor. The effective fluid introduces a counterterm in the solution to the matter continuity and Euler equations, which allows a controlled expansion of clustering statistics on mildly nonlinear scales. We use this setup to compute the one-loop dark-matter power spectrum.

Dynamic x-ray imaging of laser-driven nanoplasmas

NASA Astrophysics Data System (ADS)

Fennel, Thomas

2016-05-01

A major promise of current x-ray science at free electron lasers is the realization of unprecedented imaging capabilities for resolving the structure and ultrafast dynamics of matter with nanometer spatial and femtosecond temporal resolution or even below via single-shot x-ray diffraction. Laser-driven atomic clusters and nanoparticles provide an ideal platform for developing and demonstrating the required technology to extract the ultrafast transient spatiotemporal dynamics from the diffraction images. In this talk, the perspectives and challenges of dynamic x-ray imaging will be discussed using complete self-consistent microscopic electromagnetic simulations of IR pump x-ray probe imaging for the example of clusters. The results of the microscopic particle-in-cell simulations (MicPIC) enable the simulation-assisted reconstruction of corresponding experimental data. This capability is demonstrated by converting recently measured LCLS data into a ultrahigh resolution movie of laser-induced plasma expansion. Finally, routes towards reaching attosecond time resolution in the visualization of complex dynamical processes in matter by x-ray diffraction will be discussed.

Anterior pituitary cells defective in the cell-autonomous factor, df, undergo cell lineage specification but not expansion.

PubMed

Gage, P J; Roller, M L; Saunders, T L; Scarlett, L M; Camper, S A

1996-01-01

The Ames dwarf mouse transmits a recessive mutation (df) resulting in a profound anterior pituitary hypocellularity due to a general lack of thyrotropes, somatotropes and lactotropes. These cell types are also dependent on the pituitary-specific transcription factor, Pit-1. We present evidence that expression of Pit-1 and limited commitment to these cells lineages occurs in df/df pituitaries. Thus, the crucial role of df may be in lineage-specific proliferation, rather than cytodifferentiation. The presence of all three Pit-1-dependent cell types in clonally derived clusters provides compelling evidence that these three lineages share a common, pluripotent precursor cell. Clusters containing different combinations of Pit-1-dependent cell types suggests that the Pit-1+ precursor cells choose from multiple developmental options during ontogeny. Characterization of df/df<-->+/+ chimeric mice demonstrated that df functions by a cell-autonomous mechanism. Therefore, df and Pit-1 are both cell-autonomous factors required for thyrotrope, somatotrope and lactotrope ontogeny, but their relative roles are different.

Investigation of a Diagnostic for Perturbation Theory: Comparison to the T(sub 1) Diagnostic of Coupled-Cluster Theory

NASA Technical Reports Server (NTRS)

Lee, Timothy J.; Head-Gordon, Martin; Rendell, Alistair P.; Langhoff, Stephen R. (Technical Monitor)

1995-01-01

A diagnostic for perturbation theory calculations, S(sub 2), is defined and numerical results are compared to the established T(sub 1) diagnostic from coupled-cluster theory. S(sub 2) is the lowest order non-zero contribution to a perturbation expansion of T(sub 1). S(sub 2) is a reasonable estimate of the importance of non-dynamical electron correlation, although not as reliable as T(sub 1). S(sub 2) values less than or equal to 0.012 suggest that low orders of perturbation theory should yield reasonable results; S(sub 2) values between 0.012-0.015 suggest that caution is required in interpreting results from low orders of perturbation theory; S(sub 2) values greater than or equal to 0.015 indicate that low orders of perturbation theory are not reliable for accurate results. Although not required mathematically, S(sub 2) is always less than T(sub 1) for the examples studied here.

Discriminating Characteristics of Tectonic and Human-Induced Seismicity

NASA Astrophysics Data System (ADS)

Zaliapin, I. V.; Ben-Zion, Y.

2015-12-01

We analyze statistical features of background and clustered subpopulations of earthquakes in different regions in an effort to distinguish between human-induced and natural seismicity. Analysis of "end-member" areas known to be dominated by human-induced earthquakes (the Geyser geothermal field in northern California and TauTona gold mine in South Africa) and regular tectonic activity (the San Jacinto fault zone in southern California and Coso region excluding the Coso geothermal field in eastern central California) reveals several distinguishing characteristics. Induced seismicity is shown to have (i) higher rate of background events (both absolute and relative to the total rate), (ii) faster temporal offspring decay, (iii) higher intensity of repeating events, (iv) larger proportion of small clusters, and (v) larger spatial separation between parent and offspring, compared to regular tectonic activity. These differences also successfully discriminate seismicity within the Coso and Salton Sea geothermal fields in California before and after the expansion of geothermal production during the 1980s.

Investigating the Intersession Reliability of Dynamic Brain-State Properties.

PubMed

Smith, Derek M; Zhao, Yrian; Keilholz, Shella D; Schumacher, Eric H

2018-06-01

Dynamic functional connectivity metrics have much to offer to the neuroscience of individual differences of cognition. Yet, despite the recent expansion in dynamic connectivity research, limited resources have been devoted to the study of the reliability of these connectivity measures. To address this, resting-state functional magnetic resonance imaging data from 100 Human Connectome Project subjects were compared across 2 scan days. Brain states (i.e., patterns of coactivity across regions) were identified by classifying each time frame using k means clustering. This was done with and without global signal regression (GSR). Multiple gauges of reliability indicated consistency in the brain-state properties across days and GSR attenuated the reliability of the brain states. Changes in the brain-state properties across the course of the scan were investigated as well. The results demonstrate that summary metrics describing the clustering of individual time frames have adequate test/retest reliability, and thus, these patterns of brain activation may hold promise for individual-difference research.

Roles of CONSTITUTIVE PHOTOMORPHOGENIC 10 in Arabidopsis stomata development

PubMed Central

Delgado, Dolores; Ballesteros, Isabel; Mena, Montaña; Fenoll, Carmen

2012-01-01

Stomata are epidermal bi-celled structures that differentiate within special cell lineages initiated by a subset of protodermal cells. Recently, we showed that the Arabidopsis photomorphogenic repressor COP10 controls specific cell-lineage and cell-signaling developmental mechanisms in stomatal lineages. Loss-of-function cop10-1 mutant cotyledons and leaves produced (in the light and in the dark) abundant stomatal clusters, but nonlineage epidermal cells were not affected. Here we examine COP10 role in hypocotyls, cylindrical organs displaying a distinct epidermal organization with alternate files of protruding and non-protruding cells, with the latter producing a limited number of stomata. COP10 prevents stomatal clusters and restricts stomata production in hypocotyls; these roles are specific to lineage cells as in cotyledons, since COP10 loss of function does not elicit stomatal fate in nonlineage cells; COP10 also sustains the directional cell expansion of all hypocotyl epidermal cell types, and seems necessary for the differentiation between protruding and non-protruding cell files. PMID:22836493

Physical controls on directed virus assembly at nanoscale chemical templates

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

Cheung, C L; Chung, S; Chatterji, A

2006-05-10

Viruses are attractive building blocks for nanoscale heterostructures, but little is understood about the physical principles governing their directed assembly. In-situ force microscopy was used to investigate organization of Cowpea Mosaic Virus engineered to bind specifically and reversibly at nanoscale chemical templates with sub-30nm features. Morphological evolution and assembly kinetics were measured as virus flux and inter-viral potential were varied. The resulting morphologies were similar to those of atomic-scale epitaxial systems, but the underlying thermodynamics was analogous to that of colloidal systems in confined geometries. The 1D templates biased the location of initial cluster formation, introduced asymmetric sticking probabilities, andmore » drove 1D and 2D condensation at subcritical volume fractions. The growth kinetics followed a t{sup 1/2} law controlled by the slow diffusion of viruses. The lateral expansion of virus clusters that initially form on the 1D templates following introduction of polyethylene glycol (PEG) into the solution suggests a significant role for weak interaction.« less

Hypoxic HepG2 cell adaptation decreases ATP synthase dimers and ATP production in inflated cristae by mitofilin down-regulation concomitant to MICOS clustering.

PubMed

Plecitá-Hlavatá, Lydie; Engstová, Hana; Alán, Lukáš; Špaček, Tomáš; Dlasková, Andrea; Smolková, Katarína; Špačková, Jitka; Tauber, Jan; Strádalová, Vendula; Malínský, Jan; Lessard, Mark; Bewersdorf, Joerg; Ježek, Petr

2016-05-01

The relationship of the inner mitochondrial membrane (IMM) cristae structure and intracristal space (ICS) to oxidative phosphorylation (oxphos) is not well understood. Mitofilin (subunit Mic60) of the mitochondrial contact site and cristae organizing system (MICOS) IMM complex is attached to the outer membrane (OMM) via the sorting and assembly machinery/topogenesis of mitochondrial outer membrane β-barrel proteins (SAM/TOB) complex and controls the shape of the cristae. ATP synthase dimers determine sharp cristae edges, whereas trimeric OPA1 tightens ICS outlets. Metabolism is altered during hypoxia, and we therefore studied cristae morphology in HepG2 cells adapted to 5% oxygen for 72 h. Three dimensional (3D), super-resolution biplane fluorescence photoactivation localization microscopy with Eos-conjugated, ICS-located lactamase-β indicated hypoxic ICS expansion with an unchanged OMM (visualized by Eos-mitochondrial fission protein-1). 3D direct stochastic optical reconstruction microscopy immunocytochemistry revealed foci of clustered mitofilin (but not MICOS subunit Mic19) in contrast to its even normoxic distribution. Mitofilin mRNA and protein decreased by ∼20%. ATP synthase dimers vs monomers and state-3/state-4 respiration ratios were lower during hypoxia. Electron microscopy confirmed ICS expansion (maximum in glycolytic cells), which was absent in reduced or OMM-detached cristae of OPA1- and mitofilin-silenced cells, respectively. Hypoxic adaptation is reported as rounding sharp cristae edges and expanding cristae width (ICS) by partial mitofilin/Mic60 down-regulation. Mitofilin-depleted MICOS detaches from SAM while remaining MICOS with mitofilin redistributes toward higher interdistances. This phenomenon causes partial oxphos dormancy in glycolytic cells via disruption of ATP synthase dimers.-Plecitá-Hlavatá, L., Engstová, H., Alán, L., Špaček, T., Dlasková, A., Smolková, K., Špačková, J., Tauber, J., Strádalová, V., Malínský, J., Lessard, M., Bewersdorf, J., Ježek, P. Hypoxic HepG2 cell adaptation decreases ATP synthase dimers and ATP production in inflated cristae by mitofilin down-regulation concomitant to MICOS clustering. © FASEB.

Phylogeography of the sandy beach amphipod Haustorioides japonicus along the Sea of Japan: Paleogeographical signatures of cryptic regional divergences

NASA Astrophysics Data System (ADS)

Takada, Yoshitake; Sakuma, Kay; Fujii, Tetsuo; Kojima, Shigeaki

2018-01-01

Recent findings of genetic breaks within apparently continuous marine populations challenge the traditional vicariance paradigm in population genetics. Such "invisible" boundaries are sometimes associated with potential geographic barriers that have forced divergence of an ancestral population, habitat discontinuities, biogeographic disjunctions due to environmental gradients, or a combination of these factors. To explore the factors that influence the genetic population structure of apparently continuous populations along the Sea of Japan, the sandy beach amphipod Haustorioides japonicus was examined. We sampled a total of 300 individuals of H. japonicus from the coast of Japan, and obtained partial sequences of the mitochondrial COI gene. The sequences from 19 local populations were clustered into five groups (Northwestern Pacific, Northern, Central, Southern Sea of Japan, and East China Sea) based on a spatial genetic mixture analysis and a minimum-spanning network. AMOVA and pairwise Fst tests further supported the significant divergence of the five groups. Phylogenetic analysis revealed the relationship among the haplotypes of H. japonicus and outgroups, which inferred the northward range expansion of the species. A relaxed molecular-clock Bayesian analysis inferred the early-to middle-Pleistocene divergence of the populations. Among the five clusters, the Central Sea of Japan showed the highest values for genetic diversity indices indicating the existence of a relatively stable and large population there. The hypothesis is also supported by Bayesian Skyline Plots that showed sudden population expansion for all the clusters except for Central Sea of Japan. The present study shows genetic boundaries between the Sea of Japan and the neighboring seas, probably due to geographic isolation during the Pleistocene glacial periods. We further found divergence between the populations along the apparently continuous coast of the Sea of Japan. Historical changes in the geographic range of H. japonicus in relation to sandy beach habitat availability, account for the genetic breaks among the three populations in the Sea of Japan. The present results infer that the past geographic events influenced the population formation of H. japonicus.

Visceral leishmaniasis in the state of Sao Paulo, Brazil: spatial and space-time analysis

PubMed Central

Cardim, Marisa Furtado Mozini; Guirado, Marluci Monteiro; Dibo, Margareth Regina; Chiaravalloti, Francisco

2016-01-01

ABSTRACT OBJECTIVE To perform both space and space-time evaluations of visceral leishmaniasis in humans in the state of Sao Paulo, Brazil. METHODS The population considered in the study comprised autochthonous cases of visceral leishmaniasis and deaths resulting from it in Sao Paulo, between 1999 and 2013. The analysis considered the western region of the state as its studied area. Thematic maps were created to show visceral leishmaniasis dissemination in humans in the municipality. Spatial analysis tools Kernel and Kernel ratio were used to respectively obtain the distribution of cases and deaths and the distribution of incidence and mortality. Scan statistics were used in order to identify spatial and space-time clusters of cases and deaths. RESULTS The visceral leishmaniasis cases in humans, during the studied period, were observed to occur in the western portion of Sao Paulo, and their territorial extension mainly followed the eastbound course of the Marechal Rondon highway. The incidences were characterized as two sequences of concentric ellipses of decreasing intensities. The first and more intense one was found to have its epicenter in the municipality of Castilho (where the Marechal Rondon highway crosses the border of the state of Mato Grosso do Sul) and the second one in Bauru. Mortality was found to have a similar behavior to incidence. The spatial and space-time clusters of cases were observed to coincide with the two areas of highest incidence. Both the space-time clusters identified, even without coinciding in time, were started three years after the human cases were detected and had the same duration, that is, six years. CONCLUSIONS The expansion of visceral leishmaniasis in Sao Paulo has been taking place in an eastbound direction, focusing on the role of highways, especially Marechal Rondon, in this process. The space-time analysis detected the disease occurred in cycles, in different spaces and time periods. These meetings, if considered, may contribute to the adoption of actions that aim to prevent the disease from spreading throughout the whole territory of São Paulo or to at least reducing its expansion speed. PMID:27533364

An explicitly spin-free compact open-shell coupled cluster theory using a multireference combinatoric exponential ansatz: formal development and pilot applications.

