Coastal leatherback turtles reveal conservation hotspot

Science.gov (United States)

Robinson, Nathan J.; Morreale, Stephen J.; Nel, Ronel; Paladino, Frank V.

2016-01-01

Previous studies have shown that the world’s largest reptile – the leatherback turtle Dermochelys coriacea – conducts flexible foraging migrations that can cover thousands of kilometres between nesting sites and distant foraging areas. The vast distances that may be travelled by migrating leatherback turtles have greatly complicated conservation efforts for this species worldwide. However, we demonstrate, using a combination of satellite telemetry and stable isotope analysis, that approximately half of the nesting leatherbacks from an important rookery in South Africa do not migrate to distant foraging areas, but rather, forage in the coastal waters of the nearby Mozambique Channel. Moreover, this coastal cohort appears to remain resident year-round in shallow waters (turtles Caretta caretta. The rare presence of a resident coastal aggregation of leatherback turtles not only presents a unique opportunity for conservation, but alongside the presence of loggerhead turtles and other endangered marine megafauna in the Mozambique Channel, highlights the importance of this area as a marine biodiversity hotspot. PMID:27886262

Numerical simulation of pulse-tube refrigerators

NARCIS (Netherlands)

Lyulina, I.A.; Mattheij, R.M.M.; Tijsseling, A.S.; Waele, de A.T.A.M.

2004-01-01

A new numerical model has been introduced to study steady oscillatory heat and mass transfer in the tube section of a pulse-tube refrigerator. Conservation equations describing compressible gas flow in the tube are solved numerically, using high resolution schemes. The equation of conservation of

Numerical solution of the thermalhydraulic conservation equations from fundamental concepts to multidimensional two-fluid analysis

International Nuclear Information System (INIS)

Carver, M.B.

1995-08-01

The discussion briefly establishes some requisite concepts of differential equation theory, and applies these to describe methods for numerical solution of the thermalhydraulic conservation equations in their various forms. The intent is to cover the general methodology without obscuring the principles with details. As a short overview of computational thermalhydraulics, the material provides an introductory foundation, so that those working on the application of thermalhydraulic codes can begin to understand the many intricacies involved without having to locate and read the references given. Those intending to work in code development will need to read and understand all the references. (author). 49 refs

Numerical Simulation of Non-Equilibrium Two-Phase Wet Steam Flow through an Asymmetric Nozzle

Directory of Open Access Journals (Sweden)

Miah Md Ashraful Alam

2017-11-01

Full Text Available The present study reported of the numerical investigation of a high-speed wet steam flow through an asymmetric nozzle. The spontaneous non-equilibrium homogeneous condensation of wet steam was numerically modeled based on the classical nucleation theory and droplet growth rate equation combined with the field conservations within the computational fluid dynamics (CFD code of ANSYS Fluent 13.0. The equations describing droplet formations and interphase change were solved sequentially after solving the main flow conservation equations. The calculations were carried out assuming the flow two-dimensional, compressible, turbulent, and viscous. The SST k-ω model was used for modeling the turbulence within an unstructured mesh solver. The validation of numerical model was accomplished, and the results showed a good agreement between the numerical simulation and experimental data. The effect of spontaneous non-equilibrium condensation on the jet and shock structures was revealed, and the condensation shown a great influence on the jet structure.

Hydra meiosis reveals unexpected conservation of structural synaptonemal complex proteins across metazoans.

Science.gov (United States)

Fraune, Johanna; Alsheimer, Manfred; Volff, Jean-Nicolas; Busch, Karoline; Fraune, Sebastian; Bosch, Thomas C G; Benavente, Ricardo

2012-10-09

The synaptonemal complex (SC) is a key structure of meiosis, mediating the stable pairing (synapsis) of homologous chromosomes during prophase I. Its remarkable tripartite structure is evolutionarily well conserved and can be found in almost all sexually reproducing organisms. However, comparison of the different SC protein components in the common meiosis model organisms Saccharomyces cerevisiae, Arabidopsis thaliana, Caenorhabditis elegans, Drosophila melanogaster, and Mus musculus revealed no sequence homology. This discrepancy challenged the hypothesis that the SC arose only once in evolution. To pursue this matter we focused on the evolution of SYCP1 and SYCP3, the two major structural SC proteins of mammals. Remarkably, our comparative bioinformatic and expression studies revealed that SYCP1 and SYCP3 are also components of the SC in the basal metazoan Hydra. In contrast to previous assumptions, we therefore conclude that SYCP1 and SYCP3 form monophyletic groups of orthologous proteins across metazoans.

Magnetohydrodynamics and fluid dynamics action principles and conservation laws

CERN Document Server

Webb, Gary

2018-01-01

This text focuses on conservation laws in magnetohydrodynamics, gasdynamics and hydrodynamics. A grasp of new conservation laws is essential in fusion and space plasmas, as well as in geophysical fluid dynamics; they can be used to test numerical codes, or to reveal new aspects of the underlying physics, e.g., by identifying the time history of the fluid elements as an important key to understanding fluid vorticity or in investigating the stability of steady flows. The ten Galilean Lie point symmetries of the fundamental action discussed in this book give rise to the conservation of energy, momentum, angular momentum and center of mass conservation laws via Noether’s first theorem. The advected invariants are related to fluid relabeling symmetries – so-called diffeomorphisms associated with the Lagrangian map – and are obtained by applying the Euler-Poincare approach to Noether’s second theorem. The book discusses several variants of helicity including kinetic helicity, cross helicity, magnetic helici...

Numerical solutions of conservation laws

International Nuclear Information System (INIS)

Shu, C.W.

1986-01-01

In the computation of conservation laws u/sub t/ + f(u)/sub x/ 0, TVD (total-variation-diminishing) schemes have been very successful. TVB (total-variation-bounded) schemes share most the advantages and may remove some of the disadvantages (e.g. local degeneracy of accuracy at critical points) TVD schemes. Included in this dissertation are a class of m-step Runge-Kutta type TVD schemes with CFL number equaling m; a procedure to obtain uniformly high order in space TVB schemes; a class of TVD high order time discretizations; a special boundary treatment which keeps the high order of the scheme up to the boundary and preserves the TVB properties in the nonlinear scalar and linear system cases; a discrete entropy inequality for a modified Lax-Wendroff scheme applied to Burgers' equation; and discusses about error propagation in large regions

How Stakeholder Co-management Reproduces Conservation Conflicts: Revealing Rationality Problems in Swedish Wolf Conservation

Directory of Open Access Journals (Sweden)

Erica von Essen

2015-01-01

Full Text Available 'Stakeholder' has become the primary category of political actor in decision-making, not least within nature conservation. Drawing from Habermas' theory on communicative action, this article argues that there are democratic deficits to the stakeholder model that promote citizens to remain locked in predetermined, polarized positions. It contends that the stakeholder model must, hence, be scrutinized with respect to its potential role in perpetuating conservation conflicts in modernity. Using the case study of stakeholder-based game management delegations (GMDs in Sweden, our research identifies four barriers, which tie to the instrumental basis and liberal democratic legacy of the stakeholder approach: 1 strong sense of accountability; 2 overly purposive atmosphere; 3 overemphasis on decision as final outcome; and 4 perceived inability on the part of the delegates to influence science-led decision-making. The article suggests that these democratic deficits preclude the deliberation and contestation necessary to legitimate conservation policy. Indeed, stakeholder rationality causes citizens to become inert, instrumental agents who approach discussion with strategic rather than communicative rationality. We conclude that the deficits of the stakeholder model currently: 1 restrict democratic freedom for citizens; 2 engender a crisis of legitimacy of management; and 3 reproduce the conflict, which in Sweden relates to the conservation of wolves.

Partial conservation of seniority in the j=9/2 shell: Analytic and numerical studies

International Nuclear Information System (INIS)

Qi Chong

2011-01-01

Recent studies show that for systems with four identical fermions in the j=9/2 shell, two special states, which have seniority v=4 and total spins I=4 and 6, are eigenstates of any two-body interaction. These states have good seniority for an arbitrary interaction. In this work, an analytic proof is given to this peculiar occurrence of partial conservation of seniority, which is the consequence of the special property of certain coefficients of fractional parentage. Further calculations did not reveal its existence in systems with other n and/or I for shells with j≤15/2.

Energy conserving numerical methods for the computation of complex vortical flows

Science.gov (United States)

Allaneau, Yves

One of the original goals of this thesis was to develop numerical tools to help with the design of micro air vehicles. Micro Air Vehicles (MAVs) are small flying devices of only a few inches in wing span. Some people consider that as their size becomes smaller and smaller, it would be increasingly more difficult to keep all the classical control surfaces such as the rudders, the ailerons and the usual propellers. Over the years, scientists took inspiration from nature. Birds, by flapping and deforming their wings, are capable of accurate attitude control and are able to generate propulsion. However, the biomimicry design has its own limitations and it is difficult to place a hummingbird in a wind tunnel to study precisely the motion of its wings. Our approach was to use numerical methods to tackle this challenging problem. In order to precisely evaluate the lift and drag generated by the wings, one needs to be able to capture with high fidelity the extremely complex vortical flow produced in the wake. This requires a numerical method that is stable yet not too dissipative, so that the vortices do not get diffused in an unphysical way. We solved this problem by developing a new Discontinuous Galerkin scheme that, in addition to conserving mass, momentum and total energy locally, also preserves kinetic energy globally. This property greatly improves the stability of the simulations, especially in the special case p=0 when the approximation polynomials are taken to be piecewise constant (we recover a finite volume scheme). In addition to needing an adequate numerical scheme, a high fidelity solution requires many degrees of freedom in the computations to represent the flow field. The size of the smallest eddies in the flow is given by the Kolmogoroff scale. Capturing these eddies requires a mesh counting in the order of Re³ cells, where Re is the Reynolds number of the flow. We show that under-resolving the system, to a certain extent, is acceptable. However our

Numerical solutions of the N-body problem

International Nuclear Information System (INIS)

Marciniak, A.

1985-01-01

Devoted to the study of numerical methods for solving the general N-body problem and related problems, this volume starts with an overview of the conventional numerical methods for solving the initial value problem. The major part of the book contains original work and features a presentation of special numerical methods conserving the constants of motion in the general N-body problem and methods conserving the Jacobi constant in the problem of motion of N bodies in a rotating frame, as well as an analysis of the applications of both (conventional and special) kinds of methods for solving these problems. For all the methods considered, the author presents algorithms which are easily programmable in any computer language. Moreover, the author compares various methods and presents adequate numerical results. The appendix contains PL/I procedures for all the special methods conserving the constants of motion. 91 refs.; 35 figs.; 41 tabs

Comparative interactomics: analysis of arabidopsis 14-3-3 complexes reveals highly conserved 14-3-3 interactions between humans and plants.

Science.gov (United States)

Paul, Anna-Lisa; Liu, Li; McClung, Scott; Laughner, Beth; Chen, Sixue; Ferl, Robert J

2009-04-01

As a first step in the broad characterization of plant 14-3-3 multiprotein complexes in vivo, stringent and specific antibody affinity purification was used to capture 14-3-3s together with their interacting proteins from extracts of Arabidopsis cell suspension cultures. Approximately 120 proteins were identified as potential in vivo 14-3-3 interacting proteins by mass spectrometry of the recovered complexes. Comparison of the proteins in this data set with the 14-3-3 interacting proteins from a similar study in human embryonic kidney cell cultures revealed eight interacting proteins that likely represent reasonably abundant, fundamental 14-3-3 interaction complexes that are highly conserved across all eukaryotes. The Arabidopsis 14-3-3 interaction data set was also compared to a yeast in vivo 14-3-3 interaction data set. Four 14-3-3 interacting proteins are conserved in yeast, humans, and Arabidopsis. Comparisons of the data sets based on biochemical function revealed many additional similarities in the human and Arabidopsis data sets that represent conserved functional interactions, while also leaving many proteins uniquely identified in either Arabidopsis or human cells. In particular, the Arabidopsis interaction data set is enriched for proteins involved in metabolism.

Massively parallel computation of conservation laws

Energy Technology Data Exchange (ETDEWEB)

Garbey, M [Univ. Claude Bernard, Villeurbanne (France); Levine, D [Argonne National Lab., IL (United States)

1990-01-01

The authors present a new method for computing solutions of conservation laws based on the use of cellular automata with the method of characteristics. The method exploits the high degree of parallelism available with cellular automata and retains important features of the method of characteristics. It yields high numerical accuracy and extends naturally to adaptive meshes and domain decomposition methods for perturbed conservation laws. They describe the method and its implementation for a Dirichlet problem with a single conservation law for the one-dimensional case. Numerical results for the one-dimensional law with the classical Burgers nonlinearity or the Buckley-Leverett equation show good numerical accuracy outside the neighborhood of the shocks. The error in the area of the shocks is of the order of the mesh size. The algorithm is well suited for execution on both massively parallel computers and vector machines. They present timing results for an Alliant FX/8, Connection Machine Model 2, and CRAY X-MP.

Intragenic suppressor of Osiaa23 revealed a conserved tryptophan residue crucial for protein-protein interactions.

Directory of Open Access Journals (Sweden)

Jun Ni

Full Text Available The Auxin/Indole-3-Acetic Acid (Aux/IAA and Auxin Response Factor (ARF are two important families that play key roles in auxin signal transduction. Both of the families contain a similar carboxyl-terminal domain (Domain III/IV that facilitates interactions between these two families. In spite of the importance of protein-protein interactions among these transcription factors, the mechanisms involved in these interactions are largely unknown. In this study, we isolated six intragenic suppressors of an auxin insensitive mutant, Osiaa23. Among these suppressors, Osiaa23-R5 successfully rescued all the defects of the mutant. Sequence analysis revealed that an amino acid substitution occurred in the Tryptophan (W residue in Domain IV of Osiaa23. Yeast two-hybrid experiments showed that the mutation in Domain IV prevents the protein-protein interactions between Osiaa23 and OsARFs. Phylogenetic analysis revealed that the W residue is conserved in both OsIAAs and OsARFs. Next, we performed site-specific amino acid substitutions within Domain IV of OsARFs, and the conserved W in Domain IV was exchanged by Serine (S. The mutated OsARF(WSs can be released from the inhibition of Osiaa23 and maintain the transcriptional activities. Expression of OsARF(WSs in Osiaa23 mutant rescued different defects of the mutant. Our results suggest a previously unknown importance of Domain IV in both families and provide an indirect way to investigate functions of OsARFs.

Comparative genome analysis reveals a conserved family of actin-like proteins in apicomplexan parasites

Directory of Open Access Journals (Sweden)

Sibley L David

2005-12-01

Full Text Available Abstract Background The phylum Apicomplexa is an early-branching eukaryotic lineage that contains a number of important human and animal pathogens. Their complex life cycles and unique cytoskeletal features distinguish them from other model eukaryotes. Apicomplexans rely on actin-based motility for cell invasion, yet the regulation of this system remains largely unknown. Consequently, we focused our efforts on identifying actin-related proteins in the recently completed genomes of Toxoplasma gondii, Plasmodium spp., Cryptosporidium spp., and Theileria spp. Results Comparative genomic and phylogenetic studies of apicomplexan genomes reveals that most contain only a single conventional actin and yet they each have 8–10 additional actin-related proteins. Among these are a highly conserved Arp1 protein (likely part of a conserved dynactin complex, and Arp4 and Arp6 homologues (subunits of the chromatin-remodeling machinery. In contrast, apicomplexans lack canonical Arp2 or Arp3 proteins, suggesting they lost the Arp2/3 actin polymerization complex on their evolutionary path towards intracellular parasitism. Seven of these actin-like proteins (ALPs are novel to apicomplexans. They show no phylogenetic associations to the known Arp groups and likely serve functions specific to this important group of intracellular parasites. Conclusion The large diversity of actin-like proteins in apicomplexans suggests that the actin protein family has diverged to fulfill various roles in the unique biology of intracellular parasites. Conserved Arps likely participate in vesicular transport and gene expression, while apicomplexan-specific ALPs may control unique biological traits such as actin-based gliding motility.

An exactly conservative particle method for one dimensional scalar conservation laws

International Nuclear Information System (INIS)

Farjoun, Yossi; Seibold, Benjamin

2009-01-01

A particle scheme for scalar conservation laws in one space dimension is presented. Particles representing the solution are moved according to their characteristic velocities. Particle interaction is resolved locally, satisfying exact conservation of area. Shocks stay sharp and propagate at correct speeds, while rarefaction waves are created where appropriate. The method is variation diminishing, entropy decreasing, exactly conservative, and has no numerical dissipation away from shocks. Solutions, including the location of shocks, are approximated with second order accuracy. Source terms can be included. The method is compared to CLAWPACK in various examples, and found to yield a comparable or better accuracy for similar resolutions.

Numerical analyses of a Couette-Taylor flow in the presence of a magnetic field

International Nuclear Information System (INIS)

Tagawa, T; Kaneda, M

2005-01-01

An axisymmetric Couette-Taylor flow of liquid metal in the presence of a magnetic field has been numerically studied. An inner cylinder of a coaxial container is rotating at a constant angular velocity whereas the outer cylindrical wall is at rest. An axial or a toroidal magnetic field is applied to this configuration to investigate the influence of such magnetic fields on the liquid metal Couette-Taylor flow. The toroidal magnetic field can be produced with a straight wire along the central axis in which electric current passes. The governing equations of mass conservation, momentum, Ohm's law and conservation of electric charge for an axisymmetric cylindrical coordinate system have been numerically solved with a finite difference method using the HSMAC algorithm. In the numerical analyses, since the Joule heating and the induced magnetic field are neglected, the system parameters are the Hartmann number and the Reynolds number. The numerical results reveal significant difference in the Couette-Taylor flow depending on whether the applied magnetic field is axial or toroidal as well as on the Hartmann and Reynolds numbers. The axial magnetic field damps out the secondary flow efficiently and velocity gradient in the direction of the magnetic field tends to diminish while the toroidal magnetic field does not have such an efficient damping

Conservative numerical schemes for Euler-Lagrange equations

Energy Technology Data Exchange (ETDEWEB)

Vazquez, L. [Universidad Complutense, Madrid (Spain). Dept. de Matematica Aplicada; Jimenez, S. [Universidad Alfonso X El Sabio, Madrid (Spain). Dept. de Matematica Aplicada

1999-05-01

As a preliminary step to study magnetic field lines, the authors seek numerical schemes that reproduce at discrete level the significant feature of the continuous model, based on an underling Lagrangian structure. The resulting scheme give discrete counterparts of the variation law for the energy as well of as the Euler-Lagrange equations and their symmetries.

Conservation without borders: building communication and action across disciplinary boundaries for effective conservation.

Science.gov (United States)

Margles, Shawn W; Peterson, Richard B; Ervin, Jamison; Kaplin, Beth A

2010-01-01

Interdisciplinary approaches to conservation research and environmental management continue to garner interest among practitioners, academics, and students. Yet, cases of practitioners and researchers from different disciplines successfully working in concert towards an integrated conservation approach are rare. What is preventing practitioners of multiple disciplines from harmoniously working together? Why are practitioners and academics struggling to apply their graduate training to real world conservation? What is preventing the benefits of cooperation and partnerships between different disciplines addressing conservation from being realized? This special issue "Conservation without Borders: Building Communication and Action across Disciplinary Boundaries for Effective Conservation" asks readers to consider the numerous interpretations and implications of the phrase "Conservation without Borders" and to reflect on how different academic and disciplinary lenses can contribute to a more integrated approach to tackling conservation challenges. The articles that comprise this special issue offer readers insights into the ways in which different disciplines view conservation work and interdisciplinary approaches to environmental problems. Bringing these perspectives and approaches together in one place is a step towards improving communication across disciplines for the purpose of achieving more successful biodiversity conservation.

Structural insights into conserved L-arabinose metabolic enzymes reveal the substrate binding site of a thermophilic L-arabinose isomerase.

Science.gov (United States)

Lee, Yong-Jik; Lee, Sang-Jae; Kim, Seong-Bo; Lee, Sang Jun; Lee, Sung Haeng; Lee, Dong-Woo

2014-03-18

Structural genomics demonstrates that despite low levels of structural similarity of proteins comprising a metabolic pathway, their substrate binding regions are likely to be conserved. Herein based on the 3D-structures of the α/β-fold proteins involved in the ara operon, we attempted to predict the substrate binding residues of thermophilic Geobacillus stearothermophilus L-arabinose isomerase (GSAI) with no 3D-structure available. Comparison of the structures of L-arabinose catabolic enzymes revealed a conserved feature to form the substrate-binding modules, which can be extended to predict the substrate binding site of GSAI (i.e., D195, E261 and E333). Moreover, these data implicated that proteins in the l-arabinose metabolic pathway might retain their substrate binding niches as the modular structure through conserved molecular evolution even with totally different structural scaffolds. Copyright © 2014 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

Conservation Triage Falls Short Because Conservation Is Not Like Emergency Medicine

Directory of Open Access Journals (Sweden)

John A. Vucetich

2017-05-01

Full Text Available Conservation triage, as a concept, seems to have been born from analogizing circumstances that characterize conservation with triage, as the concept applies to emergency medicine. Careful consideration—facilitated through the aid of formal argumentation—demonstrates the critical limitations of the analogy. Those limitations reveal how the concept of conservation triage falls short. For example, medical triage presupposes that resources available for an emergency are limited and fixed. By contrast, the resources available for conservation are not fixed. Moreover, the ethics of prioritization in medical triage is characterized by there being universal agreement on the moral value of the patients. However, in conservation there is not universal agreement on the value of various objects of conservation concern. The looming importance of those features of conservation—disputed values and unfixed resources—make conservation triage a largely un-useful concept.

Towards the ultimate variance-conserving convection scheme

International Nuclear Information System (INIS)

Os, J.J.A.M. van; Uittenbogaard, R.E.

2004-01-01

In the past various arguments have been used for applying kinetic energy-conserving advection schemes in numerical simulations of incompressible fluid flows. One argument is obeying the programmed dissipation by viscous stresses or by sub-grid stresses in Direct Numerical Simulation and Large Eddy Simulation, see e.g. [Phys. Fluids A 3 (7) (1991) 1766]. Another argument is that, according to e.g. [J. Comput. Phys. 6 (1970) 392; 1 (1966) 119], energy-conserving convection schemes are more stable i.e. by prohibiting a spurious blow-up of volume-integrated energy in a closed volume without external energy sources. In the above-mentioned references it is stated that nonlinear instability is due to spatial truncation rather than to time truncation and therefore these papers are mainly concerned with the spatial integration. In this paper we demonstrate that discretized temporal integration of a spatially variance-conserving convection scheme can induce non-energy conserving solutions. In this paper the conservation of the variance of a scalar property is taken as a simple model for the conservation of kinetic energy. In addition, the derivation and testing of a variance-conserving scheme allows for a clear definition of kinetic energy-conserving advection schemes for solving the Navier-Stokes equations. Consequently, we first derive and test a strictly variance-conserving space-time discretization for the convection term in the convection-diffusion equation. Our starting point is the variance-conserving spatial discretization of the convection operator presented by Piacsek and Williams [J. Comput. Phys. 6 (1970) 392]. In terms of its conservation properties, our variance-conserving scheme is compared to other spatially variance-conserving schemes as well as with the non-variance-conserving schemes applied in our shallow-water solver, see e.g. [Direct and Large-eddy Simulation Workshop IV, ERCOFTAC Series, Kluwer Academic Publishers, 2001, pp. 409-287

Comparative analyses of six solanaceous transcriptomes reveal a high degree of sequence conservation and species-specific transcripts

Directory of Open Access Journals (Sweden)

Ouyang Shu

2005-09-01

Full Text Available Abstract Background The Solanaceae is a family of closely related species with diverse phenotypes that have been exploited for agronomic purposes. Previous studies involving a small number of genes suggested sequence conservation across the Solanaceae. The availability of large collections of Expressed Sequence Tags (ESTs for the Solanaceae now provides the opportunity to assess sequence conservation and divergence on a genomic scale. Results All available ESTs and Expressed Transcripts (ETs, 449,224 sequences for six Solanaceae species (potato, tomato, pepper, petunia, tobacco and Nicotiana benthamiana, were clustered and assembled into gene indices. Examination of gene ontologies revealed that the transcripts within the gene indices encode a similar suite of biological processes. Although the ESTs and ETs were derived from a variety of tissues, 55–81% of the sequences had significant similarity at the nucleotide level with sequences among the six species. Putative orthologs could be identified for 28–58% of the sequences. This high degree of sequence conservation was supported by expression profiling using heterologous hybridizations to potato cDNA arrays that showed similar expression patterns in mature leaves for all six solanaceous species. 16–19% of the transcripts within the six Solanaceae gene indices did not have matches among Solanaceae, Arabidopsis, rice or 21 other plant gene indices. Conclusion Results from this genome scale analysis confirmed a high level of sequence conservation at the nucleotide level of the coding sequence among Solanaceae. Additionally, the results indicated that part of the Solanaceae transcriptome is likely to be unique for each species.

Conservation biogeography - foundations, concepts and challenges

DEFF Research Database (Denmark)

Richardson, Timothy; Whittaker, R.J.; Whittaker, Robert J.

2010-01-01

Conservation biogeography involves the application of biogeographical principles, theories, and analyses to problems regarding biodiversity conservation. The field was formally defined in 2005, and considerable research has been conducted in the ensuing 5 years. This editorial sets the context...... for 16 contributions in a special issue of Diversity and Distributions on developments and challenges in conservation biogeography. Papers are grouped into the following main themes: species distribution modelling; data requirements; approaches for assigning conservation priorities; approaches...... for integrating information from numerous disparate sources; special challenges involving invasive species; and the crucial issue of determining how elements of biodiversity are likely to respond to rapid climate change. One paper provides a synthesis of requirements for a robust conservation biogeography...

A numerical model for the determination of periodic solutions of pipes subjected to non-conservative loads

International Nuclear Information System (INIS)

Velloso, P.A.; Galeao, A.C.

1989-05-01

This paper deals with nonlinear vibrations of pipes subjected to non-conservative loads. Periodic solutions of these problems are determined using a variational approach based on Hamilton's Principle combined with a Fourier series expansion to describe the displacement field time dependence. A finite element model which utilizes Hemite's cubic interpolation for both axial and transversal displacement amplitudes is used. This model is applied to the problem of a pipe subjected to a tangential and a normal follower force. The numerical results obtained with this model are compared with the corespondent solutions determined using a total lagrangian description for the Principle of Virtual Work, coupled with Newmark's step-by-step integration procedure. It is shown that for small to moderate displacement amplitudes the one-term Fourier series approximation compares fairly well with the predicted solution. For large displacements as least a two-term approximation should be utilized [pt

A conservative finite difference method for the numerical solution of plasma fluid equations

International Nuclear Information System (INIS)

Colella, P.; Dorr, M.R.; Wake, D.D.

1999-01-01

This paper describes a numerical method for the solution of a system of plasma fluid equations. The fluid model is similar to those employed in the simulation of high-density, low-pressure plasmas used in semiconductor processing. The governing equations consist of a drift-diffusion model of the electrons, together with an internal energy equation, coupled via Poisson's equation to a system of Euler equations for each ion species augmented with electrostatic force, collisional, and source/sink terms. The time integration of the full system is performed using an operator splitting that conserves space charge and avoids dielectric relaxation timestep restrictions. The integration of the individual ion species and electrons within the time-split advancement is achieved using a second-order Godunov discretization of the hyperbolic terms, modified to account for the significant role of the electric field in the propagation of acoustic waves, combined with a backward Euler discretization of the parabolic terms. Discrete boundary conditions are employed to accommodate the plasma sheath boundary layer on underresolved grids. The algorithm is described for the case of a single Cartesian grid as the first step toward an implementation on a locally refined grid hierarchy in which the method presented here may be applied on each refinement level

Characterization of 17 chaperone-usher fimbriae encoded by Proteus mirabilis reveals strong conservation

Science.gov (United States)

Kuan, Lisa; Schaffer, Jessica N.; Zouzias, Christos D.

2014-01-01

Proteus mirabilis is a Gram-negative enteric bacterium that causes complicated urinary tract infections, particularly in patients with indwelling catheters. Sequencing of clinical isolate P. mirabilis HI4320 revealed the presence of 17 predicted chaperone-usher fimbrial operons. We classified these fimbriae into three groups by their genetic relationship to other chaperone-usher fimbriae. Sixteen of these fimbriae are encoded by all seven currently sequenced P. mirabilis genomes. The predicted protein sequence of the major structural subunit for 14 of these fimbriae was highly conserved (≥95 % identity), whereas three other structural subunits (Fim3A, UcaA and Fim6A) were variable. Further examination of 58 clinical isolates showed that 14 of the 17 predicted major structural subunit genes of the fimbriae were present in most strains (>85 %). Transcription of the predicted major structural subunit genes for all 17 fimbriae was measured under different culture conditions designed to mimic conditions in the urinary tract. The majority of the fimbrial genes were induced during stationary phase, static culture or colony growth when compared to exponential-phase aerated culture. Major structural subunit proteins for six of these fimbriae were detected using MS of proteins sheared from the surface of broth-cultured P. mirabilis, demonstrating that this organism may produce multiple fimbriae within a single culture. The high degree of conservation of P. mirabilis fimbriae stands in contrast to uropathogenic Escherichia coli and Salmonella enterica, which exhibit greater variability in their fimbrial repertoires. These findings suggest there may be evolutionary pressure for P. mirabilis to maintain a large fimbrial arsenal. PMID:24809384

Conservative Initial Mapping For Multidimensional Simulations of Stellar Explosions

International Nuclear Information System (INIS)

Chen, Ke-Jung; Heger, Alexander; Almgren, Ann

2012-01-01

Mapping one-dimensional stellar profiles onto multidimensional grids as initial conditions for hydrodynamics calculations can lead to numerical artifacts, one of the most severe of which is the violation of conservation laws for physical quantities such as energy and mass. Here we introduce a numerical scheme for mapping one-dimensional spherically-symmetric data onto multidimensional meshes so that these physical quantities are conserved. We validate our scheme by porting a realistic 1D Lagrangian stellar profile to the new multidimensional Eulerian hydro code CASTRO. Our results show that all important features in the profiles are reproduced on the new grid and that conservation laws are enforced at all resolutions after mapping.

Mass Conservation and Positivity Preservation with Ensemble-type Kalman Filter Algorithms

Science.gov (United States)

Janjic, Tijana; McLaughlin, Dennis B.; Cohn, Stephen E.; Verlaan, Martin

2013-01-01

Maintaining conservative physical laws numerically has long been recognized as being important in the development of numerical weather prediction (NWP) models. In the broader context of data assimilation, concerted efforts to maintain conservation laws numerically and to understand the significance of doing so have begun only recently. In order to enforce physically based conservation laws of total mass and positivity in the ensemble Kalman filter, we incorporate constraints to ensure that the filter ensemble members and the ensemble mean conserve mass and remain nonnegative through measurement updates. We show that the analysis steps of ensemble transform Kalman filter (ETKF) algorithm and ensemble Kalman filter algorithm (EnKF) can conserve the mass integral, but do not preserve positivity. Further, if localization is applied or if negative values are simply set to zero, then the total mass is not conserved either. In order to ensure mass conservation, a projection matrix that corrects for localization effects is constructed. In order to maintain both mass conservation and positivity preservation through the analysis step, we construct a data assimilation algorithms based on quadratic programming and ensemble Kalman filtering. Mass and positivity are both preserved by formulating the filter update as a set of quadratic programming problems that incorporate constraints. Some simple numerical experiments indicate that this approach can have a significant positive impact on the posterior ensemble distribution, giving results that are more physically plausible both for individual ensemble members and for the ensemble mean. The results show clear improvements in both analyses and forecasts, particularly in the presence of localized features. Behavior of the algorithm is also tested in presence of model error.

Numerical and adaptive grid methods for ideal magnetohydrodynamics

Science.gov (United States)

Loring, Burlen

2008-02-01

In this thesis numerical finite difference methods for ideal magnetohydrodynamics(MHD) are investigated. A review of the relevant physics, essential for interpreting the results of numerical solutions and constructing validation cases, is presented. This review includes a discusion of the propagation of small amplitude waves in the MHD system as well as a thorough discussion of MHD shocks, contacts and rarefactions and how they can be piece together to obtain a solutions to the MHD Riemann problem. Numerical issues relevant to the MHD system such as: the loss of nonlinear numerical stability in the presence of discontinuous solutions, the introduction of spurious forces due to the growth of the divergence of the magnetic flux density, the loss of pressure positivity, and the effects of non-conservative numerical methods are discussed, along with the practical approaches which can be used to remedy or minimize the negative consequences of each. The use of block structured adaptive mesh refinement is investigated in the context of a divergence free MHD code. A new method for conserving magnetic flux across AMR grid interfaces is developed and a detailed discussion of our implementation of this method using the CHOMBO AMR framework is given. A preliminary validation of the new method for conserving magnetic flux density across AMR grid interfaces illustrates that the method works. Finally a number of code validation cases are examined spurring a discussion of the strengths and weaknesses of the numerics employed.

Numerical solution of conservation equations in the transient model for the system thermal - hydraulics in the Korsar computer code

International Nuclear Information System (INIS)

Yudov, Y.V.

2001-01-01

The functional part of the KORSAR computer code is based on the computational unit for the reactor system thermal-hydraulics and other thermal power systems with water cooling. The two-phase flow dynamics of the thermal-hydraulic network is modelled by KORSAR in one-dimensional two-fluid (non-equilibrium and nonhomogeneous) approximation with the same pressure of both phases. Each phase is characterized by parameters averaged over the channel sections, and described by the conservation equations for mass, energy and momentum. The KORSAR computer code relies upon a novel approach to mathematical modelling of two-phase dispersed-annular flows. This approach allows a two-fluid model to differentiate the effects of the liquid film and droplets in the gas core on the flow characteristics. A semi-implicit numerical scheme has been chosen for deriving discrete analogs the conservation equations in KORSAR. In the semi-implicit numerical scheme, solution of finite-difference equations is reduced to the problem of determining the pressure field at a new time level. For the one-channel case, the pressure field is found from the solution of a system of linear algebraic equations by using the tri-diagonal matrix method. In the branched network calculation, the matrix of coefficients in the equations describing the pressure field is no longer tri-diagonal but has a sparseness structure. In this case, the system of linear equations for the pressure field can be solved with any of the known classical methods. Such an approach is implemented in the existing best-estimate thermal-hydraulic computer codes (TRAC, RELAP5, etc.) For the KORSAR computer code, we have developed a new non-iterative method for calculating the pressure field in the network of any topology. This method is based on the tri-diagonal matrix method and performs well when solving the thermal-hydraulic network problems. (author)

Numerical Feedback Stabilization with Applications to Networks

Directory of Open Access Journals (Sweden)

Simone Göttlich

2017-01-01

Full Text Available The focus is on the numerical consideration of feedback boundary control problems for linear systems of conservation laws including source terms. We explain under which conditions the numerical discretization can be used to design feedback boundary values for network applications such as electric transmission lines or traffic flow systems. Several numerical examples illustrate the properties of the results for different types of networks.

Combined Use of Systematic Conservation Planning, Species Distribution Modelling, and Connectivity Analysis Reveals Severe Conservation Gaps in a Megadiverse Country (Peru)

Science.gov (United States)

Fajardo, Javier; Lessmann, Janeth; Bonaccorso, Elisa; Devenish, Christian; Muñoz, Jesús

2014-01-01

Conservation planning is crucial for megadiverse countries where biodiversity is coupled with incomplete reserve systems and limited resources to invest in conservation. Using Peru as an example of a megadiverse country, we asked whether the national system of protected areas satisfies biodiversity conservation needs. Further, to complement the existing reserve system, we identified and prioritized potential conservation areas using a combination of species distribution modeling, conservation planning and connectivity analysis. Based on a set of 2,869 species, including mammals, birds, amphibians, reptiles, butterflies, and plants, we used species distribution models to represent species' geographic ranges to reduce the effect of biased sampling and partial knowledge about species' distributions. A site-selection algorithm then searched for efficient and complementary proposals, based on the above distributions, for a more representative system of protection. Finally, we incorporated connectivity among areas in an innovative post-hoc analysis to prioritize those areas maximizing connectivity within the system. Our results highlight severe conservation gaps in the Coastal and Andean regions, and we propose several areas, which are not currently covered by the existing network of protected areas. Our approach helps to find areas that contribute to creating a more representative, connected and efficient network. PMID:25479411

Numerical simulation of two phase flows in heat exchangers

International Nuclear Information System (INIS)

Grandotto Biettoli, M.

2006-04-01

The author gives an overview of his research activity since 1981. He first gives a detailed presentation of properties and equations of two-phase flows in heat exchangers, and of their mathematical and numerical investigation: semi-local equations (mass conservation, momentum conservation and energy conservation), homogenized conservation equations (mass, momentum and enthalpy conservation, boundary conditions), equation closures, discretization, resolution algorithm, computational aspects and applications. Then, he reports the works performed in the field of turbulent flows, hyperbolic methods, low Mach methods, the Neptune project, and parallel computing

How conserved are the conserved 16S-rRNA regions?

Directory of Open Access Journals (Sweden)

Marcel Martinez-Porchas

2017-02-01

Full Text Available The 16S rRNA gene has been used as master key for studying prokaryotic diversity in almost every environment. Despite the claim of several researchers to have the best universal primers, the reality is that no primer has been demonstrated to be truly universal. This suggests that conserved regions of the gene may not be as conserved as expected. The aim of this study was to evaluate the conservation degree of the so-called conserved regions flanking the hypervariable regions of the 16S rRNA gene. Data contained in SILVA database (release 123 were used for the study. Primers reported as matches of each conserved region were assembled to form contigs; sequences sizing 12 nucleotides (12-mers were extracted from these contigs and searched into the entire set of SILVA sequences. Frequency analysis shown that extreme regions, 1 and 10, registered the lowest frequencies. 12-mer frequencies revealed segments of contigs that were not as conserved as expected (≤90%. Fragments corresponding to the primer contigs 3, 4, 5b and 6a were recovered from all sequences in SILVA database. Nucleotide frequency analysis in each consensus demonstrated that only a small fraction of these so-called conserved regions is truly conserved in non-redundant sequences. It could be concluded that conserved regions of the 16S rRNA gene exhibit considerable variation that has to be considered when using this gene as biomarker.

A Note on Weak Solutions of Conservation Laws and Energy/Entropy Conservation

Science.gov (United States)

Gwiazda, Piotr; Michálek, Martin; Świerczewska-Gwiazda, Agnieszka

2018-03-01

A common feature of systems of conservation laws of continuum physics is that they are endowed with natural companion laws which are in such cases most often related to the second law of thermodynamics. This observation easily generalizes to any symmetrizable system of conservation laws; they are endowed with nontrivial companion conservation laws, which are immediately satisfied by classical solutions. Not surprisingly, weak solutions may fail to satisfy companion laws, which are then often relaxed from equality to inequality and overtake the role of physical admissibility conditions for weak solutions. We want to answer the question: what is a critical regularity of weak solutions to a general system of conservation laws to satisfy an associated companion law as an equality? An archetypal example of such a result was derived for the incompressible Euler system in the context of Onsager's conjecture in the early nineties. This general result can serve as a simple criterion to numerous systems of mathematical physics to prescribe the regularity of solutions needed for an appropriate companion law to be satisfied.

Functional magnetic resonance imaging study of Piaget's conservation-of-number task in preschool and school-age children: a neo-Piagetian approach.

Science.gov (United States)

Houdé, Olivier; Pineau, Arlette; Leroux, Gaëlle; Poirel, Nicolas; Perchey, Guy; Lanoë, Céline; Lubin, Amélie; Turbelin, Marie-Renée; Rossi, Sandrine; Simon, Grégory; Delcroix, Nicolas; Lamberton, Franck; Vigneau, Mathieu; Wisniewski, Gabriel; Vicet, Jean-René; Mazoyer, Bernard

2011-11-01

Jean Piaget's theory is a central reference point in the study of logico-mathematical development in children. One of the most famous Piagetian tasks is number conservation. Failures and successes in this task reveal two fundamental stages in children's thinking and judgment, shifting at approximately 7 years of age from visuospatial intuition to number conservation. In the current study, preschool children (nonconservers, 5-6 years of age) and school-age children (conservers, 9-10 years of age) were presented with Piaget's conservation-of-number task and monitored by functional magnetic resonance imaging (fMRI). The cognitive change allowing children to access conservation was shown to be related to the neural contribution of a bilateral parietofrontal network involved in numerical and executive functions. These fMRI results highlight how the behavioral and cognitive stages Piaget formulated during the 20th century manifest in the brain with age. Copyright © 2011 Elsevier Inc. All rights reserved.

A fully conservative Eulerian–Lagrangian method for a convection–diffusion problem in a solenoidal field

KAUST Repository

Arbogast, Todd

2010-05-01

Tracer transport is governed by a convection-diffusion problem modeling mass conservation of both tracer and ambient fluids. Numerical methods should be fully conservative, enforcing both conservation principles on the discrete level. Locally conservative characteristics methods conserve the mass of tracer, but may not conserve the mass of the ambient fluid. In a recent paper by the authors [T. Arbogast, C. Huang, A fully mass and volume conserving implementation of a characteristic method for transport problems, SIAM J. Sci. Comput. 28 (2006) 2001-2022], a fully conservative characteristic method, the Volume Corrected Characteristics Mixed Method (VCCMM), was introduced for potential flows. Here we extend and apply the method to problems with a solenoidal (i.e., divergence-free) flow field. The modification is a computationally inexpensive simplification of the original VCCMM, requiring a simple adjustment of trace-back regions in an element-by-element traversal of the domain. Our numerical results show that the method works well in practice, is less numerically diffuse than uncorrected characteristic methods, and can use up to at least about eight times the CFL limited time step. © 2010 Elsevier Inc.

A conservative, thermodynamically consistent numerical approach for low Mach number combustion. Part I: Single-level integration

Science.gov (United States)

Nonaka, Andrew; Day, Marcus S.; Bell, John B.

2018-01-01

We present a numerical approach for low Mach number combustion that conserves both mass and energy while remaining on the equation of state to a desired tolerance. We present both unconfined and confined cases, where in the latter the ambient pressure changes over time. Our overall scheme is a projection method for the velocity coupled to a multi-implicit spectral deferred corrections (SDC) approach to integrate the mass and energy equations. The iterative nature of SDC methods allows us to incorporate a series of pressure discrepancy corrections naturally that lead to additional mass and energy influx/outflux in each finite volume cell in order to satisfy the equation of state. The method is second order, and satisfies the equation of state to a desired tolerance with increasing iterations. Motivated by experimental results, we test our algorithm on hydrogen flames with detailed kinetics. We examine the morphology of thermodiffusively unstable cylindrical premixed flames in high-pressure environments for confined and unconfined cases. We also demonstrate that our algorithm maintains the equation of state for premixed methane flames and non-premixed dimethyl ether jet flames.

Convergence of spectral methods for nonlinear conservation laws. Final report

International Nuclear Information System (INIS)

Tadmor, E.

1987-08-01

The convergence of the Fourier method for scalar nonlinear conservation laws which exhibit spontaneous shock discontinuities is discussed. Numerical tests indicate that the convergence may (and in fact in some cases must) fail, with or without post-processing of the numerical solution. Instead, a new kind of spectrally accurate vanishing viscosity is introduced to augment the Fourier approximation of such nonlinear conservation laws. Using compensated compactness arguments, it is shown that this spectral viscosity prevents oscillations, and convergence to the unique entropy solution follows

Conservation form of the equations of fluid dynamics in general nonsteady coordinates

Science.gov (United States)

Zhang, H.; Camarero, R.; Kahawita, R.

1985-11-01

Many of the differential equations arising in fluid dynamics may be stated in conservation-law form. A number of investigations have been conducted with the aim to derive the conservation-law form of the Navier-Stokes equations in general nonsteady coordinate systems. The present note has the objective to illustrate a mathematical methodology with which such forms of the equations may be derived in an easier and more general fashion. For numerical applications, the scalar form of the equations is eventually provided. Attention is given to the conservation form of equations in curvilinear coordinates and numerical considerations.

Conservation form of the equations of fluid dynamics in general nonsteady coordinates

International Nuclear Information System (INIS)

Zhang, H.; Camarero, R.; Kahawita, R.

1985-01-01

Many of the differential equations arising in fluid dynamics may be stated in conservation-law form. A number of investigations have been conducted with the aim to derive the conservation-law form of the Navier-Stokes equations in general nonsteady coordinate systems. The present note has the objective to illustrate a mathematical methodology with which such forms of the equations may be derived in an easier and more general fashion. For numerical applications, the scalar form of the equations is eventually provided. Attention is given to the conservation form of equations in curvilinear coordinates and numerical considerations. 6 references

Conservation biology in Asia: the major policy challenges.

Science.gov (United States)

McNeely, Jeffrey A; Kapoor-Vijay, Promila; Zhi, Lu; Olsvig-Whittaker, Linda; Sheikh, Kashif M; Smith, Andrew T

2009-08-01

With about half the world's human population and booming economies, Asia faces numerous challenges to its biodiversity. The Asia Section of the Society for Conservation Biology has identified some key policy issues in which significant progress can be made. These include developing new sources of funding for forest conservation; identifying potential impacts of energy alternatives on the conservation of biodiversity; curbing the trade in endangered species of plants and animals; a special focus on the conservation of mountain biodiversity; enhancing relevant research; ensuring that conservation biology contributes to major international conventions and funding mechanisms; using conservation biology to build a better understanding of zoonotic diseases; more effectively addressing human-animal conflicts; enhancing community-based conservation; and using conservation biology to help address the pervasive water-deficit problems in much of Asia. These challenges can be met through improved regional cooperation among the relevant stakeholders.

Conservative Semidiscrete Difference Schemes for Timoshenko Systems

OpenAIRE

Júnior, D. S. Almeida

2014-01-01

We present a parameterized family of finite-difference schemes to analyze the energy properties for linearly elastic constant-coefficient Timoshenko systems considering shear deformation and rotatory inertia. We derive numerical energies showing the positivity, and the energy conservation property and we show how to avoid a numerical anomaly known as locking phenomenon on shear force. Our method of proof relies on discrete multiplier techniques.

Nonlinear Conservation Laws and Finite Volume Methods

Science.gov (United States)

Leveque, Randall J.

Introduction Software Notation Classification of Differential Equations Derivation of Conservation Laws The Euler Equations of Gas Dynamics Dissipative Fluxes Source Terms Radiative Transfer and Isothermal Equations Multi-dimensional Conservation Laws The Shock Tube Problem Mathematical Theory of Hyperbolic Systems Scalar Equations Linear Hyperbolic Systems Nonlinear Systems The Riemann Problem for the Euler Equations Numerical Methods in One Dimension Finite Difference Theory Finite Volume Methods Importance of Conservation Form - Incorrect Shock Speeds Numerical Flux Functions Godunov's Method Approximate Riemann Solvers High-Resolution Methods Other Approaches Boundary Conditions Source Terms and Fractional Steps Unsplit Methods Fractional Step Methods General Formulation of Fractional Step Methods Stiff Source Terms Quasi-stationary Flow and Gravity Multi-dimensional Problems Dimensional Splitting Multi-dimensional Finite Volume Methods Grids and Adaptive Refinement Computational Difficulties Low-Density Flows Discrete Shocks and Viscous Profiles Start-Up Errors Wall Heating Slow-Moving Shocks Grid Orientation Effects Grid-Aligned Shocks Magnetohydrodynamics The MHD Equations One-Dimensional MHD Solving the Riemann Problem Nonstrict Hyperbolicity Stiffness The Divergence of B Riemann Problems in Multi-dimensional MHD Staggered Grids The 8-Wave Riemann Solver Relativistic Hydrodynamics Conservation Laws in Spacetime The Continuity Equation The 4-Momentum of a Particle The Stress-Energy Tensor Finite Volume Methods Multi-dimensional Relativistic Flow Gravitation and General Relativity References

High-Throughput Sequencing Reveals Diverse Sets of Conserved, Nonconserved, and Species-Specific miRNAs in Jute

Directory of Open Access Journals (Sweden)

Md. Tariqul Islam

2015-01-01

Full Text Available MicroRNAs play a pivotal role in regulating a broad range of biological processes, acting by cleaving mRNAs or by translational repression. A group of plant microRNAs are evolutionarily conserved; however, others are expressed in a species-specific manner. Jute is an agroeconomically important fibre crop; nonetheless, no practical information is available for microRNAs in jute to date. In this study, Illumina sequencing revealed a total of 227 known microRNAs and 17 potential novel microRNA candidates in jute, of which 164 belong to 23 conserved families and the remaining 63 belong to 58 nonconserved families. Among a total of 81 identified microRNA families, 116 potential target genes were predicted for 39 families and 11 targets were predicted for 4 among the 17 identified novel microRNAs. For understanding better the functions of microRNAs, target genes were analyzed by Gene Ontology and their pathways illustrated by KEGG pathway analyses. The presence of microRNAs identified in jute was validated by stem-loop RT-PCR followed by end point PCR and qPCR for randomly selected 20 known and novel microRNAs. This study exhaustively identifies microRNAs and their target genes in jute which will ultimately pave the way for understanding their role in this crop and other crops.

Numerical investigation of sixth order Boussinesq equation

Science.gov (United States)

Kolkovska, N.; Vucheva, V.

2017-10-01

We propose a family of conservative finite difference schemes for the Boussinesq equation with sixth order dispersion terms. The schemes are of second order of approximation. The method is conditionally stable with a mild restriction τ = O(h) on the step sizes. Numerical tests are performed for quadratic and cubic nonlinearities. The numerical experiments show second order of convergence of the discrete solution to the exact one.

Conserved regulators of nucleolar size revealed by global phenotypic analyses.

Science.gov (United States)

Neumüller, Ralph A; Gross, Thomas; Samsonova, Anastasia A; Vinayagam, Arunachalam; Buckner, Michael; Founk, Karen; Hu, Yanhui; Sharifpoor, Sara; Rosebrock, Adam P; Andrews, Brenda; Winston, Fred; Perrimon, Norbert

2013-08-20

Regulation of cell growth is a fundamental process in development and disease that integrates a vast array of extra- and intracellular information. A central player in this process is RNA polymerase I (Pol I), which transcribes ribosomal RNA (rRNA) genes in the nucleolus. Rapidly growing cancer cells are characterized by increased Pol I-mediated transcription and, consequently, nucleolar hypertrophy. To map the genetic network underlying the regulation of nucleolar size and of Pol I-mediated transcription, we performed comparative, genome-wide loss-of-function analyses of nucleolar size in Saccharomyces cerevisiae and Drosophila melanogaster coupled with mass spectrometry-based analyses of the ribosomal DNA (rDNA) promoter. With this approach, we identified a set of conserved and nonconserved molecular complexes that control nucleolar size. Furthermore, we characterized a direct role of the histone information regulator (HIR) complex in repressing rRNA transcription in yeast. Our study provides a full-genome, cross-species analysis of a nuclear subcompartment and shows that this approach can identify conserved molecular modules.

Conserved Regulators of Nucleolar Size Revealed by Global Phenotypic Analyses

Science.gov (United States)

Neumüller, Ralph A.; Gross, Thomas; Samsonova, Anastasia A.; Vinayagam, Arunachalam; Buckner, Michael; Founk, Karen; Hu, Yanhui; Sharifpoor, Sara; Rosebrock, Adam P.; Andrews, Brenda; Winston, Fred; Perrimon, Norbert

2014-01-01

Regulation of cell growth is a fundamental process in development and disease that integrates a vast array of extra- and intracellular information. A central player in this process is RNA polymerase I (Pol I), which transcribes ribosomal RNA (rRNA) genes in the nucleolus. Rapidly growing cancer cells are characterized by increased Pol I–mediated transcription and, consequently, nucleolar hypertrophy. To map the genetic network underlying the regulation of nucleolar size and of Pol I–mediated transcription, we performed comparative, genome-wide loss-of-function analyses of nucleolar size in Saccharomyces cerevisiae and Drosophila melanogaster coupled with mass spectrometry–based analyses of the ribosomal DNA (rDNA) promoter. With this approach, we identified a set of conserved and nonconserved molecular complexes that control nucleolar size. Furthermore, we characterized a direct role of the histone information regulator (HIR) complex in repressing rRNA transcription in yeast. Our study provides a full-genome, cross-species analysis of a nuclear subcompartment and shows that this approach can identify conserved molecular modules. PMID:23962978

A genome-wide map of hyper-edited RNA reveals numerous new sites

Science.gov (United States)

Porath, Hagit T.; Carmi, Shai; Levanon, Erez Y.

2014-01-01

Adenosine-to-inosine editing is one of the most frequent post-transcriptional modifications, manifested as A-to-G mismatches when comparing RNA sequences with their source DNA. Recently, a number of RNA-seq data sets have been screened for the presence of A-to-G editing, and hundreds of thousands of editing sites identified. Here we show that existing screens missed the majority of sites by ignoring reads with excessive (‘hyper’) editing that do not easily align to the genome. We show that careful alignment and examination of the unmapped reads in RNA-seq studies reveal numerous new sites, usually many more than originally discovered, and in precisely those regions that are most heavily edited. Specifically, we discover 327,096 new editing sites in the heavily studied Illumina Human BodyMap data and more than double the number of detected sites in several published screens. We also identify thousands of new sites in mouse, rat, opossum and fly. Our results establish that hyper-editing events account for the majority of editing sites. PMID:25158696

Spin-offs from laser ablation in art conservation

Science.gov (United States)

Asmus, J.; Elford, J.; Parfenov, V.

2013-05-01

In 1973 The Center for Art Conservation Studies (CASS) was established at the University of California, San Diego (UCSD). This was in response to demonstrations that were conducted during January-March 1972 in Venice for UNESCO, Venice in Peril, International Fund for Monuments, and the Italian Petroleum Institute (ENI). The feasibility investigation explored in-situ pulsed holography, holographic interferometry, and laser ablation divestment for applications in art conservation practice. During subsequent decades scores of UCSD graduate and undergraduate students as well as conservators, conservation scientists, academics, and engineers who resided in CASS as "Visiting Scholars" contributed to advancing the understanding and performance of radiation technologies in the arts. Several technologies in addition to those involving optical wavelengths were also investigated to aid in art conservation and conservation science. Magnetic Resonance Imaging (MRI) and Nuclear Magnetic Resonance (NMR) were employed to detect and map moisture within masonry. Lead isotopic analyses revealed authenticity and provenance of Benin bronzes. Inside-out x-ray radiography facilitated the detection of defects in stone. Ultrasonic imaging was introduced for the mapping of fresco strata. Photoacoustic Spectroscopy (PAS) was used to characterize varnish layers on paintings. Digital image processing was introduced in order to detect and visualize pentimenti within paintings as well as to perform virtual restoration and provide interactive museum displays. Holographic images were employed as imaginary theater sets. In the years that followed the graduation of students and the visits of professional collaborators, numerous other applications of radiation ablation began appearing in a wide variety of other fields such as aircraft maintenance, ship maintenance, toxic chemical remediation, biological sterilization, food processing, industrial fabrication, industrial maintenance, nuclear

Numerical cosmology: Revealing the universe using computers

International Nuclear Information System (INIS)

Centrella, J.; Matzner, R.A.; Tolman, B.W.

1986-01-01

In this paper the authors present two research projects which study the evolution of different periods in the history of the universe using numerical simulations. The first investigates the synthesis of light elements in an inhomogeneous early universe dominated by shocks and non-linear gravitational waves. The second follows the evolution of large scale structures during the later history of the universe and calculates their effect on the 3K background radiation. Their simulations are carried out using modern supercomputers and make heavy use of multidimensional color graphics, including film to elucidate the results. Both projects provide the authors the opportunity to do experiments in cosmology and assess their results against fundamental cosmological observations

Constrained dansyl derivatives reveal bacterial specificity of highly conserved thymidylate synthases.

Science.gov (United States)

Calò, Sanuele; Tondi, Donatella; Ferrari, Stefania; Venturelli, Alberto; Ghelli, Stefano; Costi, Maria Paola

2008-03-25

The elucidation of the structural/functional specificities of highly conserved enzymes remains a challenging area of investigation, and enzymes involved in cellular replication are important targets for functional studies and drug discovery. Thymidylate synthase (TS, ThyA) governs the synthesis of thymidylate for use in DNA synthesis. The present study focused on Lactobacillus casei TS (LcTS) and Escherichia coli TS (EcTS), which exhibit 50 % sequence identity and strong folding similarity. We have successfully designed and validated a chemical model in which linear, but not constrained, dansyl derivatives specifically complement the LcTS active site. Conversely, chemically constrained dansyl derivatives showed up to 1000-fold improved affinity for EcTS relative to the inhibitory activity of linear derivatives. This study demonstrates that the accurate design of small ligands can uncover functional features of highly conserved enzymes.

A conservative Fourier pseudospectral algorithm for a coupled nonlinear Schrödinger system

International Nuclear Information System (INIS)

Cai Jia-Xiang; Wang Yu-Shun

2013-01-01

We derive a new method for a coupled nonlinear Schrödinger system by using the square of first-order Fourier spectral differentiation matrix D 1 instead of traditional second-order Fourier spectral differentiation matrix D 2 to approximate the second derivative. We prove the proposed method preserves the charge and energy conservation laws exactly. In numerical tests, we display the accuracy of numerical solution and the role of the nonlinear coupling parameter in cases of soliton collisions. Numerical experiments also exhibit the excellent performance of the method in preserving the charge and energy conservation laws. These numerical results verify that the proposed method is both a charge-preserving and an energy-preserving algorithm

A Numerical Model for Trickle Bed Reactors

Science.gov (United States)

Propp, Richard M.; Colella, Phillip; Crutchfield, William Y.; Day, Marcus S.

2000-12-01

Trickle bed reactors are governed by equations of flow in porous media such as Darcy's law and the conservation of mass. Our numerical method for solving these equations is based on a total-velocity splitting, sequential formulation which leads to an implicit pressure equation and a semi-implicit mass conservation equation. We use high-resolution finite-difference methods to discretize these equations. Our solution scheme extends previous work in modeling porous media flows in two ways. First, we incorporate physical effects due to capillary pressure, a nonlinear inlet boundary condition, spatial porosity variations, and inertial effects on phase mobilities. In particular, capillary forces introduce a parabolic component into the recast evolution equation, and the inertial effects give rise to hyperbolic nonconvexity. Second, we introduce a modification of the slope-limiting algorithm to prevent our numerical method from producing spurious shocks. We present a numerical algorithm for accommodating these difficulties, show the algorithm is second-order accurate, and demonstrate its performance on a number of simplified problems relevant to trickle bed reactor modeling.

Prospects and challenges for social media data in conservation science

Directory of Open Access Journals (Sweden)

Enrico eDi Minin

2015-09-01

Full Text Available Social media data have been extensively used in numerous fields of science, but examples of their use in conservation science are still very limited. In this paper, we propose a framework on how social media data could be useful for conservation science and practice. We present the commonly used social media platforms and discuss how their content could be providing new data and information for conservation science. Based on this, we discuss how future work in conservation science and practice would benefit from social media data.

Numerical Hydrodynamics in General Relativity

Directory of Open Access Journals (Sweden)

Font José A.

2003-01-01

Full Text Available The current status of numerical solutions for the equations of ideal general relativistic hydrodynamics is reviewed. With respect to an earlier version of the article, the present update provides additional information on numerical schemes, and extends the discussion of astrophysical simulations in general relativistic hydrodynamics. Different formulations of the equations are presented, with special mention of conservative and hyperbolic formulations well-adapted to advanced numerical methods. A large sample of available numerical schemes is discussed, paying particular attention to solution procedures based on schemes exploiting the characteristic structure of the equations through linearized Riemann solvers. A comprehensive summary of astrophysical simulations in strong gravitational fields is presented. These include gravitational collapse, accretion onto black holes, and hydrodynamical evolutions of neutron stars. The material contained in these sections highlights the numerical challenges of various representative simulations. It also follows, to some extent, the chronological development of the field, concerning advances on the formulation of the gravitational field and hydrodynamic equations and the numerical methodology designed to solve them.

Conserved antigenic sites between MERS-CoV and Bat-coronavirus are revealed through sequence analysis.

Science.gov (United States)

Sharmin, Refat; Islam, Abul B M M K

2016-01-01

MERS-CoV is a newly emerged human coronavirus reported closely related with HKU4 and HKU5 Bat coronaviruses. Bat and MERS corona-viruses are structurally related. Therefore, it is of interest to estimate the degree of conserved antigenic sites among them. It is of importance to elucidate the shared antigenic-sites and extent of conservation between them to understand the evolutionary dynamics of MERS-CoV. Multiple sequence alignment of the spike (S), membrane (M), enveloped (E) and nucleocapsid (N) proteins was employed to identify the sequence conservation among MERS and Bat (HKU4, HKU5) coronaviruses. We used various in silico tools to predict the conserved antigenic sites. We found that MERS-CoV shared 30 % of its S protein antigenic sites with HKU4 and 70 % with HKU5 bat-CoV. Whereas 100 % of its E, M and N protein's antigenic sites are found to be conserved with those in HKU4 and HKU5. This sharing suggests that in case of pathogenicity MERS-CoV is more closely related to HKU5 bat-CoV than HKU4 bat-CoV. The conserved epitopes indicates their evolutionary relationship and ancestry of pathogenicity.

Alkylation sensitivity screens reveal a conserved cross-species functionome

Science.gov (United States)

Svilar, David; Dyavaiah, Madhu; Brown, Ashley R.; Tang, Jiang-bo; Li, Jianfeng; McDonald, Peter R.; Shun, Tong Ying; Braganza, Andrea; Wang, Xiao-hong; Maniar, Salony; St Croix, Claudette M.; Lazo, John S.; Pollack, Ian F.; Begley, Thomas J.; Sobol, Robert W.

2013-01-01

To identify genes that contribute to chemotherapy resistance in glioblastoma, we conducted a synthetic lethal screen in a chemotherapy-resistant glioblastoma derived cell line with the clinical alkylator temozolomide (TMZ) and an siRNA library tailored towards “druggable” targets. Select DNA repair genes in the screen were validated independently, confirming the DNA glycosylases UNG and MYH as well as MPG to be involved in the response to high dose TMZ. The involvement of UNG and MYH is likely the result of a TMZ-induced burst of reactive oxygen species. We then compared the human TMZ sensitizing genes identified in our screen with those previously identified from alkylator screens conducted in E. coli and S. cerevisiae. The conserved biological processes across all three species composes an Alkylation Functionome that includes many novel proteins not previously thought to impact alkylator resistance. This high-throughput screen, validation and cross-species analysis was then followed by a mechanistic analysis of two essential nodes: base excision repair (BER) DNA glycosylases (UNG, human and mag1, S. cerevisiae) and protein modification systems, including UBE3B and ICMT in human cells or pby1, lip22, stp22 and aim22 in S. cerevisiae. The conserved processes of BER and protein modification were dual targeted and yielded additive sensitization to alkylators in S. cerevisiae. In contrast, dual targeting of BER and protein modification genes in human cells did not increase sensitivity, suggesting an epistatic relationship. Importantly, these studies provide potential new targets to overcome alkylating agent resistance. PMID:23038810

A conservative local discontinuous Galerkin method for the solution of nonlinear Schr(o)dinger equation in two dimensions

Institute of Scientific and Technical Information of China (English)

ZHANG RongPei; YU XiJun; LI MingJun; LI XiangGui

2017-01-01

In this study,we present a conservative local discontinuous Galerkin (LDG) method for numerically solving the two-dimensional nonlinear Schr(o)dinger (NLS) equation.The NLS equation is rewritten as a firstorder system and then we construct the LDG formulation with appropriate numerical flux.The mass and energy conserving laws for the semi-discrete formulation can be proved based on different choices of numerical fluxes such as the central,alternative and upwind-based flux.We will propose two kinds of time discretization methods for the semi-discrete formulation.One is based on Crank-Nicolson method and can be proved to preserve the discrete mass and energy conservation.The other one is Krylov implicit integration factor (ⅡF) method which demands much less computational effort.Various numerical experiments are presented to demonstrate the conservation law of mass and energy,the optimal rates of convergence,and the blow-up phenomenon.

Current problems and subjects on numerical analysis of earthquake geotechnical engineering. For seamless analysis

International Nuclear Information System (INIS)

Yoshida, Taiki

2016-01-01

There are continuum and discontinuum analyses in the evaluation of seismic stability of surrounding slope in nuclear power plant facility. However, we cannot rationally evaluate such seismic stability due to excessive conservative margin of the results by each analysis. If we can simulate the behavior from small to large deformation by hybridizing them, we can contribute not only to the rationalization of the slope stability evaluation but also the enhancement of evaluation precision in the numerical analysis. In this review, the previous numerical analyses and application cases of them in earthquake geotechnical engineering were classified into three categories, that is, continuum analysis, discontinuum one and the hybridizing process to identify their research themes. The present review has revealed that the research themes are the standardization of condition for conversion, construction of the technique to determine parameters related to conversion and the reasonable physical property set of DEM(Distinct Element Method) after conversion. Our future work will be development of a numerical analysis code hybridizing continuum and discontinuum analyses based on the identified research themes. (author)

Numerical Simulation of Combustion and Rotor-Stator Interaction in a Turbine Combustor

Directory of Open Access Journals (Sweden)

Dragos D. Isvoranu

2003-01-01

Full Text Available This article presents the development of a numerical algorithm for the computation of flow and combustion in a turbine combustor. The flow and combustion are modeled by the Reynolds-averaged Navier-Stokes equations coupled with the species-conservation equations. The chemistry model used herein is a two-step, global, finite-rate combustion model for methane and combustion gases. The governing equations are written in the strong conservation form and solved using a fully implicit, finite-difference approximation. The gas dynamics and chemistry equations are fully decoupled. A correction technique has been developed to enforce the conservation of mass fractions. The numerical algorithm developed herein has been used to investigate the flow and combustion in a one-stage turbine combustor.

Cloning of the cDNA for murine von Willebrand factor and identification of orthologous genes reveals the extent of conservation among diverse species.

Science.gov (United States)

Chitta, Mohan S; Duhé, Roy J; Kermode, John C

2007-05-01

Interaction of von Willebrand factor (VWF) with circulating platelets promotes hemostasis when a blood vessel is injured. The A1 domain of VWF is responsible for the initial interaction with platelets and is well conserved among species. Knowledge of the cDNA and genomic DNA sequences for human VWF allowed us to predict the cDNA sequence for murine VWF in silico and amplify its entire coding region by RT-PCR. The murine VWF cDNA has an open reading frame of 8,442 bp, encoding a protein of 2,813 amino acid residues with 83% identity to human pre-pro-VWF. The same strategy was used to predict in silico the cDNA sequence for the ortholog of VWF in a further six species. Many of these predictions diverged substantially from the putative Reference Sequences derived by ab initio methods. Our predicted sequences indicated that the VWF gene has a conserved structure of 52 exons in all seven mammalian species examined, as well as in the chicken. There is a minor structural variation in the pufferfish Takifugu rubripes insofar as the VWF gene in this species has 53 exons. Comparison of the translated amino acid sequences also revealed a high degree of conservation. In particular, the cysteine residues are conserved precisely throughout both the pro-peptide and the mature VWF sequence in all species, with a minor exception in the pufferfish VWF ortholog where two adjacent cysteine residues are omitted. The marked conservation of cysteine residues emphasizes the importance of the intricate pattern of disulfide bonds in governing the structure of pro-VWF and regulating the function of the mature VWF protein. It should also be emphasized that many of the conserved features of the VWF gene and protein were obscured when the comparison among species was based on the putative Reference Sequences instead of our predicted cDNA sequences.

Reverse Conservation Analysis Reveals the Specificity Determining Residues of Cytochrome P450 Family 2 (CYP 2

Directory of Open Access Journals (Sweden)

Tai-Sung Lee

2008-01-01

Full Text Available The concept of conservation of amino acids is widely used to identify important alignment positions of orthologs. The assumption is that important amino acid residues will be conserved in the protein family during the evolutionary process. For paralog alignment, on the other hand, the opposite concept can be used to identify residues that are responsible for specificity. Assuming that the function-specific or ligand-specific residue positions will have higher diversity since they are under evolutionary pressure to fit the target specificity, these function-specific or ligand-specific residues positions will have a lower degree of conservation than other positions in a highly conserved paralog alignment. This study assessed the ability of reverse conservation analysis to identify function-specific and ligand-specific residue positions in closely related paralog. Reverse conservation analysis of paralog alignments successfully identified all six previously reported substrate recognition sites (SRSs in cytochrome P450 family 2 (CYP 2. Further analysis of each subfamily identified the specificity-determining residues (SDRs that have been experimentally found. New potential SDRs were also predicted and await confirmation by further experiments or modeling calculations. This concept may be also applied to identify SDRs in other protein families.

An accurate conservative level set/ghost fluid method for simulating turbulent atomization

International Nuclear Information System (INIS)

Desjardins, Olivier; Moureau, Vincent; Pitsch, Heinz

2008-01-01

This paper presents a novel methodology for simulating incompressible two-phase flows by combining an improved version of the conservative level set technique introduced in [E. Olsson, G. Kreiss, A conservative level set method for two phase flow, J. Comput. Phys. 210 (2005) 225-246] with a ghost fluid approach. By employing a hyperbolic tangent level set function that is transported and re-initialized using fully conservative numerical schemes, mass conservation issues that are known to affect level set methods are greatly reduced. In order to improve the accuracy of the conservative level set method, high order numerical schemes are used. The overall robustness of the numerical approach is increased by computing the interface normals from a signed distance function reconstructed from the hyperbolic tangent level set by a fast marching method. The convergence of the curvature calculation is ensured by using a least squares reconstruction. The ghost fluid technique provides a way of handling the interfacial forces and large density jumps associated with two-phase flows with good accuracy, while avoiding artificial spreading of the interface. Since the proposed approach relies on partial differential equations, its implementation is straightforward in all coordinate systems, and it benefits from high parallel efficiency. The robustness and efficiency of the approach is further improved by using implicit schemes for the interface transport and re-initialization equations, as well as for the momentum solver. The performance of the method is assessed through both classical level set transport tests and simple two-phase flow examples including topology changes. It is then applied to simulate turbulent atomization of a liquid Diesel jet at Re=3000. The conservation errors associated with the accurate conservative level set technique are shown to remain small even for this complex case

Local Responses to Participatory Conservation in Annapurna Conservation Area, Nepal

Science.gov (United States)

Khadka, Damodar; Nepal, Sanjay K.

2010-02-01

Biodiversity conservation has undergone a profound change in philosophy, policies and management approaches over the last forty years. The traditional top-down approach to nature protection has been widely criticized for failing to include critical social elements in management practices, and is being gradually replaced by a slew of participatory strategies under the rubric of bottom-up conservation. The new approach recognizes local communities as key partners in wildlife management and seeks their participation in social development and biodiversity conservation. However, every social context is different in its structure and functions, and in the way social groups respond to calls for participation. In order to gain a better understanding of the approach and the barriers encountered in its implementation, a questionnaire survey of 188 households was employed in the communities of the Upper Mustang extension of Annapurna Conservation Area (ACA) in Nepal. The study provides a comparative analysis of community participation and its barriers between Non-Tourist (NT) and Tourist (TV) villages. The results revealed important differences between the two groups in terms of their participation in community programs, barriers to participation, and perception of benefits from participation. Owing to their distinct spatial, demographic and attitudinal differences, the two village groups have their own sets of needs, values and motivation factors which cannot be generalized and treated as such. The research clearly identifies the need for the conservation agency to be creative in devising strategies and initiatives appropriate to specific social groups so as to optimize their input in participatory conservation.

Numerical solution of a non-linear conservation law applicable to the interior dynamics of partially molten planets

Science.gov (United States)

Bower, Dan J.; Sanan, Patrick; Wolf, Aaron S.

2018-01-01

The energy balance of a partially molten rocky planet can be expressed as a non-linear diffusion equation using mixing length theory to quantify heat transport by both convection and mixing of the melt and solid phases. Crucially, in this formulation the effective or eddy diffusivity depends on the entropy gradient, ∂S / ∂r , as well as entropy itself. First we present a simplified model with semi-analytical solutions that highlights the large dynamic range of ∂S / ∂r -around 12 orders of magnitude-for physically-relevant parameters. It also elucidates the thermal structure of a magma ocean during the earliest stage of crystal formation. This motivates the development of a simple yet stable numerical scheme able to capture the large dynamic range of ∂S / ∂r and hence provide a flexible and robust method for time-integrating the energy equation. Using insight gained from the simplified model, we consider a full model, which includes energy fluxes associated with convection, mixing, gravitational separation, and conduction that all depend on the thermophysical properties of the melt and solid phases. This model is discretised and evolved by applying the finite volume method (FVM), allowing for extended precision calculations and using ∂S / ∂r as the solution variable. The FVM is well-suited to this problem since it is naturally energy conserving, flexible, and intuitive to incorporate arbitrary non-linear fluxes that rely on lookup data. Special attention is given to the numerically challenging scenario in which crystals first form in the centre of a magma ocean. The computational framework we devise is immediately applicable to modelling high melt fraction phenomena in Earth and planetary science research. Furthermore, it provides a template for solving similar non-linear diffusion equations that arise in other science and engineering disciplines, particularly for non-linear functional forms of the diffusion coefficient.

Conservation Agriculture and its contribution to the achievement of agri-environmental and economic challenges in Europe

Directory of Open Access Journals (Sweden)

Emilio J. González-Sánchez

2016-10-01

Full Text Available Conservation Agriculture is an ecosystem approach to farming capable of providing solutions for numerous of the agri-environmental concerns in Europe. Certainly, most of the challenges addressed in the Common Agriculture Policy (CAP could be tackled through Conservation Agriculture (CA. Not only the agri-environmental ones, but also those concerning farmer and rural communities’ prosperity. The optimisation of inputs and similar yields than conventional tillage, make Conservation Agriculture a profitable system compared to the tillage based agriculture. Whereas this sustainable agricultural system was conceived for protecting agrarian soils from its degradation, the numerous collateral benefits that emanate from soil conservation, i.e., climate change mitigation and adaptation, have raised Conservation Agriculture as one of the global emerging agrosciences, being adopted by an increasing number of farmers worldwide, including Europe.

Ecology and conservation of North American sea ducks

Science.gov (United States)

Savard, Jean-Pierre L.; Derksen, Dirk V.; Esler, Daniel N.; Eadie, John M.

2015-01-01

The past decade has seen a huge increase in the interest and attention directed toward sea ducks, the Mergini tribe. This has been inspired, in large part, by the conservation concerns associated with numerical declines in several sea duck species and populations, as well as a growing appreciation for their interesting ecological attributes. Reflecting the considerable research recently conducted on this tribe, Ecology and Conservation of North American Sea Ducks examines the 15 extant species of sea ducks from North America.

Numerical models for differential problems

CERN Document Server

Quarteroni, Alfio

2017-01-01

In this text, we introduce the basic concepts for the numerical modelling of partial differential equations. We consider the classical elliptic, parabolic and hyperbolic linear equations, but also the diffusion, transport, and Navier-Stokes equations, as well as equations representing conservation laws, saddle-point problems and optimal control problems. Furthermore, we provide numerous physical examples which underline such equations. We then analyze numerical solution methods based on finite elements, finite differences, finite volumes, spectral methods and domain decomposition methods, and reduced basis methods. In particular, we discuss the algorithmic and computer implementation aspects and provide a number of easy-to-use programs. The text does not require any previous advanced mathematical knowledge of partial differential equations: the absolutely essential concepts are reported in a preliminary chapter. It is therefore suitable for students of bachelor and master courses in scientific disciplines, an...

Conservative numerical methods for a two-temperature resistive MHD model with self-generated magnetic field term

Directory of Open Access Journals (Sweden)

Imbert-Gérard Lise-Marie

2011-11-01

Full Text Available We propose numerical methods on Cartesian meshes for solving the 2-D axisymmetric two-temperature resistivive magnetohydrodynamics equations with self-generated magnetic field and Braginskii’s [1] closures. These rely on a splitting of the complete system in several subsystems according to the nature of the underlying mathematical operator. The hyperbolic part is solved using conservative high-order dimensionally split Lagrange-remap schemes whereas semi-implicit diffusion operators have been developed for the thermal and resistive conduction equations. Source terms are treated explictly. Numerical results on the deceleration phase of an ICF implosion test problem are proposed, a benchmark which was initially proposed in [2]. Nous proposons dans cet article des méthodes numériques pour les équations de la magnétohydrodynamique résistive à deux températures avec champ magnétique auto-généré et relations de fermeture de Braginskii [1] en géométrie 2-D axisymétrique sur maillage cartésien. Celles-ci sont basées sur une décomposition du système complet selon la nature des opérateurs mathématiques sous-jacents. La partie hyperbolique est résolue par des schémas conservatifs Lagrange-projection d’ordre élevé en directions alternées tandis que des opérateurs de diffusion semi-implicites ont été développés pour les équations de conduction thermique et résistive. Les termes sources sont traités de manière explicite. Des résultats numériques sur un cas-test simulant la phase de décélération d’une implosion de capsule FCI sont proposés, ce benchmark ayant été initialement présenté dans [2].

Novel cancer gene variants and gene fusions of triple-negative breast cancers (TNBCs) reveal their molecular diversity conserved in the patient-derived xenograft (PDX) model.

Science.gov (United States)

Jung, Jaeyun; Jang, Kiwon; Ju, Jung Min; Lee, Eunji; Lee, Jong Won; Kim, Hee Jung; Kim, Jisun; Lee, Sae Byul; Ko, Beom Seok; Son, Byung Ho; Lee, Hee Jin; Gong, Gyungyup; Ahn, Sei Yeon; Choi, Jung Kyoon; Singh, Shree Ram; Chang, Suhwan

2018-04-20

Despite the improved 5-year survival rate of breast cancer, triple-negative breast cancer (TNBC) remains a challenge due to lack of effective targeted therapy and higher recurrence and metastasis than other subtypes. To identify novel druggable targets and to understand its unique biology, we tried to implement 24 patient-derived xenografts (PDXs) of TNBC. The overall success rate of PDX implantation was 45%, much higher than estrogen receptor (ER)-positive cases. Immunohistochemical analysis revealed conserved ER/PR/Her2 negativity (with two exceptions) between the original and PDX tumors. Genomic analysis of 10 primary tumor-PDX pairs with Ion AmpliSeq CCP revealed high degree of variant conservation (85.0% to 96.9%) between primary and PDXs. Further analysis showed 44 rare variants with a predicted high impact in 36 genes including Trp53, Pten, Notch1, and Col1a1. Among them, we confirmed frequent Notch1 variant. Furthermore, RNA-seq analysis of 24 PDXs revealed 594 gene fusions, of which 163 were in-frame, including AZGP1-GJC3 and NF1-AARSD1. Finally, western blot analysis of oncogenic signaling proteins supporting molecular diversity of TNBC PDXs. Overall, our report provides a molecular basis for the usefulness of the TNBC PDX model in preclinical study. Copyright © 2018. Published by Elsevier B.V.

Numerical solver for compressible two-fluid flow

NARCIS (Netherlands)

J. Naber (Jorick)

2005-01-01

textabstractThis report treats the development of a numerical solver for the simulation of flows of two non-mixing fluids described by the two-dimensional Euler equations. A level-set equation in conservative form describes the interface. After each time step the deformed level-set function is

Numerical CFD Comparison of Lillgrund Employing RANS

DEFF Research Database (Denmark)

Simisiroglou, N.; Breton, S.-P.; Crasto, G.