PubMed

Datta, Dipayan; Mukherjee, Debashis

2009-07-28

In this paper, we present a comprehensive account of an explicitly spin-free compact state-universal multireference coupled cluster (CC) formalism for computing the state energies of simple open-shell systems, e.g., doublets and biradicals, where the target open-shell states can be described by a few configuration state functions spanning a model space. The cluster operators in this formalism are defined in terms of the spin-free unitary generators with respect to the common closed-shell component of all model functions (core) as vacuum. The spin-free cluster operators are either closed-shell-like n hole-n particle excitations (denoted by T(mu)) or involve excitations from the doubly occupied (nonvalence) orbitals to the singly occupied (valence) orbitals (denoted by S(e)(mu)). In addition, there are cluster operators with exchange spectator scatterings involving the valence orbitals (denoted by S(re)(mu)). We propose a new multireference cluster expansion ansatz for the wave operator with the above generally noncommuting cluster operators which essentially has the same physical content as the Jeziorski-Monkhorst ansatz with the commuting cluster operators defined in the spin-orbital basis. The T(mu) operators in our ansatz are taken to commute with all other operators, while the S(e)(mu) and S(re)(mu) operators are allowed to contract among themselves through the spectator valence orbitals. An important innovation of this ansatz is the choice of an appropriate automorphic factor accompanying each contracted composite of cluster operators in order to ensure that each distinct excitation generated by this composite appears only once in the wave operator. The resulting CC equations consist of two types of terms: a "direct" term and a "normalization" term containing the effective Hamiltonian operator. It is emphasized that the direct term is almost quartic in the cluster amplitudes, barring only a handful of terms and termination of the normalization term depends on the valence rank of the effective Hamiltonian operator and the excitation rank of the cluster operators at which the theory is truncated. Illustrative applications are presented by computing the state energies of neutral doublet radicals and doublet molecular cations and ionization energies of neutral molecules and comparing our results with the other open-shell CC theories, benchmark full CI results (when available) in the same basis, and the experimental results. Highly encouraging results show the efficacy of the method.

Phylogeography of Pinus subsection Australes in the Caribbean Basin

PubMed Central

Jardón-Barbolla, Lev; Delgado-Valerio, Patricia; Geada-López, Gretel; Vázquez-Lobo, Alejandra; Piñero, Daniel

2011-01-01

Background and Aims Four species of Pinus subsection Australes occur in the Caribbean Basin: P. caribaea, P. cubensis, P. maestrensis and P. occidentalis. This study analyses the phylogeography of these species to assess possible colonization events from Central America to the islands and subsequent population expansions during glacial periods driven by both drier climate and larger emerged land areas. Methods Allele size data were obtained for plastid microsatellites for 314 individuals from 24 populations, covering the distribution range of subsection Australes in the Caribbean Basin. Key Results In total, 113 plastid haplotypes were identified. The highest genetic diversity was found in populations of P. caribaea. Overall, Caribbean Basin populations fit the isolation by distance model. Significant phylogeographical structure was found (RST = 0·671 > permuted RST = 0·101; P < 0·0001). The haplotype network and a Bayesian analysis of population structure (BAPS) indicated different Central American origins for P. caribaea var. bahamensis and P. caribaea var. caribaea plastids, with Central America populations in northern and south-eastern groups. Sudden expansion times for BAPS clusters were close to three glacial maxima. Conclusions Central America contains ancestral plastid haplotypes. Population expansion has played a major role in the distribution of genetic diversity in P. caribaea var. hondurensis. Two colonization events gave rise to the P. caribaea var. bahamensis and P. caribaea var. caribaea lineages. Plastid variation in the eastern species (P. cubensis, P. maestrensis and P. occidentalis) evolved independently from that in P. caribaea var. caribaea. Incomplete lineage sorting between P. cubensis and P. maestrensis is apparent. Inferred expansion times for P. caribaea var. bahamensis and for the eastern lineages correspond to glacial maxima, whereas those for P. caribaea var. hondurensis correspond to the beginning of the temperature decrease that led to Marine Isotope Stage 8. PMID:21118838

Supersonic beams at high particle densities: model description beyond the ideal gas approximation.

PubMed

Christen, Wolfgang; Rademann, Klaus; Even, Uzi

2010-10-28

Supersonic molecular beams constitute a very powerful technique in modern chemical physics. They offer several unique features such as a directed, collision-free flow of particles, very high luminosity, and an unsurpassed strong adiabatic cooling during the jet expansion. While it is generally recognized that their maximum flow velocity depends on the molecular weight and the temperature of the working fluid in the stagnation reservoir, not a lot is known on the effects of elevated particle densities. Frequently, the characteristics of supersonic beams are treated in diverse approximations of an ideal gas expansion. In these simplified model descriptions, the real gas character of fluid systems is ignored, although particle associations are responsible for fundamental processes such as the formation of clusters, both in the reservoir at increased densities and during the jet expansion. In this contribution, the various assumptions of ideal gas treatments of supersonic beams and their shortcomings are reviewed. It is shown in detail that a straightforward thermodynamic approach considering the initial and final enthalpy is capable of characterizing the terminal mean beam velocity, even at the liquid-vapor phase boundary and the critical point. Fluid properties are obtained using the most accurate equations of state available at present. This procedure provides the opportunity to naturally include the dramatic effects of nonideal gas behavior for a large variety of fluid systems. Besides the prediction of the terminal flow velocity, thermodynamic models of isentropic jet expansions permit an estimate of the upper limit of the beam temperature and the amount of condensation in the beam. These descriptions can even be extended to include spinodal decomposition processes, thus providing a generally applicable tool for investigating the two-phase region of high supersaturations not easily accessible otherwise.

Probing the Initial Mass Function in Extended Ultraviolet (XUV) Disks

NASA Astrophysics Data System (ADS)

Koda, Jin

2012-01-01

"The GALEX UV satellite discovered tantalizing evidence of star formation (SF) far beyond the optical edge of galactic disks (i.e. extended UV disk, or XUV disk). This discovery provides a new opportunity for studying SF in the exceedingly low-density environment (˜1/10 of typical SF density), spurring intense debate on the universality of the initial mass function (IMF) in such exceptional environments. Our pilot S-Cam study of M83’s XUV disk led to support for the universal IMF at least in M83 (Koda et al. 2012). We propose an expansion of the pilot study, observing 6 XUV disks in NA656(Hα), B, I, and R-band with S-Cam. In conjunction with GALEX UV bands, these images will reveal the presence of O stars (Hα; NA656-R) and O&B stars (UV) in stellar clusters -thus, constraining the high-mass end of the IMF. The multi-broadband images will enable us to determine the masses of the clusters with much improved accuracy (previously, relied only on R). The proposed observations will not only increase the statistical significance of our previous result, but also enable us to analyze the stochastic effect of IMF sampling in very low-mass clusters (10^{2+3} M_sun) - the regime about which there is much ongoing debate."

Locating Structural Centers: A Density-Based Clustering Method for Community Detection

PubMed Central

Liu, Gongshen; Li, Jianhua; Nees, Jan P.

2017-01-01

Uncovering underlying community structures in complex networks has received considerable attention because of its importance in understanding structural attributes and group characteristics of networks. The algorithmic identification of such structures is a significant challenge. Local expanding methods have proven to be efficient and effective in community detection, but most methods are sensitive to initial seeds and built-in parameters. In this paper, we present a local expansion method by density-based clustering, which aims to uncover the intrinsic network communities by locating the structural centers of communities based on a proposed structural centrality. The structural centrality takes into account local density of nodes and relative distance between nodes. The proposed algorithm expands a community from the structural center to the border with a single local search procedure. The local expanding procedure follows a heuristic strategy as allowing it to find complete community structures. Moreover, it can identify different node roles (cores and outliers) in communities by defining a border region. The experiments involve both on real-world and artificial networks, and give a comparison view to evaluate the proposed method. The result of these experiments shows that the proposed method performs more efficiently with a comparative clustering performance than current state of the art methods. PMID:28046030

A UV spectroscopic survey of periodic M dwarfs in the Hyades

NASA Astrophysics Data System (ADS)

Agueros, Marcel

2017-08-01

Because of its proximity, the 650-Myr-old Hyades open cluster is a unique resource for exploring the relationship between magnetic activity, rotation, and age in low-mass stars. While the cluster has been largely ignored in UV studies of the dependence of activity on rotation, we now have an extensive and growing set of complementary rotation period, Halpha, and X-ray measurements with which to examine in detail the rotation-activity relation at 650 Myr and to constrain theories of magnetic heating. We propose to measure Mg II line emission, the strongest NUV activity tracer, in COS spectra of 17 Hyads ranging in spectral type from M0 to M7 with known rotation periods and Halpha and X-ray measurements. These stars form a representative sample of M-dwarf Hyads with known periods and are a significant addition to, and expansion of, the sample of 20 mainly solar-mass rotators with existing (mostly low-resolution) International Ultravioled Explorer (IUE) NUV spectra. The Mg II measurements will contribute significantly to our goal of mapping out the rotation-activity relation star-by-star in this benchmark open cluster. This, in turn, will move us toward an improved understanding of the radiation environment and habitability of the exoplanets we continue to find around low-mass stars.

A UV spectroscopic snapshot survey of low-mass stars in the Hyades

NASA Astrophysics Data System (ADS)

Agueros, Marcel

2017-08-01

Because of its proximity, the 650-Myr-old Hyades open cluster is a unique resource for exploring the relationship between magnetic activity, rotation, and age in low-mass stars. While the cluster has been largely ignored in UV studies of the dependence of activity on rotation, we now have an extensive and growing set of complementary rotation period, Halpha, and X-ray measurements with which to examine in detail the rotation-activity relation at 650 Myr and to constrain theories of magnetic heating. We propose to measure Mg II line emission, the strongest NUV activity tracer, in COS spectra of 86 Hyads ranging in spectral type from G to M with known rotation periods or currently being observed by K2. These stars form a representative sample of low-mass Hyads with known periods and are a significant addition to, and expansion of, the sample of 20 mainly solar-mass rotators with existing (mostly low-resolution) IUE NUV spectra. The Mg II measurements will contribute significantly to our goal of mapping out the rotation-activity relation star-by-star in this benchmark open cluster. This, in turn, will move us toward an improved understanding of the radiation environment and habitability of the exoplanets we continue to find around low-mass stars.

Exploring spatial patterns of farmland transactions and farmland use changes.

PubMed

Chang, Hsueh-Sheng; Chen, Tzu-Ling

2015-09-01

Strong economic incentives stimulate the conversion of farmland to non-farm uses possessing higher economic benefits, and rising land values can result in further conversions in the surrounding areas. However, previous studies focused exclusively on the analysis of attribute data, without concern for location or geographic information. Our study focuses on the application of spatial analysis method by exploring the magnitude and patterns of farmland use changes and farmland transactions in Tainan County in southwestern Taiwan. The results show that farmland use changes and transactions appear to cluster in specific locations-near urban planning areas, industrial parks, and science parks. Clustered farmland use changes indicate both excessive development of some farmland and possible protection of other farmland, while clustered farmland transactions indicate potential pressure for future conversion to non-farming uses. Overall, the spatial analyses indicate (without necessarily implying a cause-and-effect relationship) that the greater the farmland use change, the greater the number of farmland transactions. This approach to exploring the spatial patterns in and the interaction between farmland use change and farmland transactions can be applied to other regions facing increasing competition for farmland conversions and may be a useful tool for monitoring both urban expansion and increased farmland transactions. These occurrences should be closely monitored by governments to avoid excessive loss of farmland.

An Envisioned Bridge: Schooling as a Neurocognitive Developmental Institution

PubMed Central

Baker, David P.; Salinas, Daniel; Eslinger, Paul J.

2013-01-01

The potential contribution of social science research to close the gap of knowledge between cognitive neuroscience and educational research has been underappreciated. Despite their virtual absence in the interdisciplinary dialog of neuroscience, sociology of education and related study of the cultural impact of formal education have generated research relevant to an understanding of how the social environment, such as widespread schooling, co-evolves with, and enhances neurocognitive development. Two clusters of isolated research literatures are synthesized that taken together anticipates a dynamic integration of neuroscience and education. The first cluster is on the social construction of cognition through formal education in contemporary society, including the effects of schooling on neurological and cognitive development; the demographic expansion of exposure to the developmental influence of schooling; and education’s cultural impact on the meaning of the learning experience and reinforcement of cognition as the key human capability across ever more key institutions in postindustrial society. The second cluster turns the issue around by examining current investigations from neuroscience that support neurological hypotheses about the causes behind the schooling effect on neurocognitive development. We propose that further integration of these literatures will provide a more ecologically valid context in which to investigate the evolving functional architecture of the contemporary brain. PMID:22682912

Predicting Molecular Crystal Properties from First Principles: Finite-Temperature Thermochemistry to NMR Crystallography.

PubMed

Beran, Gregory J O; Hartman, Joshua D; Heit, Yonaton N

2016-11-15

Molecular crystals occur widely in pharmaceuticals, foods, explosives, organic semiconductors, and many other applications. Thanks to substantial progress in electronic structure modeling of molecular crystals, attention is now shifting from basic crystal structure prediction and lattice energy modeling toward the accurate prediction of experimentally observable properties at finite temperatures and pressures. This Account discusses how fragment-based electronic structure methods can be used to model a variety of experimentally relevant molecular crystal properties. First, it describes the coupling of fragment electronic structure models with quasi-harmonic techniques for modeling the thermal expansion of molecular crystals, and what effects this expansion has on thermochemical and mechanical properties. Excellent agreement with experiment is demonstrated for the molar volume, sublimation enthalpy, entropy, and free energy, and the bulk modulus of phase I carbon dioxide when large basis second-order Møller-Plesset perturbation theory (MP2) or coupled cluster theories (CCSD(T)) are used. In addition, physical insight is offered into how neglect of thermal expansion affects these properties. Zero-point vibrational motion leads to an appreciable expansion in the molar volume; in carbon dioxide, it accounts for around 30% of the overall volume expansion between the electronic structure energy minimum and the molar volume at the sublimation point. In addition, because thermal expansion typically weakens the intermolecular interactions, neglecting thermal expansion artificially stabilizes the solid and causes the sublimation enthalpy to be too large at higher temperatures. Thermal expansion also frequently weakens the lower-frequency lattice phonon modes; neglecting thermal expansion causes the entropy of sublimation to be overestimated. Interestingly, the sublimation free energy is less significantly affected by neglecting thermal expansion because the systematic errors in the enthalpy and entropy cancel somewhat. Second, because solid state nuclear magnetic resonance (NMR) plays an increasingly important role in molecular crystal studies, this Account discusses how fragment methods can be used to achieve higher-accuracy chemical shifts in molecular crystals. Whereas widely used plane wave density functional theory models are largely restricted to generalized gradient approximation (GGA) functionals like PBE in practice, fragment methods allow the routine use of hybrid density functionals with only modest increases in computational cost. In extensive molecular crystal benchmarks, hybrid functionals like PBE0 predict chemical shifts with 20-30% higher accuracy than GGAs, particularly for 1 H, 13 C, and 15 N nuclei. Due to their higher sensitivity to polarization effects, 17 O chemical shifts prove slightly harder to predict with fragment methods. Nevertheless, the fragment model results are still competitive with those from GIPAW. The improved accuracy achievable with fragment approaches and hybrid density functionals increases discrimination between different potential assignments of individual shifts or crystal structures, which is critical in NMR crystallography applications. This higher accuracy and greater discrimination are highlighted in application to the solid state NMR of different acetaminophen and testosterone crystal forms.