2014-01-01

The following article will validate the results obtained using the actuator disc method in the state of the art numerical Computational Fluid Dynamic (CFD) tool WindSim using on-site measurements from the offshore wind farm Lillgrund. WindSim solves the mass, momentum and energy conservation...

Structure of Human cGAS Reveals a Conserved Family of Second-Messenger Enzymes in Innate Immunity

Directory of Open Access Journals (Sweden)

Philip J. Kranzusch

2013-05-01

Full Text Available Innate immune recognition of foreign nucleic acids induces protective interferon responses. Detection of cytosolic DNA triggers downstream immune signaling through activation of cyclic GMP-AMP synthase (cGAS. We report here the crystal structure of human cGAS, revealing an unanticipated zinc-ribbon DNA-binding domain appended to a core enzymatic nucleotidyltransferase scaffold. The catalytic core of cGAS is structurally homologous to the RNA-sensing enzyme, 2′-5′ oligo-adenylate synthase (OAS, and divergent C-terminal domains account for specific ligand-activation requirements of each enzyme. We show that the cGAS zinc ribbon is essential for STING-dependent induction of the interferon response and that conserved amino acids displayed within the intervening loops are required for efficient cytosolic DNA recognition. These results demonstrate that cGAS and OAS define a family of innate immunity sensors and that structural divergence from a core nucleotidyltransferase enables second-messenger responses to distinct foreign nucleic acids.

Ex situ conservation of plant diversity in the world's botanic gardens.

Science.gov (United States)

Mounce, Ross; Smith, Paul; Brockington, Samuel

2017-10-01

Botanic gardens conserve plant diversity ex situ and can prevent extinction through integrated conservation action. Here we quantify how that diversity is conserved in ex situ collections across the world's botanic gardens. We reveal that botanic gardens manage at least 105,634 species, equating to 30% of all plant species diversity, and conserve over 41% of known threatened species. However, we also reveal that botanic gardens are disproportionately temperate, with 93% of species held in the Northern Hemisphere. Consequently, an estimated 76% of species absent from living collections are tropical in origin. Furthermore, phylogenetic bias ensures that over 50% of vascular genera, but barely 5% of non-vascular genera, are conserved ex situ. While botanic gardens are discernibly responding to the threat of species extinction, just 10% of network capacity is devoted to threatened species. We conclude that botanic gardens play a fundamental role in plant conservation, but identify actions to enhance future conservation of biodiversity.

Private development-based forest conservation in Patagonia: comparing mental models and revealing cultural truths

Directory of Open Access Journals (Sweden)

Christopher Serenari

2015-09-01

Full Text Available Private protected area (PPA conservation agents (CA engaging in development-based conservation in southern Chile have generated conflict with locals. Poor fit of dominant development-based conservation ideology in rural areas is commonly to blame. We developed and administered a cultural consensus survey near the Valdivian Coastal Reserve (RCV and Huilo Huilo Reserve (HH to examine fit of CA cultural truths with local residents. Cultural consensus analysis (CCA of 23 propositions reflecting CA cultural truths confirmed: (1 a single CA culture exists, and (2 RCV communities were more aligned with this culture than HH communities. Inadequate communication, inequitable decision making, divergent opinions about livelihood impacts and trajectories, and PPA purpose may explain differences between CAs and communities. Meanwhile, variability in response between and within communities may reflect differing environmental histories. Private protected area administrations might use CCA to confront cultural differences and thereby improve their community interactions.

A Locally Conservative Eulerian--Lagrangian Method for a Model Two-Phase Flow Problem in a One-Dimensional Porous Medium

KAUST Repository

Arbogast, Todd

2012-01-01

Motivated by possible generalizations to more complex multiphase multicomponent systems in higher dimensions, we develop an Eulerian-Lagrangian numerical approximation for a system of two conservation laws in one space dimension modeling a simplified two-phase flow problem in a porous medium. The method is based on following tracelines, so it is stable independent of any CFL constraint. The main difficulty is that it is not possible to follow individual tracelines independently. We approximate tracing along the tracelines by using local mass conservation principles and self-consistency. The two-phase flow problem is governed by a system of equations representing mass conservation of each phase, so there are two local mass conservation principles. Our numerical method respects both of these conservation principles over the computational mesh (i.e., locally), and so is a fully conservative traceline method. We present numerical results that demonstrate the ability of the method to handle problems with shocks and rarefactions, and to do so with very coarse spatial grids and time steps larger than the CFL limit. © 2012 Society for Industrial and Applied Mathematics.

Finite difference techniques for nonlinear hyperbolic conservation laws

International Nuclear Information System (INIS)

Sanders, R.

1985-01-01

The present study is concerned with numerical approximations to the initial value problem for nonlinear systems of conservative laws. Attention is given to the development of a class of conservation form finite difference schemes which are based on the finite volume method (i.e., the method of averages). These schemes do not fit into the classical framework of conservation form schemes discussed by Lax and Wendroff (1960). The finite volume schemes are specifically intended to approximate solutions of multidimensional problems in the absence of rectangular geometries. In addition, the development is reported of different schemes which utilize the finite volume approach for time discretization. Particular attention is given to local time discretization and moving spatial grids. 17 references

Human Conservation in Central America, Summary of a Conference (Guatemala, Central America).

Science.gov (United States)

Conservation Foundation, Washington, DC.

This booklet is a resume consisting chiefly of extracts from papers that were presented at a conference on Human Conservation in Central America, held in Guatemala in 1965, as well as from discussions that took place during the conferences. With cooperation of numerous organizations and guidance from the Conservation Foundation, a discussion of…

Bicaudal is a conserved substrate for Drosophila and mammalian caspases and is essential for cell survival.

LENUS (Irish Health Repository)

Creagh, Emma M

2009-01-01

Members of the caspase family of cysteine proteases coordinate cell death through restricted proteolysis of diverse protein substrates and play a conserved role in apoptosis from nematodes to man. However, while numerous substrates for the mammalian cell death-associated caspases have now been described, few caspase substrates have been identified in other organisms. Here, we have utilized a proteomics-based approach to identify proteins that are cleaved by caspases during apoptosis in Drosophila D-Mel2 cells, a subline of the Schneider S2 cell line. This approach identified multiple novel substrates for the fly caspases and revealed that bicaudal\\/betaNAC is a conserved substrate for Drosophila and mammalian caspases. RNAi-mediated silencing of bicaudal expression in Drosophila D-Mel2 cells resulted in a block to proliferation, followed by spontaneous apoptosis. Similarly, silencing of expression of the mammalian bicaudal homologue, betaNAC, in HeLa, HEK293T, MCF-7 and MRC5 cells also resulted in spontaneous apoptosis. These data suggest that bicaudal\\/betaNAC is essential for cell survival and is a conserved target of caspases from flies to man.

Numerical simulation of multi-dimensional two-phase flow based on flux vector splitting

Energy Technology Data Exchange (ETDEWEB)

Staedtke, H.; Franchello, G.; Worth, B. [Joint Research Centre - Ispra Establishment (Italy)

1995-09-01

This paper describes a new approach to the numerical simulation of transient, multidimensional two-phase flow. The development is based on a fully hyperbolic two-fluid model of two-phase flow using separated conservation equations for the two phases. Features of the new model include the existence of real eigenvalues, and a complete set of independent eigenvectors which can be expressed algebraically in terms of the major dependent flow parameters. This facilitates the application of numerical techniques specifically developed for high speed single-phase gas flows which combine signal propagation along characteristic lines with the conservation property with respect to mass, momentum and energy. Advantages of the new model for the numerical simulation of one- and two- dimensional two-phase flow are discussed.

Integrating Agriculture and Conservation

Science.gov (United States)

Vandever, Mark W.

2010-01-01

The USGS produces the needed science-based information to guide management actions and policy decisions that support wildlife habitat and other environmental services compatible with USDA conservation goals and farm operations. The Policy Analysis and Science Assistance Branch of the Fort Collins Science Center (FORT) has conducted research involving a national landowner survey and numerous short- and long-term evaluations regarding vegetation responses to land management practices. This research helps land and resource managers to make informed decisions and resolve resource management conflicts.

Preferred conservation policies of shark researchers.

Science.gov (United States)

Shiffman, David S; Hammerschlag, Neil

2016-08-01

There is increasing concern about the conservation status of sharks. However, the presence of numerous different (and potentially mutually exclusive) policies complicates management implementation and public understanding of the process. We distributed an online survey to members of the largest professional shark and ray research societies to assess member knowledge of and attitudes toward different conservation policies. Questions covered society member opinions on conservation and management policies, personal histories of involvement in advocacy and management, and perceptions of the approach of conservation nongovernmental organizations (NGOs) to shark conservation. One hundred and two surveys were completed (overall response rate 21%). Respondents considered themselves knowledgeable about and actively involved in conservation and management policy; a majority believed scientists have a responsibility to advocate for conservation (75%), and majorities have sent formal public comments to policymakers (54%) and included policy suggestions in their papers (53%). They believe sustainable shark fisheries are possible, are currently happening today (in a few places), and should be the goal instead of banning fisheries. Respondents were generally less supportive of newer limit-based (i.e., policies that ban exploitation entirely without a species-specific focus) conservation policy tools, such as shark sanctuaries and bans on the sale of shark fins, than of target-based fisheries management tools (i.e., policies that allow for sustainable harvest of species whose populations can withstand it), such as fishing quotas. Respondents were generally supportive of environmental NGO efforts to conserve sharks but raised concerns about some NGOs that they perceived as using incorrect information and focusing on the wrong problems. Our results show there is an ongoing debate in shark conservation and management circles relative to environmental policy on target-based natural

A two-dimensional numerical study of the flow inside the combustion chamber of a motored rotary engine

Science.gov (United States)

Shih, T. I-P.; Yang, S. L.; Schock, H. J.

1986-01-01

A numerical study was performed to investigate the unsteady, multidimensional flow inside the combustion chambers of an idealized, two-dimensional, rotary engine under motored conditions. The numerical study was based on the time-dependent, two-dimensional, density-weighted, ensemble-averaged conservation equations of mass, species, momentum, and total energy valid for two-component ideal gas mixtures. The ensemble-averaged conservation equations were closed by a K-epsilon model of turbulence. This K-epsilon model of turbulence was modified to account for some of the effects of compressibility, streamline curvature, low-Reynolds number, and preferential stress dissipation. Numerical solutions to the conservation equations were obtained by the highly efficient implicit-factored method of Beam and Warming. The grid system needed to obtain solutions were generated by an algebraic grid generation technique based on transfinite interpolation. Results of the numerical study are presented in graphical form illustrating the flow patterns during intake, compression, gaseous fuel injection, expansion, and exhaust.

A two-dimensional numerical study of the flow inside the combustion chambers of a motored rotary engine

Science.gov (United States)

Shih, T. I. P.; Yang, S. L.; Schock, H. J.

1986-01-01

A numerical study was performed to investigate the unsteady, multidimensional flow inside the combustion chambers of an idealized, two-dimensional, rotary engine under motored conditions. The numerical study was based on the time-dependent, two-dimensional, density-weighted, ensemble-averaged conservation equations of mass, species, momentum, and total energy valid for two-component ideal gas mixtures. The ensemble-averaged conservation equations were closed by a K-epsilon model of turbulence. This K-epsilon model of turbulence was modified to account for some of the effects of compressibility, streamline curvature, low-Reynolds number, and preferential stress dissipation. Numerical solutions to the conservation equations were obtained by the highly efficient implicit-factored method of Beam and Warming. The grid system needed to obtain solutions were generated by an algebraic grid generation technique based on transfinite interpolation. Results of the numerical study are presented in graphical form illustrating the flow patterns during intake, compression, gaseous fuel injection, expansion, and exhaust.

Understanding Conservation Delays in Children with Specific Language Impairment: Task Representations Revealed in Speech and Gesture

Science.gov (United States)

Mainela-Arnold, Elina; Evans, Julia L.; Alibali, Martha W.

2006-01-01

Purpose: The authors investigated mental representations of Piagetian conservation tasks in children with specific language impairment (SLI) and typically developing peers. Children with SLI have normal nonverbal intelligence; however, they exhibit difficulties in Piagetian conservation tasks. The authors tested the hypothesis that conservation…

Genetic Diversity of the Critically Endangered Thuja sutchuenensis Revealed by ISSR Markers and the Implications for Conservation

Directory of Open Access Journals (Sweden)

Zeping Jiang

2013-07-01

Full Text Available Thuja sutchuenensis Franch. is a critically endangered plant endemic to the North-East Chongqing, China. Genetic variation was studied to assess the distribution of genetic diversity within and among seven populations from the single remnant locations, using inter-simple sequence repeat (ISSR markers. A total of 15 primers generated 310 well defined bands, with an average of 20.7 bands per primer. The seven populations revealed a relatively high level of genetic diversity in the species. The percentage of polymorphic bands, Nei’s gene diversity and Shannon’s information index at the population and species level were 76.1%, 0.155, 0.252 and 100%, 0.165, 0.295, respectively. A low level of genetic differentiation among populations (GST = 0.102, in line with the results of Analyses of Molecular Variance (AMOVA, and a high level of gene flow (Nm = 4.407 were observed. Both the Unweighted Pair Group Method with Arithmatic Mean (UPGMA cluster analysis and Principal Coordinates Analysis (PCoA supported the grouping of all seven populations into two groups. In addition, Mantel test revealed no significant correlation between genetic and geographical distances (r = 0.329, p = 0.100. The low genetic differentiation among populations implies that the conservation efforts should aim to preserve all the extant populations of this endangered species.

Comparative mapping reveals similar linkage of functional genes to ...

Indian Academy of Sciences (India)

genes between O. sativa and B. napus may have consistent function and control similar traits, which may be ..... acea chromosomes reveals islands of conserved organization. ... 1998 Conserved structure and function of the Arabidopsis flow-.

In Vivo Characterization of a Vertebrate Ultra-conserved Enhancer

Energy Technology Data Exchange (ETDEWEB)

Poulin, Francis; Nobrega, Marcelo A.; Plajzer-Frick, Ingrid; Holt, Amy; Afzal, Veena; Rubin, Edward M.; Pennacchio, Len

2004-10-01

Genomic sequence comparisons between human, mouse and pufferfish (Takifugu rubripes (Fugu))have revealed a set of extremely conserved noncoding sequences. While this high degree of sequence conservation suggests severe evolutionary constraint and predicts a lack of tolerance to change in order to retain in vivo functionality, such elements have been minimally explored experimentally. In this study, we describe the in-depth characterization of an ancient conserved enhancer, Dc2 located near the dachshund gene, which displays a human-Fugu identity of 84 percent over 424 basepairs (bp). In addition to this large overall conservation, we find that Dc2 is characterized by the presence of a large block of sequence (144 bp) that is completely identical between human, mouse, chicken, zebrafish and Fugu. Through the testing of reporter vector constructs in transgenic mice, we observed that the 424 bp Dc2 conserved element is necessary and sufficient for brain tissue enhancer activity. In vivo analyses also revealed that the 144 bp 100 percent conserved sequence is necessary, but not sufficient, to replicate Dc2 enhancer function. However, the introduction of two separate 16 bp insertions into the highly conserved enhancer core did not cause any detectable modification of its in vivo activity. Our observations indicate that the 144 bp 100 percent conserved element is tolerant of change at least at the resolution of this transgenic mouse assay and suggest that purifying selection on Dc2 sequence might not be as strong as we predicted or that some unknown property also constrains this highly conserved enhancer sequence.

NCSU solar energy and conservation house. Final report

Energy Technology Data Exchange (ETDEWEB)

1981-10-01

A passive solar energy house has been built adjacent to the NCSU McKimmon Continuing Education Center. The house contains a two-story embedded sunspace, two Trombe walls, active solar hot water heating, thermal storage in a rock filled ceiling/floor, and numerous research treatments, and energy conservation features. (See attached photo brochure; Appendix 1). The house is completely decorated and furnished in an attractive manner and the exterior architecture is traditional and has broad consumer appeal. It is also thoroughly instrumented to monitor performance. The house is open to the public on weekends and numerous people come to visit on their own initiative and others take advantage of the close proximity to McKimmon while there attending conferences. The house will influence and motivate large numbers of people to consider solar and energy conservation facets in their homes and will provide data to substantiate performance to prospective home buyers and meaningful data on design and construction for builders.

A numerical study of Taylor vortex flow in a finite length tapered annulus

International Nuclear Information System (INIS)

Noui-Mehidi, M N; Ohmura, N; Wu, J

2005-01-01

The transient evolution and steady state analysis of Taylor vortex flow in a tapered annulus was conducted by numerical experiments in the case where the inner cylinder was rotated and the outer one fixed. The gap between the cylinders was linearly tapered from a supercritical value at the upper base to the critical value at the lower base. The wavelength adjustment depended on the variation of Reynolds number in the spatially ramped gap. The axisymmetric conservative governing equations were solved by the use of an simplified marker and cell (SMAC) algorithm. A coordinate transformation function allowed us to numerically solve the problem in a rectangular computational domain. The results have shown that Taylor vortices growth was sensitive to the spatial ramp of the gap even with tapering angle values less than one degree. The interaction between the inflow and outflow boundaries could be clearly seen as the taper angle was increased. The investigation of the transient dynamics related to the flow system also revealed a characteristic dependence on the taper angle

Four-level conservative finite-difference schemes for Boussinesq paradigm equation

Science.gov (United States)

Kolkovska, N.

2013-10-01

In this paper a two-parametric family of four level conservative finite difference schemes is constructed for the multidimensional Boussinesq paradigm equation. The schemes are explicit in the sense that no inner iterations are needed for evaluation of the numerical solution. The preservation of the discrete energy with this method is proved. The schemes have been numerically tested on one soliton propagation model and two solitons interaction model. The numerical experiments demonstrate that the proposed family of schemes has second order of convergence in space and time steps in the discrete maximal norm.

Numerical study of interfacial flows with immersed solids

International Nuclear Information System (INIS)

Kim, Sung Il; Son, Gi Hun

2003-01-01

A numerical method is presented for computing unsteady incompressible two-phase flows with immersed solids. The method is based on a level set technique for capturing the phase interface, which is modified to satisfy a contact angle condition at the solid-fluid interface as well as to achieve mass conservation during the whole calculation procedure. The modified level set method is applied for numerical simulation of bubble deformation in a micro channel with a cylindrical solid block and liquid jet from a micro nozzle

On the numerical simulation of tracer flows in porous media

International Nuclear Information System (INIS)

Aquino, J.; Pereira, F.; Amaral Souto, H.P.; Francisco, A.S.

2007-01-01

We discuss in detail a new Lagrangian, locally conservative procedure which has been proposed for the numerical solution of linear transport problems in porous media. The new scheme is computationally efficient, virtually free of numerical diffusion, and can be applied to investigate numerically the time evolution of radionuclide contaminant plumes. Results of two-dimensional simulations of tracer flows will be presented to show the influence on the computed solutions of distinct interpolation functions for evaluating the velocity field at any position of the physical domain, as required by the Lagrangian scheme. (author)

Entropy viscosity method for nonlinear conservation laws

KAUST Repository

Guermond, Jean-Luc

2011-05-01

A new class of high-order numerical methods for approximating nonlinear conservation laws is described (entropy viscosity method). The novelty is that a nonlinear viscosity based on the local size of an entropy production is added to the numerical discretization at hand. This new approach does not use any flux or slope limiters, applies to equations or systems supplemented with one or more entropy inequalities and does not depend on the mesh type and polynomial approximation. Various benchmark problems are solved with finite elements, spectral elements and Fourier series to illustrate the capability of the proposed method. © 2010 Elsevier Inc.

Entropy viscosity method for nonlinear conservation laws

KAUST Repository

Guermond, Jean-Luc; Pasquetti, Richard; Popov, Bojan

2011-01-01

A new class of high-order numerical methods for approximating nonlinear conservation laws is described (entropy viscosity method). The novelty is that a nonlinear viscosity based on the local size of an entropy production is added to the numerical discretization at hand. This new approach does not use any flux or slope limiters, applies to equations or systems supplemented with one or more entropy inequalities and does not depend on the mesh type and polynomial approximation. Various benchmark problems are solved with finite elements, spectral elements and Fourier series to illustrate the capability of the proposed method. © 2010 Elsevier Inc.

Mapping the transcription start points of the Staphylococcus aureus eap, emp, and vwb promoters reveals a conserved octanucleotide sequence that is essential for expression of these genes.

Science.gov (United States)

Harraghy, Niamh; Homerova, Dagmar; Herrmann, Mathias; Kormanec, Jan

2008-01-01

Mapping the transcription start points of the eap, emp, and vwb promoters revealed a conserved octanucleotide sequence (COS). Deleting this sequence abolished the expression of eap, emp, and vwb. However, electrophoretic mobility shift assays gave no evidence that this sequence was a binding site for SarA or SaeR, known regulators of eap and emp.

Present status of numerical analysis on transient two-phase flow

International Nuclear Information System (INIS)

Akimoto, Masayuki; Hirano, Masashi; Nariai, Hideki.

1987-01-01

The Special Committee for Numerical Analysis of Thermal Flow has recently been established under the Japan Atomic Energy Association. Here, some methods currently used for numerical analysis of transient two-phase flow are described citing some information given in the first report of the above-mentioned committee. Many analytical models for transient two-phase flow have been proposed, each of which is designed to describe a flow by using differential equations associated with conservation of mass, momentum and energy in a continuous two-phase flow system together with constructive equations that represent transportation of mass, momentum and energy though a gas-liquid interface or between a liquid flow and the channel wall. The author has developed an analysis code, called MINCS, that serves for systematic examination of conservation equation and constructive equations for two-phase flow models. A one-dimensional, non-equilibrium two-liquid flow model that is used as the basic model for the code is described. Actual procedures for numerical analysis is shown and some problems concerning transient two-phase analysis are described. (Nogami, K.)

Long-term numerical simulation of the interaction between a neutron field and a neutral meson field by a symplectic-preserving scheme

International Nuclear Information System (INIS)

Kong Linghua; Hong Jialin; Liu Ruxun

2008-01-01

In this paper, we propose a family of symplectic structure-preserving numerical methods for the coupled Klein-Gordon-Schroedinger (KGS) system. The Hamiltonian formulation is constructed for the KGS. We discretize the Hamiltonian system in space first with a family of canonical difference methods which convert an infinite-dimensional Hamiltonian system into a finite-dimensional one. Next, we discretize the finite-dimensional system in time by a midpoint rule which preserves the symplectic structure of the original system. The conservation laws of the schemes are analyzed in succession, including the charge conservation law and the residual of energy conservation law, etc. We analyze the truncation errors and global errors of the numerical solutions for the schemes to end the theoretical analysis. Extensive numerical tests show the accordance between the theoretical and numerical results

On a method of numerical calculation of nonlinear radial pulsations of stars

International Nuclear Information System (INIS)

Kosovichev, A.G.

1984-01-01

Some features of using the finite difference method for numerical investigation of nonradial pulsations of stars were considered. The mathematical model of these pulsations is described by time-dependent gasdynaMic equations with gravity. A one-dimentional (spherically-symmetric) case is considered. It was obtained a two-parametric family of ultimate conservative difference schemes where the diffepence analogy of the main conservative laws as well as the additional relations for the balance to individual kinds of energy are performed. Such difference schemes provide more exact calculation of nonlinear flows with shocks as compared with the other difference schemes with the same order of approximation. The methods of numerical solution of implicit (absolute stable) difference schemes for a given family were considered. The coupled equations are solved through iterative Newton method Using martrix and separate successive eliminations. Numerical method can be used for calculation of large amplitude radial pulsations of stars

Conservation and diversification of Msx protein in metazoan evolution.

Science.gov (United States)

Takahashi, Hirokazu; Kamiya, Akiko; Ishiguro, Akira; Suzuki, Atsushi C; Saitou, Naruya; Toyoda, Atsushi; Aruga, Jun

2008-01-01

Msx (/msh) family genes encode homeodomain (HD) proteins that control ontogeny in many animal species. We compared the structures of Msx genes from a wide range of Metazoa (Porifera, Cnidaria, Nematoda, Arthropoda, Tardigrada, Platyhelminthes, Mollusca, Brachiopoda, Annelida, Echiura, Echinodermata, Hemichordata, and Chordata) to gain an understanding of the role of these genes in phylogeny. Exon-intron boundary analysis suggested that the position of the intron located N-terminally to the HDs was widely conserved in all the genes examined, including those of cnidarians. Amino acid (aa) sequence comparison revealed 3 new evolutionarily conserved domains, as well as very strong conservation of the HDs. Two of the three domains were associated with Groucho-like protein binding in both a vertebrate and a cnidarian Msx homolog, suggesting that the interaction between Groucho-like proteins and Msx proteins was established in eumetazoan ancestors. Pairwise comparison among the collected HDs and their C-flanking aa sequences revealed that the degree of sequence conservation varied depending on the animal taxa from which the sequences were derived. Highly conserved Msx genes were identified in the Vertebrata, Cephalochordata, Hemichordata, Echinodermata, Mollusca, Brachiopoda, and Anthozoa. The wide distribution of the conserved sequences in the animal phylogenetic tree suggested that metazoan ancestors had already acquired a set of conserved domains of the current Msx family genes. Interestingly, although strongly conserved sequences were recovered from the Vertebrata, Cephalochordata, and Anthozoa, the sequences from the Urochordata and Hydrozoa showed weak conservation. Because the Vertebrata-Cephalochordata-Urochordata and Anthozoa-Hydrozoa represent sister groups in the Chordata and Cnidaria, respectively, Msx sequence diversification may have occurred differentially in the course of evolution. We speculate that selective loss of the conserved domains in Msx family

Social-psychological principles of community-based conservation and conservancy motivation: attaining goals within an autonomy-supportive environment.

Science.gov (United States)

Decaro, Daniel; Stokes, Michael

2008-12-01

Community-based natural resource conservation programs in developing nations face many implementation challenges underpinned by social-psychological mechanisms. One challenge is garnering local support in an economically and socially sustainable fashion despite economic hardship and historical alienation from local resources. Unfortunately, conservationists' limited understanding of the social-psychological mechanisms underlying participatory conservation impedes the search for appropriate solutions. We address this issue by revealing key underlying social-psychological mechanisms of participatory conservation. Different administrative designs create social atmospheres that differentially affect endorsement of conservation goals. Certain forms of endorsement may be less effective motivators and less economically and socially sustainable than others. From a literature review we found that conservation initiatives endorsed primarily for nonautonomous instrumental reasons, such as to avoid economic fines or to secure economic rewards, are less motivating than those endorsed for autonomous reasons, such as for the opportunity for personal expression and growth. We suggest that successful participatory programs promote autonomous endorsement of conservation through an administrative framework of autonomy support-free and open democratic participation in management, substantive recognition and inclusion of local stakeholder identity, and respectful, noncoercive social interaction. This framework of the autonomy-supportive environment (self-determination theory) has important implications for future research into program design and incentive-based conservation and identifies a testable social-psychological theory of conservancy motivation.

Numerical method for two-phase flow discontinuity propagation calculation

International Nuclear Information System (INIS)

Toumi, I.; Raymond, P.

1989-01-01

In this paper, we present a class of numerical shock-capturing schemes for hyperbolic systems of conservation laws modelling two-phase flow. First, we solve the Riemann problem for a two-phase flow with unequal velocities. Then, we construct two approximate Riemann solvers: an one intermediate-state Riemann solver and a generalized Roe's approximate Riemann solver. We give some numerical results for one-dimensional shock-tube problems and for a standard two-phase flow heat addition problem involving two-phase flow instabilities

Implementation of Quality Management System for Historical Building Conservation

Directory of Open Access Journals (Sweden)

Zahari N.F.

2014-01-01

Full Text Available The main objectives of this study are twofold. Firstly, to identify the implementation of ISO 9001 procedures being used as references for conservation works and the development of Quality Management System (QMS guidelines. Data were solicited from three (3 conservation areas. The analysis involved of descriptive approach and statistical methods. The findings revealed that QMS is not structurally established, implemented and enforced as part of conservation practice in Malaysia. From the findings, the authors hope to give clear perception to the reader on current preservation practice and the existence of QMS with reference to ISO 9001 for future conservation mechanism.

Structure-Related Roles for the Conservation of the HIV-1 Fusion Peptide Sequence Revealed by Nuclear Magnetic Resonance.

Science.gov (United States)

Serrano, Soraya; Huarte, Nerea; Rujas, Edurne; Andreu, David; Nieva, José L; Jiménez, María Angeles

2017-10-17

Despite extensive characterization of the human immunodeficiency virus type 1 (HIV-1) hydrophobic fusion peptide (FP), the structure-function relationships underlying its extraordinary degree of conservation remain poorly understood. Specifically, the fact that the tandem repeat of the FLGFLG tripeptide is absolutely conserved suggests that high hydrophobicity may not suffice to unleash FP function. Here, we have compared the nuclear magnetic resonance (NMR) structures adopted in nonpolar media by two FP surrogates, wtFP-tag and scrFP-tag, which had equal hydrophobicity but contained wild-type and scrambled core sequences LFLGFLG and FGLLGFL, respectively. In addition, these peptides were tagged at their C-termini with an epitope sequence that folded independently, thereby allowing Western blot detection without interfering with FP structure. We observed similar α-helical FP conformations for both specimens dissolved in the low-polarity medium 25% (v/v) 1,1,1,3,3,3-hexafluoro-2-propanol (HFIP), but important differences in contact with micelles of the membrane mimetic dodecylphosphocholine (DPC). Thus, whereas wtFP-tag preserved a helix displaying a Gly-rich ridge, the scrambled sequence lost in great part the helical structure upon being solubilized in DPC. Western blot analyses further revealed the capacity of wtFP-tag to assemble trimers in membranes, whereas membrane oligomers were not observed in the case of the scrFP-tag sequence. We conclude that, beyond hydrophobicity, preserving sequence order is an important feature for defining the secondary structures and oligomeric states adopted by the HIV FP in membranes.

Quantifying solute transport processes: are chemically "conservative" tracers electrically conservative?

Science.gov (United States)

Singha, Kamini; Li, Li; Day-Lewis, Frederick D.; Regberg, Aaron B.

2012-01-01

The concept of a nonreactive or conservative tracer, commonly invoked in investigations of solute transport, requires additional study in the context of electrical geophysical monitoring. Tracers that are commonly considered conservative may undergo reactive processes, such as ion exchange, thus changing the aqueous composition of the system. As a result, the measured electrical conductivity may reflect not only solute transport but also reactive processes. We have evaluated the impacts of ion exchange reactions, rate-limited mass transfer, and surface conduction on quantifying tracer mass, mean arrival time, and temporal variance in laboratory-scale column experiments. Numerical examples showed that (1) ion exchange can lead to resistivity-estimated tracer mass, velocity, and dispersivity that may be inaccurate; (2) mass transfer leads to an overestimate in the mobile tracer mass and an underestimate in velocity when using electrical methods; and (3) surface conductance does not notably affect estimated moments when high-concentration tracers are used, although this phenomenon may be important at low concentrations or in sediments with high and/or spatially variable cation-exchange capacity. In all cases, colocated groundwater concentration measurements are of high importance for interpreting geophysical data with respect to the controlling transport processes of interest.

USDA Forest Service Sage-Grouse Conservation Science Strategy

Science.gov (United States)

Deborah Finch; Douglas Boyce; Jeanne Chambers; Chris Colt; Clint McCarthy; Stanley Kitchen; Bryce Richardson; Mary Rowland; Mark Rumble; Michael Schwartz; Monica Tomosy; Michael Wisdom

2015-01-01

Numerous federal and state agencies, research institutions and stakeholders have undertaken tremendous conservation and research efforts across 11 States in the western United States to reduce threats to Greater Sage-Grouse (Centrocercus urophasianus) and sagebrush (Artemisia spp) habitats. In 2010, the U.S. Fish and Wildlife Service (USFWS) determined that the Greater...

Numerical Validation of Chemical Compositional Model for Wettability Alteration Processes

Science.gov (United States)

Bekbauov, Bakhbergen; Berdyshev, Abdumauvlen; Baishemirov, Zharasbek; Bau, Domenico

2017-12-01

Chemical compositional simulation of enhanced oil recovery and surfactant enhanced aquifer remediation processes is a complex task that involves solving dozens of equations for all grid blocks representing a reservoir. In the present work, we perform a numerical validation of the newly developed mathematical formulation which satisfies the conservation laws of mass and energy and allows applying a sequential solution approach to solve the governing equations separately and implicitly. Through its application to the numerical experiment using a wettability alteration model and comparisons with existing chemical compositional model's numerical results, the new model has proven to be practical, reliable and stable.

Are conservation organizations configured for effective adaptation to global change?

Science.gov (United States)

Armsworth, Paul R.; Larson, Eric R.; Jackson, Stephen T.; Sax, Dov F.; Simonin, Paul W.; Blossey, Bernd; Green, Nancy; Lester, Liza; Klein, Mary L.; Ricketts, Taylor H.; Runge, Michael C.; Shaw, M. Rebecca

2015-01-01

Conservation organizations must adapt to respond to the ecological impacts of global change. Numerous changes to conservation actions (eg facilitated ecological transitions, managed relocations, or increased corridor development) have been recommended, but some institutional restructuring within organizations may also be needed. Here we discuss the capacity of conservation organizations to adapt to changing environmental conditions, focusing primarily on public agencies and nonprofits active in land protection and management in the US. After first reviewing how these organizations anticipate and detect impacts affecting target species and ecosystems, we then discuss whether they are sufficiently flexible to prepare and respond by reallocating funding, staff, or other resources. We raise new hypotheses about how the configuration of different organizations enables them to protect particular conservation targets and manage for particular biophysical changes that require coordinated management actions over different spatial and temporal scales. Finally, we provide a discussion resource to help conservation organizations assess their capacity to adapt.

Mass, matter, materialization, mattergenesis and conservation of charge

International Nuclear Information System (INIS)

Tsan, Ung Chan

2013-01-01

model. Assumption of a novel interaction MC conserving (A–L) but violating simultaneously A and L (not trivial case of conservation) would allow energy to be transformed into a pair of baryon lepton or into a pair of antibaryon antilepton of opposite charges. This model could explain the asymmetric but nevertheless electrically neutral Universe but could not account for the numerical value of the tiny excess of matter over antimatter. The concept of anti-Universe would be superfluous. Observation of matter nonconservation processes would be of great interest to falsify this speculation. (author)

Dispersion of conservative properties for SGD effects by numerical modeling

Science.gov (United States)

Gallegos, G.; Marino-Tapia, I.; Enriquez, C.

2013-05-01

The submarine groundwater discharges around de coasts of theYucatán Peninsula are very common because of its karstic nature. These discharges of fresh water into the sea can change the thermohaline conditions of the region. There are several studies that demonstrate that point submarine groundwater discharges can change the superficial temperature and haline conditions near the point-SGD. Furthermore, there is evidence that considerable concentrations of nutrients are transported to the sea via SGDs. In order to quantify the area of influence of a point-SGD and the ability of the coastal system to dissipate the ground water, this study presents a numerical simulation of a point-SGD on the north coast of Yucatán, Dzilam Bravo. Teh flow recorded for this SGD is ~1m^3/s and it is located 200m offshore in waters of less than 2m detph.. The numerical simulation was carried out in the model DELFT-3D which has been calibrated with water level and hydrodynamics data for the region with a grid of 486 x 243 nodes that cover an area of 6 km alongshore by 2 km crosshore with a resolution of 14 m. Three ideal numerical scenarios were simulated: only wind forcing, only tidal forcing and wind-tide forcing. The real cases are for two different wind conditions, the first is a southeast wind, and the second is a breeze with an easterly component; the dominant winds in the region are easterly. Seasonal variation was also simulated; the two conditions that exist in the region are the rainy and dry seasons. The extreme events of ENSO and northerly storms locally known as "nortes" were also simulated. The results of the ideal set of scenarios shows wind as the principal forcing for dispersion and it governs the direction of the salinity gradient. The seasonal variations show that the area of influence in terms of salinity is also a function of the contrast between fresh and sea water, and finally the set of extreme condition simulations shows, in case of the northerly storms, that the

Conservative, unconditionally stable discretization methods for Hamiltonian equations, applied to wave motion in lattice equations modeling protein molecules

Science.gov (United States)

LeMesurier, Brenton

2012-01-01

A new approach is described for generating exactly energy-momentum conserving time discretizations for a wide class of Hamiltonian systems of DEs with quadratic momenta, including mechanical systems with central forces; it is well-suited in particular to the large systems that arise in both spatial discretizations of nonlinear wave equations and lattice equations such as the Davydov System modeling energetic pulse propagation in protein molecules. The method is unconditionally stable, making it well-suited to equations of broadly “Discrete NLS form”, including many arising in nonlinear optics. Key features of the resulting discretizations are exact conservation of both the Hamiltonian and quadratic conserved quantities related to continuous linear symmetries, preservation of time reversal symmetry, unconditional stability, and respecting the linearity of certain terms. The last feature allows a simple, efficient iterative solution of the resulting nonlinear algebraic systems that retain unconditional stability, avoiding the need for full Newton-type solvers. One distinction from earlier work on conservative discretizations is a new and more straightforward nearly canonical procedure for constructing the discretizations, based on a “discrete gradient calculus with product rule” that mimics the essential properties of partial derivatives. This numerical method is then used to study the Davydov system, revealing that previously conjectured continuum limit approximations by NLS do not hold, but that sech-like pulses related to NLS solitons can nevertheless sometimes arise.

Field theory of absorbing phase transitions with a non-diffusive conserved field

International Nuclear Information System (INIS)

Pastor-Satorras, R.; Vespignani, A.

2000-04-01

We investigate the critical behavior of a reaction-diffusion system exhibiting a continuous absorbing-state phase transition. The reaction-diffusion system strictly conserves the total density of particles, represented as a non-diffusive conserved field, and allows an infinite number of absorbing configurations. Numerical results show that it belongs to a wide universality class that also includes stochastic sandpile models. We derive microscopically the field theory representing this universality class. (author)

Characterization of Zebrafish von Willebrand Factor Reveals Conservation of Domain Structure, Multimerization, and Intracellular Storage

Directory of Open Access Journals (Sweden)

Arunima Ghosh

2012-01-01

Full Text Available von Willebrand disease (VWD is the most common inherited human bleeding disorder and is caused by quantitative or qualitative defects in von Willebrand factor (VWF. VWF is a secreted glycoprotein that circulates as large multimers. While reduced VWF is associated with bleeding, elevations in overall level or multimer size are implicated in thrombosis. The zebrafish is a powerful genetic model in which the hemostatic system is well conserved with mammals. The ability of this organism to generate thousands of offspring and its optical transparency make it unique and complementary to mammalian models of hemostasis. Previously, partial clones of zebrafish vwf have been identified, and some functional conservation has been demonstrated. In this paper we clone the complete zebrafish vwf cDNA and show that there is conservation of domain structure. Recombinant zebrafish Vwf forms large multimers and pseudo-Weibel-Palade bodies (WPBs in cell culture. Larval expression is in the pharyngeal arches, yolk sac, and intestinal epithelium. These results provide a foundation for continued study of zebrafish Vwf that may further our understanding of the mechanisms of VWD.

Management of conservation reserve program grasslands to meet wildlife habitat objectives

Science.gov (United States)

Vandever, Mark W.; Allen, Arthur W.

2015-01-01

Numerous studies document environmental and social benefits of the Conservation Reserve Program (CRP). This report offers a synopsis of findings regarding effects of establishing CRP conservation practices on the quality and distribution of wildlife habitat in agricultural landscapes. On individual farms, year-round provision of wildlife habitat by the CRP may appear relatively insignificant. However, considered from multi-farm to National scales, such improvements in habitat and wildlife response have proven to be extensive and profound.