Spatio-temporal pattern analysis for evaluation of the spread of human infections with avian influenza A(H7N9) virus in China, 2013-2014.

PubMed

Dong, Wen; Yang, Kun; Xu, Quanli; Liu, Lin; Chen, Juan

2017-10-24

A large number (n = 460) of A(H7N9) human infections have been reported in China from March 2013 through December 2014, and H7N9 outbreaks in humans became an emerging issue for China health, which have caused numerous disease outbreaks in domestic poultry and wild bird populations, and threatened human health severely. The aims of this study were to investigate the directional trend of the epidemic and to identify the significant presence of spatial-temporal clustering of influenza A(H7N9) human cases between March 2013 and December 2014. Three distinct epidemic phases of A(H7N9) human infections were identified in this study. In each phase, standard deviational ellipse analysis was conducted to examine the directional trend of disease spreading, and retrospective space-time permutation scan statistic was then used to identify the spatio-temporal cluster patterns of H7N9 outbreaks in humans. The ever-changing location and the increasing size of the three identified standard deviational ellipses showed that the epidemic moved from east to southeast coast, and hence to some central regions, with a future epidemiological trend of continue dispersing to more central regions of China, and a few new human cases might also appear in parts of the western China. Furthermore, A(H7N9) human infections were clustering in space and time in the first two phases with five significant spatio-temporal clusters (p < 0.05), but there was no significant cluster identified in phase III. There was a new epidemiologic pattern that the decrease in significant spatio-temporal cluster of A(H7N9) human infections was accompanied with an obvious spatial expansion of the outbreaks during the study period, and identification of the spatio-temporal patterns of the epidemic can provide valuable insights for better understanding the spreading dynamics of the disease in China.

A cloud-based framework for large-scale traditional Chinese medical record retrieval.

PubMed

Liu, Lijun; Liu, Li; Fu, Xiaodong; Huang, Qingsong; Zhang, Xianwen; Zhang, Yin

2018-01-01

Electronic medical records are increasingly common in medical practice. The secondary use of medical records has become increasingly important. It relies on the ability to retrieve the complete information about desired patient populations. How to effectively and accurately retrieve relevant medical records from large- scale medical big data is becoming a big challenge. Therefore, we propose an efficient and robust framework based on cloud for large-scale Traditional Chinese Medical Records (TCMRs) retrieval. We propose a parallel index building method and build a distributed search cluster, the former is used to improve the performance of index building, and the latter is used to provide high concurrent online TCMRs retrieval. Then, a real-time multi-indexing model is proposed to ensure the latest relevant TCMRs are indexed and retrieved in real-time, and a semantics-based query expansion method and a multi- factor ranking model are proposed to improve retrieval quality. Third, we implement a template-based visualization method for displaying medical reports. The proposed parallel indexing method and distributed search cluster can improve the performance of index building and provide high concurrent online TCMRs retrieval. The multi-indexing model can ensure the latest relevant TCMRs are indexed and retrieved in real-time. The semantics expansion method and the multi-factor ranking model can enhance retrieval quality. The template-based visualization method can enhance the availability and universality, where the medical reports are displayed via friendly web interface. In conclusion, compared with the current medical record retrieval systems, our system provides some advantages that are useful in improving the secondary use of large-scale traditional Chinese medical records in cloud environment. The proposed system is more easily integrated with existing clinical systems and be used in various scenarios. Copyright © 2017. Published by Elsevier Inc.

Explicitly correlated coupled-cluster theory using cusp conditions. II. Treatment of connected triple excitations.

PubMed

Köhn, Andreas

2010-11-07

The coupled-cluster singles and doubles method augmented with single Slater-type correlation factors (CCSD-F12) determined by the cusp conditions (also denoted as SP ansatz) yields results close to the basis set limit with only small overhead compared to conventional CCSD. Quantitative calculations on many-electron systems, however, require to include the effect of connected triple excitations at least. In this contribution, the recently proposed [A. Köhn, J. Chem. Phys. 130, 131101 (2009)] extended SP ansatz and its application to the noniterative triples correction CCSD(T) is reviewed. The approach allows to include explicit correlation into connected triple excitations without introducing additional unknown parameters. The explicit expressions are presented and analyzed, and possible simplifications to arrive at a computationally efficient scheme are suggested. Numerical tests based on an implementation obtained by an automated approach are presented. Using a partial wave expansion for the neon atom, we can show that the proposed ansatz indeed leads to the expected (L(max)+1)(-7) convergence of the noniterative triples correction, where L(max) is the maximum angular momentum in the orbital expansion. Further results are reported for a test set of 29 molecules, employing Peterson's F12-optimized basis sets. We find that the customary approach of using the conventional noniterative triples correction on top of a CCSD-F12 calculation leads to significant basis set errors. This, however, is not always directly visible for total CCSD(T) energies due to fortuitous error compensation. The new approach offers a thoroughly explicitly correlated CCSD(T)-F12 method with improved basis set convergence of the triples contributions to both total and relative energies.

Synthesis and characterization of Fe-Ti-Sb intermetallic compounds: Discovery of a new Slater-Pauling phase

NASA Astrophysics Data System (ADS)

Naghibolashrafi, N.; Keshavarz, S.; Hegde, Vinay I.; Gupta, A.; Butler, W. H.; Romero, J.; Munira, K.; LeClair, P.; Mazumdar, D.; Ma, J.; Ghosh, A. W.; Wolverton, C.

2016-03-01

Compounds of Fe, Ti, and Sb were prepared using arc melting and vacuum annealing. Fe2TiSb , expected to be a full Heusler compound crystallizing in the L 21 structure, was shown by XRD and SEM analyses to be composed of weakly magnetic grains of nominal composition Fe1.5TiSb with iron-rich precipitates in the grain boundaries. FeTiSb, a composition consistent with the formation of a half-Heusler compound, also decomposed into Fe1.5TiSb grains with Ti-Sb rich precipitates and was weakly magnetic. The dominant Fe1.5TiSb phase appears to crystallize in a defective L 21 -like structure with iron vacancies. Based on this finding, a first-principles DFT-based binary cluster expansion of Fe and vacancies on the Fe sublattice of the L 21 structure was performed. Using the cluster expansion, we computationally scanned >103 configurations and predict a novel, stable, nonmagnetic semiconductor phase to be the zero-temperature ground state. This new structure is an ordered arrangement of Fe and vacancies, belonging to the space group R 3 m , with composition Fe1.5TiSb , i.e., between the full- and half-Heusler compositions. This phase can be visualized as alternate layers of L 21 phase Fe2TiSb and C 1b phase FeTiSb, with layering along the [111] direction of the original cubic phases. Our experimental results on annealed samples support this predicted ground-state composition, but further work is required to confirm that the R 3 m structure is the ground state.

Complex Evolutionary Dynamics of Massively Expanded Chemosensory Receptor Families in an Extreme Generalist Chelicerate Herbivore.

PubMed

Ngoc, Phuong Cao Thi; Greenhalgh, Robert; Dermauw, Wannes; Rombauts, Stephane; Bajda, Sabina; Zhurov, Vladimir; Grbić, Miodrag; Van de Peer, Yves; Van Leeuwen, Thomas; Rouzé, Pierre; Clark, Richard M

2016-12-14

While mechanisms to detoxify plant produced, anti-herbivore compounds have been associated with plant host use by herbivores, less is known about the role of chemosensory perception in their life histories. This is especially true for generalists, including chelicerate herbivores that evolved herbivory independently from the more studied insect lineages. To shed light on chemosensory perception in a generalist herbivore, we characterized the chemosensory receptors (CRs) of the chelicerate two-spotted spider mite, Tetranychus urticae, an extreme generalist. Strikingly, T. urticae has more CRs than reported in any other arthropod to date. Including pseudogenes, 689 gustatory receptors were identified, as were 136 degenerin/Epithelial Na+ Channels (ENaCs) that have also been implicated as CRs in insects. The genomic distribution of T. urticae gustatory receptors indicates recurring bursts of lineage-specific proliferations, with the extent of receptor clusters reminiscent of those observed in the CR-rich genomes of vertebrates or C. elegans Although pseudogenization of many gustatory receptors within clusters suggests relaxed selection, a subset of receptors is expressed. Consistent with functions as CRs, the genomic distribution and expression of ENaCs in lineage-specific T. urticae expansions mirrors that observed for gustatory receptors. The expansion of ENaCs in T. urticae to > 3-fold that reported in other animals was unexpected, raising the possibility that ENaCs in T. urticae have been co-opted to fulfill a major role performed by unrelated CRs in other animals. More broadly, our findings suggest an elaborate role for chemosensory perception in generalist herbivores that are of key ecological and agricultural importance. © The Author(s) 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

Ortho-para interconversion in cation-water complexes: The case of V + (H 2 O) and Nb + (H 2 O) clusters

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

Ward, T. B.; Miliordos, E.; Carnegie, P. D.

Vanadium and niobium cation-water complexes, V+(H2O) and Nb+(H2O), are produced by laser vaporization in a pulsed supersonic expansion, mass selected in a time-of-flight spectrometer, and studied with infrared photodissociation spectroscopy using rare gas atom (Ar, Ne) complex predissociation. The vibrational bands measured in the O–H stretching region contain K-type rotational sub-band structure, which provides insight into the structures of these complexes. However, rotational sub-bands do not exhibit the simple patterns seen previously for other metal ion-water complexes. The A rotational constants are smaller than expected and the normal 1:3 intensity ratios for K = even:odd levels for independent ortho:para nuclearmore » spin states are missing for some complexes. We relied on highly correlated internally contracted Multi-Reference Configuration Interaction (icMRCI) and Coupled Cluster [CCSD(T)] electronic structure calculations of those complexes with and without the rare gas atoms to investigate these anomalies. Rare gas atoms were found to bind via asymmetric motifs to the hydrated complexes undergoing large amplitude motions that vibrationally average to quasi-C2v symmetry with significant probability off the C2 axis, thus explaining the reduced A values. Both vanadium and iobium cations exhibit unusually strong nuclear spin coupling to the hydrogen atoms of water, the values of which vary with their electronic state. This catalyzes ortho-para interconversion in some complexes and explains the rotational patterns. The rate of ortho-para relaxation in the equilibrated complexes must therefore be greater than the collisional cooling rate in the supersonic expansion (about 106 sec-1).« less

Genetic analysis of Black Tiger shrimp (Penaeus monodon) across its natural distribution range reveals more recent colonization of Fiji and other South Pacific islands.

PubMed

Waqairatu, Salote S; Dierens, Leanne; Cowley, Jeff A; Dixon, Tom J; Johnson, Karyn N; Barnes, Andrew C; Li, Yutao

2012-08-01

The Black Tiger shrimp (Penaeus monodon) has a natural distribution range from East Africa to the South Pacific Islands. Although previous studies of Indo-Pacific P. monodon have found populations from the Indian Ocean and Australasia to differ genetically, their relatedness to South Pacific shrimp remains unknown. To address this, polymorphisms at eight shared microsatellite loci and haplotypes in a 418-bp mtDNA-CR (control region) sequence were examined across 682 P. monodon from locations spread widely across its natural range, including the South Pacific islands of Fiji, Palau, and Papua New Guinea (PNG). Observed microsatellite heterozygosities of 0.82-0.91, allele richness of 6.85-9.69, and significant mtDNA-CR haplotype variation indicated high levels of genetic diversity among the South Pacific shrimp. Analysis of microsatellite genotypes using a Bayesian STRUCTURE method segregated Indo-Pacific P. monodon into eight distinct clades, with Palau and PNG shrimp clustering among others from Southeast Asia and eastern Australia, respectively, and Fiji shrimp clustering as a distinct group. Phylogenetic analyses of mtDNA-CR haplotypes delineated shrimp into three groupings, with shrimp from Fiji again being distinct by sharing no haplotypes with other populations. Depending on regional location, the genetic structures and substructures identified from the genotyping and mtDNA-CR haplotype phylogeny could be explained by Metapopulation and/or Member-Vagrant type evolutionary processes. Neutrality tests of mutation-drift equilibrium and estimation of the time since population expansion supported a hypothesis that South Pacific P. monodon were colonized from Southeast Asia and eastern Australia during the Pleistocene period over 60,000 years ago when land bridges were more expansive and linked these regions more closely.

Ortho-para interconversion in cation-water complexes: The case of V+(H2O) and Nb+(H2O) clusters.

PubMed

Ward, T B; Miliordos, E; Carnegie, P D; Xantheas, S S; Duncan, M A

2017-06-14

Vanadium and niobium cation-water complexes, V + (H 2 O) and Nb + (H 2 O), are produced by laser vaporization in a pulsed supersonic expansion, mass selected in a time-of-flight spectrometer, and studied with infrared photodissociation spectroscopy using rare gas atom (Ar, Ne) complex predissociation. The vibrational bands measured in the O-H stretching region contain K-type rotational sub-band structure, which provides insight into the structures of these complexes. However, rotational sub-bands do not exhibit the simple patterns seen previously for other metal ion-water complexes. The A rotational constants are smaller than expected and the normal 3:1 intensity ratios for K = odd:even levels for independent ortho:para nuclear spin states are missing for some complexes. We relied on highly correlated internally contracted multi-reference configuration interaction and Coupled Cluster [CCSD(T)] electronic structure calculations of those complexes with and without the rare gas atoms to investigate these anomalies. Rare gas atoms were found to bind via asymmetric motifs to the hydrated complexes undergoing large amplitude motions that vibrationally average to the quasi-C 2v symmetry with a significant probability off the C 2 axis, thus explaining the reduced A values. Both vanadium and niobium cations exhibit unusually strong nuclear spin coupling to the hydrogen atoms of water, the values of which vary with their electronic state. This catalyzes ortho-para interconversion in some complexes and explains the rotational patterns. The rate of ortho-para relaxation in the equilibrated complexes must therefore be greater than the collisional cooling rate in the supersonic expansion (about 10 6 s -1 ).