Conserved S-Layer-Associated Proteins Revealed by Exoproteomic Survey of S-Layer-Forming Lactobacilli

Science.gov (United States)

Johnson, Brant R.; Hymes, Jeffrey; Sanozky-Dawes, Rosemary; Henriksen, Emily DeCrescenzo

2015-01-01

The Lactobacillus acidophilus homology group comprises Gram-positive species that include L. acidophilus, L. helveticus, L. crispatus, L. amylovorus, L. gallinarum, L. delbrueckii subsp. bulgaricus, L. gasseri, and L. johnsonii. While these bacteria are closely related, they have varied ecological lifestyles as dairy and food fermenters, allochthonous probiotics, or autochthonous commensals of the host gastrointestinal tract. Bacterial cell surface components play a critical role in the molecular dialogue between bacteria and interaction signaling with the intestinal mucosa. Notably, the L. acidophilus complex is distinguished in two clades by the presence or absence of S-layers, which are semiporous crystalline arrays of self-assembling proteinaceous subunits found as the outermost layer of the bacterial cell wall. In this study, S-layer-associated proteins (SLAPs) in the exoproteomes of various S-layer-forming Lactobacillus species were proteomically identified, genomically compared, and transcriptionally analyzed. Four gene regions encoding six putative SLAPs were conserved in the S-layer-forming Lactobacillus species but not identified in the extracts of the closely related progenitor, L. delbrueckii subsp. bulgaricus, which does not produce an S-layer. Therefore, the presence or absence of an S-layer has a clear impact on the exoproteomic composition of Lactobacillus species. This proteomic complexity and differences in the cell surface properties between S-layer- and non-S-layer-forming lactobacilli reveal the potential for SLAPs to mediate intimate probiotic interactions and signaling with the host intestinal mucosa. PMID:26475115

High throughput sequencing of small RNA component of leaves and inflorescence revealed conserved and novel miRNAs as well as phasiRNA loci in chickpea.

Science.gov (United States)

Srivastava, Sangeeta; Zheng, Yun; Kudapa, Himabindu; Jagadeeswaran, Guru; Hivrale, Vandana; Varshney, Rajeev K; Sunkar, Ramanjulu

2015-06-01

Among legumes, chickpea (Cicer arietinum L.) is the second most important crop after soybean. MicroRNAs (miRNAs) play important roles by regulating target gene expression important for plant development and tolerance to stress conditions. Additionally, recently discovered phased siRNAs (phasiRNAs), a new class of small RNAs, are abundantly produced in legumes. Nevertheless, little is known about these regulatory molecules in chickpea. The small RNA population was sequenced from leaves and flowers of chickpea to identify conserved and novel miRNAs as well as phasiRNAs/phasiRNA loci. Bioinformatics analysis revealed 157 miRNA loci for the 96 highly conserved and known miRNA homologs belonging to 38 miRNA families in chickpea. Furthermore, 20 novel miRNAs belonging to 17 miRNA families were identified. Sequence analysis revealed approximately 60 phasiRNA loci. Potential target genes likely to be regulated by these miRNAs were predicted and some were confirmed by modified 5' RACE assay. Predicted targets are mostly transcription factors that might be important for developmental processes, and others include superoxide dismutases, plantacyanin, laccases and F-box proteins that could participate in stress responses and protein degradation. Overall, this study provides an inventory of miRNA-target gene interactions for chickpea, useful for the comparative analysis of small RNAs among legumes. Copyright © 2015 The Authors. Published by Elsevier Ireland Ltd.. All rights reserved.

Discrete conservation laws and the convergence of long time simulations of the mkdv equation

Science.gov (United States)

Gorria, C.; Alejo, M. A.; Vega, L.

2013-02-01

Pseudospectral collocation methods and finite difference methods have been used for approximating an important family of soliton like solutions of the mKdV equation. These solutions present a structural instability which make difficult to approximate their evolution in long time intervals with enough accuracy. The standard numerical methods do not guarantee the convergence to the proper solution of the initial value problem and often fail by approaching solutions associated to different initial conditions. In this frame the numerical schemes that preserve the discrete invariants related to some conservation laws of this equation produce better results than the methods which only take care of a high consistency order. Pseudospectral spatial discretization appear as the most robust of the numerical methods, but finite difference schemes are useful in order to analyze the rule played by the conservation of the invariants in the convergence.

Proteomic Analysis of Pathogenic Fungi Reveals Highly Expressed Conserved Cell Wall Proteins

Directory of Open Access Journals (Sweden)

Jackson Champer

2016-01-01

Full Text Available We are presenting a quantitative proteomics tally of the most commonly expressed conserved fungal proteins of the cytosol, the cell wall, and the secretome. It was our goal to identify fungi-typical proteins that do not share significant homology with human proteins. Such fungal proteins are of interest to the development of vaccines or drug targets. Protein samples were derived from 13 fungal species, cultured in rich or in minimal media; these included clinical isolates of Aspergillus, Candida, Mucor, Cryptococcus, and Coccidioides species. Proteomes were analyzed by quantitative MSE (Mass Spectrometry—Elevated Collision Energy. Several thousand proteins were identified and quantified in total across all fractions and culture conditions. The 42 most abundant proteins identified in fungal cell walls or supernatants shared no to very little homology with human proteins. In contrast, all but five of the 50 most abundant cytosolic proteins had human homologs with sequence identity averaging 59%. Proteomic comparisons of the secreted or surface localized fungal proteins highlighted conserved homologs of the Aspergillus fumigatus proteins 1,3-β-glucanosyltransferases (Bgt1, Gel1-4, Crf1, Ecm33, EglC, and others. The fact that Crf1 and Gel1 were previously shown to be promising vaccine candidates, underlines the value of the proteomics data presented here.

The Unique Challenges of Conserving Large Old Trees.

Science.gov (United States)

Lindenmayer, David B; Laurance, William F

2016-06-01

Large old trees play numerous critical ecological roles. They are susceptible to a plethora of interacting threats, in part because the attributes that confer a competitive advantage in intact ecosystems make them maladapted to rapidly changing, human-modified environments. Conserving large old trees will require surmounting a number of unresolved challenges. Copyright © 2016 Elsevier Ltd. All rights reserved.

Tetrahedral-Mesh Simulation of Turbulent Flows with the Space-Time Conservative Schemes

Science.gov (United States)

Chang, Chau-Lyan; Venkatachari, Balaji; Cheng, Gary C.

2015-01-01

Direct numerical simulations of turbulent flows are predominantly carried out using structured, hexahedral meshes despite decades of development in unstructured mesh methods. Tetrahedral meshes offer ease of mesh generation around complex geometries and the potential of an orientation free grid that would provide un-biased small-scale dissipation and more accurate intermediate scale solutions. However, due to the lack of consistent multi-dimensional numerical formulations in conventional schemes for triangular and tetrahedral meshes at the cell interfaces, numerical issues exist when flow discontinuities or stagnation regions are present. The space-time conservative conservation element solution element (CESE) method - due to its Riemann-solver-free shock capturing capabilities, non-dissipative baseline schemes, and flux conservation in time as well as space - has the potential to more accurately simulate turbulent flows using unstructured tetrahedral meshes. To pave the way towards accurate simulation of shock/turbulent boundary-layer interaction, a series of wave and shock interaction benchmark problems that increase in complexity, are computed in this paper with triangular/tetrahedral meshes. Preliminary computations for the normal shock/turbulence interactions are carried out with a relatively coarse mesh, by direct numerical simulations standards, in order to assess other effects such as boundary conditions and the necessity of a buffer domain. The results indicate that qualitative agreement with previous studies can be obtained for flows where, strong shocks co-exist along with unsteady waves that display a broad range of scales, with a relatively compact computational domain and less stringent requirements for grid clustering near the shock. With the space-time conservation properties, stable solutions without any spurious wave reflections can be obtained without a need for buffer domains near the outflow/farfield boundaries. Computational results for the

Numerical Analysis of Dusty-Gas Flows

Science.gov (United States)

Saito, T.

2002-02-01

This paper presents the development of a numerical code for simulating unsteady dusty-gas flows including shock and rarefaction waves. The numerical results obtained for a shock tube problem are used for validating the accuracy and performance of the code. The code is then extended for simulating two-dimensional problems. Since the interactions between the gas and particle phases are calculated with the operator splitting technique, we can choose numerical schemes independently for the different phases. A semi-analytical method is developed for the dust phase, while the TVD scheme of Harten and Yee is chosen for the gas phase. Throughout this study, computations are carried out on SGI Origin2000, a parallel computer with multiple of RISC based processors. The efficient use of the parallel computer system is an important issue and the code implementation on Origin2000 is also described. Flow profiles of both the gas and solid particles behind the steady shock wave are calculated by integrating the steady conservation equations. The good agreement between the pseudo-stationary solutions and those from the current numerical code validates the numerical approach and the actual coding. The pseudo-stationary shock profiles can also be used as initial conditions of unsteady multidimensional simulations.

Implications of market access on soil and water conservation ...

African Journals Online (AJOL)

Market access is one of the motivating mechanisms for farmers to invest in soil and water conservation (SWC). Areas of relatively high agricultural potential but remote from major markets face numerous challenges in marketing their outputs. The objective of this study was to explore the market access determinants of farmer ...

Characteristic extraction in numerical relativity: binary black hole merger waveforms at null infinity

Energy Technology Data Exchange (ETDEWEB)

Reisswig, C; Pollney, D [Max-Planck-Institut fuer Gravitationsphysik, Albert-Einstein-Institut, 14476 Golm (Germany); Bishop, N T [Department of Mathematics, Rhodes University, Grahamstown 6140 (South Africa); Szilagyi, B [Theoretical Astrophysics, California Institute of Technology, Pasadena, CA 91125 (United States)

2010-04-07

The accurate modeling of gravitational radiation is a key issue for gravitational wave astronomy. As simulation codes reach higher accuracy, systematic errors inherent in current numerical relativity wave extraction methods become evident, and may lead to a wrong astrophysical interpretation of the data. In this paper, we give a detailed description of the Cauchy-characteristic extraction technique applied to binary black hole inspiral and merger evolutions to obtain gravitational waveforms that are defined unambiguously, that is, at future null infinity. By this method, we remove finite-radius approximations and the need to extrapolate data from the near zone. Further, we demonstrate that the method is free of gauge effects and thus is affected only by numerical error. Various consistency checks reveal that energy and angular momentum are conserved to high precision and agree very well with extrapolated data. In addition, we revisit the computation of the gravitational recoil and find that finite-radius extrapolation very well approximates the result at J{sup +}. However, the (non-convergent) systematic differences in the extrapolated data are of the same order of magnitude as the (convergent) discretization error of the Cauchy evolution, thus highlighting the need for correct wave extraction.

The relationship of protein conservation and sequence length

Directory of Open Access Journals (Sweden)

Panchenko Anna R

2002-11-01

Full Text Available Abstract Background In general, the length of a protein sequence is determined by its function and the wide variance in the lengths of an organism's proteins reflects the diversity of specific functional roles for these proteins. However, additional evolutionary forces that affect the length of a protein may be revealed by studying the length distributions of proteins evolving under weaker functional constraints. Results We performed sequence comparisons to distinguish highly conserved and poorly conserved proteins from the bacterium Escherichia coli, the archaeon Archaeoglobus fulgidus, and the eukaryotes Saccharomyces cerevisiae, Drosophila melanogaster, and Homo sapiens. For all organisms studied, the conserved and nonconserved proteins have strikingly different length distributions. The conserved proteins are, on average, longer than the poorly conserved ones, and the length distributions for the poorly conserved proteins have a relatively narrow peak, in contrast to the conserved proteins whose lengths spread over a wider range of values. For the two prokaryotes studied, the poorly conserved proteins approximate the minimal length distribution expected for a diverse range of structural folds. Conclusions There is a relationship between protein conservation and sequence length. For all the organisms studied, there seems to be a significant evolutionary trend favoring shorter proteins in the absence of other, more specific functional constraints.

Conservation of Charge and Conservation of Current

OpenAIRE

Eisenberg, Bob

2016-01-01

Conservation of current and conservation of charge are nearly the same thing: when enough is known about charge movement, conservation of current can be derived from conservation of charge, in ideal dielectrics, for example. Conservation of current is enforced implicitly in ideal dielectrics by theories that conserve charge. But charge movement in real materials like semiconductors or ionic solutions is never ideal. We present an apparently universal derivation of conservation of current and ...

Conservative Protestantism and attitudes toward corporal punishment, 1986-2014.

Science.gov (United States)

Hoffmann, John P; Ellison, Christopher G; Bartkowski, John P

2017-03-01

Research indicates that conservative Protestants are highly supportive of corporal punishment. Yet, Americans' support for this practice has waned during the past several decades. This study aggregates repeated cross-sectional data from the General Social Surveys (GSS) to consider three models that address whether attitudes toward spanking among conservative Protestants shifted relative to those of other Americans from 1986 to 2014. Although initial results reveal a growing gap between conservative Protestants and the broader American public, we find that average levels of support have remained most robust among less educated conservative Protestants, with some erosion among more highly educated conservative Protestants. Moreover, trends in variability suggest that conservative Protestants exhibit more cohesive support for this practice than do others. These results provide a window into the cultural contours of religious change and the social factors that facilitate such change. Copyright © 2016 Elsevier Inc. All rights reserved.

Phylogenetic analysis reveals conservation and diversification of micro RNA166 genes among diverse plant species.

Science.gov (United States)

Barik, Suvakanta; SarkarDas, Shabari; Singh, Archita; Gautam, Vibhav; Kumar, Pramod; Majee, Manoj; Sarkar, Ananda K

2014-01-01

Similar to the majority of the microRNAs, mature miR166s are derived from multiple members of MIR166 genes (precursors) and regulate various aspects of plant development by negatively regulating their target genes (Class III HD-ZIP). The evolutionary conservation or functional diversification of miRNA166 family members remains elusive. Here, we show the phylogenetic relationships among MIR166 precursor and mature sequences from three diverse model plant species. Despite strong conservation, some mature miR166 sequences, such as ppt-miR166m, have undergone sequence variation. Critical sequence variation in ppt-miR166m has led to functional diversification, as it targets non-HD-ZIPIII gene transcript (s). MIR166 precursor sequences have diverged in a lineage specific manner, and both precursors and mature osa-miR166i/j are highly conserved. Interestingly, polycistronic MIR166s were present in Physcomitrella and Oryza but not in Arabidopsis. The nature of cis-regulatory motifs on the upstream promoter sequences of MIR166 genes indicates their possible contribution to the functional variation observed among miR166 species. Copyright © 2013 Elsevier Inc. All rights reserved.

Relatively High Complication and Revision Rates of the Mayo® Metaphysical Conservative Femoral Stem in Young Patients.

Science.gov (United States)

Rutenberg, Tal Frenkel; Warshevski, Yaniv; Gold, Aviram; Shasha, Nadav; Snir, Nimrod; Chechik, Ofir; Dolkart, Oleg; Eilig, Dynai; Herman, Amir; Rath, Ehud; Kramer, Moti; Drexler, Michael

2018-05-08

The Mayo metaphysical conservative femoral stem (Zimmer, Warsaw, Indiana) is a wedge-shaped implant designed to transfer loads proximally, reduce femoral destruction, and enable the preservation of bone stock in the proximal femur. Thus, it is a potentially preferred prosthesis for active, non-elderly patients who may require additional future surgeries. This retrospective case study analyzed the outcomes of consecutive patients who underwent total hip replacements with this stem between May 2001 and February 2013. All patients underwent clinical assessment, radiological evaluation for the presence and development of radiolucent lines, and functional assessment (numerical analog scale, Harris hip score, and Short Form-12 questionnaire). Ninety-five hips (79 patients) were available for analysis. The patients' mean age was 43 years (range, 18-64 years), and the mean follow-up was 97 months (range, 26.9-166 months). The postoperative clinical assessments and functional assessments revealed significant improvements. Sixteen patients (20.3%) had 18 orthopedic complications, the most common of which were an intraoperative femoral fracture and implant dislocation requiring revision surgeries in 10 hips (10.5%). Radiological analysis revealed evidence of femoral remodeling in 64 (67.4%) implants, spot welds (neocortex) in 35 (36.8%), and osteolysis in 3 (3.2%). These results suggest that the conservative hip femoral implant has an unacceptable complication rate for non-elderly patients. [Orthopedics. 201x; xx(x):xx-xx.]. Copyright 2018, SLACK Incorporated.

Lagrangian numerical methods for ocean biogeochemical simulations

Science.gov (United States)

Paparella, Francesco; Popolizio, Marina

2018-05-01

We propose two closely-related Lagrangian numerical methods for the simulation of physical processes involving advection, reaction and diffusion. The methods are intended to be used in settings where the flow is nearly incompressible and the Péclet numbers are so high that resolving all the scales of motion is unfeasible. This is commonplace in ocean flows. Our methods consist in augmenting the method of characteristics, which is suitable for advection-reaction problems, with couplings among nearby particles, producing fluxes that mimic diffusion, or unresolved small-scale transport. The methods conserve mass, obey the maximum principle, and allow to tune the strength of the diffusive terms down to zero, while avoiding unwanted numerical dissipation effects.

Conservation of Mechanical and Electric Energy: Simple Experimental Verification

Science.gov (United States)

Ponikvar, D.; Planinsic, G.

2009-01-01

Two similar experiments on conservation of energy and transformation of mechanical into electrical energy are presented. Both can be used in classes, as they offer numerous possibilities for discussion with students and are simple to perform. Results are presented and are precise within 20% for the version of the experiment where measured values…

Analysis of 90 Mb of the potato genome reveals conservation of gene structures and order with tomato but divergence in repetitive sequence composition

Directory of Open Access Journals (Sweden)

O'Brien Kimberly

2008-06-01

Full Text Available Abstract Background The Solanaceae family contains a number of important crop species including potato (Solanum tuberosum which is grown for its underground storage organ known as a tuber. Albeit the 4th most important food crop in the world, other than a collection of ~220,000 Expressed Sequence Tags, limited genomic sequence information is currently available for potato and advances in potato yield and nutrition content would be greatly assisted through access to a complete genome sequence. While morphologically diverse, Solanaceae species such as potato, tomato, pepper, and eggplant share not only genes but also gene order thereby permitting highly informative comparative genomic analyses. Results In this study, we report on analysis 89.9 Mb of potato genomic sequence representing 10.2% of the genome generated through end sequencing of a potato bacterial artificial chromosome (BAC clone library (87 Mb and sequencing of 22 potato BAC clones (2.9 Mb. The GC content of potato is very similar to Solanum lycopersicon (tomato and other dicotyledonous species yet distinct from the monocotyledonous grass species, Oryza sativa. Parallel analyses of repetitive sequences in potato and tomato revealed substantial differences in their abundance, 34.2% in potato versus 46.3% in tomato, which is consistent with the increased genome size per haploid genome of these two Solanum species. Specific classes and types of repetitive sequences were also differentially represented between these two species including a telomeric-related repetitive sequence, ribosomal DNA, and a number of unclassified repetitive sequences. Comparative analyses between tomato and potato at the gene level revealed a high level of conservation of gene content, genic feature, and gene order although discordances in synteny were observed. Conclusion Genomic level analyses of potato and tomato confirm that gene sequence and gene order are conserved between these solanaceous species and that

The Space-Time Conservative Schemes for Large-Scale, Time-Accurate Flow Simulations with Tetrahedral Meshes

Science.gov (United States)

Venkatachari, Balaji Shankar; Streett, Craig L.; Chang, Chau-Lyan; Friedlander, David J.; Wang, Xiao-Yen; Chang, Sin-Chung

2016-01-01

Despite decades of development of unstructured mesh methods, high-fidelity time-accurate simulations are still predominantly carried out on structured, or unstructured hexahedral meshes by using high-order finite-difference, weighted essentially non-oscillatory (WENO), or hybrid schemes formed by their combinations. In this work, the space-time conservation element solution element (CESE) method is used to simulate several flow problems including supersonic jet/shock interaction and its impact on launch vehicle acoustics, and direct numerical simulations of turbulent flows using tetrahedral meshes. This paper provides a status report for the continuing development of the space-time conservation element solution element (CESE) numerical and software framework under the Revolutionary Computational Aerosciences (RCA) project. Solution accuracy and large-scale parallel performance of the numerical framework is assessed with the goal of providing a viable paradigm for future high-fidelity flow physics simulations.

Out-of-equilibrium quantum fields with conserved charge

International Nuclear Information System (INIS)

Bedingham, D.J.

2004-01-01

We study the out-of-equilibrium evolution of an O(2)-invariant scalar field in which a conserved charge is stored. We apply a loop expansion of the 2-particle irreducible effective action to 3-loop order. Equations of motion are derived which conserve both total charge and total energy yet allow for the effects of scattering whereby charge and energy can transfer between modes. Working in 1+1 dimensions we solve the equations of motion numerically for a system knocked out of equilibrium by a sudden temperature quench. We examine the initial stages of the charge and energy redistribution. This provides a basis from which we can understand the formation of Bose-Einstein condensates from first principles

Proteome-wide mapping of the Drosophila acetylome demonstrates a high degree of conservation of lysine acetylation

DEFF Research Database (Denmark)

Weinert, Brian T; Wagner, Sebastian A; Horn, Heiko

2011-01-01

Posttranslational modification of proteins by acetylation and phosphorylation regulates most cellular processes in living organisms. Surprisingly, the evolutionary conservation of phosphorylated serine and threonine residues is only marginally higher than that of unmodified serines and threonines....... With high-resolution mass spectrometry, we identified 1981 lysine acetylation sites in the proteome of Drosophila melanogaster. We used data sets of experimentally identified acetylation and phosphorylation sites in Drosophila and humans to analyze the evolutionary conservation of these modification sites...... between flies and humans. Site-level conservation analysis revealed that acetylation sites are highly conserved, significantly more so than phosphorylation sites. Furthermore, comparison of lysine conservation in Drosophila and humans with that in nematodes and zebrafish revealed that acetylated lysines...

Lattice Boltzmann model for numerical relativity.

Science.gov (United States)

Ilseven, E; Mendoza, M

2016-02-01

In the Z4 formulation, Einstein equations are written as a set of flux conservative first-order hyperbolic equations that resemble fluid dynamics equations. Based on this formulation, we construct a lattice Boltzmann model for numerical relativity and validate it with well-established tests, also known as "apples with apples." Furthermore, we find that by increasing the relaxation time, we gain stability at the cost of losing accuracy, and by decreasing the lattice spacings while keeping a constant numerical diffusivity, the accuracy and stability of our simulations improve. Finally, in order to show the potential of our approach, a linear scaling law for parallelization with respect to number of CPU cores is demonstrated. Our model represents the first step in using lattice kinetic theory to solve gravitational problems.

Environmental Performance Information Use by Conservation Agency Staff

Science.gov (United States)

Wardropper, Chloe Bradley

2018-04-01

Performance-based conservation has long been recognized as crucial to improving program effectiveness, particularly when environmental conditions are dynamic. Yet few studies have investigated the use of environmental performance information by staff of conservation organizations. This article identifies attitudinal, policy and organizational factors influencing the use of a type of performance information—water quality information—by Soil and Water Conservation District staff in the Upper Mississippi River Basin region. An online survey ( n = 277) revealed a number of important variables associated with greater information use. Variables included employees' prosocial motivation, or the belief that they helped people and natural resources through their job, the perceived trustworthiness of data, the presence of a U.S. Clean Water Act Total Maximum Daily Load standard designation, and staff discretion to prioritize programs locally. Conservation programs that retain motivated staff and provide them the resources and flexibility to plan and evaluate their work with environmental data may increase conservation effectiveness under changing conditions.

A novel fragile X syndrome mutation reveals a conserved role for the carboxy-terminus in FMRP localization and function.

Science.gov (United States)

Okray, Zeynep; de Esch, Celine E F; Van Esch, Hilde; Devriendt, Koen; Claeys, Annelies; Yan, Jiekun; Verbeeck, Jelle; Froyen, Guy; Willemsen, Rob; de Vrij, Femke M S; Hassan, Bassem A

2015-04-01

Loss of function of the FMR1 gene leads to fragile X syndrome (FXS), the most common form of intellectual disability. The loss of FMR1 function is usually caused by epigenetic silencing of the FMR1 promoter leading to expansion and subsequent methylation of a CGG repeat in the 5' untranslated region. Very few coding sequence variations have been experimentally characterized and shown to be causal to the disease. Here, we describe a novel FMR1 mutation and reveal an unexpected nuclear export function for the C-terminus of FMRP. We screened a cohort of patients with typical FXS symptoms who tested negative for CGG repeat expansion in the FMR1 locus. In one patient, we identified a guanine insertion in FMR1 exon 15. This mutation alters the open reading frame creating a short novel C-terminal sequence, followed by a stop codon. We find that this novel peptide encodes a functional nuclear localization signal (NLS) targeting the patient FMRP to the nucleolus in human cells. We also reveal an evolutionarily conserved nuclear export function associated with the endogenous C-terminus of FMRP. In vivo analyses in Drosophila demonstrate that a patient-mimetic mutation alters the localization and function of Dfmrp in neurons, leading to neomorphic neuronal phenotypes. © 2015 The Authors. Published under the terms of the CC BY 4.0 license.

Understanding conservationists' perspectives on the new-conservation debate.

Science.gov (United States)

Holmes, George; Sandbrook, Chris; Fisher, Janet A

2017-04-01

A vibrant debate about the future direction of biodiversity conservation centers on the merits of the so-called new conservation. Proponents of the new conservation advocate a series of positions on key conservation ideas, such as the importance of human-dominated landscapes and conservation's engagement with capitalism. These have been fiercely contested in a debate dominated by a few high-profile individuals, and so far there has been no empirical exploration of existing perspectives on these issues among a wider community of conservationists. We used Q methodology to examine empirically perspectives on the new conservation held by attendees at the 2015 International Congress for Conservation Biology (ICCB). Although we identified a consensus on several key issues, 3 distinct positions emerged: in favor of conservation to benefit people but opposed to links with capitalism and corporations, in favor of biocentric approaches but with less emphasis on wilderness protection than prominent opponents of new conservation, and in favor of the published new conservation perspective but with less emphasis on increasing human well-being as a goal of conservation. Our results revealed differences between the debate on the new conservation in the literature and views held within a wider, but still limited, conservation community and demonstrated the existence of at least one viewpoint (in favor of conservation to benefit people but opposed to links with capitalism and corporations) that is almost absent from the published debate. We hope the fuller understanding we present of the variety of views that exist but have not yet been heard, will improve the quality and tone of debates on the subject. © 2016 The Authors. Conservation Biology published by Wiley Periodicals, Inc. on behalf of Society for Conservation Biology.

A conceptual framework for the emerging discipline of conservation physiology

Science.gov (United States)

Coristine, Laura E.; Robillard, Cassandra M.; Kerr, Jeremy T.; O'Connor, Constance M.; Lapointe, Dominique; Cooke, Steven J.

2014-01-01

Current rates of biodiversity decline are unprecedented and largely attributed to anthropogenic influences. Given the scope and magnitude of conservation issues, policy and management interventions must maximize efficiency and efficacy. The relatively new field of conservation physiology reveals the physiological mechanisms associated with population declines, animal–environment relationships and population or species tolerance thresholds, particularly where these relate to anthropogenic factors that necessitate conservation action. We propose a framework that demonstrates an integrative approach between physiology, conservation and policy, where each can inform the design, conduct and implementation of the other. Each junction of the conservation physiology process has the capacity to foster dialogue that contributes to effective implementation, monitoring, assessment and evaluation. This approach enables effective evaluation and implementation of evidence-based conservation policy and management decisions through a process of ongoing refinement, but may require that scientists (from the disciplines of both physiology and conservation) and policy-makers bridge interdisciplinary knowledge gaps. Here, we outline a conceptual framework that can guide and lead developments in conservation physiology, as well as promote innovative research that fosters conservation-motivated policy. PMID:27293654

Global mass conservation method for dual-continuum gas reservoir simulation

KAUST Repository

Wang, Yi; Sun, Shuyu; Gong, Liang; Yu, Bo

2018-01-01

In this paper, we find that the numerical simulation of gas flow in dual-continuum porous media may generate unphysical or non-robust results using regular finite difference method. The reason is the unphysical mass loss caused by the gas compressibility and the non-diagonal dominance of the discretized equations caused by the non-linear well term. The well term contains the product of density and pressure. For oil flow, density is independent of pressure so that the well term is linear. For gas flow, density is related to pressure by the gas law so that the well term is non-linear. To avoid these two problems, numerical methods are proposed using the mass balance relation and the local linearization of the non-linear source term to ensure the global mass conservation and the diagonal dominance of discretized equations in the computation. The proposed numerical methods are successfully applied to dual-continuum gas reservoir simulation. Mass conservation is satisfied while the computation becomes robust. Numerical results show that the location of the production well relative to the large-permeability region is very sensitive to the production efficiency. It decreases apparently when the production well is moved from the large-permeability region to the small-permeability region, even though the well is very close to the interface of the two regions. The production well is suggested to be placed inside the large-permeability region regardless of the specific position.

Global mass conservation method for dual-continuum gas reservoir simulation

KAUST Repository

Wang, Yi

2018-03-17

In this paper, we find that the numerical simulation of gas flow in dual-continuum porous media may generate unphysical or non-robust results using regular finite difference method. The reason is the unphysical mass loss caused by the gas compressibility and the non-diagonal dominance of the discretized equations caused by the non-linear well term. The well term contains the product of density and pressure. For oil flow, density is independent of pressure so that the well term is linear. For gas flow, density is related to pressure by the gas law so that the well term is non-linear. To avoid these two problems, numerical methods are proposed using the mass balance relation and the local linearization of the non-linear source term to ensure the global mass conservation and the diagonal dominance of discretized equations in the computation. The proposed numerical methods are successfully applied to dual-continuum gas reservoir simulation. Mass conservation is satisfied while the computation becomes robust. Numerical results show that the location of the production well relative to the large-permeability region is very sensitive to the production efficiency. It decreases apparently when the production well is moved from the large-permeability region to the small-permeability region, even though the well is very close to the interface of the two regions. The production well is suggested to be placed inside the large-permeability region regardless of the specific position.

RNA expression in a cartilaginous fish cell line reveals ancient 3′ noncoding regions highly conserved in vertebrates

Science.gov (United States)

Forest, David; Nishikawa, Ryuhei; Kobayashi, Hiroshi; Parton, Angela; Bayne, Christopher J.; Barnes, David W.

2007-01-01

We have established a cartilaginous fish cell line [Squalus acanthias embryo cell line (SAE)], a mesenchymal stem cell line derived from the embryo of an elasmobranch, the spiny dogfish shark S. acanthias. Elasmobranchs (sharks and rays) first appeared >400 million years ago, and existing species provide useful models for comparative vertebrate cell biology, physiology, and genomics. Comparative vertebrate genomics among evolutionarily distant organisms can provide sequence conservation information that facilitates identification of critical coding and noncoding regions. Although these genomic analyses are informative, experimental verification of functions of genomic sequences depends heavily on cell culture approaches. Using ESTs defining mRNAs derived from the SAE cell line, we identified lengthy and highly conserved gene-specific nucleotide sequences in the noncoding 3′ UTRs of eight genes involved in the regulation of cell growth and proliferation. Conserved noncoding 3′ mRNA regions detected by using the shark nucleotide sequences as a starting point were found in a range of other vertebrate orders, including bony fish, birds, amphibians, and mammals. Nucleotide identity of shark and human in these regions was remarkably well conserved. Our results indicate that highly conserved gene sequences dating from the appearance of jawed vertebrates and representing potential cis-regulatory elements can be identified through the use of cartilaginous fish as a baseline. Because the expression of genes in the SAE cell line was prerequisite for their identification, this cartilaginous fish culture system also provides a physiologically valid tool to test functional hypotheses on the role of these ancient conserved sequences in comparative cell biology. PMID:17227856

Conservative adaptivity and two-way self-nesting using discrete wavelets

Science.gov (United States)

Dubos, Thomas

2010-05-01

In simulating atmosphere and oceans, multiscale modelling is desirable to track high-intensity weather patterns, to investigate the interactions between the various spatio-temporal scales of the climate system, and to perform assessments of climate change at scales small enough to derive impacts on society and ecosystems. The mainstream approach to multiscale modelling is to nest a fine, limited-area model into a coarse, global model. These models are then coupled, either one-way or two-way, in order to combine the global coverage of the global model and the fine details of the fine model. In the long simulations typical of climate studies, initial conditions are unimportant, except for the few quantities like mass that are exactly conserved. In this context it is crucial that numerical models conserve at least mass exactly at the discrete level. However even with elaborate strategies like adaptive mesh refinement (AMR) conservation is not straightforwardly achieved. Although the continuous wavelet transform has become a standard tool of geophysical data analysis, it is less known that discrete wavelets and the associated transforms provide the basis for spatially adaptive numerical methods. Such methods are now well-developed in the fluid dynamics community. Since they allow spatial adaptivity, they can also be seen as two-way self-nesting methods. However since they are not specifically designed for geophysical purposes they are usually not exactly conservative. I present a fairly general framework in which a wavelet-based layer is added to an existing conservative scheme (finite-volume or finite-difference) to make it spatially adaptive without breaking the exact conservation of linear invariants. Discrete wavelet transforms involve an upscaling operation by which fields are transferred from a fine grid to a coarser grid with half the resolution. The method requires that mass fluxes be upscaled in a way that is consistent with the upscaling of mass. This

Segment polarity gene expression in a myriapod reveals conserved and diverged aspects of early head patterning in arthropods.

Science.gov (United States)

Janssen, Ralf

2012-09-01

Arthropods show two kinds of developmental mode. In the so-called long germ developmental mode (as exemplified by the fly Drosophila), all segments are formed almost simultaneously from a preexisting field of cells. In contrast, in the so-called short germ developmental mode (as exemplified by the vast majority of arthropods), only the anterior segments are patterned similarly as in Drosophila, and posterior segments are added in a single or double segmental periodicity from a posterior segment addition zone (SAZ). The addition of segments from the SAZ is controlled by dynamic waves of gene activity. Recent studies on a spider have revealed that a similar dynamic process, involving expression of the segment polarity gene (SPG) hedgehog (hh), is involved in the formation of the anterior head segments. The present study shows that in the myriapod Glomeris marginata the early expression of hh is also in a broad anterior domain, but this domain corresponds only to the ocular and antennal segment. It does not, like in spiders, represent expression in the posterior adjacent segment. In contrast, the anterior hh pattern is conserved in Glomeris and insects. All investigated myriapod SPGs and associated factors are expressed with delay in the premandibular (tritocerebral) segment. This delay is exclusively found in insects and myriapods, but not in chelicerates, crustaceans and onychophorans. Therefore, it may represent a synapomorphy uniting insects and myriapods (Atelocerata hypothesis), contradicting the leading opinion that suggests a sister relationship of crustaceans and insects (Pancrustacea hypothesis). In Glomeris embryos, the SPG engrailed is first expressed in the mandibular segment. This feature is conserved in representatives of all arthropod classes suggesting that the mandibular segment may have a special function in anterior patterning.

Complementarities of two existing intermediate conservation approaches

Directory of Open Access Journals (Sweden)

Sergei Volis

2017-12-01

Full Text Available The need for integration of ex situ and in situ approaches in conservation of plants has long been recognized. However, ex situ collections have numerous limitations that reduce their utility for conservation, necessitating the introduction of new, more appropriate, flexible and less costly approaches. Two new approaches that can be called “intermediate” between in situ and ex situ, and bridging them in some way have been proposed over the last two decades. In these approaches material collected in natural populations is planted and maintained outside the original location, but with a different purpose. While the purpose of the inter situs approach is reintroduction, the concern of the quasi in situ approach is long-term storage of species genetic diversity. I view these two approaches as complementary and necessary components of conservation-oriented restoration. In restoration of a degraded habitat using threatened species (i.e. inter situs, quasi in situ collections can serve an important role in providing long-term preservation of these species’ genetic diversity and production of seeds needed for restoration.

Numerical transport of an arbitrary number of components

International Nuclear Information System (INIS)

Jaouen, S.; Lagoutiere, F.

2007-01-01

This paper deals with the numerical transport of an arbitrary number of materials having the same velocity. One difficulty is to derive numerical algorithms that are conservative for the mass of each component and that satisfy some inequality and equality constraints: each mass fraction has to stay in [0, 1] and the sum of all mass fractions should be 1. These constraints are satisfied by the classical upwind scheme (which is very dissipative) but not for most of nonlinear (high-order or anti-dissipative) schemes. Here we propose local conditions of inequality type for the finite volume fluxes of mass fractions to ensure the aforementioned constraints. More precisely, we give explicit stability intervals for each flux. This is done in the manner of Despres and Lagoutiere for hyperbolic systems, for the transport of two components, for the same type of inequality constraints for nonlinear conservation laws. Comparisons on two dimensional test-cases with the Youngs' interface reconstruction algorithm show that results are qualitatively comparable. The advantages of this approach are its simplicity, its low computational cost, and its flexibility since it can deal with interfaces as well as mixing zones. (authors)

Numerical simulation for two-phase jet problem

International Nuclear Information System (INIS)

Lee, W.H.; Shah, V.L.

1981-01-01

A computer program TWOP was developed for obtaining the numerical solutions of three-dimensional, transient, two-phase flow system with nonequilibrium and nonhomogeneous conditions. TWOP employs two-fluid model and a set of the conservation equations formulated by Harlow and Amsden along with their Implicit Multi-Field (IMF) numerical technique that allows all degrees of couplings between the two fields. We have further extended the procedure of Harlow and Amsden by incorporating the implicit couplings of phase transition and interfacial heat transfer terms in the energy equations. Numerical results of two tested problems are presented to demonstrate the capabilities of the TWOP code. The first problem is the separation of vapor and liquid, showing that the code can handle the computational difficulties such as liquid packing and sharp interface phenomena. The second problem is the high pressure two-phase jet impinged on vertical plate, demonstrating the important role of the interfacial mass and momentum exchange

Landscape Conservation Cooperatives: Creating a Collaborative Conservation Vision in the Face of Climate Change Uncertainty

Science.gov (United States)

Athearn, N.; Schlafmann, D.

2015-12-01

The 22 Landscape Conservation Cooperatives (LCCs) form a "network of networks," each defined by the characteristics of its ecoregion and its unique community of conservation managers, practitioners, and scientists. As self-directed partnerships, LCCs are strongly influenced not only by the landscape but by the evolving cultures and values that define the multi-faceted relationships between people and place. LCCs maintain an ecologically connected network across these diverse landscapes by transcending borders and leveraging resources. Natural resource managers are challenged to make decisions in the face of multiple uncertainties, and several partners across the network have recognized that climate change is one important uncertainty that spans boundaries - both across the conservation community and beyond. The impacts of climate change across the LCC Network are likely to be as diverse as the network itself - manifesting as, for example, sea level rise, ocean acidification, loss of sea ice, and shifts in climate patterns and timing - but synergies are being leveraged within and between LCCs and national climate-focused programs to systematically address the needs of the network to support a collaborative conservation vision that addresses multiple landscape-scale stressors in the face of climate uncertainties. This vision is being achieved by leveraging the convening power of the LCCs and collaborating with DOI Climate Science Centers and others. Selected case studies will demonstrate how the network finds strength in its differences, but also reveals powerful collaborative opportunities through integrated science, shared conservation strategies, and strategic approaches for translating targeted science to conservation action. These examples exemplify past successes as well as ongoing efforts as the network continues to bring about effective application of climate science to achieve conservation outcomes across the LCC Network in an uncertain future climate.

Simulated wetland conservation-restoration effects on water quantity and quality at watershed scale.