Ortho-para interconversion in cation-water complexes: The case of V+(H2O) and Nb+(H2O) clusters

NASA Astrophysics Data System (ADS)

Ward, T. B.; Miliordos, E.; Carnegie, P. D.; Xantheas, S. S.; Duncan, M. A.

2017-06-01

Vanadium and niobium cation-water complexes, V+(H2O) and Nb+(H2O), are produced by laser vaporization in a pulsed supersonic expansion, mass selected in a time-of-flight spectrometer, and studied with infrared photodissociation spectroscopy using rare gas atom (Ar, Ne) complex predissociation. The vibrational bands measured in the O-H stretching region contain K-type rotational sub-band structure, which provides insight into the structures of these complexes. However, rotational sub-bands do not exhibit the simple patterns seen previously for other metal ion-water complexes. The A rotational constants are smaller than expected and the normal 3:1 intensity ratios for K = odd:even levels for independent ortho:para nuclear spin states are missing for some complexes. We relied on highly correlated internally contracted multi-reference configuration interaction and Coupled Cluster [CCSD(T)] electronic structure calculations of those complexes with and without the rare gas atoms to investigate these anomalies. Rare gas atoms were found to bind via asymmetric motifs to the hydrated complexes undergoing large amplitude motions that vibrationally average to the quasi-C2v symmetry with a significant probability off the C2 axis, thus explaining the reduced A values. Both vanadium and niobium cations exhibit unusually strong nuclear spin coupling to the hydrogen atoms of water, the values of which vary with their electronic state. This catalyzes ortho-para interconversion in some complexes and explains the rotational patterns. The rate of ortho-para relaxation in the equilibrated complexes must therefore be greater than the collisional cooling rate in the supersonic expansion (about 106 s-1).

Genetic analysis of Black Tiger shrimp (Penaeus monodon) across its natural distribution range reveals more recent colonization of Fiji and other South Pacific islands

PubMed Central

Waqairatu, Salote S; Dierens, Leanne; Cowley, Jeff A; Dixon, Tom J; Johnson, Karyn N; Barnes, Andrew C; Li, Yutao

2012-01-01

The Black Tiger shrimp (Penaeus monodon) has a natural distribution range from East Africa to the South Pacific Islands. Although previous studies of Indo-Pacific P. monodon have found populations from the Indian Ocean and Australasia to differ genetically, their relatedness to South Pacific shrimp remains unknown. To address this, polymorphisms at eight shared microsatellite loci and haplotypes in a 418-bp mtDNA-CR (control region) sequence were examined across 682 P. monodon from locations spread widely across its natural range, including the South Pacific islands of Fiji, Palau, and Papua New Guinea (PNG). Observed microsatellite heterozygosities of 0.82–0.91, allele richness of 6.85–9.69, and significant mtDNA-CR haplotype variation indicated high levels of genetic diversity among the South Pacific shrimp. Analysis of microsatellite genotypes using a Bayesian STRUCTURE method segregated Indo-Pacific P. monodon into eight distinct clades, with Palau and PNG shrimp clustering among others from Southeast Asia and eastern Australia, respectively, and Fiji shrimp clustering as a distinct group. Phylogenetic analyses of mtDNA-CR haplotypes delineated shrimp into three groupings, with shrimp from Fiji again being distinct by sharing no haplotypes with other populations. Depending on regional location, the genetic structures and substructures identified from the genotyping and mtDNA-CR haplotype phylogeny could be explained by Metapopulation and/or Member–Vagrant type evolutionary processes. Neutrality tests of mutation-drift equilibrium and estimation of the time since population expansion supported a hypothesis that South Pacific P. monodon were colonized from Southeast Asia and eastern Australia during the Pleistocene period over 60,000 years ago when land bridges were more expansive and linked these regions more closely. PMID:22957205

Analysis of Copy Number Variation in the Abp Gene Regions of Two House Mouse Subspecies Suggests Divergence during the Gene Family Expansions.

PubMed

Pezer, Željka; Chung, Amanda G; Karn, Robert C; Laukaitis, Christina M

2017-06-01

The Androgen-binding protein ( Abp ) gene region of the mouse genome contains 64 genes, some encoding pheromones that influence assortative mating between mice from different subspecies. Using CNVnator and quantitative PCR, we explored copy number variation in this gene family in natural populations of Mus musculus domesticus ( Mmd ) and Mus musculus musculus ( Mmm ), two subspecies of house mice that form a narrow hybrid zone in Central Europe. We found that copy number variation in the center of the Abp gene region is very common in wild Mmd , primarily representing the presence/absence of the final duplications described for the mouse genome. Clustering of Mmd individuals based on this variation did not reflect their geographical origin, suggesting no population divergence in the Abp gene cluster. However, copy number variation patterns differ substantially between Mmd and other mouse taxa. Large blocks of Abp genes are absent in Mmm , Mus musculus castaneus and an outgroup, Mus spretus , although with differences in variation and breakpoint locations. Our analysis calls into question the reliance on a reference genome for interpreting the detailed organization of genes in taxa more distant from the Mmd reference genome. The polymorphic nature of the gene family expansion in all four taxa suggests that the number of Abp genes, especially in the central gene region, is not critical to the survival and reproduction of the mouse. However, Abp haplotypes of variable length may serve as a source of raw genetic material for new signals influencing reproductive communication and thus speciation of mice. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage

PubMed Central

Boyer, Karine; Leduc, Alice; Tourterel, Christophe; Drevet, Christine; Ravigné, Virginie; Gagnevin, Lionel; Guérin, Fabien; Chiroleu, Frédéric; Koebnik, Ralf; Verdier, Valérie; Vernière, Christian

2014-01-01

MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of their epidemiology, as well as of the history of epidemics on a global scale. Xanthomonas citri pv. citri is a quarantine organism in several countries and a major threat for the citrus industry worldwide. We screened the genomes of Xanthomonas citri pv. citri strain IAPAR 306 and of phylogenetically related xanthomonads for tandem repeats. From these in silico data, an optimized MLVA scheme was developed to assess the global diversity of this monomorphic bacterium. Thirty-one minisatellite loci (MLVA-31) were selected to assess the genetic structure of 129 strains representative of the worldwide pathological and genetic diversity of X. citri pv. citri. Based on Discriminant Analysis of Principal Components (DAPC), four pathotype-specific clusters were defined. DAPC cluster 1 comprised strains that were implicated in the major geographical expansion of X. citri pv. citri during the 20th century. A subset of 12 loci (MLVA-12) resolved 89% of the total diversity and matched the genetic structure revealed by MLVA-31. MLVA-12 is proposed for routine epidemiological identification of X. citri pv. citri, whereas MLVA-31 is proposed for phylogenetic and population genetics studies. MLVA-31 represents an opportunity for international X. citri pv. citri genotyping and data sharing. The MLVA-31 data generated in this study was deposited in the Xanthomonas citri genotyping database (http://www.biopred.net/MLVA/). PMID:24897119

The Substorm Current Wedge Revisited

NASA Astrophysics Data System (ADS)

Kepko, Larry; McPherron, Robert; Apatenkov, Sergey; Baumjohann, Wolfgang; Birn, Joachim; Lester, Mark; Nakamura, Rumi; Pulkkinen, Tuija; Sergeev, Victor

2015-04-01

Almost 40 years ago the concept of the substorm current wedge was developed to explain the magnetic signatures observed on the ground and in geosynchronous orbit during substorm expansion. In the ensuing decades new observations, including radar and low-altitude spacecraft, MHD simulations, and theoretical considerations have tremendously advanced our understanding of this system. The AMPTE/IRM, THEMIS and Cluster missions have added considerable observational knowledge, especially on the important role of fast flows in producing the stresses that generate the substorm current wedge. Recent detailed, multi-spacecraft, multi-instrument observations both in the magnetosphere and in the ionosphere have brought a wealth of new information about the details of the temporal evolution and structure of the current system. In this paper, we briefly review recent in situ and ground-based observations and theoretical work that have demonstrated a need for an update of the original picture. We present a revised, time-dependent picture of the substorm current wedge that follows its evolution from the initial substorm flows through substorm expansion and recovery, and conclude by identifying open questions.

Reconstruction of two colonisation pathways of Mantis religiosa (Mantodea) in Germany using four mitochondrial markers.

PubMed

Linn, Catherine Anne; Griebeler, Eva Maria

2015-02-01

Past and recent climatic changes induced shifts in species ranges. Mantis religiosa has also expanded its range across Germany within the past decades. To determine the ancestry of German M. religiosa we sequenced four mitochondrial genes (COI, COII, Cyt b, ND4) of European M. religiosa populations. We found an east, central and west European lineage of M. religiosa. These distinct lineages are consistent with genetic isolation by distance during glacial periods, and the re-colonization of northern parts of Europe by species from different refugia. Within Germany, we found haplotypes clustering to the central and west European lineage suggesting that M. religiosa immigrated from two directions into Germany. Mismatch distributions, and negative Tajima's D and Fu's Fs values indicate a current range expansion of the central and west European lineage. We hypothesise that ongoing global warming which increases the availability of thermally favourable areas in Germany for M. religiosa adds to its current range expansion. In conclusion, M. religiosa colonized Germany via two directions: west German populations descended from French populations and east German populations from Czech populations.

Resource concentration dilutes a key pest in indigenous potato agriculture.

PubMed

Parsa, Soroush; Ccanto, Raul; Rosenheim, Jay A

2011-03-01

Modern restructuring of agricultural landscapes, due to the expansion of monocultures and the resulting elimination of non-crop habitat, is routinely blamed for rising populations of agricultural insect pests. However, landscape studies demonstrating a positive correlation between pest densities and the spatial extent of crop monocultures are rare. We test this hypothesis with a data set from 140 subsistence farms in the Andes and find the inverse correlation. Infestations by the Andean potato weevil (Premnotrypes spp.), the most important pest in Andean potato agriculture, decrease with increasing amounts of potato in the landscape. A statistical model predicts that aggregating potato fields may outperform the management of Andean potato weevils by IPM and chemical control. We speculate that the strong pest suppression generated by aggregating potato fields may partly explain why indigenous potato farmers cluster their potato fields under a traditional rotation system common in Andean agriculture (i.e., "sectoral fallow"). Our results suggest that some agricultural pests may also respond negatively to the expansion of monocultures, and that manipulating the spatial arrangement of host crops may offer an important tool for some IPM programs.

Cosmology and fundamental physics with the Euclid satellite.

PubMed

Amendola, Luca; Appleby, Stephen; Avgoustidis, Anastasios; Bacon, David; Baker, Tessa; Baldi, Marco; Bartolo, Nicola; Blanchard, Alain; Bonvin, Camille; Borgani, Stefano; Branchini, Enzo; Burrage, Clare; Camera, Stefano; Carbone, Carmelita; Casarini, Luciano; Cropper, Mark; de Rham, Claudia; Dietrich, Jörg P; Di Porto, Cinzia; Durrer, Ruth; Ealet, Anne; Ferreira, Pedro G; Finelli, Fabio; García-Bellido, Juan; Giannantonio, Tommaso; Guzzo, Luigi; Heavens, Alan; Heisenberg, Lavinia; Heymans, Catherine; Hoekstra, Henk; Hollenstein, Lukas; Holmes, Rory; Hwang, Zhiqi; Jahnke, Knud; Kitching, Thomas D; Koivisto, Tomi; Kunz, Martin; La Vacca, Giuseppe; Linder, Eric; March, Marisa; Marra, Valerio; Martins, Carlos; Majerotto, Elisabetta; Markovic, Dida; Marsh, David; Marulli, Federico; Massey, Richard; Mellier, Yannick; Montanari, Francesco; Mota, David F; Nunes, Nelson J; Percival, Will; Pettorino, Valeria; Porciani, Cristiano; Quercellini, Claudia; Read, Justin; Rinaldi, Massimiliano; Sapone, Domenico; Sawicki, Ignacy; Scaramella, Roberto; Skordis, Constantinos; Simpson, Fergus; Taylor, Andy; Thomas, Shaun; Trotta, Roberto; Verde, Licia; Vernizzi, Filippo; Vollmer, Adrian; Wang, Yun; Weller, Jochen; Zlosnik, Tom

2018-01-01

Euclid is a European Space Agency medium-class mission selected for launch in 2020 within the cosmic vision 2015-2025 program. The main goal of Euclid is to understand the origin of the accelerated expansion of the universe. Euclid will explore the expansion history of the universe and the evolution of cosmic structures by measuring shapes and red-shifts of galaxies as well as the distribution of clusters of galaxies over a large fraction of the sky. Although the main driver for Euclid is the nature of dark energy, Euclid science covers a vast range of topics, from cosmology to galaxy evolution to planetary research. In this review we focus on cosmology and fundamental physics, with a strong emphasis on science beyond the current standard models. We discuss five broad topics: dark energy and modified gravity, dark matter, initial conditions, basic assumptions and questions of methodology in the data analysis. This review has been planned and carried out within Euclid's Theory Working Group and is meant to provide a guide to the scientific themes that will underlie the activity of the group during the preparation of the Euclid mission.

Cosmology and fundamental physics with the Euclid satellite

NASA Astrophysics Data System (ADS)

Amendola, Luca; Appleby, Stephen; Avgoustidis, Anastasios; Bacon, David; Baker, Tessa; Baldi, Marco; Bartolo, Nicola; Blanchard, Alain; Bonvin, Camille; Borgani, Stefano; Branchini, Enzo; Burrage, Clare; Camera, Stefano; Carbone, Carmelita; Casarini, Luciano; Cropper, Mark; de Rham, Claudia; Dietrich, Jörg P.; Di Porto, Cinzia; Durrer, Ruth; Ealet, Anne; Ferreira, Pedro G.; Finelli, Fabio; García-Bellido, Juan; Giannantonio, Tommaso; Guzzo, Luigi; Heavens, Alan; Heisenberg, Lavinia; Heymans, Catherine; Hoekstra, Henk; Hollenstein, Lukas; Holmes, Rory; Hwang, Zhiqi; Jahnke, Knud; Kitching, Thomas D.; Koivisto, Tomi; Kunz, Martin; La Vacca, Giuseppe; Linder, Eric; March, Marisa; Marra, Valerio; Martins, Carlos; Majerotto, Elisabetta; Markovic, Dida; Marsh, David; Marulli, Federico; Massey, Richard; Mellier, Yannick; Montanari, Francesco; Mota, David F.; Nunes, Nelson J.; Percival, Will; Pettorino, Valeria; Porciani, Cristiano; Quercellini, Claudia; Read, Justin; Rinaldi, Massimiliano; Sapone, Domenico; Sawicki, Ignacy; Scaramella, Roberto; Skordis, Constantinos; Simpson, Fergus; Taylor, Andy; Thomas, Shaun; Trotta, Roberto; Verde, Licia; Vernizzi, Filippo; Vollmer, Adrian; Wang, Yun; Weller, Jochen; Zlosnik, Tom

2018-04-01

Euclid is a European Space Agency medium-class mission selected for launch in 2020 within the cosmic vision 2015-2025 program. The main goal of Euclid is to understand the origin of the accelerated expansion of the universe. Euclid will explore the expansion history of the universe and the evolution of cosmic structures by measuring shapes and red-shifts of galaxies as well as the distribution of clusters of galaxies over a large fraction of the sky. Although the main driver for Euclid is the nature of dark energy, Euclid science covers a vast range of topics, from cosmology to galaxy evolution to planetary research. In this review we focus on cosmology and fundamental physics, with a strong emphasis on science beyond the current standard models. We discuss five broad topics: dark energy and modified gravity, dark matter, initial conditions, basic assumptions and questions of methodology in the data analysis. This review has been planned and carried out within Euclid's Theory Working Group and is meant to provide a guide to the scientific themes that will underlie the activity of the group during the preparation of the Euclid mission.