Science.gov (United States)

Wang, Xixi; Shang, Shiyou; Qu, Zhongyi; Liu, Tingxi; Melesse, Assefa M; Yang, Wanhong

2010-07-01

Wetlands are one of the most important watershed microtopographic features that affect hydrologic processes (e.g., routing) and the fate and transport of constituents (e.g., sediment and nutrients). Efforts to conserve existing wetlands and/or to restore lost wetlands require that watershed-level effects of wetlands on water quantity and water quality be quantified. Because monitoring approaches are usually cost or logistics prohibitive at watershed scale, distributed watershed models such as the Soil and Water Assessment Tool (SWAT), enhanced by the hydrologic equivalent wetland (HEW) concept developed by Wang [Wang, X., Yang, W., Melesse, A.M., 2008. Using hydrologic equivalent wetland concept within SWAT to estimate streamflow in watersheds with numerous wetlands. Trans. ASABE 51 (1), 55-72.], can be a best resort. However, there is a serious lack of information about simulated effects using this kind of integrated modeling approach. The objective of this study was to use the HEW concept in SWAT to assess effects of wetland restoration within the Broughton's Creek watershed located in southwestern Manitoba, and of wetland conservation within the upper portion of the Otter Tail River watershed located in northwestern Minnesota. The results indicated that the HEW concept allows the nonlinear functional relations between watershed processes and wetland characteristics (e.g., size and morphology) to be accurately represented in the models. The loss of the first 10-20% of the wetlands in the Minnesota study area would drastically increase the peak discharge and loadings of sediment, total phosphorus (TP), and total nitrogen (TN). On the other hand, the justifiable reductions of the peak discharge and loadings of sediment, TP, and TN in the Manitoba study area may require that 50-80% of the lost wetlands be restored. Further, the comparison between the predicted restoration and conservation effects revealed that wetland conservation seems to deserve a higher priority

Community-based Ecotourism in Tenganan Dauh Tukad: An Indigenous Conservation Perspective

Directory of Open Access Journals (Sweden)

I Ketut Sardiana

2015-11-01

Full Text Available Abstract Community-based ecotourism involves conservation, business, and community development. It is a subset of nature-based tourism that are owned and managed by the community and used to improve the well-being of its community members. Research conducted in Indigenous Tenganan Dauh Tukad Village, Bali. This paper examines the linkage of community participation in ecotourism with the conservation practices and perspectives. This study revealed that there is a positive linkage between community participation to their practices and perspective of conservation. This includes conservation of biodiversity environment and cultural heritage of the local community.

The structure of a conserved Piezo channel domain reveals a novel beta sandwich fold

Science.gov (United States)

Kamajaya, Aron; Kaiser, Jens; Lee, Jonas; Reid, Michelle; Rees, Douglas C.

2014-01-01

Summary Piezo has recently been identified as a family of eukaryotic mechanosensitive channels composed of subunits containing over 2000 amino acids, without recognizable sequence similarity to other channels. Here, we present the crystal structure of a large, conserved extramembrane domain located just before the last predicted transmembrane helix of C. elegans PIEZO, which adopts a novel beta sandwich fold. The structure was also determined of a point mutation located on a conserved surface at the position equivalent to the human PIEZO1 mutation found in Dehydrated Hereditary Stomatocytosis (DHS) patients (M2225R). While the point mutation does not change the overall domain structure, it does alter the surface electrostatic potential that may perturb interactions with a yet-to-be identified ligand or protein. The lack of structural similarity between this domain and any previously characterized fold, including those of eukaryotic and bacterial channels, highlights the distinctive nature of the Piezo family of eukaryotic mechanosensitive channels. PMID:25242456

Long-time behavior in numerical solutions of certain dynamical systems

International Nuclear Information System (INIS)

Vazquez, L.

1987-01-01

A general discretization of the ordinary nonlinear differential equations d 2 v/dt 2 =f(v) and dv/dt=g(v) is studied. The discrete scheme conserves the discrete analogous of a quantity that is conserved by the corresponding equations. This method is applied to two cases and no ''ghost solutions'' were observed for the long range calculation. In these cases we analyze the stability of the corresponding numerical scheme as a dynamical system and in the sense studied by Kuo Pen-Yu and Stetter. In particular we find a correspondence between both kinds of stability. (author)

Numerical modeling in materials science and engineering

CERN Document Server

Rappaz, Michel; Deville, Michel

2003-01-01

This book introduces the concepts and methodologies related to the modelling of the complex phenomena occurring in materials processing. After a short reminder of conservation laws and constitutive relationships, the authors introduce the main numerical methods: finite differences, finite volumes and finite elements. These techniques are developed in three main chapters of the book that tackle more specific problems: phase transformation, solid mechanics and fluid flow. The two last chapters treat inverse methods to obtain the boundary conditions or the material properties and stochastic methods for microstructural simulation. This book is intended for undergraduate and graduate students in materials science and engineering, mechanical engineering and physics and for engineering professionals or researchers who want to get acquainted with numerical simulation to model and compute materials processing.

To what extent do potential conservation donors value community-aspects of conservation projects in low income countries?

Science.gov (United States)

Young, Richard P.; Gibbons, James M.; Jones, Julia P. G.

2018-01-01

There is a major gap in funding required for conservation, especially in low income countries. Given the significant contribution of taxpayers in industrialized countries to funding conservation overseas, and donations from membership organisation, understanding the preferences of ordinary people in a high income country for different attributes of conservation projects is valuable for future marketing of conservation. We conducted a discrete choice experiment with visitors to a UK zoo, while simultaneously conducting a revealed preference study through a real donation campaign on the same sample. Respondents showed the highest willingness to pay for projects that have local community involvement in management (95% confidence interval £9.82 to £15.83), and for improvement in threatened species populations (£2.97 - £13.87). Both of these were significantly larger than the willingness to pay for projects involving provision of alternative livelihoods, or improving the condition of conservation sites. Results of the simultaneous donation campaign showed that respondents were very willing to donate the suggested £1 or above donation (88% made a donation, n = 1798); there was no effect of which of the two campaigns they were exposed to (threatened species management or community involvement in management). The small number of people who did not make a donation had a higher stated willingness to pay within the choice experiment, which may suggest hypothetical bias. Conservationists increasingly argue that conservation should include local communities in management (for both pragmatic and moral reasons). It is heartening that potential conservation donors seem to agree. PMID:29451923

A simple and rational numerical method of two-phase flow with volume-junction model. 2. The numerical method for general condition of two-phase flow in non-equilibrium states

International Nuclear Information System (INIS)

Okazaki, Motoaki

1997-11-01

In the previous report, the usefulness of a new numerical method to achieve a rigorous numerical calculation using a simple explicit method with the volume-junction model was presented with the verification calculation for the depressurization of a saturated two-phase mixture. In this report, on the basis of solution method above, a numerical method for general condition of two-phase flow in non-equilibrium states is presented. In general condition of two-phase flow, the combinations of saturated and non-saturated conditions of each phase are considered in the each flow of volume and junction. Numerical evaluation programs are separately prepared for each combination of flow condition. Several numerical calculations of various kinds of non-equilibrium two-phase flow are made to examine the validity of the numerical method. Calculated results showed that the thermodynamic states obtained in different solution schemes were consistent with each other. In the first scheme, the states are determined by using the steam table as a function of pressure and specific enthalpy which are obtained as the solutions of simultaneous equations. In the second scheme, density and specific enthalpy of each phase are directly calculated by using conservation equations of mass and enthalpy of each phase, respectively. Further, no accumulation of error in mass and energy was found. As for the specific enthalpy, two cases of using energy equations for the volume are examined. The first case uses total energy conservation equation and the second case uses the type of the first law of thermodynamics. The results of both cases agreed well. (author)

Internalization of Conservation Values in Forming Green Consumption Attitude

Directory of Open Access Journals (Sweden)

Syamsu Hadi

2017-06-01

Full Text Available The research aims to know a friendly environmental governance system. One sector of economic governance can certainly be initiated through green consumption. The focus of the problem was the green consumption education. This research was conducted by using qualitative approach in order to reveal how the process of conservation education in the Faculty of Economics in fostering behaviors that tend to conserve the consumption behavior in this case the green consumption attitude. The collecting data of research used observation, documentation and interview. This research uncovers how the conservation education is able to shape and build the green consumption attitudes that exist among the students from planning process, implementation, and evaluation of conservation education on the aspects of green consumption. Internalization of conservation value performed by the educators (in this case the lecturers at the Faculty of Economics, Universitas Negeri Semarang runs well enough.

An upwind space-time conservation element and solution element scheme for solving dusty gas flow model

Science.gov (United States)

Rehman, Asad; Ali, Ishtiaq; Qamar, Shamsul

An upwind space-time conservation element and solution element (CE/SE) scheme is extended to numerically approximate the dusty gas flow model. Unlike central CE/SE schemes, the current method uses the upwind procedure to derive the numerical fluxes through the inner boundary of conservation elements. These upwind fluxes are utilized to calculate the gradients of flow variables. For comparison and validation, the central upwind scheme is also applied to solve the same dusty gas flow model. The suggested upwind CE/SE scheme resolves the contact discontinuities more effectively and preserves the positivity of flow variables in low density flows. Several case studies are considered and the results of upwind CE/SE are compared with the solutions of central upwind scheme. The numerical results show better performance of the upwind CE/SE method as compared to the central upwind scheme.

Riparian Meadow Response to Modern Conservation Grazing Management

Science.gov (United States)

Oles, Kristin M.; Weixelman, Dave A.; Lile, David F.; Tate, Kenneth W.; Snell, Laura K.; Roche, Leslie M.

2017-09-01

Riparian meadows occupy a small proportion of the public lands in the western United States but they provide numerous ecosystem services, including the production of high-quality forage for livestock grazing. Modern conservation management strategies (e.g., reductions in livestock stocking rates and adoption of new riparian grazing standards) have been implemented to better balance riparian conservation and livestock production objectives on publicly managed lands. We examined potential relationships between long-term changes in plant community, livestock grazing pressure and environmental conditions at two spatial scales in meadows grazed under conservation management strategies. Changes in plant community were not associated with either livestock stocking rate or precipitation at the grazing allotment (i.e., administrative) scale. Alternatively, both grazing pressure and precipitation had significant, albeit modest, associations with changes in plant community at the meadow (i.e., ecological site) scale. These results suggest that reductions in stocking rate have improved the balance between riparian conservation and livestock production goals. However, associations between elevation, site wetness, precipitation, and changes in plant community suggest that changing climate conditions (e.g., reduced snowpack and changes in timing of snowmelt) could trigger shifts in plant communities, potentially impacting both conservation and agricultural services (e.g., livestock and forage production). Therefore, adaptive, site-specific management strategies are required to meet grazing pressure limits and safeguard ecosystem services within individual meadows, especially under more variable climate conditions.

Human developmental enhancers conserved between deuterostomes and protostomes.

Directory of Open Access Journals (Sweden)

Shoa L Clarke

Full Text Available The identification of homologies, whether morphological, molecular, or genetic, is fundamental to our understanding of common biological principles. Homologies bridging the great divide between deuterostomes and protostomes have served as the basis for current models of animal evolution and development. It is now appreciated that these two clades share a common developmental toolkit consisting of conserved transcription factors and signaling pathways. These patterning genes sometimes show common expression patterns and genetic interactions, suggesting the existence of similar or even conserved regulatory apparatus. However, previous studies have found no regulatory sequence conserved between deuterostomes and protostomes. Here we describe the first such enhancers, which we call bilaterian conserved regulatory elements (Bicores. Bicores show conservation of sequence and gene synteny. Sequence conservation of Bicores reflects conserved patterns of transcription factor binding sites. We predict that Bicores act as response elements to signaling pathways, and we show that Bicores are developmental enhancers that drive expression of transcriptional repressors in the vertebrate central nervous system. Although the small number of identified Bicores suggests extensive rewiring of cis-regulation between the protostome and deuterostome clades, additional Bicores may be revealed as our understanding of cis-regulatory logic and sample of bilaterian genomes continue to grow.

A staggered conservative scheme for every Froude number in rapidly varied shallow water flows

Science.gov (United States)

Stelling, G. S.; Duinmeijer, S. P. A.

2003-12-01

This paper proposes a numerical technique that in essence is based upon the classical staggered grids and implicit numerical integration schemes, but that can be applied to problems that include rapidly varied flows as well. Rapidly varied flows occur, for instance, in hydraulic jumps and bores. Inundation of dry land implies sudden flow transitions due to obstacles such as road banks. Near such transitions the grid resolution is often low compared to the gradients of the bathymetry. In combination with the local invalidity of the hydrostatic pressure assumption, conservation properties become crucial. The scheme described here, combines the efficiency of staggered grids with conservation properties so as to ensure accurate results for rapidly varied flows, as well as in expansions as in contractions. In flow expansions, a numerical approximation is applied that is consistent with the momentum principle. In flow contractions, a numerical approximation is applied that is consistent with the Bernoulli equation. Both approximations are consistent with the shallow water equations, so under sufficiently smooth conditions they converge to the same solution. The resulting method is very efficient for the simulation of large-scale inundations.

Interacting Social and Environmental Predictors for the Spatial Distribution of Conservation Lands

Science.gov (United States)

Baldwin, Robert F.; Leonard, Paul B.

2015-01-01

Conservation decisions should be evaluated for how they meet conservation goals at multiple spatial extents. Conservation easements are land use decisions resulting from a combination of social and environmental conditions. An emerging area of research is the evaluation of spatial distribution of easements and their spatial correlates. We tested the relative influence of interacting social and environmental variables on the spatial distribution of conservation easements by ownership category and conservation status. For the Appalachian region of the United States, an area with a long history of human occupation and complex land uses including public-private conservation, we found that settlement, economic, topographic, and environmental data associated with spatial distribution of easements (N = 4813). Compared to random locations, easements were more likely to be found in lower elevations, in areas of greater agricultural productivity, farther from public protected areas, and nearer other human features. Analysis of ownership and conservation status revealed sources of variation, with important differences between local and state government ownerships relative to non-governmental organizations (NGOs), and among U.S. Geological Survey (USGS) GAP program status levels. NGOs were more likely to have easements nearer protected areas, and higher conservation status, while local governments held easements closer to settlement, and on lands of greater agricultural potential. Logistic interactions revealed environmental variables having effects modified by social correlates, and the strongest predictors overall were social (distance to urban area, median household income, housing density, distance to land trust office). Spatial distribution of conservation lands may be affected by geographic area of influence of conservation groups, suggesting that multi-scale conservation planning strategies may be necessary to satisfy local and regional needs for reserve networks. Our

Interacting Social and Environmental Predictors for the Spatial Distribution of Conservation Lands.

Science.gov (United States)

Baldwin, Robert F; Leonard, Paul B

2015-01-01

Conservation decisions should be evaluated for how they meet conservation goals at multiple spatial extents. Conservation easements are land use decisions resulting from a combination of social and environmental conditions. An emerging area of research is the evaluation of spatial distribution of easements and their spatial correlates. We tested the relative influence of interacting social and environmental variables on the spatial distribution of conservation easements by ownership category and conservation status. For the Appalachian region of the United States, an area with a long history of human occupation and complex land uses including public-private conservation, we found that settlement, economic, topographic, and environmental data associated with spatial distribution of easements (N = 4813). Compared to random locations, easements were more likely to be found in lower elevations, in areas of greater agricultural productivity, farther from public protected areas, and nearer other human features. Analysis of ownership and conservation status revealed sources of variation, with important differences between local and state government ownerships relative to non-governmental organizations (NGOs), and among U.S. Geological Survey (USGS) GAP program status levels. NGOs were more likely to have easements nearer protected areas, and higher conservation status, while local governments held easements closer to settlement, and on lands of greater agricultural potential. Logistic interactions revealed environmental variables having effects modified by social correlates, and the strongest predictors overall were social (distance to urban area, median household income, housing density, distance to land trust office). Spatial distribution of conservation lands may be affected by geographic area of influence of conservation groups, suggesting that multi-scale conservation planning strategies may be necessary to satisfy local and regional needs for reserve networks. Our

Biogeographic Comparison of Lophelia-Associated Bacterial Communities in the Western Atlantic Reveals Conserved Core Microbiome

Directory of Open Access Journals (Sweden)

Christina A. Kellogg

2017-05-01

Full Text Available Over the last decade, publications on deep-sea corals have tripled. Most attention has been paid to Lophelia pertusa, a globally distributed scleractinian coral that creates critical three-dimensional habitat in the deep ocean. The bacterial community associated with L. pertusa has been previously described by a number of studies at sites in the Mediterranean Sea, Norwegian fjords, off Great Britain, and in the Gulf of Mexico (GOM. However, use of different methodologies prevents direct comparisons in most cases. Our objectives were to address intra-regional variation and to identify any conserved bacterial core community. We collected samples from three distinct colonies of L. pertusa at each of four locations within the western Atlantic: three sites within the GOM and one off the east coast of the United States. Amplicon libraries of 16S rRNA genes were generated using primers targeting the V4–V5 hypervariable region and 454 pyrosequencing. The dominant phylum was Proteobacteria (75–96%. At the family level, 80–95% of each sample was comprised of five groups: Pirellulaceae, Pseudonocardiaceae, Rhodobacteraceae, Sphingomonadaceae, and unclassified Oceanospirillales. Principal coordinate analysis based on weighted UniFrac distances showed a clear distinction between the GOM and Atlantic samples. Interestingly, the replicate samples from each location did not always cluster together, indicating there is not a strong site-specific influence. The core bacterial community, conserved in 100% of the samples, was dominated by the operational taxonomic units of genera Novosphingobium and Pseudonocardia, both known degraders of aromatic hydrocarbons. The sequence of another core member, Propionibacterium, was also found in prior studies of L. pertusa from Norway and Great Britain, suggesting a role as a conserved symbiont. By examining more than 40,000 sequences per sample, we found that GOM samples were dominated by the identified conserved core

Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences

Directory of Open Access Journals (Sweden)

De Marzo Angelo M

2011-06-01

Full Text Available Abstract Background DNA methylation has been linked to genome regulation and dysregulation in health and disease respectively, and methods for characterizing genomic DNA methylation patterns are rapidly emerging. We have developed/refined methods for enrichment of methylated genomic fragments using the methyl-binding domain of the human MBD2 protein (MBD2-MBD followed by analysis with high-density tiling microarrays. This MBD-chip approach was used to characterize DNA methylation patterns across all non-repetitive sequences of human chromosomes 21 and 22 at high-resolution in normal and malignant prostate cells. Results Examining this data using computational methods that were designed specifically for DNA methylation tiling array data revealed widespread methylation of both gene promoter and non-promoter regions in cancer and normal cells. In addition to identifying several novel cancer hypermethylated 5' gene upstream regions that mediated epigenetic gene silencing, we also found several hypermethylated 3' gene downstream, intragenic and intergenic regions. The hypermethylated intragenic regions were highly enriched for overlap with intron-exon boundaries, suggesting a possible role in regulation of alternative transcriptional start sites, exon usage and/or splicing. The hypermethylated intergenic regions showed significant enrichment for conservation across vertebrate species. A sampling of these newly identified promoter (ADAMTS1 and SCARF2 genes and non-promoter (downstream or within DSCR9, C21orf57 and HLCS genes hypermethylated regions were effective in distinguishing malignant from normal prostate tissues and/or cell lines. Conclusions Comparison of chromosome-wide DNA methylation patterns in normal and malignant prostate cells revealed significant methylation of gene-proximal and conserved intergenic sequences. Such analyses can be easily extended for genome-wide methylation analysis in health and disease.

On the effect of numerical errors in large eddy simulations of turbulent flows

International Nuclear Information System (INIS)

Kravchenko, A.G.; Moin, P.

1997-01-01

Aliased and dealiased numerical simulations of a turbulent channel flow are performed using spectral and finite difference methods. Analytical and numerical studies show that aliasing errors are more destructive for spectral and high-order finite-difference calculations than for low-order finite-difference simulations. Numerical errors have different effects for different forms of the nonlinear terms in the Navier-Stokes equations. For divergence and convective forms, spectral methods are energy-conserving only if dealiasing is performed. For skew-symmetric and rotational forms, both spectral and finite-difference methods are energy-conserving even in the presence of aliasing errors. It is shown that discrepancies between the results of dealiased spectral and standard nondialiased finite-difference methods are due to both aliasing and truncation errors with the latter being the leading source of differences. The relative importance of aliasing and truncation errors as compared to subgrid scale model terms in large eddy simulations is analyzed and discussed. For low-order finite-difference simulations, truncation errors can exceed the magnitude of the subgrid scale term. 25 refs., 17 figs., 1 tab

Numerical simulation of a bubble rising in an environment consisting of Xanthan gum

Science.gov (United States)

Aguirre, Víctor A.; Castillo, Byron A.; Narvaez, Christian P.

2017-09-01

An improved numerical algorithm for front tracking method is developed to simulate a bubble rising in viscous liquid. In the new numerical algorithm, volume correction is introduced to conserve the bubble volume while tracking the bubble's rising and deforming. Volume flux conservation is adopted to solve the Navier-Stokes equation for fluid flow using finite volume method. Non-Newtonian fluids are widely used in industry such as feed and energy industries. In this research we used Xanthan gum which is a microbiological polysaccharide. In order to obtain the properties of the Xanthan gum, such as viscosity, storage and loss modulus, shear rate, etc., it was necessary to do an amplitude sweep and steady flow test in a rheometer with a concentric cylinder as geometry. Based on the data given and using a numerical regression, the coefficients required by Giesekus model are obtained. With these coefficients, it is possible to simulate the comportment of the fluid by the use of the developed algorithm. Once the data given by OpenFOAM is acquired, it is compared with the experimental data.

Improving utility conservation programs: outcomes, interventions, and evaluations

Energy Technology Data Exchange (ETDEWEB)

Condelli, L; Archer, D; Aronson, E; Curbow, B; McLeod, B; Pettigrew, T F; White, L T; Yates, S

1984-06-01

Four major California utility companies have active energy conservation programs mandated by the State's Public Utilities Commission (CPUC). These companies evaluate their programs and send reports of the evaluations to the CPUC. A review of 213 of these reports revealed a marketing research approach toward promoting conservation. Advertising and informational campaigns characterize most programs, and attitudes and self-reported behavior were the major outcome measures. This approach is shown to be ineffective. Suggestions for improvement include: (1) the use of actual energy consumption as the primary outcome measure in evaluating conservation programs; (2) the abandonment of conventional advertising, and the use of it only for the promotion of ''hard'' interventions; (3) increased use of social diffusion methods to disseminate information; (4) the design of more effective educational material by incorporating cognitive social psychological principles; and (5) the utilization of ''hard'' interventions that have a direct, verifiable link to conservation.

Numerical simulation of vortex pyrolysis reactors for condensable tar production from biomass

Energy Technology Data Exchange (ETDEWEB)

Miller, R.S.; Bellan, J. [California Inst. of Tech., Pasadena, CA (United States). Jet Propulsion Lab.

1998-08-01

A numerical study is performed in order to evaluate the performance and optimal operating conditions of vortex pyrolysis reactors used for condensable tar production from biomass. A detailed mathematical model of porous biomass particle pyrolysis is coupled with a compressible Reynolds stress transport model for the turbulent reactor swirling flow. An initial evaluation of particle dimensionality effects is made through comparisons of single- (1D) and multi-dimensional particle simulations and reveals that the 1D particle model results in conservative estimates for total pyrolysis conversion times and tar collection. The observed deviations are due predominantly to geometry effects while directional effects from thermal conductivity and permeability variations are relatively small. Rapid ablative particle heating rates are attributed to a mechanical fragmentation of the biomass particles that is modeled using a critical porosity for matrix breakup. Optimal thermal conditions for tar production are observed for 900 K. Effects of biomass identity, particle size distribution, and reactor geometry and scale are discussed.

Beauty-conserving strangeness-changing rare semileptonic decays of Bs meson

International Nuclear Information System (INIS)

Harpreet Kaur

1999-01-01

The beauty-conserving strangeness-changing decays of B s meson are examined. In the charm sector, charm-conserving strangeness changing (Δc = 0, Δs ≠ 0) decays are Cabibbo suppressed and are governed by the CKM element V us which is much smaller than the CKM diagonal element V cs , so may be of little interest. On the other hand, in the b-sector, beauty-conserving strangeness changing (Δb = 0, Δs ≠ 0) decays are CKM allowed as the CKM matrix element V us governing such decays is much larger than V bc or V bu which govern respectively the b→c or b→u transitions. The phase space available, however, is too small for the decays considered here. The numerical estimates for the decay widths of two such modes of B s meson are presented. (author)

Analyses de la dégradation du lac Kinkony pour la conservation du ...

African Journals Online (AJOL)

Le lac Kinkony fait partie des habitats clefs pour la biodiversité du Complexe des ... provide favoured habitat for numerous endemic and endangered avian, fish ... on fauna is essential for developing regional conservation and natural resource ...

Conservation science in developing countries: an inside perspective on the struggles in sea turtle research and conservation in Venezuela

Energy Technology Data Exchange (ETDEWEB)

Buitrago, Joaquin [Estacion de Investigaciones Marinas de Margarita, Fundacion La Salle de Ciencias Naturales, Apartado 144, Porlamar, Isla Margarita (Venezuela)], E-mail: jbuitrago@edimar.org; Guada, Hedelvy J. [Centro de Investigacion y Conservacion de Tortugas Marinas CICTMAR, Red de Conservacion de Tortugas Marinas en el Gran Caribe, WIDECAST, Apdo. 50.789, Caracas 1050-A (Venezuela); Doyle, Emma [5 Woodvale Close, St. Ives, N.S.W. 2075 (Australia)

2008-10-15

Human exploitation of sea turtles in Venezuela dates back at least 800 years and continues to the present day. The first concerns about the status of sea turtle populations arose in the 1970s, and the projects from this early era were a tagging program, beach evaluation and in situ nest protection. Since then, efforts to develop a sea turtle research and conservation sector in Venezuela have resulted in a number of successes and rather more failures. Among the achievements is a course 'Sea Turtle Biology and Conservation Techniques', which has now been run for 15 years and has educated several hundred participants and enabled the establishment of a valuable professional network, and the publication of the Venezuelan 'Sea Turtle Recovery Action Plan' in 2000. But Venezuela shares with other developing countries some crucial shortcomings which have restricted the success of conservation and research efforts. Whilst regulations relating to protected areas and natural resource use have proliferated, enforcement is weak. Community-based projects and environmental education programs exist, but levels of participation are low. A large number of conservation approaches have been applied, including head-starting and nest translocation to hatcheries, but their value as conservation tools remains unproven. Research has increased, but its impact on decision-making is not significant. Taking an insider's perspective on the challenges to date in sea turtle research and conservation in Venezuela reveals much about the reality facing conservation scientists in developing countries and the forces that shape and can potentially derail research and conservation efforts.

Conservation science in developing countries: an inside perspective on the struggles in sea turtle research and conservation in Venezuela

International Nuclear Information System (INIS)

Buitrago, Joaquin; Guada, Hedelvy J.; Doyle, Emma

2008-01-01

Human exploitation of sea turtles in Venezuela dates back at least 800 years and continues to the present day. The first concerns about the status of sea turtle populations arose in the 1970s, and the projects from this early era were a tagging program, beach evaluation and in situ nest protection. Since then, efforts to develop a sea turtle research and conservation sector in Venezuela have resulted in a number of successes and rather more failures. Among the achievements is a course 'Sea Turtle Biology and Conservation Techniques', which has now been run for 15 years and has educated several hundred participants and enabled the establishment of a valuable professional network, and the publication of the Venezuelan 'Sea Turtle Recovery Action Plan' in 2000. But Venezuela shares with other developing countries some crucial shortcomings which have restricted the success of conservation and research efforts. Whilst regulations relating to protected areas and natural resource use have proliferated, enforcement is weak. Community-based projects and environmental education programs exist, but levels of participation are low. A large number of conservation approaches have been applied, including head-starting and nest translocation to hatcheries, but their value as conservation tools remains unproven. Research has increased, but its impact on decision-making is not significant. Taking an insider's perspective on the challenges to date in sea turtle research and conservation in Venezuela reveals much about the reality facing conservation scientists in developing countries and the forces that shape and can potentially derail research and conservation efforts

DNA-based identification reveals illegal trade of threatened shark species in a global elasmobranch conservation hotspot.

Science.gov (United States)

Feitosa, Leonardo Manir; Martins, Ana Paula Barbosa; Giarrizzo, Tommaso; Macedo, Wagner; Monteiro, Iann Leonardo; Gemaque, Romário; Nunes, Jorge Luiz Silva; Gomes, Fernanda; Schneider, Horácio; Sampaio, Iracilda; Souza, Rosália; Sales, João Bráullio; Rodrigues-Filho, Luís Fernando; Tchaicka, Lígia; Carvalho-Costa, Luís Fernando

2018-02-20

Here, we report trading of endangered shark species in a world hotspot for elasmobranch conservation in Brazil. Data on shark fisheries are scarce in Brazil, although the northern and northeastern regions have the highest indices of shark bycatch. Harvest is made primarily with processed carcasses lacking head and fins, which hampers reliable species identification and law enforcement on illegal catches. We used partial sequences of two mitochondrial genes (COI and/or NADH2) to identify 17 shark species from 427 samples being harvested and marketed on the northern coast of Brazil. Nine species (53%) are listed under some extinction threat category according to Brazilian law and international authorities (IUCN - International Union for Conservation of Nature; CITES - Convention on International Trade of Endangered Species of Wild Fauna and Flora). The number increases to 13 (76%) if we also consider the Near Threatened category. Hammerhead sharks are under threat worldwide, and composed 18.7% of samples, with Sphyrna mokarran being the fourth most common species among samples. As illegal trade of threatened shark species is a worldwide conservation problem, molecular identification of processed meat or specimens lacking diagnostic body parts is a highly effective tool for species identification and law enforcement.

Numerical study of drop spreading on a flat surface

Science.gov (United States)

Wang, Sheng; Desjardins, Olivier

2017-11-01

In this talk, we perform a numerical study of a droplet on a flat surface with special emphasis on capturing the spreading dynamics. The computational methodology employed is tailored for simulating large-scale two-phase flows within complex geometries. It combines a conservative level-set method to capture the liquid-gas interface, a conservative immersed boundary method to represent the solid-fluid interface, and a sub-grid curvature model at the triple-point to implicitly impose the contact angle of the liquid-gas interface. The performance of the approach is assessed in the inertial droplet spreading regime, the viscous spreading regime of high viscosity drops, and with the capillary oscillation of low viscosity droplets.

An approach for evaluating utility-financed energy conservation programs. The economic welfare model

Energy Technology Data Exchange (ETDEWEB)

Costello, K W; Galen, P S

1985-09-01

The main objective of this paper is to illustrate how the economic welfare model may be used to measure the economic efficiency effects of utility-financed energy conservation programs. The economic welfare model is the theoretical structure that was used in this paper to develop a cost/benefit test. This test defines the net benefit of a conservation program as the change in the sum of consumer and producer surplus. The authors advocate the operation of the proposed cost/benefit model as a screening tool to eliminate from more detailed review those programs where the expected net benefits are less than zero. The paper presents estimates of the net benefit derived from different specified cost/benefit models for four illustrative pilot programs. These models are representative of those which have been applied or are under review by utilities and public utility commissions. From the numerical results, it is shown that net benefit is greatly affected by the assumptions made about the nature of welfare gains to program participants. The main conclusion that emerges from the numerical results is that the selection of a cost/benefit model is a crucial element in evaluating utility-financed energy conservation programs. The paper also briefly addresses some of the major unresolved issues in utility-financed energy conservation programs. 2 figs., 3 tabs., 10 refs. (A.V.)

Charge-and-energy conserving moment-based accelerator for a multi-species Vlasov–Fokker–Planck–Ampère system, part II: Collisional aspects

Energy Technology Data Exchange (ETDEWEB)

Taitano, William T., E-mail: taitano@lanl.gov; Knoll, Dana A.; Chacón, Luis

2015-03-01

In this study, we extend the moment-based acceleration algorithm for the charge, momentum, and energy conserving Vlasov–Ampère discretization developed in Ref. [1] by including a reduced Fokker–Planck operator. We propose an energy conserving discretization for the Fokker–Planck collision operator. We show by numerical experiment that the new algorithm 1) efficiently converges the nonlinearly coupled Vlasov–Fokker–Planck–Ampère system, and 2) accurately steps over stiff time-scales such as the inverse electron plasma frequency, and the electron–electron collision time-scale. We demonstrate that discrete energy conservation is critical to eliminate numerical heating issues when strong density gradients exist.

Numerical study on drop formation through a micro nozzle

International Nuclear Information System (INIS)

Kim, Sung Il; Son, Gi Hun

2005-01-01

The drop ejection process from a micro nozzle is investigated by numerically solving the conservation equations for mass and momentum. The liquid-gas interface is tracked by a level set method which is extended for two-fluid flows with irregular solid boundaries. Based on the numerical results, the liquid jet breaking and droplet formation behavior is found to depend strongly on the pulse type of forcing pressure and the contact angle at the gas-liquid-solid interline. The negative pressure forcing can be used to control the formation of satelite droplets. Also, various nozzle shapes are tested to investigate their effect on droplet formation

Hyperbolic conservation laws in continuum physics

CERN Document Server

Dafermos, Constantine M

2016-01-01

This is a masterly exposition and an encyclopedic presentation of the theory of hyperbolic conservation laws. It illustrates the essential role of continuum thermodynamics in providing motivation and direction for the development of the mathematical theory while also serving as the principal source of applications. The reader is expected to have a certain mathematical sophistication and to be familiar with (at least) the rudiments of analysis and the qualitative theory of partial differential equations, whereas prior exposure to continuum physics is not required. The target group of readers would consist of (a) experts in the mathematical theory of hyperbolic systems of conservation laws who wish to learn about the connection with classical physics; (b) specialists in continuum mechanics who may need analytical tools; (c) experts in numerical analysis who wish to learn the underlying mathematical theory; and (d) analysts and graduate students who seek introduction to the theory of hyperbolic systems of conser...

Front tracking for hyperbolic conservation laws

CERN Document Server

Holden, Helge

2002-01-01

Hyperbolic conservation laws are central in the theory of nonlinear partial differential equations and in science and technology. The reader is given a self-contained presentation using front tracking, which is also a numerical method. The multidimensional scalar case and the case of systems on the line are treated in detail. A chapter on finite differences is included. "It is already one of the few best digests on this topic. The present book is an excellent compromise between theory and practice. Students will appreciate the lively and accurate style." D. Serre, MathSciNet "I have read the book with great pleasure, and I can recommend it to experts as well as students. It can also be used for reliable and very exciting basis for a one-semester graduate course." S. Noelle, Book review, German Math. Soc. "Making it an ideal first book for the theory of nonlinear partial differential equations...an excellent reference for a graduate course on nonlinear conservation laws." M. Laforest, Comp. Phys. Comm.

Evolutionarily conserved regulation of TOR signalling.

Science.gov (United States)

Takahara, Terunao; Maeda, Tatsuya

2013-07-01

The target of rapamycin (TOR) is an evolutionarily conserved protein kinase that regulates cell growth in response to various environmental as well as intracellular cues through the formation of 2 distinct TOR complexes (TORC), TORC1 and TORC2. Dysregulation of TORC1 and TORC2 activity is closely associated with various diseases, including diabetes, cancer and neurodegenerative disorders. Over the past few years, new regulatory mechanisms of TORC1 and TORC2 activity have been elucidated. Furthermore, recent advances in the study of TOR inhibitors have revealed previously unrecognized cellular functions of TORC1. In this review, we briefly summarize the current understanding of the evolutionarily conserved TOR signalling from upstream regulators to downstream events.

Compatible, energy conserving, bounds preserving remap of hydrodynamic fields for an extended ALE scheme

Science.gov (United States)

Burton, D. E.; Morgan, N. R.; Charest, M. R. J.; Kenamond, M. A.; Fung, J.

2018-02-01

From the very origins of numerical hydrodynamics in the Lagrangian work of von Neumann and Richtmyer [83], the issue of total energy conservation as well as entropy production has been problematic. Because of well known problems with mesh deformation, Lagrangian schemes have evolved into Arbitrary Lagrangian-Eulerian (ALE) methods [39] that combine the best properties of Lagrangian and Eulerian methods. Energy issues have persisted for this class of methods. We believe that fundamental issues of energy conservation and entropy production in ALE require further examination. The context of the paper is an ALE scheme that is extended in the sense that it permits cyclic or periodic remap of data between grids of the same or differing connectivity. The principal design goals for a remap method then consist of total energy conservation, bounded internal energy, and compatibility of kinetic energy and momentum. We also have secondary objectives of limiting velocity and stress in a non-directional manner, keeping primitive variables monotone, and providing a higher than second order reconstruction of remapped variables. In particular, the new contributions fall into three categories associated with: energy conservation and entropy production, reconstruction and bounds preservation of scalar and tensor fields, and conservative remap of nonlinear fields. The paper presents a derivation of the methods, details of implementation, and numerical results for a number of test problems. The methods requires volume integration of polynomial functions in polytopal cells with planar facets, and the requisite expressions are derived for arbitrary order.

On the numerical dispersion of electromagnetic particle-in-cell code: Finite grid instability

International Nuclear Information System (INIS)

Meyers, M.D.; Huang, C.-K.; Zeng, Y.; Yi, S.A.; Albright, B.J.

2015-01-01

The Particle-In-Cell (PIC) method is widely used in relativistic particle beam and laser plasma modeling. However, the PIC method exhibits numerical instabilities that can render unphysical simulation results or even destroy the simulation. For electromagnetic relativistic beam and plasma modeling, the most relevant numerical instabilities are the finite grid instability and the numerical Cherenkov instability. We review the numerical dispersion relation of the Electromagnetic PIC model. We rigorously derive the faithful 3-D numerical dispersion relation of the PIC model, for a simple, direct current deposition scheme, which does not conserve electric charge exactly. We then specialize to the Yee FDTD scheme. In particular, we clarify the presence of alias modes in an eigenmode analysis of the PIC model, which combines both discrete and continuous variables. The manner in which the PIC model updates and samples the fields and distribution function, together with the temporal and spatial phase factors from solving Maxwell's equations on the Yee grid with the leapfrog scheme, is explicitly accounted for. Numerical solutions to the electrostatic-like modes in the 1-D dispersion relation for a cold drifting plasma are obtained for parameters of interest. In the succeeding analysis, we investigate how the finite grid instability arises from the interaction of the numerical modes admitted in the system and their aliases. The most significant interaction is due critically to the correct representation of the operators in the dispersion relation. We obtain a simple analytic expression for the peak growth rate due to this interaction, which is then verified by simulation. We demonstrate that our analysis is readily extendable to charge conserving models

On the numerical dispersion of electromagnetic particle-in-cell code: Finite grid instability

Science.gov (United States)

Meyers, M. D.; Huang, C.-K.; Zeng, Y.; Yi, S. A.; Albright, B. J.

2015-09-01

The Particle-In-Cell (PIC) method is widely used in relativistic particle beam and laser plasma modeling. However, the PIC method exhibits numerical instabilities that can render unphysical simulation results or even destroy the simulation. For electromagnetic relativistic beam and plasma modeling, the most relevant numerical instabilities are the finite grid instability and the numerical Cherenkov instability. We review the numerical dispersion relation of the Electromagnetic PIC model. We rigorously derive the faithful 3-D numerical dispersion relation of the PIC model, for a simple, direct current deposition scheme, which does not conserve electric charge exactly. We then specialize to the Yee FDTD scheme. In particular, we clarify the presence of alias modes in an eigenmode analysis of the PIC model, which combines both discrete and continuous variables. The manner in which the PIC model updates and samples the fields and distribution function, together with the temporal and spatial phase factors from solving Maxwell's equations on the Yee grid with the leapfrog scheme, is explicitly accounted for. Numerical solutions to the electrostatic-like modes in the 1-D dispersion relation for a cold drifting plasma are obtained for parameters of interest. In the succeeding analysis, we investigate how the finite grid instability arises from the interaction of the numerical modes admitted in the system and their aliases. The most significant interaction is due critically to the correct representation of the operators in the dispersion relation. We obtain a simple analytic expression for the peak growth rate due to this interaction, which is then verified by simulation. We demonstrate that our analysis is readily extendable to charge conserving models.

Numerical methods: Analytical benchmarking in transport theory

International Nuclear Information System (INIS)

Ganapol, B.D.

1988-01-01

Numerical methods applied to reactor technology have reached a high degree of maturity. Certainly one- and two-dimensional neutron transport calculations have become routine, with several programs available on personal computer and the most widely used programs adapted to workstation and minicomputer computational environments. With the introduction of massive parallelism and as experience with multitasking increases, even more improvement in the development of transport algorithms can be expected. Benchmarking an algorithm is usually not a very pleasant experience for the code developer. Proper algorithmic verification by benchmarking involves the following considerations: (1) conservation of particles, (2) confirmation of intuitive physical behavior, and (3) reproduction of analytical benchmark results. By using today's computational advantages, new basic numerical methods have been developed that allow a wider class of benchmark problems to be considered

Numerical Study on Critical Wedge Angle of Cellular Detonation Reflections

International Nuclear Information System (INIS)

Gang, Wang; Kai-Xin, Liu; De-Liang, Zhang

2010-01-01

The critical wedge angle (CWA) for the transition from regular reflection (RR) to Mach reflection (MR) of a cellular detonation wave is studied numerically by an improved space-time conservation element and solution element method together with a two-step chemical reaction model. The accuracy of that numerical way is verified by simulating cellular detonation reflections at a 19.3° wedge. The planar and cellular detonation reflections over 45°–55° wedges are also simulated. When the cellular detonation wave is over a 50° wedge, numerical results show a new phenomenon that RR and MR occur alternately. The transition process between RR and MR is investigated with the local pressure contours. Numerical analysis shows that the cellular structure is the essential reason for the new phenomenon and the CWA of detonation reflection is not a certain angle but an angle range. (fundamental areas of phenomenology(including applications))

Optimizing Conservation Strategies for a Threatened Tree Species: In Situ Conservation of White Ash (Fraxinus americana L. Genetic Diversity through Insecticide Treatment

Directory of Open Access Journals (Sweden)

Charles E. Flower

2018-04-01

Full Text Available Forest resources face numerous threats that require costly management. Hence, there is an increasing need for data-informed strategies to guide conservation practices. The introduction of the emerald ash borer to North America has caused rapid declines in ash populations (Fraxinus spp. L.. Natural resource managers are faced with a choice of either allowing ash trees to die, risking forest degradation and reduced functional resilience, or investing in conserving trees to preserve ecosystem structure and standing genetic diversity. The information needed to guide these decisions is not always readily available. Therefore, to address this concern, we used eight microsatellites to genotype 352 white ash trees (Fraxinus americana L. across 17 populations in the Allegheny National Forest; a subset of individuals sampled are part of an insecticide treatment regimen. Genetic diversity (number of alleles and He was equivalent in treated and untreated trees, with little evidence of differentiation or inbreeding, suggesting current insecticidal treatment is conserving local, neutral genetic diversity. Using simulations, we demonstrated that best practice is treating more populations rather than more trees in fewer populations. Furthermore, through genetic screening, conservation practitioners can select highly diverse and unique populations to maximize diversity and reduce expenditures (by up to 21%. These findings will help practitioners develop cost-effective strategies to conserve genetic diversity.

Numerical Simulation of a Solar Domestic Hot Water System

International Nuclear Information System (INIS)

Mongibello, L; Graditi, G; Bianco, N; Di Somma, M; Naso, V

2014-01-01

An innovative transient numerical model is presented for the simulation of a solar Domestic Hot Water (DHW) system. The solar collectors have been simulated by using a zerodimensional analytical model. The temperature distributions in the heat transfer fluid and in the water inside the tank have been evaluated by one-dimensional models. The reversion elimination algorithm has been used to include the effects of natural convection among the water layers at different heights in the tank on the thermal stratification. A finite difference implicit scheme has been implemented to solve the energy conservation equation in the coil heat exchanger, and the energy conservation equation in the tank has been solved by using the finite difference Euler implicit scheme. Energy conservation equations for the solar DHW components models have been coupled by means of a home-made implicit algorithm. Results of the simulation performed using as input data the experimental values of the ambient temperature and the solar irradiance in a summer day are presented and discussed

Numerical Simulation of a Solar Domestic Hot Water System

Science.gov (United States)

Mongibello, L.; Bianco, N.; Di Somma, M.; Graditi, G.; Naso, V.

2014-11-01

An innovative transient numerical model is presented for the simulation of a solar Domestic Hot Water (DHW) system. The solar collectors have been simulated by using a zerodimensional analytical model. The temperature distributions in the heat transfer fluid and in the water inside the tank have been evaluated by one-dimensional models. The reversion elimination algorithm has been used to include the effects of natural convection among the water layers at different heights in the tank on the thermal stratification. A finite difference implicit scheme has been implemented to solve the energy conservation equation in the coil heat exchanger, and the energy conservation equation in the tank has been solved by using the finite difference Euler implicit scheme. Energy conservation equations for the solar DHW components models have been coupled by means of a home-made implicit algorithm. Results of the simulation performed using as input data the experimental values of the ambient temperature and the solar irradiance in a summer day are presented and discussed.

Charge-conserving FEM-PIC schemes on general grids

International Nuclear Information System (INIS)

Campos Pinto, M.; Jund, S.; Salmon, S.; Sonnendruecker, E.

2014-01-01

Particle-In-Cell (PIC) solvers are a major tool for the understanding of the complex behavior of a plasma or a particle beam in many situations. An important issue for electromagnetic PIC solvers, where the fields are computed using Maxwell's equations, is the problem of discrete charge conservation. In this article, we aim at proposing a general mathematical formulation for charge-conserving finite-element Maxwell solvers coupled with particle schemes. In particular, we identify the finite-element continuity equations that must be satisfied by the discrete current sources for several classes of time-domain Vlasov-Maxwell simulations to preserve the Gauss law at each time step, and propose a generic algorithm for computing such consistent sources. Since our results cover a wide range of schemes (namely curl-conforming finite element methods of arbitrary degree, general meshes in two or three dimensions, several classes of time discretization schemes, particles with arbitrary shape factors and piecewise polynomial trajectories of arbitrary degree), we believe that they provide a useful roadmap in the design of high-order charge-conserving FEM-PIC numerical schemes. (authors)

Numerical Simulation of In Situ Combustion of Oil Shale

Directory of Open Access Journals (Sweden)

Huan Zheng

2017-01-01

Full Text Available This paper analyzes the process of in situ combustion of oil shale, taking into account the transport and chemical reaction of various components in porous reservoirs. The physical model is presented, including the mass and energy conservation equations and Darcy’s law. The oxidation reactions of oil shale combustion are expressed by adding source terms in the conservation equations. The reaction rate of oxidation satisfies the Arrhenius law. A numerical method is established for calculating in situ combustion, which is simulated numerically, and the results are compared with the available experiment. The profiles of temperature and volume fraction of a few components are presented. The temperature contours show the temperature variation in the combustion tube. It is found that as combustion reaction occurs in the tube, the concentration of oxygen decreases rapidly, while the concentration of carbon dioxide and carbon monoxide increases contrarily. Besides, the combustion front velocity is consistent with the experimental value. Effects of gas injection rate, permeability of the reservoir, initial oil content, and injected oxygen content on the ISC process were investigated in this study. Varying gas injection rate and oxygen content is important in the field test of ISC.

Numerical simulation of droplet evaporation between two circular plates

International Nuclear Information System (INIS)

Bam, Hang Jin; Son, Gi Hun

2015-01-01

Numerical simulation is performed for droplet evaporation between two circular plates. The flow and thermal characteristics of the droplet evaporation are numerically investigated by solving the conservation equations of mass, momentum, energy and mass fraction in the liquid and gas phases. The liquid-gas interface is tracked by a sharp-interface level-set method which is modified to include the effects of evaporation at the liquid-gas interface and contact angle hysteresis at the liquid-gas-solid contact line. An analytical model to predict the droplet evaporation is also developed by simplifying the mass and vapor fraction equations in the gas phase. The numerical results demonstrate that the 1-D analytical prediction is not applicable to the high rate evaporation process. The effects of plate gap and receding contact angle on the droplet evaporation are also quantified.

Comparative genomics reveals conservation of filaggrin and loss of caspase-14 in dolphins.

Science.gov (United States)

Strasser, Bettina; Mlitz, Veronika; Fischer, Heinz; Tschachler, Erwin; Eckhart, Leopold

2015-05-01

The expression of filaggrin and its stepwise proteolytic degradation are critical events in the terminal differentiation of epidermal keratinocytes and in the formation of the skin barrier to the environment. Here, we investigated whether the evolutionary transition from a terrestrial to a fully aquatic lifestyle of cetaceans, that is dolphins and whales, has been associated with changes in genes encoding filaggrin and proteins involved in the processing of filaggrin. We used comparative genomics, PCRs and re-sequencing of gene segments to screen for the presence and integrity of genes coding for filaggrin and proteases implicated in the maturation of (pro)filaggrin. Filaggrin has been conserved in dolphins (bottlenose dolphin, orca and baiji) but has been lost in whales (sperm whale and minke whale). All other S100 fused-type genes have been lost in cetaceans. Among filaggrin-processing proteases, aspartic peptidase retroviral-like 1 (ASPRV1), also known as saspase, has been conserved, whereas caspase-14 has been lost in all cetaceans investigated. In conclusion, our results suggest that filaggrin is dispensable for the acquisition of fully aquatic lifestyles of whales, whereas it appears to confer an evolutionary advantage to dolphins. The discordant evolution of filaggrin, saspase and caspase-14 in cetaceans indicates that the biological roles of these proteins are not strictly interdependent. © 2015 The Authors. Experimental Dermatology Published by John Wiley & Sons Ltd.

Direct numerical simulations of fluid flow, heat transfer and phase changes

Science.gov (United States)

Juric, D.; Tryggvason, G.; Han, J.

1997-01-01

Direct numerical simulations of fluid flow, heat transfer, and phase changes are presented. The simulations are made possible by a recently developed finite difference/front tracking method based on the one-field formulation of the governing equations where a single set of conservation equations is written for all the phases involved. The conservation equations are solved on a fixed rectangular grid, but the phase boundaries are kept sharp by tracking them explicitly by a moving grid of lower dimension. The method is discussed and applications to boiling heat transfer and the solidification of drops colliding with a wall are shown.

A Consensus Map in Cultivated Hexaploid Oat Reveals Conserved Grass Synteny with Substantial Subgenome Rearrangement

Directory of Open Access Journals (Sweden)

Ashley S. Chaffin

2016-07-01

Full Text Available Hexaploid oat ( L., 2 = 6 = 42 is a member of the Poaceae family and has a large genome (∼12.5 Gb containing 21 chromosome pairs from three ancestral genomes. Physical rearrangements among parental genomes have hindered the development of linkage maps in this species. The objective of this work was to develop a single high-density consensus linkage map that is representative of the majority of commonly grown oat varieties. Data from a cDNA-derived single-nucleotide polymorphism (SNP array and genotyping-by-sequencing (GBS were collected from the progeny of 12 biparental recombinant inbred line populations derived from 19 parents representing oat germplasm cultivated primarily in North America. Linkage groups from all mapping populations were compared to identify 21 clusters of conserved collinearity. Linkage groups within each cluster were then merged into 21 consensus chromosomes, generating a framework consensus map of 7202 markers spanning 2843 cM. An additional 9678 markers were placed on this map with a lower degree of certainty. Assignment to physical chromosomes with high confidence was made for nine chromosomes. Comparison of homeologous regions among oat chromosomes and matches to orthologous regions of rice ( L. reveal that the hexaploid oat genome has been highly rearranged relative to its ancestral diploid genomes as a result of frequent translocations among chromosomes. Heterogeneous chromosome rearrangements among populations were also evident, probably accounting for the failure of some linkage groups to match the consensus. This work contributes to a further understanding of the organization and evolution of hexaploid grass genomes.

A low-dispersion, exactly energy-charge-conserving semi-implicit relativistic particle-in-cell algorithm

Science.gov (United States)

Chen, Guangye; Luis, Chacon; Bird, Robert; Stark, David; Yin, Lin; Albright, Brian

2017-10-01

Leap-frog based explicit algorithms, either ``energy-conserving'' or ``momentum-conserving'', do not conserve energy discretely. Time-centered fully implicit algorithms can conserve discrete energy exactly, but introduce large dispersion errors in the light-wave modes, regardless of timestep sizes. This can lead to intolerable simulation errors where highly accurate light propagation is needed (e.g. laser-plasma interactions, LPI). In this study, we selectively combine the leap-frog and Crank-Nicolson methods to produce a low-dispersion, exactly energy-and-charge-conserving PIC algorithm. Specifically, we employ the leap-frog method for Maxwell equations, and the Crank-Nicolson method for particle equations. Such an algorithm admits exact global energy conservation, exact local charge conservation, and preserves the dispersion properties of the leap-frog method for the light wave. The algorithm has been implemented in a code named iVPIC, based on the VPIC code developed at LANL. We will present numerical results that demonstrate the properties of the scheme with sample test problems (e.g. Weibel instability run for 107 timesteps, and LPI applications.

Protected areas in tropical Africa: assessing threats and conservation activities.

Science.gov (United States)

Tranquilli, Sandra; Abedi-Lartey, Michael; Abernethy, Katharine; Amsini, Fidèle; Asamoah, Augustus; Balangtaa, Cletus; Blake, Stephen; Bouanga, Estelle; Breuer, Thomas; Brncic, Terry M; Campbell, Geneviève; Chancellor, Rebecca; Chapman, Colin A; Davenport, Tim R B; Dunn, Andrew; Dupain, Jef; Ekobo, Atanga; Eno-Nku, Manasseh; Etoga, Gilles; Furuichi, Takeshi; Gatti, Sylvain; Ghiurghi, Andrea; Hashimoto, Chie; Hart, John A; Head, Josephine; Hega, Martin; Herbinger, Ilka; Hicks, Thurston C; Holbech, Lars H; Huijbregts, Bas; Kühl, Hjalmar S; Imong, Inaoyom; Yeno, Stephane Le-Duc; Linder, Joshua; Marshall, Phil; Lero, Peter Minasoma; Morgan, David; Mubalama, Leonard; N'Goran, Paul K; Nicholas, Aaron; Nixon, Stuart; Normand, Emmanuelle; Nziguyimpa, Leonidas; Nzooh-Dongmo, Zacharie; Ofori-Amanfo, Richard; Ogunjemite, Babafemi G; Petre, Charles-Albert; Rainey, Hugo J; Regnaut, Sebastien; Robinson, Orume; Rundus, Aaron; Sanz, Crickette M; Okon, David Tiku; Todd, Angelique; Warren, Ymke; Sommer, Volker

2014-01-01

Numerous protected areas (PAs) have been created in Africa to safeguard wildlife and other natural resources. However, significant threats from anthropogenic activities and decline of wildlife populations persist, while conservation efforts in most PAs are still minimal. We assessed the impact level of the most common threats to wildlife within PAs in tropical Africa and the relationship of conservation activities with threat impact level. We collated data on 98 PAs with tropical forest cover from 15 countries across West, Central and East Africa. For this, we assembled information about local threats as well as conservation activities from published and unpublished literature, and questionnaires sent to long-term field workers. We constructed general linear models to test the significance of specific conservation activities in relation to the threat impact level. Subsistence and commercial hunting were identified as the most common direct threats to wildlife and found to be most prevalent in West and Central Africa. Agriculture and logging represented the most common indirect threats, and were most prevalent in West Africa. We found that the long-term presence of conservation activities (such as law enforcement, research and tourism) was associated with lower threat impact levels. Our results highlight deficiencies in the management effectiveness of several PAs across tropical Africa, and conclude that PA management should invest more into conservation activities with long-term duration.

Protected areas in tropical Africa: assessing threats and conservation activities.

Directory of Open Access Journals (Sweden)

Sandra Tranquilli

Full Text Available Numerous protected areas (PAs have been created in Africa to safeguard wildlife and other natural resources. However, significant threats from anthropogenic activities and decline of wildlife populations persist, while conservation efforts in most PAs are still minimal. We assessed the impact level of the most common threats to wildlife within PAs in tropical Africa and the relationship of conservation activities with threat impact level. We collated data on 98 PAs with tropical forest cover from 15 countries across West, Central and East Africa. For this, we assembled information about local threats as well as conservation activities from published and unpublished literature, and questionnaires sent to long-term field workers. We constructed general linear models to test the significance of specific conservation activities in relation to the threat impact level. Subsistence and commercial hunting were identified as the most common direct threats to wildlife and found to be most prevalent in West and Central Africa. Agriculture and logging represented the most common indirect threats, and were most prevalent in West Africa. We found that the long-term presence of conservation activities (such as law enforcement, research and tourism was associated with lower threat impact levels. Our results highlight deficiencies in the management effectiveness of several PAs across tropical Africa, and conclude that PA management should invest more into conservation activities with long-term duration.

Conserved Lipid and Small-Molecule Modulation of COQ8 Reveals Regulation of the Ancient Kinase-like UbiB Family.

Science.gov (United States)

Reidenbach, Andrew G; Kemmerer, Zachary A; Aydin, Deniz; Jochem, Adam; McDevitt, Molly T; Hutchins, Paul D; Stark, Jaime L; Stefely, Jonathan A; Reddy, Thiru; Hebert, Alex S; Wilkerson, Emily M; Johnson, Isabel E; Bingman, Craig A; Markley, John L; Coon, Joshua J; Dal Peraro, Matteo; Pagliarini, David J

2018-02-15

Human COQ8A (ADCK3) and Saccharomyces cerevisiae Coq8p (collectively COQ8) are UbiB family proteins essential for mitochondrial coenzyme Q (CoQ) biosynthesis. However, the biochemical activity of COQ8 and its direct role in CoQ production remain unclear, in part due to lack of known endogenous regulators of COQ8 function and of effective small molecules for probing its activity in vivo. Here, we demonstrate that COQ8 possesses evolutionarily conserved ATPase activity that is activated by binding to membranes containing cardiolipin and by phenolic compounds that resemble CoQ pathway intermediates. We further create an analog-sensitive version of Coq8p and reveal that acute chemical inhibition of its endogenous activity in yeast is sufficient to cause respiratory deficiency concomitant with CoQ depletion. Collectively, this work defines lipid and small-molecule modulators of an ancient family of atypical kinase-like proteins and establishes a chemical genetic system for further exploring the mechanistic role of COQ8 in CoQ biosynthesis. Copyright © 2017 Elsevier Ltd. All rights reserved.

Simple numerical chromosome aberrations in two pituitary adenomas

DEFF Research Database (Denmark)

Dietrich, C U; Pandis, N; Bjerre, P

1993-01-01

Cytogenetic analysis of short-term cultures of one non-secreting and one prolactin-producing pituitary adenoma revealed simple clonal numerical abnormalities in both tumors. The karyotype of the non-secreting adenoma was 48,XX, +4, +9[42]/49,XX, +4, +9, +20[2]/46,XX[6]. In the prolactin-secreting......Cytogenetic analysis of short-term cultures of one non-secreting and one prolactin-producing pituitary adenoma revealed simple clonal numerical abnormalities in both tumors. The karyotype of the non-secreting adenoma was 48,XX, +4, +9[42]/49,XX, +4, +9, +20[2]/46,XX[6]. In the prolactin...

A Semi-implicit Numerical Scheme for a Two-dimensional, Three-field Thermo-Hydraulic Modeling

International Nuclear Information System (INIS)

Hwang, Moonkyu; Jeong, Jaejoon

2007-07-01

The behavior of two-phase flow is modeled, depending on the purpose, by either homogeneous model, drift flux model, or separated flow model, Among these model, in the separated flow model, the behavior of each flow phase is modeled by its own governing equation, together with the interphase models which describe the thermal and mechanical interactions between the phases involved. In this study, a semi-implicit numerical scheme for two-dimensional, transient, two-fluid, three-field is derived. The work is an extension to the previous study for the staggered, semi-implicit numerical scheme in one-dimensional geometry (KAERI/TR-3239/2006). The two-dimensional extension is performed by specifying a relevant governing equation set and applying the related finite differencing method. The procedure for employing the semi-implicit scheme is also described in detail. Verifications are performed for a 2-dimensional vertical plate for a single-phase and two-phase flows. The calculations verify the mass and energy conservations. The symmetric flow behavior, for the verification problem, also confirms the momentum conservation of the numerical scheme

Shark class II invariant chain reveals ancient conserved relationships with cathepsins and MHC class II.

Science.gov (United States)

Criscitiello, Michael F; Ohta, Yuko; Graham, Matthew D; Eubanks, Jeannine O; Chen, Patricia L; Flajnik, Martin F

2012-03-01

The invariant chain (Ii) is the critical third chain required for the MHC class II heterodimer to be properly guided through the cell, loaded with peptide, and expressed on the surface of antigen presenting cells. Here, we report the isolation of the nurse shark Ii gene, and the comparative analysis of Ii splice variants, expression, genomic organization, predicted structure, and function throughout vertebrate evolution. Alternative splicing to yield Ii with and without the putative protease-protective, thyroglobulin-like domain is as ancient as the MHC-based adaptive immune system, as our analyses in shark and lizard further show conservation of this mechanism in all vertebrate classes except bony fish. Remarkable coordinate expression of Ii and class II was found in shark tissues. Conserved Ii residues and cathepsin L orthologs suggest their long co-evolution in the antigen presentation pathway, and genomic analyses suggest 450 million years of conserved Ii exon/intron structure. Other than an extended linker preceding the thyroglobulin-like domain in cartilaginous fish, the Ii gene and protein are predicted to have largely similar physiology from shark to man. Duplicated Ii genes found only in teleosts appear to have become sub-functionalized, as one form is predicted to play the same role as that mediated by Ii mRNA alternative splicing in all other vertebrate classes. No Ii homologs or potential ancestors of any of the functional Ii domains were found in the jawless fish or lower chordates. Copyright © 2011 Elsevier Ltd. All rights reserved.

A NUMERICAL TREATMENT OF ANISOTROPIC RADIATION FIELDS COUPLED WITH RELATIVISTIC RESISTIVE MAGNETOFLUIDS

Energy Technology Data Exchange (ETDEWEB)

Takahashi, Hiroyuki R. [Center for Computational Astrophysics, National Astronomical Observatory of Japan, Mitaka, Tokyo 181-8588 (Japan); Ohsuga, Ken [Division of Theoretical Astronomy, National Astronomical Observatory of Japan, Mitaka, Tokyo 181-8588 (Japan)

2013-08-01

We develop a numerical scheme for solving fully special relativistic, resistive radiation magnetohydrodynamics. Our code guarantees conservation of total mass, momentum, and energy. The radiation energy density and the radiation flux are consistently updated using the M-1 closure method, which can resolve an anisotropic radiation field, in contrast to the Eddington approximation, as well as the flux-limited diffusion approximation. For the resistive part, we adopt a simple form of Ohm's law. The advection terms are explicitly solved with an approximate Riemann solver, mainly the Harten-Lax-van Leer scheme; the HLLC and HLLD schemes are also solved for some tests. The source terms, which describe the gas-radiation interaction and the magnetic energy dissipation, are implicitly integrated, relaxing the Courant-Friedrichs-Lewy condition even in an optically thick regime or a large magnetic Reynolds number regime. Although we need to invert 4 Multiplication-Sign 4 matrices (for the gas-radiation interaction) and 3 Multiplication-Sign 3 matrices (for the magnetic energy dissipation) at each grid point for implicit integration, they are obtained analytically without preventing massive parallel computing. We show that our code gives reasonable outcomes in numerical tests for ideal magnetohydrodynamics, propagating radiation, and radiation hydrodynamics. We also applied our resistive code to the relativistic Petschek-type magnetic reconnection, revealing the reduction of the reconnection rate via radiation drag.

A NUMERICAL TREATMENT OF ANISOTROPIC RADIATION FIELDS COUPLED WITH RELATIVISTIC RESISTIVE MAGNETOFLUIDS

International Nuclear Information System (INIS)

Takahashi, Hiroyuki R.; Ohsuga, Ken

2013-01-01

We develop a numerical scheme for solving fully special relativistic, resistive radiation magnetohydrodynamics. Our code guarantees conservation of total mass, momentum, and energy. The radiation energy density and the radiation flux are consistently updated using the M-1 closure method, which can resolve an anisotropic radiation field, in contrast to the Eddington approximation, as well as the flux-limited diffusion approximation. For the resistive part, we adopt a simple form of Ohm's law. The advection terms are explicitly solved with an approximate Riemann solver, mainly the Harten-Lax-van Leer scheme; the HLLC and HLLD schemes are also solved for some tests. The source terms, which describe the gas-radiation interaction and the magnetic energy dissipation, are implicitly integrated, relaxing the Courant-Friedrichs-Lewy condition even in an optically thick regime or a large magnetic Reynolds number regime. Although we need to invert 4 × 4 matrices (for the gas-radiation interaction) and 3 × 3 matrices (for the magnetic energy dissipation) at each grid point for implicit integration, they are obtained analytically without preventing massive parallel computing. We show that our code gives reasonable outcomes in numerical tests for ideal magnetohydrodynamics, propagating radiation, and radiation hydrodynamics. We also applied our resistive code to the relativistic Petschek-type magnetic reconnection, revealing the reduction of the reconnection rate via radiation drag

Saturation of THz detection in InGaAs-based HEMTs: a numerical analysis

Energy Technology Data Exchange (ETDEWEB)

Mahi, A. [Centre Universitaire Nour Bachir, B.P. 900, 32000 El Bayadh (Algeria); Palermo, C., E-mail: christophe.palermo@umontpellier.fr [University of Montpellier, IES, UMR 5214, 34000 Montpellier (France); CNRS, IES, UMR 5214, 34000 Montpellier (France); Marinchio, H. [University of Montpellier, IES, UMR 5214, 34000 Montpellier (France); CNRS, IES, UMR 5214, 34000 Montpellier (France); Belgachi, A. [University of Bechar, Bechar 08000 (Algeria); Varani, L. [University of Montpellier, IES, UMR 5214, 34000 Montpellier (France); CNRS, IES, UMR 5214, 34000 Montpellier (France)

2016-11-01

By numerical simulations, we investigate the large-signal photoresponse of InGaAs high electron mobility transistors submitted to THz radiations. The used pseudo-2D hydrodynamic model considers electron density and velocity conservations equations. A third equation is solved, in order to describe average energy conservation or to maintain it constantly equal to its thermal equilibrium value. In both cases, the calculated photoresponse increases with the incoming power density for its smallest values. For the higher values, a saturation of the photoresponse is observed, in agreement with experimental results, only when the energy conservation is accounted for. This allows to relate the limitation of the transistor detection features to electron heating phenomenon.

Characteristic times in the English Channel from numerical modelling: supporting decision-making

Energy Technology Data Exchange (ETDEWEB)

Perianez, R [Departamento de Fisica Aplicada 1, Universidad de Sevilla, EUITA, Carretera Utrera km 1, 41013 Sevilla (Spain); Miro, C [Departamento de Fisica Aplicada, Facultad de Veterinaria, Universidad de Extremadura, Avenida de la Universidad s/n, 10071 Caceres (Spain)], E-mail: rperianez@us.es, E-mail: cmiro@unex.es

2009-06-15

A numerical model that simulates the dispersion of radionuclides in the English Channel has been applied to study the dispersion of conservative and non-conservative radionuclides released from the La Hague nuclear fuel reprocessing plant. The model is based upon previous work and now is able to simulate dispersion over long timescales (decades), explicitly including transport by instantaneous tidal currents and variable wind conditions. Wind conditions are obtained from meteorological statistics using a stochastic method. Outputs from the model are treated using time-series analysis techniques. These techniques allow the determination of characteristic times of the system, transport velocities and dispersion factors. This information may be very useful to support the decision-making process after an emergency situation. Thus, we are proposing that time-series analysis can be integrated with numerical modelling for helping decision-making in response to an accident. The model is first validated through its application to actual releases of {sup 99}Tc and {sup 125}Sb, comparing measured and computed concentrations, and characteristic times for three radionuclides are given next: a perfectly conservative one, a very reactive one ({sup 239,240}Pu) and {sup 137}Cs, which has an intermediate behaviour. Characteristic transport velocities and dispersion factors have been calculated as well. Model results are supported by experimental evidence.

Conservation laws with non-convex flux and applications to two-phase flow in porous media

Energy Technology Data Exchange (ETDEWEB)

Tegnander, Cathrine

1998-12-31

This thesis deals with conservation laws, which form a family of partial differential equations (PDEs) describing conservation of mass, momentum and energy. The first part studies some theoretical aspects of conservation laws: (1) Scalar hyperbolic conservation laws with a non-convex flux function, where time dependent decay estimates are mainly obtained by a front tracking technique, (2) Convergence of solutions for a finite difference scheme given by a class of one dimensional parabolic systems. The second part of the thesis applies the theory to multiphase flow in porous media. A number of mathematical models for multiphase flow in groundwater are studied. Techniques to improve the study of simulations of oil, gas and water phases in reservoirs such as in the North Sea are discussed. Upscaling of a refinement of the permeability field is evaluated using a flow simulation. This is done by a study of the preserving of the rank of a number of realizations with respect to the cumulative production parameter. Finally, the importance of selection of numerical methods in the simulations are exemplified by considering various splitting techniques. The numerical methods of front tracking and finite difference schemes and finite element methods are used. 98 refs., 24 figs., 18 tabs.

Multiple Identified Neurons and Peripheral Nerves Innervating the Prothoracic Defense Glands in Stick Insects Reveal Evolutionary Conserved and Novel Elements of a Chemical Defense System

Directory of Open Access Journals (Sweden)

Johannes Strauß

2017-11-01

Full Text Available The defense glands in the dorsal prothorax are an important autapomorphic trait of stick insects (Phasmatodea. Here, we study the functional anatomy and neuronal innervation of the defense glands in Anisomorpha paromalus (Westwood, 1859 (Pseudophasmatinae, a species which sprays its defense secretions when disturbed or attacked. We use a neuroanatomical approach to identify the nerves innervating the gland muscles and the motoneurons with axons in the different nerves. The defense gland is innervated by nerves originating from two segments, the subesophageal ganglion (SOG, and the prothoracic ganglion. Axonal tracing confirms the gland innervation via the anterior subesophageal nerve, and two intersegmental nerves, the posterior subesophageal nerve, and the anterior prothoracic nerve. Axonal tracing of individual nerves reveals eight identified neuron types in the subesophageal or prothoracic ganglion. The strongest innervating nerve of the gland is the anterior subesophageal nerve, which also supplies dorsal longitudinal thorax muscles (neck muscles by separate nerve branches. Tracing of individual nerve branches reveals different sets of motoneurons innervating the defense gland (one ipsilateral and one contralateral subesophageal neuron or the neck muscle (ventral median neurons. The ipsilateral and contralateral subesophageal neurons have no homologs in related taxa like locusts and crickets, and thus evolved within stick insects with the differentiation of the defense glands. The overall innervation pattern suggests that the longitudinal gland muscles derived from dorsal longitudinal neck muscles. In sum, the innervating nerves for dorsal longitudinal muscles are conserved in stick insects, while the neuronal control system was specialized with conserved motoneurons for the persisting neck muscles, and evolutionarily novel subesophageal and prothoracic motoneurons innervating the defense gland.

An upwind space-time conservation element and solution element scheme for solving dusty gas flow model

Directory of Open Access Journals (Sweden)

Asad Rehman

Full Text Available An upwind space-time conservation element and solution element (CE/SE scheme is extended to numerically approximate the dusty gas flow model. Unlike central CE/SE schemes, the current method uses the upwind procedure to derive the numerical fluxes through the inner boundary of conservation elements. These upwind fluxes are utilized to calculate the gradients of flow variables. For comparison and validation, the central upwind scheme is also applied to solve the same dusty gas flow model. The suggested upwind CE/SE scheme resolves the contact discontinuities more effectively and preserves the positivity of flow variables in low density flows. Several case studies are considered and the results of upwind CE/SE are compared with the solutions of central upwind scheme. The numerical results show better performance of the upwind CE/SE method as compared to the central upwind scheme. Keywords: Dusty gas flow, Solid particles, Upwind schemes, Rarefaction wave, Shock wave, Contact discontinuity

A Taylor weak-statement algorithm for hyperbolic conservation laws

Science.gov (United States)

Baker, A. J.; Kim, J. W.

1987-01-01

Finite element analysis, applied to computational fluid dynamics (CFD) problem classes, presents a formal procedure for establishing the ingredients of a discrete approximation numerical solution algorithm. A classical Galerkin weak-statement formulation, formed on a Taylor series extension of the conservation law system, is developed herein that embeds a set of parameters eligible for constraint according to specification of suitable norms. The derived family of Taylor weak statements is shown to contain, as special cases, over one dozen independently derived CFD algorithms published over the past several decades for the high speed flow problem class. A theoretical analysis is completed that facilitates direct qualitative comparisons. Numerical results for definitive linear and nonlinear test problems permit direct quantitative performance comparisons.

Energy conservation attitudes, knowledge, and behaviors in science laboratories

International Nuclear Information System (INIS)

Kaplowitz, Michael D.; Thorp, Laurie; Coleman, Kayla; Kwame Yeboah, Felix

2012-01-01

Energy use per square foot from science research labs is disproportionately higher than that of other rooms in buildings on campuses across the nation. This is partly due to labs’ use of energy intensive equipment. However, laboratory management and personnel behavior may be significant contributing factors to energy consumption. Despite an apparent increasing need for energy conservation in science labs, a systematic investigation of avenues promoting energy conservation behavior in such labs appears absent in scholarly literature. This paper reports the findings of a recent study into the energy conservation knowledge, attitude and behavior of principle investigators, laboratory managers, and student lab workers at a tier 1 research university. The study investigates potential barriers as well as promising avenues to reducing energy consumption in science laboratories. The findings revealed: (1) an apparent lack of information about options for energy conservation in science labs, (2) existing operational barriers, (3) economic issues as barriers/motivators of energy conservation and (4) a widespread notion that cutting edge science may be compromised by energy conservation initiatives. - Highlights: ► Effective energy conservation and efficiency depend on social systems and human behaviors. ► Science laboratories use more energy per square foot than any other academic and research spaces. ► Time, money, quality control, and convenience overshadow personnel’s desire to save energy. ► Ignorance of conservation practices is a barrier to energy conservation in labs.

MAKING DECISIONS ABOUT BIODIVERSITY CONSERVATION: A STUDY IN PRE-SERVICE TEACHER EDUCATION

Directory of Open Access Journals (Sweden)

Camila S. Miani

2016-12-01

Full Text Available Biodiversity conservation is a current environmental concern that reveals the competing priorities of economic development and environmental preservation. These issues are currently being debated at various levels of society, and decisions are made based not only on scientific knowledge but also on opinions and values. Among the reasons commonly used to justify current environmental demands for biodiversity conservation, Sarkar (2005 has identified three “flawed arguments” to be avoided. Because the discussion of biodiversity conservation is a current demand, it should also be addressed in the field of education. Biology teachers should be prepared to engage their students in discussion about all aspects of biodiversity conservation. In light of the need to train professionals who are capable of addressing complex issues such as this, the following may be asked: What do biology students consider when making decisions about the use and conservation of biodiversity? Do the flawed arguments identified by Sarkar (2005 factor into their reasoning? This research analyzes reports produced following a teaching activity known as “decision making.” The results reveal not only students’ concern for environmental issues, particularly regarding water resources, but also the presence of two of Sarkar’s flawed arguments. The limits of students’ knowledge of the subject also become evident.

Full-length RNA structure prediction of the HIV-1 genome reveals a conserved core domain

DEFF Research Database (Denmark)

Sükösd, Zsuzsanna; Andersen, Ebbe Sloth; Seemann, Ernst Stefan

2015-01-01

of the HIV-1 genome is highly variable in most regions, with a limited number of stable and conserved RNA secondary structures. Most interesting, a set of long distance interactions form a core organizing structure (COS) that organize the genome into three major structural domains. Despite overlapping...

On the application of subcell resolution to conservation laws with stiff source terms

International Nuclear Information System (INIS)

Chang, S.

1989-11-01

LeVeque and Yee recently investigated a one-dimensional scalar conservation law with stiff source terms modeling the reacting flow problems and discovered that for the very stiff case most of the current finite difference methods developed for non-reacting flows would produce wrong solutions when there is a propagating discontinuity. A numerical scheme, essentially nonoscillatory/subcell resolution - characteristic direction (ENO/SRCD), is proposed for solving conservation laws with stiff source terms. This scheme is a modification of Harten's ENO scheme with subcell resolution, ENO/SR. The locations of the discontinuities and the characteristic directions are essential in the design. Strang's time-splitting method is used and time evolutions are done by advancing along the characteristics. Numerical experiment using this scheme shows excellent results on the model problem of LeVeque and Yee. Comparisons of the results of ENO, ENO/SR, and ENO/SRCD are also presented

The structure of a conserved piezo channel domain reveals a topologically distinct β sandwich fold.

Science.gov (United States)

Kamajaya, Aron; Kaiser, Jens T; Lee, Jonas; Reid, Michelle; Rees, Douglas C

2014-10-07

Piezo has recently been identified as a family of eukaryotic mechanosensitive channels composed of subunits containing over 2,000 amino acids, without recognizable sequence similarity to other channels. Here, we present the crystal structure of a large, conserved extramembrane domain located just before the last predicted transmembrane helix of C. elegans PIEZO, which adopts a topologically distinct β sandwich fold. The structure was also determined of a point mutation located on a conserved surface at the position equivalent to the human PIEZO1 mutation found in dehydrated hereditary stomatocytosis patients (M2225R). While the point mutation does not change the overall domain structure, it does alter the surface electrostatic potential that may perturb interactions with a yet-to-be-identified ligand or protein. The lack of structural similarity between this domain and any previously characterized fold, including those of eukaryotic and bacterial channels, highlights the distinctive nature of the Piezo family of eukaryotic mechanosensitive channels. Copyright © 2014 Elsevier Ltd. All rights reserved.

Numerical Diffusion Effect in Dynamic Simulation of Thermohydraulic Systems

International Nuclear Information System (INIS)

Zanocco, Pablo; Gimenez, Marcelo; Delmastro, Dario

2003-01-01

In this work, the behavior of the explicit - up-wind method is studied in two phase natural convection circuit, near the instabilities boundaries.The effect of the numerical diffusion of the scheme upon the system stability is evaluated by means of linearization by small perturbations.The results are compared with a non-diffusive method, in the frequency domain, that solves analytically the linearized equations around a steady state condition.Moreover, a conservation equation transport model using the method of characteristics is implemented and studied.This method is compared with the explicit - up-wind scheme and it is found that it significantly reduces numerical diffusion in the equations solution. Several advantages are visualized for particular cases

Multi-symplectic Runge-Kutta methods for nonlinear Dirac equations

International Nuclear Information System (INIS)

Hong Jialin; Li Chun

2006-01-01

In this paper, we consider the multi-symplectic Runge-Kutta (MSRK) methods applied to the nonlinear Dirac equation in relativistic quantum physics, based on a discovery of the multi-symplecticity of the equation. In particular, the conservation of energy, momentum and charge under MSRK discretizations is investigated by means of numerical experiments and numerical comparisons with non-MSRK methods. Numerical experiments presented reveal that MSRK methods applied to the nonlinear Dirac equation preserve exactly conservation laws of charge and momentum, and conserve the energy conservation in the corresponding numerical accuracy to the method utilized. It is verified numerically that MSRK methods are stable and convergent with respect to the conservation laws of energy, momentum and charge, and MSRK methods preserve not only the inner geometric structure of the equation, but also some crucial conservative properties in quantum physics. A remarkable advantage of MSRK methods applied to the nonlinear Dirac equation is the precise preservation of charge conservation law

A second-order iterative implicit-explicit hybrid scheme for hyperbolic systems of conservation laws

International Nuclear Information System (INIS)

Dai, Wenlong; Woodward, P.R.