Cosmology and Fundamental Physics with the Euclid Satellite.

PubMed

Amendola, Luca; Appleby, Stephen; Bacon, David; Baker, Tessa; Baldi, Marco; Bartolo, Nicola; Blanchard, Alain; Bonvin, Camille; Borgani, Stefano; Branchini, Enzo; Burrage, Clare; Camera, Stefano; Carbone, Carmelita; Casarini, Luciano; Cropper, Mark; de Rham, Claudia; Di Porto, Cinzia; Ealet, Anne; Ferreira, Pedro G; Finelli, Fabio; García-Bellido, Juan; Giannantonio, Tommaso; Guzzo, Luigi; Heavens, Alan; Heisenberg, Lavinia; Heymans, Catherine; Hoekstra, Henk; Hollenstein, Lukas; Holmes, Rory; Horst, Ole; Jahnke, Knud; Kitching, Thomas D; Koivisto, Tomi; Kunz, Martin; La Vacca, Giuseppe; March, Marisa; Majerotto, Elisabetta; Markovic, Katarina; Marsh, David; Marulli, Federico; Massey, Richard; Mellier, Yannick; Mota, David F; Nunes, Nelson J; Percival, Will; Pettorino, Valeria; Porciani, Cristiano; Quercellini, Claudia; Read, Justin; Rinaldi, Massimiliano; Sapone, Domenico; Scaramella, Roberto; Skordis, Constantinos; Simpson, Fergus; Taylor, Andy; Thomas, Shaun; Trotta, Roberto; Verde, Licia; Vernizzi, Filippo; Vollmer, Adrian; Wang, Yun; Weller, Jochen; Zlosnik, Tom

2013-01-01

Euclid is a European Space Agency medium-class mission selected for launch in 2019 within the Cosmic Vision 2015-2025 program. The main goal of Euclid is to understand the origin of the accelerated expansion of the universe. Euclid will explore the expansion history of the universe and the evolution of cosmic structures by measuring shapes and red-shifts of galaxies as well as the distribution of clusters of galaxies over a large fraction of the sky. Although the main driver for Euclid is the nature of dark energy, Euclid science covers a vast range of topics, from cosmology to galaxy evolution to planetary research. In this review we focus on cosmology and fundamental physics, with a strong emphasis on science beyond the current standard models. We discuss five broad topics: dark energy and modified gravity, dark matter, initial conditions, basic assumptions and questions of methodology in the data analysis. This review has been planned and carried out within Euclid's Theory Working Group and is meant to provide a guide to the scientific themes that will underlie the activity of the group during the preparation of the Euclid mission.

Divergence of activity expansions: Is it actually a problem?

NASA Astrophysics Data System (ADS)

Ushcats, M. V.; Bulavin, L. A.; Sysoev, V. M.; Ushcats, S. Yu.

2017-12-01

For realistic interaction models, which include both molecular attraction and repulsion (e.g., Lennard-Jones, modified Lennard-Jones, Morse, and square-well potentials), the asymptotic behavior of the virial expansions for pressure and density in powers of activity has been studied taking power terms of high orders into account on the basis of the known finite-order irreducible integrals as well as the recent approximations of infinite irreducible series. Even in the divergence region (at subcritical temperatures), this behavior stays thermodynamically adequate (in contrast to the behavior of the virial equation of state with the same set of irreducible integrals) and corresponds to the beginning of the first-order phase transition: the divergence yields the jump (discontinuity) in density at constant pressure and chemical potential. In general, it provides a statistical explanation of the condensation phenomenon, but for liquid or solid states, the physically proper description (which can turn the infinite discontinuity into a finite jump of density) still needs further study of high-order cluster integrals and, especially, their real dependence on the system volume (density).

Neutrinos help reconcile Planck measurements with the local universe.

PubMed

Wyman, Mark; Rudd, Douglas H; Vanderveld, R Ali; Hu, Wayne

2014-02-07

Current measurements of the low and high redshift Universe are in tension if we restrict ourselves to the standard six-parameter model of flat ΛCDM. This tension has two parts. First, the Planck satellite data suggest a higher normalization of matter perturbations than local measurements of galaxy clusters. Second, the expansion rate of the Universe today, H0, derived from local distance-redshift measurements is significantly higher than that inferred using the acoustic scale in galaxy surveys and the Planck data as a standard ruler. The addition of a sterile neutrino species changes the acoustic scale and brings the two into agreement; meanwhile, adding mass to the active neutrinos or to a sterile neutrino can suppress the growth of structure, bringing the cluster data into better concordance as well. For our fiducial data set combination, with statistical errors for clusters, a model with a massive sterile neutrino shows 3.5σ evidence for a nonzero mass and an even stronger rejection of the minimal model. A model with massive active neutrinos and a massless sterile neutrino is similarly preferred. An eV-scale sterile neutrino mass--of interest for short baseline and reactor anomalies--is well within the allowed range. We caution that (i) unknown astrophysical systematic errors in any of the data sets could weaken this conclusion, but they would need to be several times the known errors to eliminate the tensions entirely; (ii) the results we find are at some variance with analyses that do not include cluster measurements; and (iii) some tension remains among the data sets even when new neutrino physics is included.

Weak Lensing Peaks in Simulated Light-Cones: Investigating the Coupling between Dark Matter and Dark Energy

NASA Astrophysics Data System (ADS)

Giocoli, Carlo; Moscardini, Lauro; Baldi, Marco; Meneghetti, Massimo; Metcalf, Robert B.

2018-05-01

In this paper, we study the statistical properties of weak lensing peaks in light-cones generated from cosmological simulations. In order to assess the prospects of such observable as a cosmological probe, we consider simulations that include interacting Dark Energy (hereafter DE) models with coupling term between DE and Dark Matter. Cosmological models that produce a larger population of massive clusters have more numerous high signal-to-noise peaks; among models with comparable numbers of clusters those with more concentrated haloes produce more peaks. The most extreme model under investigation shows a difference in peak counts of about 20% with respect to the reference ΛCDM model. We find that peak statistics can be used to distinguish a coupling DE model from a reference one with the same power spectrum normalisation. The differences in the expansion history and the growth rate of structure formation are reflected in their halo counts, non-linear scale features and, through them, in the properties of the lensing peaks. For a source redshift distribution consistent with the expectations of future space-based wide field surveys, we find that typically seventy percent of the cluster population contributes to weak-lensing peaks with signal-to-noise ratios larger than two, and that the fraction of clusters in peaks approaches one-hundred percent for haloes with redshift z ≤ 0.5. Our analysis demonstrates that peak statistics are an important tool for disentangling DE models by accurately tracing the structure formation processes as a function of the cosmic time.

Cosmology and astrophysics from relaxed galaxy clusters - IV: Robustly calibrating hydrostatic masses with weak lensing

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

Applegate, D. E; Mantz, A.; Allen, S. W.

This is the fourth in a series of papers studying the astrophysics and cosmology of massive, dynamically relaxed galaxy clusters. Here, we use measurements of weak gravitational lensing from the Weighing the Giants project to calibrate Chandra X-ray measurements of total mass that rely on the assumption of hydrostatic equilibrium. This comparison of X-ray and lensing masses measures the combined bias of X-ray hydrostatic masses from both astrophysical and instrumental sources. While we cannot disentangle the two sources of bias, only the combined bias is relevant for calibrating cosmological measurements using relaxed clusters. Assuming a fixed cosmology, and within amore » characteristic radius (r 2500) determined from the X-ray data, we measure a lensing to X-ray mass ratio of 0.96 ± 9% (stat) ± 9% (sys). We find no significant trends of this ratio with mass, redshift or the morphological indicators used to select the sample. Our results imply that any departures from hydrostatic equilibrium at these radii are offset by calibration errors of comparable magnitude, with large departures of tens-of-percent unlikely. In addition, we find a mean concentration of the sample measured from lensing data of c 200 = 3.0 +4.4 –1.8. In conclusion, anticipated short-term improvements in lensing systematics, and a modest expansion of the relaxed lensing sample, can easily increase the measurement precision by 30–50%, leading to similar improvements in cosmological constraints that employ X-ray hydrostatic mass estimates, such as on Ω m from the cluster gas mass fraction.« less

Bacterial community comparisons by taxonomy-supervised analysis independent of sequence alignment and clustering

PubMed Central

Sul, Woo Jun; Cole, James R.; Jesus, Ederson da C.; Wang, Qiong; Farris, Ryan J.; Fish, Jordan A.; Tiedje, James M.

2011-01-01

High-throughput sequencing of 16S rRNA genes has increased our understanding of microbial community structure, but now even higher-throughput methods to the Illumina scale allow the creation of much larger datasets with more samples and orders-of-magnitude more sequences that swamp current analytic methods. We developed a method capable of handling these larger datasets on the basis of assignment of sequences into an existing taxonomy using a supervised learning approach (taxonomy-supervised analysis). We compared this method with a commonly used clustering approach based on sequence similarity (taxonomy-unsupervised analysis). We sampled 211 different bacterial communities from various habitats and obtained ∼1.3 million 16S rRNA sequences spanning the V4 hypervariable region by pyrosequencing. Both methodologies gave similar ecological conclusions in that β-diversity measures calculated by using these two types of matrices were significantly correlated to each other, as were the ordination configurations and hierarchical clustering dendrograms. In addition, our taxonomy-supervised analyses were also highly correlated with phylogenetic methods, such as UniFrac. The taxonomy-supervised analysis has the advantages that it is not limited by the exhaustive computation required for the alignment and clustering necessary for the taxonomy-unsupervised analysis, is more tolerant of sequencing errors, and allows comparisons when sequences are from different regions of the 16S rRNA gene. With the tremendous expansion in 16S rRNA data acquisition underway, the taxonomy-supervised approach offers the potential to provide more rapid and extensive community comparisons across habitats and samples. PMID:21873204

Cosmology and astrophysics from relaxed galaxy clusters - IV: Robustly calibrating hydrostatic masses with weak lensing

DOE PAGES

Applegate, D. E; Mantz, A.; Allen, S. W.; ...

2016-02-04

This is the fourth in a series of papers studying the astrophysics and cosmology of massive, dynamically relaxed galaxy clusters. Here, we use measurements of weak gravitational lensing from the Weighing the Giants project to calibrate Chandra X-ray measurements of total mass that rely on the assumption of hydrostatic equilibrium. This comparison of X-ray and lensing masses measures the combined bias of X-ray hydrostatic masses from both astrophysical and instrumental sources. While we cannot disentangle the two sources of bias, only the combined bias is relevant for calibrating cosmological measurements using relaxed clusters. Assuming a fixed cosmology, and within amore » characteristic radius (r 2500) determined from the X-ray data, we measure a lensing to X-ray mass ratio of 0.96 ± 9% (stat) ± 9% (sys). We find no significant trends of this ratio with mass, redshift or the morphological indicators used to select the sample. Our results imply that any departures from hydrostatic equilibrium at these radii are offset by calibration errors of comparable magnitude, with large departures of tens-of-percent unlikely. In addition, we find a mean concentration of the sample measured from lensing data of c 200 = 3.0 +4.4 –1.8. In conclusion, anticipated short-term improvements in lensing systematics, and a modest expansion of the relaxed lensing sample, can easily increase the measurement precision by 30–50%, leading to similar improvements in cosmological constraints that employ X-ray hydrostatic mass estimates, such as on Ω m from the cluster gas mass fraction.« less

Mass distribution in galaxy clusters: the role of Active Galactic Nuclei feedback

NASA Astrophysics Data System (ADS)

Teyssier, Romain; Moore, Ben; Martizzi, Davide; Dubois, Yohan; Mayer, Lucio

2011-06-01

We use 1-kpc resolution cosmological Adaptive Mesh Refinement (AMR) simulations of a Virgo-like galaxy cluster to investigate the effect of feedback from supermassive black holes on the mass distribution of dark matter, gas and stars. We compared three different models: (i) a standard galaxy formation model featuring gas cooling, star formation and supernovae feedback, (ii) a 'quenching' model for which star formation is artificially suppressed in massive haloes and finally (iii) the recently proposed active galactic nucleus (AGN) feedback model of Booth and Schaye. Without AGN feedback (even in the quenching case), our simulated cluster suffers from a strong overcooling problem, with a stellar mass fraction significantly above observed values in M87. The baryon distribution is highly concentrated, resulting in a strong adiabatic contraction (AC) of dark matter. With AGN feedback, on the contrary, the stellar mass in the brightest cluster galaxy (BCG) lies below observational estimates and the overcooling problem disappears. The stellar mass of the BCG is seen to increase with increasing mass resolution, suggesting that our stellar masses converge to the correct value from below. The gas and total mass distributions are in better agreement with observations. We also find a slight deficit (˜10 per cent) of baryons at the virial radius, due to the combined effect of AGN-driven convective motions in the inner parts and shock waves in the outer regions, pushing gas to Mpc scales and beyond. This baryon deficit results in a slight adiabatic expansion of the dark matter distribution that can be explained quantitatively by AC theory.

Cosmology and astrophysics from relaxed galaxy clusters - IV. Robustly calibrating hydrostatic masses with weak lensing

NASA Astrophysics Data System (ADS)

Applegate, D. E.; Mantz, A.; Allen, S. W.; von der Linden, A.; Morris, R. Glenn; Hilbert, S.; Kelly, Patrick L.; Burke, D. L.; Ebeling, H.; Rapetti, D. A.; Schmidt, R. W.

2016-04-01

This is the fourth in a series of papers studying the astrophysics and cosmology of massive, dynamically relaxed galaxy clusters. Here, we use measurements of weak gravitational lensing from the Weighing the Giants project to calibrate Chandra X-ray measurements of total mass that rely on the assumption of hydrostatic equilibrium. This comparison of X-ray and lensing masses measures the combined bias of X-ray hydrostatic masses from both astrophysical and instrumental sources. While we cannot disentangle the two sources of bias, only the combined bias is relevant for calibrating cosmological measurements using relaxed clusters. Assuming a fixed cosmology, and within a characteristic radius (r2500) determined from the X-ray data, we measure a lensing to X-ray mass ratio of 0.96 ± 9 per cent (stat) ± 9 per cent (sys). We find no significant trends of this ratio with mass, redshift or the morphological indicators used to select the sample. Our results imply that any departures from hydrostatic equilibrium at these radii are offset by calibration errors of comparable magnitude, with large departures of tens-of-percent unlikely. In addition, we find a mean concentration of the sample measured from lensing data of c_{200} = 3.0_{-1.8}^{+4.4}. Anticipated short-term improvements in lensing systematics, and a modest expansion of the relaxed lensing sample, can easily increase the measurement precision by 30-50 per cent, leading to similar improvements in cosmological constraints that employ X-ray hydrostatic mass estimates, such as on Ωm from the cluster gas mass fraction.

Genetic structure and demographic history should inform conservation: Chinese cobras currently treated as homogenous show population divergence.

PubMed

Lin, Long-Hui; Qu, Yan-Fu; Li, Hong; Zhou, Kai-Ya; Ji, Xiang

2012-01-01

An understanding of population structure and genetic diversity is crucial for wildlife conservation and for determining the integrity of wildlife populations. The vulnerable Chinese cobra (Naja atra) has a distribution from the mouth of the Yangtze River down to northern Vietnam and Laos, within which several large mountain ranges and water bodies may influence population structure. We combined 12 microsatellite loci and 1117 bp of the mitochondrial cytochrome b gene to explore genetic structure and demographic history in this species, using 269 individuals from various localities in Mainland China and Vietnam. High levels of genetic variation were identified for both mtDNA and microsatellites. mtDNA data revealed two main (Vietnam + southern China + southwestern China; eastern + southeastern China) and one minor (comprising only two individuals from the westernmost site) clades. Microsatellite data divided the eastern + southeastern China clade further into two genetic clusters, which include individuals from the eastern and southeastern regions, respectively. The Luoxiao and Nanling Mountains may be important barriers affecting the diversification of lineages. In the haplotype network of cytchrome b, many haplotypes were represented within a "star" cluster and this and other tests suggest recent expansion. However, microsatellite analyses did not yield strong evidence for a recent bottleneck for any population or genetic cluster. The three main clusters identified here should be considered as independent management units for conservation purposes. The release of Chinese cobras into the wild should cease unless their origin can be determined, and this will avoid problems arising from unnatural homogenization.

Enacs Survey of Southern Galaxies Indicates Open Universe

NASA Astrophysics Data System (ADS)

1996-02-01

New Light on Rich Clusters of Galaxies and their Formation History In the context of a comprehensive Key-Programme , carried out with telescopes at the ESO La Silla Observatory, a team of European astronomers [1]. has recently obtained radial velocities for more than 5600 galaxies in about 100 rich clusters of galaxies. With this programme the amount of information about the motions of galaxies (the kinematical data) in such clusters has almost been doubled. This has allowed the team to study the distribution of the cluster masses, and also the dynamical state of clusters in new and interesting ways. An important result of this programme is that the derived masses of the investigated clusters of galaxies indicate that the mean density of the Universe is insufficient to halt the current expansion; we may therefore be living in an open Universe that will expand forever. Clusters of galaxies as tracers of large-scale structure About 40 years ago, American astronomer George Abell, working at the Palomar Observatory in California, was the first to perform a systematic study of rich clusters of galaxies , that is clusters with particularly many member galaxies located within a relatively restricted region in the sky. He identified several thousands of such clusters, and he numbered and described them; they are now known to astronomers as `Abell clusters'. More than twenty years earlier, Swiss-American astronomer Fritz Zwicky, using the famous 100-inch Mount Wilson telescope above Los Angeles, concluded that the total mass of a rich cluster of galaxies is probably much larger than the combined mass of the individual galaxies we can observe in it. This phenomenon is now known as the `Missing Dark Matter' , and many attempts have since been made to understand its true nature. Although the existence of this Dark Matter is generally accepted, it has been very difficult to prove its existence in a direct way. Rich clusters have several components: in addition to several hundreds, in some cases even thousands of galaxies (each with many billions of stars and much interstellar matter), they also contain hot gas (with a temperature of several million degrees) which is best visible in X-rays, as well as the invisible dark matter just mentioned. In fact, these clusters are the largest and most massive objects that are known today, and a detailed study of their properties can therefore provide insight into the way in which large-scale structures in the Universe have formed. This unique information is encoded into the distribution of the clusters' total masses, of their physical shapes, and not the least in the way they are distributed in space. The need for a `complete' cluster sample Several of these fundamental questions can be studied by observing a few, or at the most several tens of well-chosen clusters. However, if the goal is to discriminate between the various proposed theories of formation of their spatial distribution and thus the Universe's large-scale structure, it is essential that uniform data is collected for a sample of clusters that is complete in a statistical sense. Only then will it be possible to determine reliably the distribution of cluster masses and shapes, etc. For such comprehensive investigations, `complete' samples of clusters (that is, brighter than a certain magnitude and located within a given area in the sky) can be compiled either by means of catalogues like the one published by Abell and his collaborators and based on the distribution of optically selected galaxies, or from large-scale surveys of X-ray sources. However, in both cases, it is of paramount importance to verify the physical reality of the presumed clusters. Sometimes several galaxies are seen in nearly the same direction and therefore appear to form a cluster, but it later turns out that they are at very different distances and do not form a physical entity. This control must be performed through spectroscopic observations of the galaxies in the candidate clusters. Such observations are crucial, as they not only prove the existence of a cluster, but also determine its distance and provide information about the motion of the individual galaxies within the cluster. The ESO Nearby Abell Cluster Survey (ENACS) Until recently, there existed no large cluster sample with extensive and uniform data on the motions of the individual galaxies. But now, in the context of an ESO Key-Programme known as the ESO Nearby Abell Cluster Survey or ENACS , the team of European astronomers has collected spectroscopic and photometric data for a substantial sample of more than one-hundred, rich and relatively nearby southern clusters from the Abell catalogue [2]. The extensive observations were carried out with the OPTOPUS multi-fibre spectrograph attached to the ESO 3.6-metre telescope at the La Silla Observatory, during 35 nights in the period from September 1989 to October 1993. With this very efficient spectrograph, the spectra of about 50 galaxies could be recorded simultaneously, dramatically reducing the necessary observing time. In total, the programme has yielded reliable radial velocities for more than 5600 galaxies in the direction of about 100 rich clusters. The velocities were derived from a comparison of the observed wavelengths of absorption and emission lines with their rest wavelengths (the galaxy `redshifts'). Assuming a particular value of the `Hubble constant' (the proportionality factor between the velocity of a galaxy and its distance, due to the general expansion of the Universe), the distances of the galaxies can then be derived directly from the measured velocities. The new observations approximately double the amount of data available for rich clusters of galaxies. In combination with earlier data, the ENACS has produced a `complete' sample of 128 rich Abell clusters in a region centered near the south galactic pole (the direction which is perpendicular to the main plane of the Milky Way galaxy), and comprising about one-fifth of the entire sky. The sample extends out to a cluster distance of almost 1,000 million light-years (300 Mpc) The space density of the 128 clusters is constant within the investigated volume, so that this sample is well suited to study, among others, the distribution of cluster masses. For a representative subset of 80 clusters, accurate information on the internal motions of galaxies in the clusters is available. Most nearby and rich Abell clusters are real In their pioneering work, Abell and his collaborators identified the clusters from visual inspection of photographic plates obtained with the Palomar telescopes [3]. Some concern has frequently been expressed that an important fraction of the rich Abell clusters may not be real, but rather the result of chance superpositions in the sky of several smaller groups of galaxies. However, the data of the ENACS now prove conclusively that 90 percent of the rich, nearby Abell clusters are real: i.e. many of the galaxies observed in each of these clusters are indeed at the same distance and they form a physical entity. Nevertheless, about one-quarter of the galaxies in the ENACS do not belong to the main clusters and reside in much smaller galaxy groups or are located in the vast space in between. This can be clearly seen in the distribution of the radial velocities in the direction of each of the clusters, shown in the diagramme (click here to get the [GIF,35k] or [Postscript,544k] version and the caption ) attached to this Press Release. When studying this distribution, it must be kept in mind, that the velocities of the galaxies in the clusters contain two components. The first is due to the general expansion of the Universe and depends only on the distance of the cluster; it is therefore the same for all galaxies in the cluster. The other reflects the individual motions of the galaxies within the cluster. Cluster masses and the mean density of the Universe The motions of the galaxies within a cluster makes it possible to estimate the total mass of the cluster: the greater the mass, the faster the motions must be in order to prevent the cluster from collapsing [4]. Using the data for the full sample of 128 clusters, the distribution of cluster masses has been derived. This distribution has been compared with predictions based on several models for the formation of large-scale structures in the Universe. A very important result of the current work is that the observations do not support scenarios which are based on the assumption that the mean density of the Universe is equal to the `critical' value, i.e. the one which would correspond to a so-called `flat' Universe. The observed cluster masses are systematically smaller than those predicted in such models. Instead, the observed distribution of cluster masses seems to indicate that the mean density of the Universe is probably only a fairly small fraction of the critical value. This points to the Universe being `open' and ever-expanding. Cluster formation may still be going on The galaxies observed during the ENACS programme may be divided into two groups on the basis of their optical spectra, those that show clear emission lines and those that do not. The former are almost all late-type galaxies, that is spiral galaxies with ionized gas in their disks which gives rise to the emission lines. It appears that both the distribution within the cluster, as well as the velocities, of the galaxies with emission lines are significantly different from those of the galaxies without emission lines. It seems that the emission-line galaxies have a tendency to avoid the central regions of their clusters, and their average radial velocities are about 20 percent larger than those of the non-emission galaxies. A plausible interpretation of these results is that a large part of the emission-line galaxies have not yet `mixed' with the other galaxies, and that they are approaching the central regions of their respective clusters for the first time. This may imply that the formation of at least a good fraction of the nearby, rich clusters is still going on. If the mean density of the Universe is indeed much smaller than the critical density, as indicated by the cluster masses determined during this survey, then this is a quite unexpected result. One explanation may be that many clusters have only started to form fairly recently. Notes: [1] The team is headed by Peter Katgert (Leiden Observatory, The Netherlands) and Alain Mazure (Laboratoire d'Astronomie Spatiale, Marseille, France); other members are Andrea Biviano and Roland den Hartog (Leiden Observatory, The Netherlands), Pierre Dubath (Observatoire de Geneve, Switzerland), Eric Escalera (SISSA, Trieste, Italy), Paola Focardi (Bologna University, Italy), Daniel Gerbal (Institut d'Astrophysique, Paris, France), Guilano Giuricin (SISSA, Trieste, Italy), Bernard Jones (Theoretical Astrophysics Centre, Copenhagen, Denmark), Olivier Le Fevre (Meudon Observatory, Paris, France), Mariano Moles and Jaime Perea (Astrophysics Institute of Andalucia, Granada, Spain), and George Rhee (University of Nevada, Las Vegas, U.S.A.). [2] The detailed results will soon be published in two comprehensive articles to appear in the European journal Astronomy & Astrophysics. [3] This Press Release is accompanied by ESO Press Photo 07/96, (click here to get the image [GIF,45k] and caption ) showing one of the rich clusters, as observed with the ESO 1-metre Schmidt telescope. [4] The masses of the planets in the solar system are determined in a similar way from the motions of their moons. The faster the moon moves around the planet at a given distance, the heavier is the planet.

Desolvation of polymers by ultrafast heating: Influence of hydrophilicity

NASA Astrophysics Data System (ADS)

Sun, Si Neng; Urbassek, Herbert M.

2010-10-01

Using molecular-dynamics simulation, we investigate the consequences of ultrafast laser-induced heating of a small water droplet containing a solvated polymer. Two polymers are studied: polyethylene as an example of a hydrophobic, and polyketone as an example of a hydrophilic polymer. In both cases, when the droplet is heated below the critical temperature of water, strong water evaporation is started, but the polymer remains in contact with a central water cluster. However, upon heating beyond the critical temperature, the hydrophilic polyethylene becomes completely desolvated, while polyketone still remains solvated. We analyze this behavior in terms of the intermolecular interactions and of the expansion dynamics of the heated droplet.

Early history of European domestic cattle as revealed by ancient DNA.

PubMed

Bollongino, R; Edwards, C J; Alt, K W; Burger, J; Bradley, D G

2006-03-22

We present an extensive ancient DNA analysis of mainly Neolithic cattle bones sampled from archaeological sites along the route of Neolithic expansion, from Turkey to North-Central Europe and Britain. We place this first reasonable population sample of Neolithic cattle mitochondrial DNA sequence diversity in context to illustrate the continuity of haplotype variation patterns from the first European domestic cattle to the present. Interestingly, the dominant Central European pattern, a starburst phylogeny around the modal sequence, T3, has a Neolithic origin, and the reduced diversity within this cluster in the ancient samples accords with their shorter history of post-domestic accumulation of mutation.

Laser induced bubbles inside liquids: Transient optical properties and effects on a beam propagation

NASA Astrophysics Data System (ADS)

Lazic, V.; Jovicevic, S.; Carpanese, M.

2012-07-01

Light transmission through a laser formed bubble (LFB) following ablation of a metallic target inside water was studied. During the early expansion and late collapsing phases, the refraction index nb of the hot high-pressure vapor bubble is higher than 1.23 and close to that of the surrounding liquid. The cavity growth lowers nb down to 1.00 and causes strong defocusing of the incident laser beam with consequent enlargement of the ablation crater diameter, here overcoming factor two. Inhomogeneous water vapor clustering inside the cool expanded bubble further perturbs the light transmission and induces irregular ablation by the successive laser pulse.

Randomly diluted eg orbital-ordered systems.

PubMed

Tanaka, T; Matsumoto, M; Ishihara, S

2005-12-31

Dilution effects on the long-range ordered state of the doubly degenerate e(g) orbital are investigated. Quenched impurities without the orbital degree of freedom are introduced in the orbital model where the long-range order is realized by the order-from-disorder mechanism. It is shown by Monte Carlo simulations and the cluster-expansion method that a decrease in the orbital-ordering temperature by dilution is substantially larger than that in the randomly diluted spin models. Tilting of orbital pseudospins around impurities is the essence of this dilution effect. The present theory provides a new viewpoint for the recent resonant x-ray scattering experiments in KCu(1-x)Zn(x)F(3).