1996-01-01

An iterative implicit-explicit hybrid scheme is proposed for hyperbolic systems of conservation laws. Each wave in a system may be implicitly, or explicitly, or partially implicitly and partially explicitly treated depending on its associated Courant number in each numerical cell, and the scheme is able to smoothly switch between implicit and explicit calculations. The scheme is of Godunov-type in both explicit and implicit regimes, is in a strict conservation form, and is accurate to second-order in both space and time for all Courant numbers. The computer code for the scheme is easy to vectorize. Multicolors proposed in this paper may reduce the number of iterations required to reach a converged solution by several orders for a large time step. The feature of the scheme is shown through numerical examples. 38 refs., 12 figs

DNA barcoding applied to ex situ tropical amphibian conservation programme reveals cryptic diversity in captive populations.

Science.gov (United States)

Crawford, Andrew J; Cruz, Catalina; Griffith, Edgardo; Ross, Heidi; Ibáñez, Roberto; Lips, Karen R; Driskell, Amy C; Bermingham, Eldredge; Crump, Paul

2013-11-01

Amphibians constitute a diverse yet still incompletely characterized clade of vertebrates, in which new species are still being discovered and described at a high rate. Amphibians are also increasingly endangered, due in part to disease-driven threats of extinctions. As an emergency response, conservationists have begun ex situ assurance colonies for priority species. The abundance of cryptic amphibian diversity, however, may cause problems for ex situ conservation. In this study we used a DNA barcoding approach to survey mitochondrial DNA (mtDNA) variation in captive populations of 10 species of Neotropical amphibians maintained in an ex situ assurance programme at El Valle Amphibian Conservation Center (EVACC) in the Republic of Panama. We combined these mtDNA sequences with genetic data from presumably conspecific wild populations sampled from across Panama, and applied genetic distance-based and character-based analyses to identify cryptic lineages. We found that three of ten species harboured substantial cryptic genetic diversity within EVACC, and an additional three species harboured cryptic diversity among wild populations, but not in captivity. Ex situ conservation efforts focused on amphibians are therefore vulnerable to an incomplete taxonomy leading to misidentification among cryptic species. DNA barcoding may therefore provide a simple, standardized protocol to identify cryptic diversity readily applicable to any amphibian community. © 2012 John Wiley & Sons Ltd.

Non-invasive genetics outperforms morphological methods in faecal dietary analysis, revealing wild boar as a considerable conservation concern for ground-nesting birds.

Science.gov (United States)

Oja, Ragne; Soe, Egle; Valdmann, Harri; Saarma, Urmas

2017-01-01

Capercaillie (Tetrao urogallus) and other grouse species represent conservation concerns across Europe due to their negative abundance trends. In addition to habitat deterioration, predation is considered a major factor contributing to population declines. While the role of generalist predators on grouse predation is relatively well known, the impact of the omnivorous wild boar has remained elusive. We hypothesize that wild boar is an important predator of ground-nesting birds, but has been neglected as a bird predator because traditional morphological methods underestimate the proportion of birds in wild boar diet. To distinguish between different mammalian predator species, as well as different grouse prey species, we developed a molecular method based on the analysis of mitochondrial DNA that allows accurate species identification. We collected 109 wild boar faeces at protected capercaillie leks and surrounding areas and analysed bird consumption using genetic methods and classical morphological examination. Genetic analysis revealed that the proportion of birds in wild boar faeces was significantly higher (17.3%; 4.5×) than indicated by morphological examination (3.8%). Moreover, the genetic method allowed considerably more precise taxonomic identification of consumed birds compared to morphological analysis. Our results demonstrate: (i) the value of using genetic approaches in faecal dietary analysis due to their higher sensitivity, and (ii) that wild boar is an important predator of ground-nesting birds, deserving serious consideration in conservation planning for capercaillie and other grouse.

TE/TM field solver for particle beam simulations without numerical Cherenkov radiation

Directory of Open Access Journals (Sweden)

Igor Zagorodnov

2005-04-01

Full Text Available The Yee finite-difference time domain method (FDTD is commonly used in wake field and particle-in-cell simulations. However, in accelerator modeling the high energy particles can travel in vacuum faster than their own radiation. This effect is commonly referred to as numerical Cherenkov radiation and is a consequence of numerical grid dispersion. Several numerical approaches are proposed to reduce the dispersion for all angles and for a given frequency range, that justifies itself for domains big in all three directions. On the contrary, in accelerator modeling the transverse dimensions and transverse beam velocity are small, but it is extremely important to eliminate the dispersion error in the well-defined direction of the beam motion for all frequencies. In this paper we propose a new two-level economical conservative scheme for electromagnetic field calculations in three dimensions. The scheme does not have dispersion in the longitudinal direction and is staircase-free (second order convergent. Unlike the FDTD method, it is based on a “transversal-electric/transversal-magnetic” (TE/TM-like splitting of the field components in time. The scheme assures energy and charge conservation. Additionally, the usage of damping terms allows suppressing high frequency noise generated due to the transverse dispersion and the current fluctuations. The dispersion relation of the damping scheme is analyzed. As numerical examples show, the new scheme is much more accurate on the long-time scale than the conventional FDTD approach.

Numerical compliance testing of human exposure to electromagnetic radiation from smart-watches.

Science.gov (United States)

Hong, Seon-Eui; Lee, Ae-Kyoung; Kwon, Jong-Hwa; Pack, Jeong-Ki

2016-10-07

In this study, we investigated the electromagnetic dosimetry for smart-watches. At present, the standard for compliance testing of body-mounted and handheld devices specifies the use of a flat phantom to provide conservative estimates of the peak spatial-averaged specific absorption rate (SAR). This means that the estimated SAR using a flat phantom should be higher than the SAR in the exposure part of an anatomical human-body model. To verify this, we numerically calculated the SAR for a flat phantom and compared it with the numerical calculation of the SAR for four anatomical human-body models of different ages. The numerical analysis was performed using the finite difference time domain method (FDTD). The smart-watch models were used in the three antennas: the shorted planar inverted-F antenna (PIFA), loop antenna, and monopole antenna. Numerical smart-watch models were implemented for cellular commutation and wireless local-area network operation at 835, 1850, and 2450 MHz. The peak spatial-averaged SARs of the smart-watch models are calculated for the flat phantom and anatomical human-body model for the wrist-worn and next to mouth positions. The results show that the flat phantom does not provide a consistent conservative SAR estimate. We concluded that the difference in the SAR results between an anatomical human-body model and a flat phantom can be attributed to the different phantom shapes and tissue structures.

A hybrid Eulerian–Lagrangian numerical scheme for solving prognostic equations in fluid dynamics

Directory of Open Access Journals (Sweden)

E. Kaas

2013-11-01

Full Text Available A new hybrid Eulerian–Lagrangian numerical scheme (HEL for solving prognostic equations in fluid dynamics is proposed. The basic idea is to use an Eulerian as well as a fully Lagrangian representation of all prognostic variables. The time step in Lagrangian space is obtained as a translation of irregularly spaced Lagrangian parcels along downstream trajectories. Tendencies due to other physical processes than advection are calculated in Eulerian space, interpolated, and added to the Lagrangian parcel values. A directionally biased mixing amongst neighboring Lagrangian parcels is introduced. The rate of mixing is proportional to the local deformation rate of the flow. The time stepping in Eulerian representation is achieved in two steps: first a mass-conserving Eulerian or semi-Lagrangian scheme is used to obtain a provisional forecast. This forecast is then nudged towards target values defined from the irregularly spaced Lagrangian parcel values. The nudging procedure is defined in such a way that mass conservation and shape preservation is ensured in Eulerian space. The HEL scheme has been designed to be accurate, multi-tracer efficient, mass conserving, and shape preserving. In Lagrangian space only physically based mixing takes place; i.e., the problem of artificial numerical mixing is avoided. This property is desirable in atmospheric chemical transport models since spurious numerical mixing can impact chemical concentrations severely. The properties of HEL are here verified in two-dimensional tests. These include deformational passive transport on the sphere, and simulations with a semi-implicit shallow water model including topography.

Conservative modelling of the moisture and heat transfer in building components under atmospheric excitation

DEFF Research Database (Denmark)

Janssen, Hans; Blocken, Bert; Carmeliet, Jan

2007-01-01

While the transfer equations for moisture and heat in building components are currently undergoing standardisation, atmospheric boundary conditions, conservative modelling and numerical efficiency are not addressed. In a first part, this paper adds a comprehensive description of those boundary...

A numerical model on thermodynamic analysis of free piston Stirling engines

Science.gov (United States)

Mou, Jian; Hong, Guotong

2017-02-01

In this paper, a new numerical thermodynamic model which bases on the energy conservation law has been used to analyze the free piston Stirling engine. In the model all data was taken from a real free piston Stirling engine which has been built in our laboratory. The energy conservation equations have been applied to expansion space and compression space of the engine. The equation includes internal energy, input power, output power, enthalpy and the heat losses. The heat losses include regenerative heat conduction loss, shuttle heat loss, seal leakage loss and the cavity wall heat conduction loss. The numerical results show that the temperature of expansion space and the temperature of compression space vary with the time. The higher regeneration effectiveness, the higher efficiency and bigger output work. It is also found that under different initial pressures, the heat source temperature, phase angle and engine work frequency pose different effects on the engine’s efficiency and power. As a result, the model is expected to be a useful tool for simulation, design and optimization of Stirling engines.

Application of an analytical method for solution of thermal hydraulic conservation equations

Energy Technology Data Exchange (ETDEWEB)

Fakory, M.R. [Simulation, Systems & Services Technologies Company (S3 Technologies), Columbia, MD (United States)

1995-09-01

An analytical method has been developed and applied for solution of two-phase flow conservation equations. The test results for application of the model for simulation of BWR transients are presented and compared with the results obtained from application of the explicit method for integration of conservation equations. The test results show that with application of the analytical method for integration of conservation equations, the Courant limitation associated with explicit Euler method of integration was eliminated. The results obtained from application of the analytical method (with large time steps) agreed well with the results obtained from application of explicit method of integration (with time steps smaller than the size imposed by Courant limitation). The results demonstrate that application of the analytical approach significantly improves the numerical stability and computational efficiency.

Numerical Simulation of the Oscillations in a Mixer: An Internal Aeroacoustic Feedback System

Science.gov (United States)

Jorgenson, Philip C. E.; Loh, Ching Y.

2004-01-01

The space-time conservation element and solution element method is employed to numerically study the acoustic feedback system in a high temperature, high speed wind tunnel mixer. The computation captures the self-sustained feedback loop between reflecting Mach waves and the shear layer. This feedback loop results in violent instabilities that are suspected of causing damage to some tunnel components. The computed frequency is in good agreement with the available experimental data. The physical phenomena are explained based on the numerical results.

Ion diode simulation with a finite-volume PIC approach for the numerical solution of the Maxwell-Lorentz system

Energy Technology Data Exchange (ETDEWEB)

Munz, C D; Schneider, R; Stein, E; Voss, U [Forschungszentrum Karlsruhe (Germany). Institut fuer Neutronenphysik und Reaktortechnik; Westermann, T [FH Karlsruhe (Germany). Fachbereich Naturwissenschaften; Krauss, M [Forschungszentrum Karlsruhe (Germany). Hauptabteilung Informations- und Kommunikationstechik

1997-12-31

The numerical concept realized in the the Karlsruhe Diode Code KADI2D is briefly reviewed. Several new aspects concerning the Maxwell field solver based on high resolution finite-volume methods are presented. A new approach maintaining charge conservation numerically for the Maxwell-Lorentz equations is shortly summarized. (author). 2 figs., 12 refs.

Ion diode simulation with a finite-volume PIC approach for the numerical solution of the Maxwell-Lorentz system

International Nuclear Information System (INIS)

Munz, C.D.; Schneider, R.; Stein, E.; Voss, U.; Westermann, T.; Krauss, M.

1996-01-01

The numerical concept realized in the the Karlsruhe Diode Code KADI2D is briefly reviewed. Several new aspects concerning the Maxwell field solver based on high resolution finite-volume methods are presented. A new approach maintaining charge conservation numerically for the Maxwell-Lorentz equations is shortly summarized. (author). 2 figs., 12 refs

Using a {sigma}-coordinate numerical ocean model for simulating the circulation at Ormen Lange

Energy Technology Data Exchange (ETDEWEB)

Eliassen, Inge K.; Berntsen, Jarle

2000-01-01

This report describes a numerical model for the simulation of circulation at the Ormen Lange oil field. The model uses a topography following vertical coordinate and time split integration procedure. The model is implemented for a 28 km x 46 km area at Ormen Lange. The equations are given in detail and numerical experiments are discussed. The numerical studies investigate how the flow specified at open boundaries surrounding the Ormen Lange area may be interpolated into the interior domain taking into account the conservation laws that are believed to determine the flow and the local topography.

Unconditionally energy stable numerical schemes for phase-field vesicle membrane model

Science.gov (United States)

Guillén-González, F.; Tierra, G.

2018-02-01

Numerical schemes to simulate the deformation of vesicles membranes via minimizing the bending energy have been widely studied in recent times due to its connection with many biological motivated problems. In this work we propose a new unconditionally energy stable numerical scheme for a vesicle membrane model that satisfies exactly the conservation of volume constraint and penalizes the surface area constraint. Moreover, we extend these ideas to present an unconditionally energy stable splitting scheme decoupling the interaction of the vesicle with a surrounding fluid. Finally, the well behavior of the proposed schemes are illustrated through several computational experiments.

A social constructionist analysis of Canadian conservative blogs on Islamic terrorism

OpenAIRE

Woolsey, Benjamin John

2009-01-01

This is a mixed methods content analysis of discourse in the Canadian conservative blogosphere regarding Islamic terrorism. The data are primarily from three years’ worth of entries posted at Canada’s most popular political blog, smalldeadanimals.com (SDA). The analysis reveals that conservative discourse contains apprehension about global demographic trends, a critique of fundamental aspects of Islamic cultures and religious doctrine, and contempt for Western welfare and multicultural polici...

Stochastic porous media modeling and high-resolution schemes for numerical simulation of subsurface immiscible fluid flow transport

Science.gov (United States)

Brantson, Eric Thompson; Ju, Binshan; Wu, Dan; Gyan, Patricia Semwaah

2018-04-01

This paper proposes stochastic petroleum porous media modeling for immiscible fluid flow simulation using Dykstra-Parson coefficient (V DP) and autocorrelation lengths to generate 2D stochastic permeability values which were also used to generate porosity fields through a linear interpolation technique based on Carman-Kozeny equation. The proposed method of permeability field generation in this study was compared to turning bands method (TBM) and uniform sampling randomization method (USRM). On the other hand, many studies have also reported that, upstream mobility weighting schemes, commonly used in conventional numerical reservoir simulators do not accurately capture immiscible displacement shocks and discontinuities through stochastically generated porous media. This can be attributed to high level of numerical smearing in first-order schemes, oftentimes misinterpreted as subsurface geological features. Therefore, this work employs high-resolution schemes of SUPERBEE flux limiter, weighted essentially non-oscillatory scheme (WENO), and monotone upstream-centered schemes for conservation laws (MUSCL) to accurately capture immiscible fluid flow transport in stochastic porous media. The high-order schemes results match well with Buckley Leverett (BL) analytical solution without any non-oscillatory solutions. The governing fluid flow equations were solved numerically using simultaneous solution (SS) technique, sequential solution (SEQ) technique and iterative implicit pressure and explicit saturation (IMPES) technique which produce acceptable numerical stability and convergence rate. A comparative and numerical examples study of flow transport through the proposed method, TBM and USRM permeability fields revealed detailed subsurface instabilities with their corresponding ultimate recovery factors. Also, the impact of autocorrelation lengths on immiscible fluid flow transport were analyzed and quantified. A finite number of lines used in the TBM resulted into visual

Conservation and losses of non-coding RNAs in avian genomes.

Directory of Open Access Journals (Sweden)

Paul P Gardner

Full Text Available Here we present the results of a large-scale bioinformatics annotation of non-coding RNA loci in 48 avian genomes. Our approach uses probabilistic models of hand-curated families from the Rfam database to infer conserved RNA families within each avian genome. We supplement these annotations with predictions from the tRNA annotation tool, tRNAscan-SE and microRNAs from miRBase. We identify 34 lncRNA-associated loci that are conserved between birds and mammals and validate 12 of these in chicken. We report several intriguing cases where a reported mammalian lncRNA, but not its function, is conserved. We also demonstrate extensive conservation of classical ncRNAs (e.g., tRNAs and more recently discovered ncRNAs (e.g., snoRNAs and miRNAs in birds. Furthermore, we describe numerous "losses" of several RNA families, and attribute these to either genuine loss, divergence or missing data. In particular, we show that many of these losses are due to the challenges associated with assembling avian microchromosomes. These combined results illustrate the utility of applying homology-based methods for annotating novel vertebrate genomes.

Free surface modelling with two-fluid model and reduced numerical diffusion of the interface

International Nuclear Information System (INIS)

Strubelj, Luka; Tiselj, Izrok

2008-01-01

Full text of publication follows: The free surface flows are successfully modelled with one of existing free surface models, such as: level set method, volume of fluid method (with/without surface reconstruction), front tracking, two-fluid model (two momentum equations) with modified interphase force and others. The main disadvantage of two-fluid model used for simulations of free surface flows is numerical diffusion of the interface, which can be significantly reduced using the method presented in this paper. Several techniques for reduction of numerical diffusion of the interface have been implemented in the volume of fluid model and are based on modified numerical schemes for advection of volume fraction near the interface. The same approach could be used also for two-fluid method, but according to our experience more successful reduction of numerical diffusion of the interface can be achieved with conservative level set method. Within the conservative level set method, continuity equation for volume fraction is solved and after that the numerical diffusion of the interface is reduced in such a way that the thickness of the interface is kept constant during the simulation. Reduction of the interface diffusion can be also called interface sharpening. In present paper the two-fluid model with interface sharpening is validated on Rayleigh-Taylor instability. Under assumptions of isothermal and incompressible flow of two immiscible fluids, we simulated a system with the fluid of higher density located above the fluid of smaller density in two dimensions. Due to gravity in the system, fluid with higher density moves below the fluid with smaller density. Initial condition is not a flat interface between the fluids, but a sine wave with small amplitude, which develops into a mushroom-like structure. Mushroom-like structure in simulation of Rayleigh-Taylor instability later develops to small droplets as result of numerical dispersion of interface (interface sharpening

Application of symplectic integrator to numerical fluid analysis

International Nuclear Information System (INIS)

Tanaka, Nobuatsu

2000-01-01

This paper focuses on application of the symplectic integrator to numerical fluid analysis. For the purpose, we introduce Hamiltonian particle dynamics to simulate fluid behavior. The method is based on both the Hamiltonian formulation of a system and the particle methods, and is therefore called Hamiltonian Particle Dynamics (HPD). In this paper, an example of HPD applications, namely the behavior of incompressible inviscid fluid, is solved. In order to improve accuracy of HPD with respect to space, CIVA, which is a highly accurate interpolation method, is combined, but the combined method is subject to problems in that the invariants of the system are not conserved in a long-time computation. For solving the problems, symplectic time integrators are introduced and the effectiveness is confirmed by numerical analyses. (author)

Application of the HN method to radiative heat transfer for a non-conservative slab

International Nuclear Information System (INIS)

Bulut, S.; Guelecyuez, M.C.

2008-01-01

The H N method is used to calculate the partial fluxes relevant to radiative transfer in a plane parallel medium for linearly anisotropic scattering with specularly and diffusely reflecting boundaries. The solutions are obtained for the non-conservative case. The numerical values of the heat flux functions at the boundaries of the medium are calculated for the two source functions. The numerical results and the convergence of the H N method are compared with earlier results. (orig.)

Front tracking for hyperbolic conservation laws

CERN Document Server

Holden, Helge

2015-01-01

This is the second edition of a well-received book providing the fundamentals of the theory hyperbolic conservation laws. Several chapters have been rewritten, new material has been added, in particular, a chapter on space dependent flux functions, and the detailed solution of the Riemann problem for the Euler equations. Hyperbolic conservation laws are central in the theory of nonlinear partial differential equations and in science and technology. The reader is given a self-contained presentation using front tracking, which is also a numerical method. The multidimensional scalar case and the case of systems on the line are treated in detail. A chapter on finite differences is included. From the reviews of the first edition: "It is already one of the few best digests on this topic. The present book is an excellent compromise between theory and practice. Students will appreciate the lively and accurate style." D. Serre, MathSciNet  "I have read the book with great pleasure, and I can recommend it to experts ...

Residual distribution for general time-dependent conservation laws

International Nuclear Information System (INIS)

Ricchiuto, Mario; Csik, Arpad; Deconinck, Herman

2005-01-01

We consider the second-order accurate numerical solution of general time-dependent hyperbolic conservation laws over unstructured grids in the framework of the Residual Distribution method. In order to achieve full conservation of the linear, monotone and first-order space-time schemes of (Csik et al., 2003) and (Abgrall et al., 2000), we extend the conservative residual distribution (CRD) formulation of (Csik et al., 2002) to prismatic space-time elements. We then study the design of second-order accurate and monotone schemes via the nonlinear mapping of the local residuals of linear monotone schemes. We derive sufficient and necessary conditions for the well-posedness of the mapping. We prove that the schemes obtained with the CRD formulation satisfy these conditions by construction. Thus the nonlinear schemes proposed in this paper are always well defined. The performance of the linear and nonlinear schemes are evaluated on a series of test problems involving the solution of the Euler equations and of a two-phase flow model. We consider the resolution of strong shocks and complex interacting flow structures. The results demonstrate the robustness, accuracy and non-oscillatory character of the proposed schemes. d schemes

A direct Primitive Variable Recovery Scheme for hyperbolic conservative equations: The case of relativistic hydrodynamics.

Science.gov (United States)

Aguayo-Ortiz, A; Mendoza, S; Olvera, D

2018-01-01

In this article we develop a Primitive Variable Recovery Scheme (PVRS) to solve any system of coupled differential conservative equations. This method obtains directly the primitive variables applying the chain rule to the time term of the conservative equations. With this, a traditional finite volume method for the flux is applied in order avoid violation of both, the entropy and "Rankine-Hugoniot" jump conditions. The time evolution is then computed using a forward finite difference scheme. This numerical technique evades the recovery of the primitive vector by solving an algebraic system of equations as it is often used and so, it generalises standard techniques to solve these kind of coupled systems. The article is presented bearing in mind special relativistic hydrodynamic numerical schemes with an added pedagogical view in the appendix section in order to easily comprehend the PVRS. We present the convergence of the method for standard shock-tube problems of special relativistic hydrodynamics and a graphical visualisation of the errors using the fluctuations of the numerical values with respect to exact analytic solutions. The PVRS circumvents the sometimes arduous computation that arises from standard numerical methods techniques, which obtain the desired primitive vector solution through an algebraic polynomial of the charges.

Correlation of Numerical Anxiety and Mathematics Performance

Directory of Open Access Journals (Sweden)

Michael Howard D. Morada

2015-12-01

Full Text Available It has been observed that most students had negative view towards mathematics and as a result, they also performed poorly.As such, it is imperative for every math teacher to understand the reasons behind this negative view to improve their student’s performance. This observation led the researcher to conduct a study on Correlation of Mathematics Performance and Anxiety of third and fourth year students for school year 2012-2013 across the different programs.This study determined the numerical anxiety level and mathematics performance of the respondents along age, gender and programs. The study revealed that students, regardless of age had passing performance. However, female and male students had fair and passing mathematics performance, respectively. Students from College of Business Education, Teacher Education and Computer Studies had fair performance while those from Marine Transportation, Criminal Justice Education and Engineering had passing performance. The study also revealed that students across different variables had moderate numerical anxiety level. Furthermore, it was found out that mathematics performance is significantly related to numerical anxiety. However, the relationship was inverse and small.

Conservation laws arising in the study of forward-forward Mean-Field Games

KAUST Repository

Gomes, Diogo A.; Nurbekyan, Levon; Sedjro, Marc

2017-01-01

We consider forward-forward Mean Field Game (MFG) models that arise in numerical approximations of stationary MFGs. First, we establish a link between these models and a class of hyperbolic conservation laws as well as certain nonlinear wave equations. Second, we investigate existence and long-time behavior of solutions for such models.

Less Conservative ℋ∞ Fuzzy Control for Discrete-Time Takagi-Sugeno Systems

Directory of Open Access Journals (Sweden)

Leonardo Amaral Mozelli

2011-01-01

Full Text Available New analysis and control design conditions of discrete-time fuzzy systems are proposed. Using fuzzy Lyapunov's functions and introducing slack variables, less conservative conditions are obtained. The controller guarantees system stabilization and ℋ∞ performance. Numerical tests and a practical experiment in Chua's circuit are presented to show the effectiveness.

Conservation laws arising in the study of forward-forward Mean-Field Games

KAUST Repository

Gomes, Diogo A.

2017-04-24

We consider forward-forward Mean Field Game (MFG) models that arise in numerical approximations of stationary MFGs. First, we establish a link between these models and a class of hyperbolic conservation laws as well as certain nonlinear wave equations. Second, we investigate existence and long-time behavior of solutions for such models.

Integrating conservation costs into sea level rise adaptive conservation prioritization

Directory of Open Access Journals (Sweden)

Mingjian Zhu

2015-07-01

Full Text Available Biodiversity conservation requires strategic investment as resources for conservation are often limited. As sea level rises, it is important and necessary to consider both sea level rise and costs in conservation decision making. In this study, we consider costs of conservation in an integrated modeling process that incorporates a geomorphological model (SLAMM, species habitat models, and conservation prioritization (Zonation to identify conservation priorities in the face of landscape dynamics due to sea level rise in the Matanzas River basin of northeast Florida. Compared to conservation priorities that do not consider land costs in the analysis process, conservation priorities that consider costs in the planning process change significantly. The comparison demonstrates that some areas with high conservation values might be identified as lower priorities when integrating economic costs in the planning process and some areas with low conservation values might be identified as high priorities when considering costs in the planning process. This research could help coastal resources managers make informed decisions about where and how to allocate conservation resources more wisely to facilitate biodiversity adaptation to sea level rise.

Conservation potential of agricultural water conservation subsidies

Science.gov (United States)

Huffaker, Ray

2008-07-01

A current policy subsidizes farmers to invest in improved on-farm irrigation efficiency, expecting water to be conserved off farm. Contrary to expectation, water has been increasingly depleted in some regions after such improvements. This paper investigates the policy's failure to conserve water consistently by (1) formulating an economic model of irrigated crop production to determine a profit-maximizing irrigator's range of responses to a subsidy and (2) embedding these responses into hypothetical streamflow diagrams to ascertain their potential to conserve water under various hydrologic regimes. Testable hypotheses are developed to predict the conservation potential of a subsidy in real-world application.

A systematic survey of the integration of animal behavior into conservation

Science.gov (United States)

Berger-Tal, Oded; Blumstein, Daniel T.; Carroll, Scott; Fisher, Robert N.; Mesnick, Sarah L.; Owen, Megan A.; Saltz, David; St. Claire, Colleen Cassady; Swaisgood, Ronald R.

2016-01-01

The role of behavioral ecology in improving wildlife conservation and management has been the subject of much recent debate. We aim to answer two foundational questions about the current use of behavioral knowledge in conservation: 1. To what extent is behavioral knowledge used in wildlife conservation and management? 2. How does the use of behavior differ among conservation fields in both frequency and types of use? To answer these questions, we searched the literature for intersections between key fields of animal behavior and conservation biology and created a systematic ‘heat’ map to visualize relative efforts. Our analysis challenges previous suggestions that there is little association between the fields of behavioral ecology and conservation and reveals tremendous variation in the use of different behaviors in conservation. For instance, some behaviors, such as foraging and dispersal, are commonly considered, but other behaviors such as learning, social or anti-predatory behaviors are hardly considered. Our analysis suggests that in many cases awareness of the importance of behavior does not translate into applicable management tools. We recommend that researchers should focus on developing research in underutilized intersections of behavior and conservation themes for which preliminary work show a potential for improving conservation and management, on translating behavioral theory into applicable and testable predictions, and on creating systematic reviews to summarize the behavioral evidence within the behavior-conservation intersections for which many studies exist.

Incorporating social and cultural significance of large old trees in conservation policy.

Science.gov (United States)

Blicharska, Malgorzata; Mikusiński, Grzegorz

2014-12-01

In addition to providing key ecological functions, large old trees are a part of a social realm and as such provide numerous social-cultural benefits to people. However, their social and cultural values are often neglected when designing conservation policies and management guidelines. We believe that awareness of large old trees as a part of human identity and cultural heritage is essential when addressing the issue of their decline worldwide. Large old trees provide humans with aesthetic, symbolic, religious, and historic values, as well as concrete tangible benefits, such as leaves, branches, or nuts. In many cultures particularly large trees are treated with reverence. Also, contemporary popular culture utilizes the image of trees as sentient beings and builds on the ancient myths that attribute great powers to large trees. Although the social and cultural role of large old trees is usually not taken into account in conservation, accounting for human-related values of these trees is an important part of conservation policy because it may strengthen conservation by highlighting the potential synergies in protecting ecological and social values. © 2014 Society for Conservation Biology.

Transportation package design using numerical optimization

International Nuclear Information System (INIS)

Harding, D.C.; Witkowski, W.R.

1992-01-01

The design of structures and engineering systems has always been an iterative process whose complexity was dependent upon the boundary conditions, constraints and available analytical tools. Transportation packaging design is no exception with structural, thermal and radiation shielding constraints based on regulatory hypothetical accident conditions. Transportation packaging design is often accomplished by a group of specialists, each designing a single component based on one or more simple criteria, pooling results with the group, evaluating the open-quotes pooledclose quotes design, and then reiterating the entire process until a satisfactory design is reached. The manual iterative methods used by the designer/analyst can be summarized in the following steps: design the part, analyze the part, interpret the analysis results, modify the part, and re-analyze the part. The inefficiency of this design practice and the frequently conservative result suggests the need for a more structured design methodology, which can simultaneously consider all of the design constraints. Numerical optimization is a structured design methodology whose maturity in development has allowed it to become a primary design tool in many industries. The purpose of this overview is twofold: first, to outline the theory and basic elements of numerical optimization; and second, to show how numerical optimization can be applied to the transportation packaging industry and used to increase efficiency and safety of radioactive and hazardous material transportation packages. A more extensive review of numerical optimization and its applications to radioactive material transportation package design was performed previously by the authors (Witkowski and Harding 1992). A proof-of-concept Type B package design is also presented as a simplified example of potential improvements achievable using numerical optimization in the design process

Conservation businesses and conservation planning in a biological diversity hotspot.

Science.gov (United States)

Di Minin, Enrico; Macmillan, Douglas Craig; Goodman, Peter Styan; Escott, Boyd; Slotow, Rob; Moilanen, Atte

2013-08-01

The allocation of land to biological diversity conservation competes with other land uses and the needs of society for development, food, and extraction of natural resources. Trade-offs between biological diversity conservation and alternative land uses are unavoidable, given the realities of limited conservation resources and the competing demands of society. We developed a conservation-planning assessment for the South African province of KwaZulu-Natal, which forms the central component of the Maputaland-Pondoland-Albany biological diversity hotspot. Our objective was to enhance biological diversity protection while promoting sustainable development and providing spatial guidance in the resolution of potential policy conflicts over priority areas for conservation at risk of transformation. The conservation-planning assessment combined spatial-distribution models for 646 conservation features, spatial economic-return models for 28 alternative land uses, and spatial maps for 4 threats. Nature-based tourism businesses were competitive with other land uses and could provide revenues of >US$60 million/year to local stakeholders and simultaneously help meeting conservation goals for almost half the conservation features in the planning region. Accounting for opportunity costs substantially decreased conflicts between biological diversity, agricultural use, commercial forestry, and mining. Accounting for economic benefits arising from conservation and reducing potential policy conflicts with alternative plans for development can provide opportunities for successful strategies that combine conservation and sustainable development and facilitate conservation action. © 2013 Society for Conservation Biology.

Polynomial chaos methods for hyperbolic partial differential equations numerical techniques for fluid dynamics problems in the presence of uncertainties

CERN Document Server

Pettersson, Mass Per; Nordström, Jan

2015-01-01

This monograph presents computational techniques and numerical analysis to study conservation laws under uncertainty using the stochastic Galerkin formulation. With the continual growth of computer power, these methods are becoming increasingly popular as an alternative to more classical sampling-based techniques. The approach described in the text takes advantage of stochastic Galerkin projections applied to the original conservation laws to produce a large system of modified partial differential equations, the solutions to which directly provide a full statistical characterization of the effect of uncertainties. Polynomial Chaos Methods of Hyperbolic Partial Differential Equations focuses on the analysis of stochastic Galerkin systems obtained for linear and non-linear convection-diffusion equations and for a systems of conservation laws; a detailed well-posedness and accuracy analysis is presented to enable the design of robust and stable numerical methods. The exposition is restricted to one spatial dime...

Conservation physiology can inform threat assessment and recovery planning processes for threatened species

DEFF Research Database (Denmark)

Birnie-Gauvin, Kim; Walton, Sarah; Delle Palme, Caleigh A.

2017-01-01

threat assessments and work with partners to develop recovery plans. Here we argue that conservation physiology has much to offer for the threat assessment process and outline the ways in which this can be operationalized. For instance, conservation physiology is effective at revealing causal...... role in the conservation activities of bodies like the IUCN that are engaged in threat assessment and recovery of endangered organisms. Although we focus on activities at the international scale, these same concepts are relevant and applicable to national and regional bodies...

Advances in conservation endocrinology: the application of molecular approaches to the conservation of endangered species.

Science.gov (United States)

Tubbs, Christopher; McDonough, Caitlin E; Felton, Rachel; Milnes, Matthew R

2014-07-01

Among the numerous societal benefits of comparative endocrinology is the application of our collective knowledge of hormone signaling towards the conservation of threatened and endangered species - conservation endocrinology. For several decades endocrinologists have used longitudinal hormone profiles to monitor reproductive status in a multitude of species. Knowledge of reproductive status among individuals has been used to assist in the management of captive and free-ranging populations. More recently, researchers have begun utilizing molecular and cell-based techniques to gain a more complete understanding of hormone signaling in wildlife species, and to identify potential causes of disrupted hormone signaling. In this review we examine various in vitro approaches we have used to compare estrogen receptor binding and activation by endogenous hormones and phytoestrogens in two species of rhinoceros; southern white and greater one-horned. We have found many of these techniques valuable and practical in species where access to research subjects and/or tissues is limited due to their conservation status. From cell-free, competitive binding assays to full-length receptor activation assays; each technique has strengths and weaknesses related to cost, sensitivity, complexity of the protocols, and relevance to in vivo signaling. We then present a novel approach, in which receptor activation assays are performed in primary cell lines derived from the species of interest, to minimize the artifacts of traditional heterologous expression systems. Finally, we speculate on the promise of next generation sequencing and transcriptome profiling as tools for characterizing hormone signaling in threatened and endangered species. Copyright © 2014 Elsevier Inc. All rights reserved.

Biosocial Conservation: Integrating Biological and Ethnographic Methods to Study Human-Primate Interactions.

Science.gov (United States)

Setchell, Joanna M; Fairet, Emilie; Shutt, Kathryn; Waters, Siân; Bell, Sandra

2017-01-01

Biodiversity conservation is one of the grand challenges facing society. Many people interested in biodiversity conservation have a background in wildlife biology. However, the diverse social, cultural, political, and historical factors that influence the lives of people and wildlife can be investigated fully only by incorporating social science methods, ideally within an interdisciplinary framework. Cultural hierarchies of knowledge and the hegemony of the natural sciences create a barrier to interdisciplinary understandings. Here, we review three different projects that confront this difficulty, integrating biological and ethnographic methods to study conservation problems. The first project involved wildlife foraging on crops around a newly established national park in Gabon. Biological methods revealed the extent of crop loss, the species responsible, and an effect of field isolation, while ethnography revealed institutional and social vulnerability to foraging wildlife. The second project concerned great ape tourism in the Central African Republic. Biological methods revealed that gorilla tourism poses risks to gorillas, while ethnography revealed why people seek close proximity to gorillas. The third project focused on humans and other primates living alongside one another in Morocco. Incorporating shepherds in the coproduction of ecological knowledge about primates built trust and altered attitudes to the primates. These three case studies demonstrate how the integration of biological and social methods can help us to understand the sustainability of human-wildlife interactions, and thus promote coexistence. In each case, an integrated biosocial approach incorporating ethnographic data produced results that would not otherwise have come to light. Research that transcends conventional academic boundaries requires the openness and flexibility to move beyond one's comfort zone to understand and acknowledge the legitimacy of "other" kinds of knowledge. It is

Conservation of boundary extension mechanisms between plants and animals

OpenAIRE

Mathur, Jaideep

2005-01-01

Locomotion clearly sets plants and animals apart. However, recent studies in higher plants reveal cell-biological and molecular features similar to those observed at the leading edge of animal cells and suggest conservation of boundary extension mechanisms between motile animal cells and nonmotile plant cells.

Multistate proteomics analysis reveals novel strategies used by a hibernator to precondition the heart and conserve ATP for winter heterothermy

Science.gov (United States)

Grabek, Katharine R.; Karimpour-Fard, Anis; Epperson, L. Elaine; Hindle, Allyson; Hunter, Lawrence E.

2011-01-01

The hibernator's heart functions continuously and avoids damage across the wide temperature range of winter heterothermy. To define the molecular basis of this phenotype, we quantified proteomic changes in the 13-lined ground squirrel heart among eight distinct physiological states encompassing the hibernator's year. Unsupervised clustering revealed a prominent seasonal separation between the summer homeotherms and winter heterotherms, whereas within-season state separation was limited. Further, animals torpid in the fall were intermediate to summer and winter, consistent with the transitional nature of this phase. A seasonal analysis revealed that the relative abundances of protein spots were mainly winter-increased. The winter-elevated proteins were involved in fatty acid catabolism and protein folding, whereas the winter-depleted proteins included those that degrade branched-chain amino acids. To identify further state-dependent changes, protein spots were re-evaluated with respect to specific physiological state, confirming the predominance of seasonal differences. Additionally, chaperone and heat shock proteins increased in winter, including HSPA4, HSPB6, and HSP90AB1, which have known roles in protecting against ischemia-reperfusion injury and apoptosis. The most significant and greatest fold change observed was a disappearance of phospho-cofilin 2 at low body temperature, likely a strategy to preserve ATP. The robust summer-to-winter seasonal proteomic shift implies that a winter-protected state is orchestrated before prolonged torpor ensues. Additionally, the general preservation of the proteome during winter hibernation and an increase of stress response proteins, together with dephosphorylation of cofilin 2, highlight the importance of ATP-conserving mechanisms for winter cardioprotection. PMID:21914784

Seniority-conserving forces and USp(2j+1) partial dynamical symmetry

International Nuclear Information System (INIS)

Rosensteel, G.; Rowe, D.J.