Curvature and temperature of complex networks.

PubMed

Krioukov, Dmitri; Papadopoulos, Fragkiskos; Vahdat, Amin; Boguñá, Marián

2009-09-01

We show that heterogeneous degree distributions in observed scale-free topologies of complex networks can emerge as a consequence of the exponential expansion of hidden hyperbolic space. Fermi-Dirac statistics provides a physical interpretation of hyperbolic distances as energies of links. The hidden space curvature affects the heterogeneity of the degree distribution, while clustering is a function of temperature. We embed the internet into the hyperbolic plane and find a remarkable congruency between the embedding and our hyperbolic model. Besides proving our model realistic, this embedding may be used for routing with only local information, which holds significant promise for improving the performance of internet routing.

Isentropic calculation for thermodynamic properties of polarized liquid 3He by considering the effect of spin-dependent correlation function

NASA Astrophysics Data System (ADS)

Bordbar, G. H.; Hosseini, S.; Poostforush, A.

2017-05-01

Correlations in quantum fluids such as liquid 3He continue to be of high interest to scientists. Based on this prospect, the present work is devoted to study the effects of spin-spin correlation function on the thermodynamic properties of polarized liquid 3He such as pressure, velocity of sound, adiabatic index and adiabatic compressibility along different isentropic paths, using the Lennard-Jones potential and employing the variational approach based on cluster expansion of the energy functional. The inclusion of this correlation improves our previous calculations and leads to good agreements with experimental results.

Pleiades Visions

NASA Astrophysics Data System (ADS)

Whitehouse, M.

2016-01-01

Pleiades Visions (2012) is my new musical composition for organ that takes inspiration from traditional lore and music associated with the Pleiades (Seven Sisters) star cluster from Australian Aboriginal, Native American, and Native Hawaiian cultures. It is based on my doctoral dissertation research incorporating techniques from the fields of ethnomusicology and cultural astronomy; this research likely represents a new area of inquiry for both fields. This large-scale work employs the organ's vast sonic resources to evoke the majesty of the night sky and the expansive landscapes of the homelands of the above-mentioned peoples. Other important themes in Pleiades Visions are those of place, origins, cosmology, and the creation of the world.

Early stages of carbonate mineralization revealed from molecular simulations: Implications for biomineral formation

NASA Astrophysics Data System (ADS)

Wallace, A. F.; DeYoreo, J.; Banfield, J. F.

2011-12-01

The carbonate mineral constituents of many biomineralized products, formed both in and ex vivo, grow by a multi-stage crystallization process that involves the nucleation and structural reorganization of transient amorphous phases. The existence of transient phases and cluster species has significant implications for carbonate nucleation and growth in natural and engineered environments, both modern and ancient. The structure of these intermediate phases remains elusive, as does the nature of the disorder to order transition, however, these process details may strongly influence the interpretation of elemental and isotopic climate proxy data obtained from authigenic and biogenic carbonates. While molecular simulations have been applied to certain aspects of crystal growth, studies of metal carbonate nucleation are strongly inhibited by the presence of kinetic traps that prevent adequate sampling of the potential landscape upon which the growing clusters reside within timescales accessible by simulation. This research addresses this challenge by marrying the recent Kawska-Zahn (KZ) approach to simulation of crystal nucleation and growth from solution with replica-exchange molecular dynamics (REMD) techniques. REMD has been used previously to enhance sampling of protein conformations that occupy energy wells that are separated by sizable thermodynamic and kinetic barriers, and is used here to probe the initial formation and onset of order within hydrated calcium and iron carbonate cluster species during nucleation. Results to date suggest that growing clusters initiate as short linear ion chains that evolve into two- and three-dimensional structures with continued growth. The planar structures exhibit an obvious 2d lattice, while establishment of a 3d lattice is hindered by incomplete ion desolvation. The formation of a dehydrated core consisting of a single carbonate ion is observed when the clusters are ~0.75 nm. At the same size a distorted, but discernible calcite-type lattice is also apparent. Continued growth results in expansion of the dehydrated core, however, complete desolvation and incorporation of cations into the growing carbonate phase is not achieved until the cluster grows to ~1.2 nm. Exploration of the system free energy along the crystallization path reveals "special" cluster sizes that correlate with ion desolvation milestones. The formation of these species comprise critical bottlenecks on the energy landscape and for the establishment of order within the growing clusters.

Absence of population genetic structure in Heterakis gallinarum of chicken from Sichuan, inferred from mitochondrial cytochrome c oxidase subunit I gene.

PubMed

Gu, Xiaobin; Zhu, Jun-Yang; Jian, Ke-Ling; Wang, Bao-Jian; Peng, Xue-Rong; Yang, Guang-You; Wang, Tao; Zhong, Zhi-Jun; Peng, Ke-Yun

2016-09-01

Population genetics information provides a foundation for understanding the transmission and epidemiology of parasite and, therefore, may be used to assist in the control of parasitosis. However, limited available sequence information in Heterakis gallinarum has greatly impeded the study in this area. In this study, we first investigated the genetic variability and genetic structure of H. gallinarum. The 1325 bp fragments of the mitochondrial COX1 gene were amplified in 56 isolates of H. gallinarum from seven different geographical regions in Sichuan province, China. The 56 sequences were classified into 22 haplotypes (H1-H22). The values of haplotype diversity (0.712) and nucleotide diversity (0.00158) in Sichuan population indicate a rapid expansion occurred from a relatively small, short-term effective population in the past. The haplotype network formed a distribution around H1 in a star-like topology, and the haplotypes did not cluster according to their geographical location. Similar conclusions could be made from MP phylogenetic tree. The Fst value (Fst<0.16965) and AMOVA analysis revealed that no significant genetic differentiation was observed among the seven different geographical populations. Neutrality tests (Tajima's D and Fu's Fs) and mismatch analysis indicated that H. gallinarum experienced a population expansion in the past. Our results indicated that H. gallinarum experienced a rapid population expansion in the past, and there was a low genetic diversity and an absence of population structure across the population.

Ascidian and amphioxus Adh genes correlate functional and molecular features of the ADH family expansion during vertebrate evolution.

PubMed

Cañestro, Cristian; Albalat, Ricard; Hjelmqvist, Lars; Godoy, Laura; Jörnvall, Hans; Gonzàlez-Duarte, Roser

2002-01-01

The alcohol dehydrogenase (ADH) family has evolved into at least eight ADH classes during vertebrate evolution. We have characterized three prevertebrate forms of the parent enzyme of this family, including one from an urochordate (Ciona intestinalis) and two from cephalochordates (Branchiostoma floridae and Branchiostoma lanceolatum). An evolutionary analysis of the family was performed gathering data from protein and gene structures, exon-intron distribution, and functional features through chordate lines. Our data strongly support that the ADH family expansion occurred 500 million years ago, after the cephalochordate/vertebrate split, probably in the gnathostome subphylum line of the vertebrates. Evolutionary rates differ between the ancestral, ADH3 (glutathione-dependent formaldehyde dehydrogenase), and the emerging forms, including the classical alcohol dehydrogenase, ADH1, which has an evolutionary rate 3.6-fold that of the ADH3 form. Phylogenetic analysis and chromosomal mapping of the vertebrate Adh gene cluster suggest that family expansion took place by tandem duplications, probably concurrent with the extensive isoform burst observed before the fish/tetrapode split, rather than through the large-scale genome duplications also postulated in early vertebrate evolution. The absence of multifunctionality in lower chordate ADHs and the structures compared argue in favor of the acquisition of new functions in vertebrate ADH classes. Finally, comparison between B. floridae and B. lanceolatum Adhs provides the first estimate for a cephalochordate speciation, 190 million years ago, probably concomitant with the beginning of the drifting of major land masses from the Pangea.

Living at the edge: biogeographic patterns of habitat segregation conform to speciation by niche expansion in Anopheles gambiae

PubMed Central

Costantini, Carlo; Ayala, Diego; Guelbeogo, Wamdaogo M; Pombi, Marco; Some, Corentin Y; Bassole, Imael HN; Ose, Kenji; Fotsing, Jean-Marie; Sagnon, N'Falé; Fontenille, Didier; Besansky, Nora J; Simard, Frédéric

2009-01-01

Background Ongoing lineage splitting within the African malaria mosquito Anopheles gambiae is compatible with ecological speciation, the evolution of reproductive isolation by divergent natural selection acting on two populations exploiting alternative resources. Divergence between two molecular forms (M and S) identified by fixed differences in rDNA, and characterized by marked, although incomplete, reproductive isolation is occurring in West and Central Africa. To elucidate the role that ecology and geography play in speciation, we carried out a countrywide analysis of An. gambiae M and S habitat requirements, and that of their chromosomal variants, across Burkina Faso. Results Maps of relative abundance by geostatistical interpolators produced a distinct pattern of distribution: the M-form dominated in the northernmost arid zones, the S-form in the more humid southern regions. Maps of habitat suitability, quantified by Ecological Niche Factor Analysis based on 15 eco-geographical variables revealed less contrast among forms. M was peculiar as it occurred proportionally more in habitat of marginal quality. Measures of ecological niche breadth and overlap confirmed the mismatch between the fundamental and realized patterns of habitat occupation: forms segregated more than expected from the extent of divergence of their environmental envelope – a signature of niche expansion. Classification of chromosomal arm 2R karyotypes by multilocus genetic clustering identified two clusters loosely corresponding to molecular forms, with 'mismatches' representing admixed individuals due to shared ancestral polymorphism and/or residual hybridization. In multivariate ordination space, these karyotypes plotted in habitat of more marginal quality compared to non-admixed, 'typical', karyotypes. The distribution of 'typical' karyotypes along the main eco-climatic gradient followed a consistent pattern within and between forms, indicating an adaptive role of inversions at this geographical scale. Conclusion Ecological segregation between M and S is consistent with niche expansion into marginal habitats by chromosomal inversion variants during early lineage divergence; presumably, this process is promoted by inter-karyotype competition in the higher-quality core habitat. We propose that the appearance of favourable allelic combinations in other regions of suppressed recombination (e.g. pericentromeric portions defining speciation islands in An. gambiae) fosters development of reproductive isolation to protect linkage between separate chromosomal regions. PMID:19460144

Dark Energy Found Stifling Growth in Universe

NASA Astrophysics Data System (ADS)

2008-12-01

WASHINGTON -- For the first time, astronomers have clearly seen the effects of "dark energy" on the most massive collapsed objects in the universe using NASA's Chandra X-ray Observatory. By tracking how dark energy has stifled the growth of galaxy clusters and combining this with previous studies, scientists have obtained the best clues yet about what dark energy is and what the destiny of the universe could be. This work, which took years to complete, is separate from other methods of dark energy research such as supernovas. These new X-ray results provide a crucial independent test of dark energy, long sought by scientists, which depends on how gravity competes with accelerated expansion in the growth of cosmic structures. Techniques based on distance measurements, such as supernova work, do not have this special sensitivity. Scientists think dark energy is a form of repulsive gravity that now dominates the universe, although they have no clear picture of what it actually is. Understanding the nature of dark energy is one of the biggest problems in science. Possibilities include the cosmological constant, which is equivalent to the energy of empty space. Other possibilities include a modification in general relativity on the largest scales, or a more general physical field. People Who Read This Also Read... Chandra Data Reveal Rapidly Whirling Black Holes Ghostly Glow Reveals a Hidden Class of Long-Wavelength Radio Emitters Powerful Nearby Supernova Caught By Web Cassiopeia A Comes Alive Across Time and Space To help decide between these options, a new way of looking at dark energy is required. It is accomplished by observing how cosmic acceleration affects the growth of galaxy clusters over time. "This result could be described as 'arrested development of the universe'," said Alexey Vikhlinin of the Smithsonian Astrophysical Observatory in Cambridge, Mass., who led the research. "Whatever is forcing the expansion of the universe to speed up is also forcing its development to slow down." Vikhlinin and his colleagues used Chandra to observe the hot gas in dozens of galaxy clusters, which are the largest collapsed objects in the universe. Some of these clusters are relatively close and others are more than halfway across the universe. The results show the increase in mass of the galaxy clusters over time aligns with a universe dominated by dark energy. It is more difficult for objects like galaxy clusters to grow when space is stretched, as caused by dark energy. Vikhlinin and his team see this effect clearly in their data. The results are remarkably consistent with those from the distance measurements, revealing general relativity applies, as expected, on large scales. "For years, scientists have wanted to start testing how gravity works on large scales and now, we finally have," said William Forman, a co-author of the study from the Smithsonian Astrophysical Observatory. "This is a test that general relativity could have failed." When combined with other clues -- supernovas, the study of the cosmic microwave background, and the distribution of galaxies -- this new X-ray result gives scientists the best insight to date on the properties of dark energy. The study strengthens the evidence that dark energy is the cosmological constant. Although it is the leading candidate to explain dark energy, theoretical work suggests it should be about 10 raised to the power of 120 times larger than observed. Therefore, alternatives to general relativity, such as theories involving hidden dimensions, are being explored. "Putting all of this data together gives us the strongest evidence yet that dark energy is the cosmological constant, or in other words, that 'nothing weighs something'," said Vikhlinin. "A lot more testing is needed, but so far Einstein's theory is looking as good as ever." These results have consequences for predicting the ultimate fate of the universe. If dark energy is explained by the cosmological constant, the expansion of the universe will continue to accelerate, and the Milky Way and its neighbor galaxy, Andromeda, never will merge with the Virgo cluster. In that case, about a hundred billion years from now, all other galaxies ultimately would disappear from the Milky Way's view and, eventually, the local superclusters of galaxies also would disintegrate. The work by Vikhlinin and his colleagues will be published in two separate papers in the Feb. 10 issue of The Astrophysical Journal. NASA's Marshall Space Flight Center in Huntsville, Ala., manages the Chandra program for NASA's Science Mission Directorate in Washington. The Smithsonian Astrophysical Observatory controls Chandra's science and flight operations from Cambridge, Mass.

Replacing dark energy by silent virialisation

NASA Astrophysics Data System (ADS)

Roukema, Boudewijn F.

2018-02-01

Context. Standard cosmological N-body simulations have background scale factor evolution that is decoupled from non-linear structure formation. Prior to gravitational collapse, kinematical backreaction (𝒬𝒟) justifies this approach in a Newtonian context. Aims: However, the final stages of a gravitational collapse event are sudden; a globally imposed smooth expansion rate forces at least one expanding region to suddenly and instantaneously decelerate in compensation for the virialisation event. This is relativistically unrealistic. A more conservative hypothesis is to allow non-collapsed domains to continue their volume evolution according to the 𝒬𝒟 Zel'dovich approximation (QZA). We aim to study the inferred average expansion under this "silent" virialisation hypothesis. Methods: We set standard (MPGRAFIC) EdS 3-torus (T3) cosmological N-body initial conditions. Using RAMSES, we partitioned the volume into domains and called the DTFE library to estimate the per-domain initial values of the three invariants of the extrinsic curvature tensor that determine the QZA. We integrated the Raychaudhuri equation in each domain using the INHOMOG library, and adopted the stable clustering hypothesis to represent virialisation (VQZA). We spatially averaged to obtain the effective global scale factor. We adopted an early-epoch-normalised EdS reference-model Hubble constant H1EdS = 37.7 km s-1 /Mpc and an effective Hubble constant Heff,0 = 67.7 km s-1 /Mpc. Results: From 2000 simulations at resolution 2563, we find that reaching a unity effective scale factor at 13.8 Gyr (16% above EdS), occurs for an averaging scale of L13.813 = 2.5-0.1+0.1 Mpc/heff. Relativistically interpreted, this corresponds to strong average negative curvature evolution, with the mean (median) curvature functional Ωℛ𝒟 growing from zero to about 1.5-2 by the present. Over 100 realisations, the virialisation fraction and super-EdS expansion correlate strongly at fixed cosmological time. Conculsions. Thus, starting from EdS initial conditions and averaging on a typical non-linear structure formation scale, the VQZA dark-energy-free average expansion matches ΛCDM expansion to first order. The software packages used here are free-licensed.

Water 16-mers and hexamers: assessment of the three-body and electrostatically embedded many-body approximations of the correlation energy or the nonlocal energy as ways to include cooperative effects.

PubMed

Qi, Helena W; Leverentz, Hannah R; Truhlar, Donald G

2013-05-30

This work presents a new fragment method, the electrostatically embedded many-body expansion of the nonlocal energy (EE-MB-NE), and shows that it, along with the previously proposed electrostatically embedded many-body expansion of the correlation energy (EE-MB-CE), produces accurate results for large systems at the level of CCSD(T) coupled cluster theory. We primarily study water 16-mers, but we also test the EE-MB-CE method on water hexamers. We analyze the distributions of two-body and three-body terms to show why the many-body expansion of the electrostatically embedded correlation energy converges faster than the many-body expansion of the entire electrostatically embedded interaction potential. The average magnitude of the dimer contributions to the pairwise additive (PA) term of the correlation energy (which neglects cooperative effects) is only one-half of that of the average dimer contribution to the PA term of the expansion of the total energy; this explains why the mean unsigned error (MUE) of the EE-PA-CE approximation is only one-half of that of the EE-PA approximation. Similarly, the average magnitude of the trimer contributions to the three-body (3B) term of the EE-3B-CE approximation is only one-fourth of that of the EE-3B approximation, and the MUE of the EE-3B-CE approximation is one-fourth that of the EE-3B approximation. Finally, we test the efficacy of two- and three-body density functional corrections. One such density functional correction method, the new EE-PA-NE method, with the OLYP or the OHLYP density functional (where the OHLYP functional is the OptX exchange functional combined with the LYP correlation functional multiplied by 0.5), has the best performance-to-price ratio of any method whose computational cost scales as the third power of the number of monomers and is competitive in accuracy in the tests presented here with even the electrostatically embedded three-body approximation.

Probing the Initial Mass Function in Extended Ultraviolet (XUV) Disks

NASA Astrophysics Data System (ADS)

Koda, Jin

2013-01-01

"The GALEX UV satellite discovered tantalizing evidence of star formation (SF) far beyond the optical edge of galactic disks (i.e. extended UV disk, or XUV disk). This discovery provides a new opportunity for studying SF in the exceedingly low-density environment (˜1/10 of typical SF density), spurring intense debate on the universality of the initial mass function (IMF) in such exceptional environments. Our pilot S-Cam study of M83’s XUV disk led to support for the universal IMF at least in M83 (Koda et al. 2012). We propose an expansion of the pilot study by an order of magnitude, by observing additional 6 XUV disks in NA656(Hα), B, I, and R-band with S-Cam in S13A. In conjunction with GALEX UV bands, these images will reveal the presence of O stars (Hα; NA656-R) and O&B stars (UV) in stellar clusters -thus, constraining the high-mass end of the IMF. These multi-broadband images will enable us to determine the masses of the clusters with much improved accuracy (previously, relied only on R). The proposed observations will not only increase the statistical significance of our previous result, but also enable us to analyze the stochastic effect of IMF sampling in very low-mass - clusters (10^(2+3) M_sun) - the regime about which there is much ongoing debate."

Probing the Initial Mass Function in Extended Ultraviolet (XUV) Disks

NASA Astrophysics Data System (ADS)

Koda, Jin

2013-01-01

"The GALEX UV satellite discovered tantalizing evidence of star formation (SF) far beyond the optical edge of galactic disks (i.e. extended UV disk, or XUV disk). This discovery provides a new opportunity for studying SF in the exceedingly low-density environment (˜1/10 of typical SF density), spurring intense debate on the universality of the initial mass function (IMF) in such exceptional environments. Our pilot S-Cam study of M83’s XUV disk led to support for the universal IMF at least in M83 (Koda et al. 2012). We propose an expansion of the pilot study by about an order of magnitude, by observing 6 XUV disks in NA656(Hα), B, I, and R-band with S-Cam in S13B. In conjunction with GALEX UV bands, these images will reveal the presence of O stars (Hα) and O&B stars (UV) in stellar clusters -thus, constraining the high-mass end of the IMF. These multi-broadband images will enable us to determine the masses of the clusters with much improved accuracy (previously, relied only on R). The proposed observations will not only increase the statistical significance of our previous result, but also enable us to analyze the stochastic effect of IMF sampling in very low-mass - clusters (10^{2+3} M_sun) - the regime of ongoing debate. Previously allocated 1+2 nights were cancelled (telescope failures)."

Probing the Initial Mass Function in Extended Ultraviolet (XUV) Disks

NASA Astrophysics Data System (ADS)

Koda, Jin

2014-01-01

The GALEX UV satellite discovered tantalizing evidence of star formation (SF) far beyond the optical edge of galactic disks (i.e. XUV disk). This discovery provides a new opportunity for studying SF in the exceedingly low-density environment (~1/10 of typical SF density), spurring intense debate on the universality of the initial mass function (IMF) in such exceptional environments. Our pilot study led to support for the universal IMF at least in M83’s XUV disk (Koda et al. 2012). We propose an expansion of the pilot study by about an order of magnitude, by observing total ~ 10 XUV disks (6 disks in S14A) in NA656(Halpha), B, I, and R-band with S-Cam. In conjunction with GALEX UV bands, these images will reveal the presence of O stars (Halpha) and O&B stars (UV) in stellar clusters -thus, constraining the high-mass end of the IMF. These multi-broadband images will enable us to determine the masses of the clusters with much improved accuracy (previously, relied only on R). This project will not only increase the statistical significance of our previous result, but also enable us to analyze the stochastic effect of IMF sampling in very low-mass clusters (102-3 Msun) - the regime of ongoing debate. This proposal will complete this on-going project with S-Cam.

The effect of photometric redshift uncertainties on galaxy clustering and baryonic acoustic oscillations

NASA Astrophysics Data System (ADS)

Chaves-Montero, Jonás; Angulo, Raúl E.; Hernández-Monteagudo, Carlos

2018-07-01

In the upcoming era of high-precision galaxy surveys, it becomes necessary to understand the impact of redshift uncertainties on cosmological observables. In this paper we explore the effect of sub-percent photometric redshift errors (photo-z errors) on galaxy clustering and baryonic acoustic oscillations (BAOs). Using analytic expressions and results from 1000 N-body simulations, we show how photo-z errors modify the amplitude of moments of the 2D power spectrum, their variances, the amplitude of BAOs, and the cosmological information in them. We find that (a) photo-z errors suppress the clustering on small scales, increasing the relative importance of shot noise, and thus reducing the interval of scales available for BAO analyses; (b) photo-z errors decrease the smearing of BAOs due to non-linear redshift-space distortions (RSDs) by giving less weight to line-of-sight modes; and (c) photo-z errors (and small-scale RSD) induce a scale dependence on the information encoded in the BAO scale, and that reduces the constraining power on the Hubble parameter. Using these findings, we propose a template that extracts unbiased cosmological information from samples with photo-z errors with respect to cases without them. Finally, we provide analytic expressions to forecast the precision in measuring the BAO scale, showing that spectro-photometric surveys will measure the expansion history of the Universe with a precision competitive to that of spectroscopic surveys.

Assessing the hydrogeochemical processes affecting groundwater pollution in arid areas using an integration of geochemical equilibrium and multivariate statistical techniques.

PubMed

El Alfy, Mohamed; Lashin, Aref; Abdalla, Fathy; Al-Bassam, Abdulaziz

2017-10-01

Rapid economic expansion poses serious problems for groundwater resources in arid areas, which typically have high rates of groundwater depletion. In this study, integration of hydrochemical investigations involving chemical and statistical analyses are conducted to assess the factors controlling hydrochemistry and potential pollution in an arid region. Fifty-four groundwater samples were collected from the Dhurma aquifer in Saudi Arabia, and twenty-one physicochemical variables were examined for each sample. Spatial patterns of salinity and nitrate were mapped using fitted variograms. The nitrate spatial distribution shows that nitrate pollution is a persistent problem affecting a wide area of the aquifer. The hydrochemical investigations and cluster analysis reveal four significant clusters of groundwater zones. Five main factors were extracted, which explain >77% of the total data variance. These factors indicated that the chemical characteristics of the groundwater were influenced by rock-water interactions and anthropogenic factors. The identified clusters and factors were validated with hydrochemical investigations. The geogenic factors include the dissolution of various minerals (calcite, aragonite, gypsum, anhydrite, halite and fluorite) and ion exchange processes. The anthropogenic factors include the impact of irrigation return flows and the application of potassium, nitrate, and phosphate fertilizers. Over time, these anthropogenic factors will most likely contribute to further declines in groundwater quality. Copyright © 2017 Elsevier Ltd. All rights reserved.

HGDP and HapMap Analysis by Ancestry Mapper Reveals Local and Global Population Relationships

PubMed Central

Magalhães, Tiago R.; Casey, Jillian P.; Conroy, Judith; Regan, Regina; Fitzpatrick, Darren J.; Shah, Naisha; Sobral, João; Ennis, Sean

2012-01-01

Knowledge of human origins, migrations, and expansions is greatly enhanced by the availability of large datasets of genetic information from different populations and by the development of bioinformatic tools used to analyze the data. We present Ancestry Mapper, which we believe improves on existing methods, for the assignment of genetic ancestry to an individual and to study the relationships between local and global populations. The principle function of the method, named Ancestry Mapper, is to give each individual analyzed a genetic identifier, made up of just 51 genetic coordinates, that corresponds to its relationship to the HGDP reference population. As a consequence, the Ancestry Mapper Id (AMid) has intrinsic biological meaning and provides a tool to measure similarity between world populations. We applied Ancestry Mapper to a dataset comprised of the HGDP and HapMap data. The results show distinctions at the continental level, while simultaneously giving details at the population level. We clustered AMids of HGDP/HapMap and observe a recapitulation of human migrations: for a small number of clusters, individuals are grouped according to continental origins; for a larger number of clusters, regional and population distinctions are evident. Calculating distances between AMids allows us to infer ancestry. The number of coordinates is expandable, increasing the power of Ancestry Mapper. An R package called Ancestry Mapper is available to apply this method to any high density genomic data set. PMID:23189146

[Phylogenetic analysis of tyrosinase gene family in the Pacific oyster (Crassostrea gigas Thunberg)].

PubMed

Yu, Xue; Yu, Hong; Kong, Lingfeng; Li, Qi

2014-02-01

The deduced amino acid sequence characteristics, classification and phylogeny of tyrosinase gene family in the Pacific oyster (Crassostrea gigas Thunberg) were analyzed using bioinformatics methods. The results showed that gene duplication was the major cause of tyrosinase gene expansion in the Pacific oyster. The tyrosinase gene family in the Pacific oyster can be further classified into three types: secreted form (Type A), cytosolic form (Type B) and membrane-bound form (Type C). Based on the topology of the phylogenetic tree of the Pacific oyster tyrosinases, among Type A isoforms, tyr18 seemed divergent from other Type A tyrosinases early, while tyr2 and tyr9 appeared divergent early in Type B. In Type C tyrosinses, tyr8 was divergent early. The cluster of the Pacific oyster tyrosinasesis determined by their classifications and positions in the scaffolds. Further analysis suggested that Type A tyrosinases of C. gigas clustered with those from cephalopods and then with nematodes and cnidarians. Type B tyrosinases were generally clustered with the same type of tyrosinases from molluscas and nematodes, and then with those from platyhelminths, cnidarians and chordates. Type A tyrosinases in the Pacific oyster and the Pearl oyster expanded independently and were divergent from membrane-bound form of tyrosinases in chordata, platyhelminthes and annelida. These observations suggested that Type C tyrosinases in the bivalve had a distinct evolution direction.

The effect of photometric redshift uncertainties on galaxy clustering and baryonic acoustic oscillations

NASA Astrophysics Data System (ADS)

Chaves-Montero, Jonás; Angulo, Raúl E.; Hernández-Monteagudo, Carlos

2018-04-01

In the upcoming era of high-precision galaxy surveys, it becomes necessary to understand the impact of redshift uncertainties on cosmological observables. In this paper we explore the effect of sub-percent photometric redshift errors (photo-z errors) on galaxy clustering and baryonic acoustic oscillations (BAO). Using analytic expressions and results from 1 000 N-body simulations, we show how photo-z errors modify the amplitude of moments of the 2D power spectrum, their variances, the amplitude of BAO, and the cosmological information in them. We find that: a) photo-z errors suppress the clustering on small scales, increasing the relative importance of shot noise, and thus reducing the interval of scales available for BAO analyses; b) photo-z errors decrease the smearing of BAO due to non-linear redshift-space distortions (RSD) by giving less weight to line-of-sight modes; and c) photo-z errors (and small-scale RSD) induce a scale dependence on the information encoded in the BAO scale, and that reduces the constraining power on the Hubble parameter. Using these findings, we propose a template that extracts unbiased cosmological information from samples with photo-z errors with respect to cases without them. Finally, we provide analytic expressions to forecast the precision in measuring the BAO scale, showing that spectro-photometric surveys will measure the expansion history of the Universe with a precision competitive to that of spectroscopic surveys.