2003-01-01

A quasispin tensor decomposition of the two-nucleon interaction determines the most general seniority-conserving rotationally invariant two-body interaction in a j shell. Such interactions define solvable and partially solvable shell model Hamiltonians for which the unitary symplectic algebra USp(2j+1) provides a complete set of quantum numbers for a subset of states. The matrix elements of seniority-conserving interactions are deduced from the matrix elements of USp(2j+1) operators. A new and powerful numerical technique is presented for computing irreps of the USp(2j+1) algebra. Applications are reported for the low-energy spectra of N=50 and N=126 isotones. The effects of including seniority nonconserving interactions are investigated

Charge-and-energy conserving moment-based accelerator for a multi-species Vlasov–Fokker–Planck–Ampère system, part I: Collisionless aspects

Energy Technology Data Exchange (ETDEWEB)

Taitano, William T., E-mail: taitano@lanl.gov; Chacón, Luis

2015-03-01

In this study, we propose a charge, momentum, and energy conserving discretization for the 1D–1V Vlasov–Ampère system of equations on an Eulerian grid. The new conservative discretization is nonlinear in nature, but can be efficiently converged with a moment-based nonlinear accelerator algorithm. We demonstrate the conservation and convergence properties of the scheme with various numerical examples, including a multi-scale ion–acoustic shockwave problem.

Threats, conservation strategies, and prognosis for suckers (Catostomidae) in North America: insights from regional case studies of a diverse family of non-game fishes

Science.gov (United States)

Cooke, Steven J.; Bunt, Christopher M.; Hamilton, Steven J.; Jennings, Cecil A.; Pearson, Micheal P.; Cooperman, Michael S.; Markle, Douglas F.

2005-01-01

Catostomid fishes are a diverse family of 76+ freshwater species that are distributed across North America in many different habitats. This group of fish is facing a variety of impacts and conservation issues that are somewhat unique relative to more economically valuable and heavily managed fish species. Here, we present a brief series of case studies to highlight the threats such as migration barriers, flow regulation, environmental contamination, habitat degradation, exploitation and impacts from introduced (non-native) species that are facing catostomids in different regions. Collectively, the case studies reveal that individual species usually are not threatened by a single, isolated factor. Instead, species in general face numerous stressors that threaten multiple stages of their life history. Several factors have retarded sucker conservation including widespread inabilities of field workers to distinguish some species, lack of basic natural history and ecological knowledge of life history, and the misconception that suckers are tolerant of degraded conditions and are of little social or ecological value. Without a specific constituent group lobbying for conservation of non-game fishes, all such species, including members of the catostomid family, will continue to face serious risks because of neglect, ignorance, and misunderstanding. We suggest that conservation strategies should incorporate research and education/outreach components. Other conservation strategies that would be effective for protecting suckers include freshwater protected areas for critical habitat, restoration of degraded habitat, and design of catostomid-friendly fish bypass facilities. We believe that the plight of the catostomids is representative of the threats facing many other non-game freshwater fishes with diverse life-history strategies globally.

Numerical and experimental investigation of the melt casting of explosives

Energy Technology Data Exchange (ETDEWEB)

Sun, Dawei; Garimella, Suresh V. [School of Mechanical Engineering, Purdue University, West Lafayette, IN 47907-2088 (United States); Singh, Sanjeev; Naik, Neelam [US Army Armaments Research, Development and Engineering Center, Picatinny Arsenal, NJ 07806 (United States)

2005-10-01

Melt casting of energetic materials is investigated, and a numerical model is formulated for the analysis of the coupled fluid flow, heat transfer, and stress fields involved in this phase-change process. The numerical model is based on a conservative multi block control volume method. The SIMPLE algorithm is employed along with an enthalpy method approach to model the solidification process. Results from the model are verified against analytical solutions, experimental results, and published numerical results for simplified cases. In the melt casting of RDX-binder mixtures, the very high viscosity of the melt limits the influence of melt convection. The impacts of different cooling conditions on the velocity, temperature and stress distributions, as well as on the solidification time, are discussed. The present model can be used to improve the quality of cast explosives, by optimizing and controlling the processing conditions. (Abstract Copyright [2005], Wiley Periodicals, Inc.)

7th International Conference on Hyperbolic Problems Theory, Numerics, Applications

CERN Document Server

Jeltsch, Rolf

1999-01-01

These proceedings contain, in two volumes, approximately one hundred papers presented at the conference on hyperbolic problems, which has focused to a large extent on the laws of nonlinear hyperbolic conservation. Two-fifths of the papers are devoted to mathematical aspects such as global existence, uniqueness, asymptotic behavior such as large time stability, stability and instabilities of waves and structures, various limits of the solution, the Riemann problem and so on. Roughly the same number of articles are devoted to numerical analysis, for example stability and convergence of numerical schemes, as well as schemes with special desired properties such as shock capturing, interface fitting and high-order approximations to multidimensional systems. The results in these contributions, both theoretical and numerical, encompass a wide range of applications such as nonlinear waves in solids, various computational fluid dynamics from small-scale combustion to relativistic astrophysical problems, multiphase phe...

Evolutionary growth process of highly conserved sequences in vertebrate genomes.

Science.gov (United States)

Ishibashi, Minaka; Noda, Akiko Ogura; Sakate, Ryuichi; Imanishi, Tadashi

2012-08-01

Genome sequence comparison between evolutionarily distant species revealed ultraconserved elements (UCEs) among mammals under strong purifying selection. Most of them were also conserved among vertebrates. Because they tend to be located in the flanking regions of developmental genes, they would have fundamental roles in creating vertebrate body plans. However, the evolutionary origin and selection mechanism of these UCEs remain unclear. Here we report that UCEs arose in primitive vertebrates, and gradually grew in vertebrate evolution. We searched for UCEs in two teleost fishes, Tetraodon nigroviridis and Oryzias latipes, and found 554 UCEs with 100% identity over 100 bps. Comparison of teleost and mammalian UCEs revealed 43 pairs of common, jawed-vertebrate UCEs (jUCE) with high sequence identities, ranging from 83.1% to 99.2%. Ten of them retain lower similarities to the Petromyzon marinus genome, and the substitution rates of four non-exonic jUCEs were reduced after the teleost-mammal divergence, suggesting that robust conservation had been acquired in the jawed vertebrate lineage. Our results indicate that prototypical UCEs originated before the divergence of jawed and jawless vertebrates and have been frozen as perfect conserved sequences in the jawed vertebrate lineage. In addition, our comparative sequence analyses of UCEs and neighboring regions resulted in a discovery of lineage-specific conserved sequences. They were added progressively to prototypical UCEs, suggesting step-wise acquisition of novel regulatory roles. Our results indicate that conserved non-coding elements (CNEs) consist of blocks with distinct evolutionary history, each having been frozen since different evolutionary era along the vertebrate lineage. Copyright © 2012 Elsevier B.V. All rights reserved.

Development of a locally mass flux conservative computer code for calculating 3-D viscous flow in turbomachines

Science.gov (United States)

Walitt, L.

1982-01-01

The VANS successive approximation numerical method was extended to the computation of three dimensional, viscous, transonic flows in turbomachines. A cross-sectional computer code, which conserves mass flux at each point of the cross-sectional surface of computation was developed. In the VANS numerical method, the cross-sectional computation follows a blade-to-blade calculation. Numerical calculations were made for an axial annular turbine cascade and a transonic, centrifugal impeller with splitter vanes. The subsonic turbine cascade computation was generated in blade-to-blade surface to evaluate the accuracy of the blade-to-blade mode of marching. Calculated blade pressures at the hub, mid, and tip radii of the cascade agreed with corresponding measurements. The transonic impeller computation was conducted to test the newly developed locally mass flux conservative cross-sectional computer code. Both blade-to-blade and cross sectional modes of calculation were implemented for this problem. A triplet point shock structure was computed in the inducer region of the impeller. In addition, time-averaged shroud static pressures generally agreed with measured shroud pressures. It is concluded that the blade-to-blade computation produces a useful engineering flow field in regions of subsonic relative flow; and cross-sectional computation, with a locally mass flux conservative continuity equation, is required to compute the shock waves in regions of supersonic relative flow.

An online-coupled NWP/ACT model with conserved Lagrangian levels

Science.gov (United States)

Sørensen, B.; Kaas, E.; Lauritzen, P. H.

2012-04-01

Numerical weather and climate modelling is under constant development. Semi-implicit semi-Lagrangian (SISL) models have proven to be numerically efficient in both short-range weather forecasts and climate models, due to the ability to use long time steps. Chemical/aerosol feedback mechanism are becoming more and more relevant in NWP as well as climate models, since the biogenic and anthropogenic emissions can have a direct effect on the dynamics and radiative properties of the atmosphere. To include chemical feedback mechanisms in the NWP models, on-line coupling is crucial. In 3D semi-Lagrangian schemes with quasi-Lagrangian vertical coordinates the Lagrangian levels are remapped to Eulerian model levels each time step. This remapping introduces an undesirable tendency to smooth sharp gradients and creates unphysical numerical diffusion in the vertical distribution. A semi-Lagrangian advection method is introduced, it combines an inherently mass conserving 2D semi-Lagrangian scheme, with a SISL scheme employing both hybrid vertical coordinates and a fully Lagrangian vertical coordinate. This minimizes the vertical diffusion and thus potentially improves the simulation of the vertical profiles of moisture, clouds, and chemical constituents. Since the Lagrangian levels suffer from traditional Lagrangian limitations caused by the convergence and divergence of the flow, remappings to the Eulerian model levels are generally still required - but this need only be applied after a number of time steps - unless dynamic remapping methods are used. For this several different remapping methods has been implemented. The combined scheme is mass conserving, consistent, and multi-tracer efficient.

The distribution, diversity, and conservation status of Cycas in China.

Science.gov (United States)

Zheng, Ying; Liu, Jian; Feng, Xiuyan; Gong, Xun

2017-05-01

As ancient gymnosperm and woody plants, cycads have survived through dramatic tectonic activities, climate fluctuation, and environmental variations making them of great significance in studying the origin and evolution of flora biodiversity. However, they are among the most threatened plant groups in the world. The principal aim of this review is to outline the distribution, diversity, and conservation status of Cycas in China and provide suggestions for conservation practices. In this review, we describe the taxonomy, distribution, and conservation status of Cycas in China. By comparing Chinese Cycas species with its relatives worldwide, we then discuss the current genetic diversity, genetic differentiation of Cycas, and try to disentangle the potential effects of Quaternary climate changes and topographical events on Cycas . We review conservation practices from both researchers and practitioners for these rare and endangered species. High genetic diversity at the species level and strong genetic differentiation within Cycas have been observed. Most Cycas species in southwest China have experienced population retreats in contrast to the coastal Cycas 's expansion during the Quaternary glaciation. Additionally, human activities and habitat fragmentation have pushed these endangered taxa to the brink of extinction. Although numerous efforts have been made to mitigate threats to Cycas survival, implementation and compliance monitoring in protection zones are currently inadequate. We outline six proposals to strengthen conservation measures for Cycas in China and anticipate that these measures will provide guidelines for further research on population genetics as well as conservation biology of not only cycads but also other endangered species worldwide.

Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor

Science.gov (United States)

O'Connell Motherway, Mary; Zomer, Aldert; Leahy, Sinead C.; Reunanen, Justus; Bottacini, Francesca; Claesson, Marcus J.; O'Brien, Frances; Flynn, Kiera; Casey, Patrick G.; Moreno Munoz, Jose Antonio; Kearney, Breda; Houston, Aileen M.; O'Mahony, Caitlin; Higgins, Des G.; Shanahan, Fergus; Palva, Airi; de Vos, Willem M.; Fitzgerald, Gerald F.; Ventura, Marco; O'Toole, Paul W.; van Sinderen, Douwe

2011-01-01

Development of the human gut microbiota commences at birth, with bifidobacteria being among the first colonizers of the sterile newborn gastrointestinal tract. To date, the genetic basis of Bifidobacterium colonization and persistence remains poorly understood. Transcriptome analysis of the Bifidobacterium breve UCC2003 2.42-Mb genome in a murine colonization model revealed differential expression of a type IVb tight adherence (Tad) pilus-encoding gene cluster designated “tad2003.” Mutational analysis demonstrated that the tad2003 gene cluster is essential for efficient in vivo murine gut colonization, and immunogold transmission electron microscopy confirmed the presence of Tad pili at the poles of B. breve UCC2003 cells. Conservation of the Tad pilus-encoding locus among other B. breve strains and among sequenced Bifidobacterium genomes supports the notion of a ubiquitous pili-mediated host colonization and persistence mechanism for bifidobacteria. PMID:21690406

Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor.

Science.gov (United States)

O'Connell Motherway, Mary; Zomer, Aldert; Leahy, Sinead C; Reunanen, Justus; Bottacini, Francesca; Claesson, Marcus J; O'Brien, Frances; Flynn, Kiera; Casey, Patrick G; Munoz, Jose Antonio Moreno; Kearney, Breda; Houston, Aileen M; O'Mahony, Caitlin; Higgins, Des G; Shanahan, Fergus; Palva, Airi; de Vos, Willem M; Fitzgerald, Gerald F; Ventura, Marco; O'Toole, Paul W; van Sinderen, Douwe

2011-07-05

Development of the human gut microbiota commences at birth, with bifidobacteria being among the first colonizers of the sterile newborn gastrointestinal tract. To date, the genetic basis of Bifidobacterium colonization and persistence remains poorly understood. Transcriptome analysis of the Bifidobacterium breve UCC2003 2.42-Mb genome in a murine colonization model revealed differential expression of a type IVb tight adherence (Tad) pilus-encoding gene cluster designated "tad(2003)." Mutational analysis demonstrated that the tad(2003) gene cluster is essential for efficient in vivo murine gut colonization, and immunogold transmission electron microscopy confirmed the presence of Tad pili at the poles of B. breve UCC2003 cells. Conservation of the Tad pilus-encoding locus among other B. breve strains and among sequenced Bifidobacterium genomes supports the notion of a ubiquitous pili-mediated host colonization and persistence mechanism for bifidobacteria.

Testing the feasibility of a hypothetical whaling-conservation permit market in Norway.

Science.gov (United States)

Huang, Biao; Abbott, Joshua K; Fenichel, Eli P; Muneepeerakul, Rachata; Perrings, Charles; Gerber, Leah R

2017-08-01

A cap-and-trade system for managing whale harvests represents a potentially useful approach to resolve the current gridlock in international whale management. The establishment of whale permit markets, open to both whalers and conservationists, could reveal the strength of conservation demand, about which little is known. This lack of knowledge makes it difficult to predict the outcome of a hypothetical whale permit market. We developed a bioeconomic model to evaluate the influence of economic uncertainty about demand for whale conservation or harvest. We used simulations over a wide range of parameterizations of whaling and conservation demands to examine the potential ecological consequences of the establishment of a whale permit market in Norwegian waters under bounded (but substantial) economic uncertainty. Uncertainty variables were slope of whaling and conservation demand, participation level of conservationists and their willingness to pay for whale conservation, and functional forms of demand, including linear, quadratic, and log-linear forms. A whale-conservation market had the potential to yield a wide range of conservation and harvest outcomes, the most likely outcomes were those in which conservationists bought all whale permits. © 2017 Society for Conservation Biology.

Quasi-integrable non-linear Schrödinger models, infinite towers of exactly conserved charges and bright solitons

Science.gov (United States)

Blas, H.; do Bonfim, A. C. R.; Vilela, A. M.

2017-05-01

Deformations of the focusing non-linear Schrödinger model (NLS) are considered in the context of the quasi-integrability concept. We strengthen the results of JHEP 09 (2012) 103 10.1007/JHEP06(2015)177" TargetType="URL"/> for bright soliton collisions. We addressed the focusing NLS as a complement to the one in JHEP 03 (2016) 005 10.1007/JHEP06(2015)177" TargetType="URL"/> , in which the modified defocusing NLS models with dark solitons were shown to exhibit an infinite tower of exactly conserved charges. We show, by means of analytical and numerical methods, that for certain two-bright-soliton solutions, in which the modulus and phase of the complex modified NLS field exhibit even parities under a space-reflection symmetry, the first four and the sequence of even order charges are exactly conserved during the scattering process of the solitons. We perform extensive numerical simulations and consider the bright solitons with deformed potential V=2η /2+\\upepsilon{({|ψ |}^2)}^{2+\\upepsilon},\\upepsilon \\in \\mathbb{R},η <0 . However, for two-soliton field components without definite parity we also show numerically the vanishing of the first non-trivial anomaly and the exact conservation of the relevant charge. So, the parity symmetry seems to be a sufficient but not a necessary condition for the existence of the infinite tower of conserved charges. The model supports elastic scattering of solitons for a wide range of values of the amplitudes and velocities and the set { η, ɛ}. Since the NLS equation is ubiquitous, our results may find potential applications in several areas of non-linear science.

Composite body movements modulate numerical cognition: Evidence from the motion–numerical compatibility effect

Directory of Open Access Journals (Sweden)

Xiaorong eCheng

2015-11-01

Full Text Available A recent hierarchical model of numerical processing, initiated by Fischer and Brugger (2011 and Fisher (2012, suggested that situated factors, such as different body postures and body movements, can influence the magnitude representation and bias numerical processing. Indeed, Loetscher and colleagues (2008 found that participants’ behavior in a random number generation (RNG task was biased by head rotations. More small numbers were reported after leftward than rightward head turns, i.e. a motion–numerical compatibility effect. Here, by carrying out two experiments, we explored whether similar motion–numerical compatibility effects exist for movements of other important body components, e.g. arms, and for composite body movements as well, which are basis for complex human activities in many ecologically meaningful situations. In Experiment 1, a motion-numerical compatibility effect was observed for lateral rotations of two body components, i.e., the head and arms. Relatively large numbers were reported after making rightward compared to leftward movements for both lateral head and arm turns. The motion-numerical compatibility effect was observed again in Experiment 2 when participants were asked to perform composite body movements of congruent movement directions, e.g., simultaneous head left turns and arm left turns. However, it disappeared when the movement directions were incongruent, e.g., simultaneous head left turns and arm right turns. Taken together, our results extended Loetscher et al.'s (2008 finding by demonstrating that their effect is effector-general and exists for arm movements. Moreover, our study reveals for the first time that the impact of spatial information on numerical processing induced by each of the two sensorimotor-based situated factors, e.g., a lateral head turn and a lateral arm turn, can cancel each other out.

Numerical modeling of contaminant transport in fractured porous media using mixed finite-element and finitevolume methods

KAUST Repository

Dong, Chen; Sun, Shuyu; Taylor, Glenn A.

2011-01-01

A mathematical model for contaminant species passing through fractured porous media is presented. In the numerical model, we combine two locally conservative methods; i.e., the mixed finite-element (MFE) method and the finite-volume method. Adaptive

Multi-species sequence comparison reveals conservation of ghrelin gene-derived splice variants encoding a truncated ghrelin peptide.

Science.gov (United States)

Seim, Inge; Jeffery, Penny L; Thomas, Patrick B; Walpole, Carina M; Maugham, Michelle; Fung, Jenny N T; Yap, Pei-Yi; O'Keeffe, Angela J; Lai, John; Whiteside, Eliza J; Herington, Adrian C; Chopin, Lisa K

2016-06-01

The peptide hormone ghrelin is a potent orexigen produced predominantly in the stomach. It has a number of other biological actions, including roles in appetite stimulation, energy balance, the stimulation of growth hormone release and the regulation of cell proliferation. Recently, several ghrelin gene splice variants have been described. Here, we attempted to identify conserved alternative splicing of the ghrelin gene by cross-species sequence comparisons. We identified a novel human exon 2-deleted variant and provide preliminary evidence that this splice variant and in1-ghrelin encode a C-terminally truncated form of the ghrelin peptide, termed minighrelin. These variants are expressed in humans and mice, demonstrating conservation of alternative splicing spanning 90 million years. Minighrelin appears to have similar actions to full-length ghrelin, as treatment with exogenous minighrelin peptide stimulates appetite and feeding in mice. Forced expression of the exon 2-deleted preproghrelin variant mirrors the effect of the canonical preproghrelin, stimulating cell proliferation and migration in the PC3 prostate cancer cell line. This is the first study to characterise an exon 2-deleted preproghrelin variant and to demonstrate sequence conservation of ghrelin gene-derived splice variants that encode a truncated ghrelin peptide. This adds further impetus for studies into the alternative splicing of the ghrelin gene and the function of novel ghrelin peptides in vertebrates.

A mass-conserving multiphase lattice Boltzmann model for simulation of multiphase flows

Science.gov (United States)

Niu, Xiao-Dong; Li, You; Ma, Yi-Ren; Chen, Mu-Feng; Li, Xiang; Li, Qiao-Zhong

2018-01-01

In this study, a mass-conserving multiphase lattice Boltzmann (LB) model is proposed for simulating the multiphase flows. The proposed model developed in the present study is to improve the model of Shao et al. ["Free-energy-based lattice Boltzmann model for simulation of multiphase flows with density contrast," Phys. Rev. E 89, 033309 (2014)] by introducing a mass correction term in the lattice Boltzmann model for the interface. The model of Shao et al. [(the improved Zheng-Shu-Chew (Z-S-C model)] correctly considers the effect of the local density variation in momentum equation and has an obvious improvement over the Zheng-Shu-Chew (Z-S-C) model ["A lattice Boltzmann model for multiphase flows with large density ratio," J. Comput. Phys. 218(1), 353-371 (2006)] in terms of solution accuracy. However, due to the physical diffusion and numerical dissipation, the total mass of each fluid phase cannot be conserved correctly. To solve this problem, a mass correction term, which is similar to the one proposed by Wang et al. ["A mass-conserved diffuse interface method and its application for incompressible multiphase flows with large density ratio," J. Comput. Phys. 290, 336-351 (2015)], is introduced into the lattice Boltzmann equation for the interface to compensate the mass losses or offset the mass increase. Meanwhile, to implement the wetting boundary condition and the contact angle, a geometric formulation and a local force are incorporated into the present mass-conserving LB model. The proposed model is validated by verifying the Laplace law, simulating both one and two aligned droplets splashing onto a liquid film, droplets standing on an ideal wall, droplets with different wettability splashing onto smooth wax, and bubbles rising under buoyancy. Numerical results show that the proposed model can correctly simulate multiphase flows. It was found that the mass is well-conserved in all cases considered by the model developed in the present study. The developed

Coherent Structures in Numerically Simulated Plasma Turbulence

DEFF Research Database (Denmark)

Kofoed-Hansen, O.; Pécseli, H.L.; Trulsen, J.

1989-01-01

Low level electrostatic ion acoustic turbulence generated by the ion-ion beam instability was investigated numerically. The fluctuations in potential were investigated by a conditional statistical analysis revealing propagating coherent structures having the form of negative potential wells which...

A Non-Competitive Inhibitor of VCP/p97 and VPS4 Reveals Conserved Allosteric Circuits in Type I and II AAA ATPases.

Science.gov (United States)

Pöhler, Robert; Krahn, Jan H; van den Boom, Johannes; Dobrynin, Grzegorz; Kaschani, Farnusch; Eggenweiler, Hans-Michael; Zenke, Frank T; Kaiser, Markus; Meyer, Hemmo

2018-02-05

AAA ATPases have pivotal functions in diverse cellular processes essential for survival and proliferation. Revealing strategies for chemical inhibition of this class of enzymes is therefore of great interest for the development of novel chemotherapies or chemical tools. Here, we characterize the compound MSC1094308 as a reversible, allosteric inhibitor of the type II AAA ATPase human ubiquitin-directed unfoldase (VCP)/p97 and the type I AAA ATPase VPS4B. Subsequent proteomic, genetic and biochemical studies indicate that MSC1094308 binds to a previously characterized drugable hotspot of p97, thereby inhibiting the D2 ATPase activity. Our results furthermore indicate that a similar allosteric site exists in VPS4B, suggesting conserved allosteric circuits and drugable sites in both type I and II AAA ATPases. Our results may thus guide future chemical tool and drug discovery efforts for the biomedically relevant AAA ATPases. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

High-resolution finite-difference algorithms for conservation laws

International Nuclear Information System (INIS)

Towers, J.D.

1987-01-01

A new class of Total Variation Decreasing (TVD) schemes for 2-dimensional scalar conservation laws is constructed using either flux-limited or slope-limited numerical fluxes. The schemes are proven to have formal second-order accuracy in regions where neither u/sub x/ nor y/sub y/ vanishes. A new class of high-resolution large-time-step TVD schemes is constructed by adding flux-limited correction terms to the first-order accurate large-time-step version of the Engquist-Osher scheme. The use of the transport-collapse operator in place of the exact solution operator for the construction of difference schemes is studied. The production of spurious extrema by difference schemes is studied. A simple condition guaranteeing the nonproduction of spurious extrema is derived. A sufficient class of entropy inequalities for a conservation law with a flux having a single inflection point is presented. Finite-difference schemes satisfying a discrete version of each entropy inequality are only first-order accurate

Helicity non-conserving form factor of the proton

Energy Technology Data Exchange (ETDEWEB)

Voutier, E.; Furget, C.; Knox, S. [Universite Joseph Fourier, Grenoble (France)] [and others

1994-04-01

The study of the hadron structure in the high Q{sup 2} range contributes to the understanding of the mechanisms responsible for the confinement of quarks and gluons. Among the numerous experimental candidates sensitive to these mechanisms, the helicity non-conserving form factor of the proton is a privileged observable since it is controlled by non-perturbative effects. The authors investigate here the feasibility of high Q{sup 2} measurements of this form factor by means of the recoil polarization method in the context of the CEBAF 8 GeV facility. For that purpose, they discuss the development of a high energy proton polarimeter, based on the H({rvec p},pp) elastic scattering, to be placed at the focal plane of a new hadron spectrometer. It is shown that this experimental method significantly improves the knowledge of the helicity non-conserving form factor of the proton up to 10 GeV{sup 2}/c{sup 2}.

Evolutionary Conservation of the Components in the TOR Signaling Pathways.

Science.gov (United States)

Tatebe, Hisashi; Shiozaki, Kazuhiro

2017-11-01

Target of rapamycin (TOR) is an evolutionarily conserved protein kinase that controls multiple cellular processes upon various intracellular and extracellular stimuli. Since its first discovery, extensive studies have been conducted both in yeast and animal species including humans. Those studies have revealed that TOR forms two structurally and physiologically distinct protein complexes; TOR complex 1 (TORC1) is ubiquitous among eukaryotes including animals, yeast, protozoa, and plants, while TOR complex 2 (TORC2) is conserved in diverse eukaryotic species other than plants. The studies have also identified two crucial regulators of mammalian TORC1 (mTORC1), Ras homolog enriched in brain (RHEB) and RAG GTPases. Of these, RAG regulates TORC1 in yeast as well and is conserved among eukaryotes with the green algae and land plants as apparent exceptions. RHEB is present in various eukaryotes but sporadically missing in multiple taxa. RHEB, in the budding yeast Saccharomyces cerevisiae , appears to be extremely divergent with concomitant loss of its function as a TORC1 regulator. In this review, we summarize the evolutionarily conserved functions of the key regulatory subunits of TORC1 and TORC2, namely RAPTOR, RICTOR, and SIN1. We also delve into the evolutionary conservation of RHEB and RAG and discuss the conserved roles of these GTPases in regulating TORC1.

NATURE CONSERVATION MOVEMENT IN THE WORLD: ITS HISTORICAL DEVELOPMENT AND PRESENT SITUATION

Directory of Open Access Journals (Sweden)

Oğuz Kurdoğlu

2007-04-01

Full Text Available Although nature conservation is a well recognized topic at present, it is not a new phenomenon. Throughout history, there are numerous examples of efforts made by governments, rulers, or individual land owners to protect certain land areas that possessed unique natural values. While many of these areas were actually isolated as game preserves for hunting, they were also designed to conserve wildlife. The establishment of Yellowstone National Park in 1972 marks the modern concept of a national park as it was designed on a very large protected natural area. Presently, one of the most efficient ways for nature protection is “area conservation approach” that many organizations have been developing various systems and categories about. Unfortunately, in spite of such improvements and the extension of the protected area network, many of these areas are not properly protected and/or managed in some countries. This study summarizes the historical evolution of nature conservation systems and strategies in the world with the related international legislative aspects as well. As it stated in this paper, USA and Europa have a well known history on nature conservation and show great concern in respect to participating to the international convention and arrangements.

Genetic Interaction Maps in Escherichia coli Reveal Functional Crosstalk among Cell Envelope Biogenesis Pathways

Science.gov (United States)

Vlasblom, James; Gagarinova, Alla; Phanse, Sadhna; Graham, Chris; Yousif, Fouad; Ding, Huiming; Xiong, Xuejian; Nazarians-Armavil, Anaies; Alamgir, Md; Ali, Mehrab; Pogoutse, Oxana; Pe'er, Asaf; Arnold, Roland; Michaut, Magali; Parkinson, John; Golshani, Ashkan; Whitfield, Chris; Wodak, Shoshana J.; Moreno-Hagelsieb, Gabriel; Greenblatt, Jack F.; Emili, Andrew

2011-01-01

As the interface between a microbe and its environment, the bacterial cell envelope has broad biological and clinical significance. While numerous biosynthesis genes and pathways have been identified and studied in isolation, how these intersect functionally to ensure envelope integrity during adaptive responses to environmental challenge remains unclear. To this end, we performed high-density synthetic genetic screens to generate quantitative functional association maps encompassing virtually the entire cell envelope biosynthetic machinery of Escherichia coli under both auxotrophic (rich medium) and prototrophic (minimal medium) culture conditions. The differential patterns of genetic interactions detected among >235,000 digenic mutant combinations tested reveal unexpected condition-specific functional crosstalk and genetic backup mechanisms that ensure stress-resistant envelope assembly and maintenance. These networks also provide insights into the global systems connectivity and dynamic functional reorganization of a universal bacterial structure that is both broadly conserved among eubacteria (including pathogens) and an important target. PMID:22125496

Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways.

Directory of Open Access Journals (Sweden)

Mohan Babu

2011-11-01

Full Text Available As the interface between a microbe and its environment, the bacterial cell envelope has broad biological and clinical significance. While numerous biosynthesis genes and pathways have been identified and studied in isolation, how these intersect functionally to ensure envelope integrity during adaptive responses to environmental challenge remains unclear. To this end, we performed high-density synthetic genetic screens to generate quantitative functional association maps encompassing virtually the entire cell envelope biosynthetic machinery of Escherichia coli under both auxotrophic (rich medium and prototrophic (minimal medium culture conditions. The differential patterns of genetic interactions detected among > 235,000 digenic mutant combinations tested reveal unexpected condition-specific functional crosstalk and genetic backup mechanisms that ensure stress-resistant envelope assembly and maintenance. These networks also provide insights into the global systems connectivity and dynamic functional reorganization of a universal bacterial structure that is both broadly conserved among eubacteria (including pathogens and an important target.

Funding conservation through use and potentials for price discrimination among scuba divers at Sipadan, Malaysia

DEFF Research Database (Denmark)

Emang, Diana; Lundhede, Thomas; Thorsen, Bo Jellesmark

2016-01-01

The protected coral reefs off the coast of Malaysia receive numerous tourists, while also being as fishing grounds. These joint environmental pressures raise the need for additional costly conservation measures. It is natural to consider the potential for expanding the ‘user pays’ principle...

Mathematical and numerical analysis of hyper-elastic systems and introduction of plasticity

International Nuclear Information System (INIS)

Kluth, G.

2008-12-01

The goal is to model mathematically and numerically the dynamic phenomenons for solids in finite plasticity. We suggest a model that we call hyper-elasto-plastic based on hyper-elastic systems of conservation laws and on the use of an equation of state that we have constructed so as to achieve the plastic yield criterion of Von Mises. This model gives exact (analytic) solutions with shock split to flyer-plate experiments. The mathematical analysis of this model is done (hyperbolicity, characteristic fields, involutions and entropy). In the numerical part, we give 1D and 2D Lagrangian schemes which satisfy an entropy criterion. Moreover, thanks to a special discretization of the equations on deformation gradient, we satisfy some discrete involutions. In this work, the degeneracy of the solid model into hydrodynamic models is studied at the continuous level, and achieved at the numerical one. On different problems, we show the validity of our model and our numerical schemes. (author)

In Vitro Propagation and Conservation of Bacopa monnieri L.

Science.gov (United States)

Sharma, Neelam; Singh, Rakesh; Pandey, Ruchira

2016-01-01

Bacopa monnieri L. (common name brahmi) is a traditional and renowned Indian medicinal plant with high commercial value for its memory revitalizer potential. Demand for this herb has further escalated due to popularization of various brahmi-based drugs coupled with reported anticancer property. Insufficient seed availability and problems associated with seed propagation including short seed viability are the major constraints of seed conservation in the gene banks. In vitro clonal propagation, a prerequisite for in vitro conservation by enhanced axillary branching was standardized. We have developed a simple, single step protocol for in vitro establishment, propagation and medium-term conservation of B. monnieri. Single node explants, cultured on Murashige and Skoog's medium supplemented with BA (0.2 mg/L), exhibited shoot proliferation without callus formation. Rooting was achieved on the same medium. The in vitro raised plants were successfully transferred to soil with ~80 % survival. On the same medium, shoots could also be conserved for 12 months with high survival and genetic stability was maintained as revealed by molecular markers. The protocol optimized in the present study has been applied for culture establishment, shoot multiplication and medium-term conservation of several Bacopa germplasm, procured from different agro-ecological regions of India.

Transcriptomic analysis of tail regeneration in the lizard Anolis carolinensis reveals activation of conserved vertebrate developmental and repair mechanisms.

Directory of Open Access Journals (Sweden)

Elizabeth D Hutchins

Full Text Available Lizards, which are amniote vertebrates like humans, are able to lose and regenerate a functional tail. Understanding the molecular basis of this process would advance regenerative approaches in amniotes, including humans. We have carried out the first transcriptomic analysis of tail regeneration in a lizard, the green anole Anolis carolinensis, which revealed 326 differentially expressed genes activating multiple developmental and repair mechanisms. Specifically, genes involved in wound response, hormonal regulation, musculoskeletal development, and the Wnt and MAPK/FGF pathways were differentially expressed along the regenerating tail axis. Furthermore, we identified 2 microRNA precursor families, 22 unclassified non-coding RNAs, and 3 novel protein-coding genes significantly enriched in the regenerating tail. However, high levels of progenitor/stem cell markers were not observed in any region of the regenerating tail. Furthermore, we observed multiple tissue-type specific clusters of proliferating cells along the regenerating tail, not localized to the tail tip. These findings predict a different mechanism of regeneration in the lizard than the blastema model described in the salamander and the zebrafish, which are anamniote vertebrates. Thus, lizard tail regrowth involves the activation of conserved developmental and wound response pathways, which are potential targets for regenerative medical therapies.

Analysis of sectoral energy conservation in Malaysia

Energy Technology Data Exchange (ETDEWEB)

Al-Mofleh, Anwar; Taib, Soib; Salah, Wael [School of Electrical and Electronics Engineering, Universiti Sains Malaysia, 14300 Nibong Tebal, Penang (Malaysia); Mujeebu, M. Abdul [School of Mechanical Engineering, Universiti Sains Malaysia, 14300 Nibong Tebal, Penang (Malaysia)

2009-06-15

The electrical energy consumption in Malaysia has increased sharply in the past few years, and modern energy efficient technologies are desperately needed for the national energy policy. This article presents a comprehensive picture of the current status of energy consumption and various energy conservation options viable for Malaysian environment. A detailed survey is made to assess the consumption pattern and the existing techniques for energy efficiency. Based on the survey, the feasibility of improving the available systems and adopting new programs in different sectors is investigated. The study reveals the fact that the energy conservation policy of the country has been fairly improved in the last ten years. However the country has to pay more attention to this area and make urgent measures to adopt more energy efficient technologies in various sectors. (author)

Analysis of sectoral energy conservation in Malaysia

International Nuclear Information System (INIS)

Al-Mofleh, Anwar; Taib, Soib; Mujeebu, M. Abdul; Salah, Wael

2009-01-01

The electrical energy consumption in Malaysia has increased sharply in the past few years, and modern energy efficient technologies are desperately needed for the national energy policy. This article presents a comprehensive picture of the current status of energy consumption and various energy conservation options viable for Malaysian environment. A detailed survey is made to assess the consumption pattern and the existing techniques for energy efficiency. Based on the survey, the feasibility of improving the available systems and adopting new programs in different sectors is investigated. The study reveals the fact that the energy conservation policy of the country has been fairly improved in the last ten years. However the country has to pay more attention to this area and make urgent measures to adopt more energy efficient technologies in various sectors.

Discrete conservation of nonnegativity for elliptic problems solved by the hp-FEM

Czech Academy of Sciences Publication Activity Database

Šolín, P.; Vejchodský, Tomáš; Araiza, R.

2007-01-01

Roč. 76, 1-3 (2007), s. 205-210 ISSN 0378-4754 R&D Projects: GA ČR GP201/04/P021 Institutional research plan: CEZ:AV0Z10190503 Keywords : discrete nonnegativity conservation * discrete Green's function * elliptic problems * hp-FEM * higher-order finite element methods * Poisson equation * numerical experimetns Subject RIV: BA - General Mathematics Impact factor: 0.738, year: 2007

Unsplit schemes for hyperbolic conservation laws with source terms in one space dimension

International Nuclear Information System (INIS)

Papalexandris, M.V.; Leonard, A.; Dimotakis, P.E.

1997-01-01

The present work is concerned with an application of the theory of characteristics to conservation laws with source terms in one space dimension, such as the Euler equations for reacting flows. Space-time paths are introduced on which the flow/chemistry equations decouple to a characteristic set of ODE's for the corresponding homogeneous laws, thus allowing the introduction of functions analogous to the Riemann invariants in classical theory. The geometry of these paths depends on the spatial gradients of the solution. This particular decomposition can be used in the design of efficient unsplit algorithms for the numerical integration of the equations. As a first step, these ideas are implemented for the case of a scalar conservation law with a nonlinear source term. The resulting algorithm belongs to the class of MUSCL-type, shock-capturing schemes. Its accuracy and robustness are checked through a series of tests. The stiffness of the source term is also studied. Then, the algorithm is generalized for a system of hyperbolic equations, namely the Euler equations for reacting flows. A numerical study of unstable detonations is performed. 57 refs

An improved energy conserving implicit time integration algorithm for nonlinear dynamic structural analysis

International Nuclear Information System (INIS)

Haug, E.; Rouvray, A.L. de; Nguyen, Q.S.

1977-01-01

This study proposes a general nonlinear algorithm stability criterion; it introduces a nonlinear algorithm, easily implemented in existing incremental/iterative codes, and it applies the new scheme beneficially to problems of linear elastic dynamic snap buckling. Based on the concept of energy conservation, the paper outlines an algorithm which degenerates into the trapezoidal rule, if applied to linear systems. The new algorithm conserves energy in systems having elastic potentials up to the fourth order in the displacements. This is true in the important case of nonlinear total Lagrange formulations where linear elastic material properties are substituted. The scheme is easily implemented in existing incremental-iterative codes with provisions for stiffness reformation and containing the basic Newmark scheme. Numerical analyses of dynamic stability can be dramatically sensitive to amplitude errors, because damping algorithms may mask, and overestimating schemes may numerically trigger, the physical instability. The newly proposed scheme has been applied with larger time steps and less cost to the dynamic snap buckling of simple one and multi degree-of-freedom structures for various initial conditions

Maximum-principle-satisfying space-time conservation element and solution element scheme applied to compressible multifluids

KAUST Repository

Shen, Hua; Wen, Chih-Yung; Parsani, Matteo; Shu, Chi-Wang

2016-01-01

A maximum-principle-satisfying space-time conservation element and solution element (CE/SE) scheme is constructed to solve a reduced five-equation model coupled with the stiffened equation of state for compressible multifluids. We first derive a sufficient condition for CE/SE schemes to satisfy maximum-principle when solving a general conservation law. And then we introduce a slope limiter to ensure the sufficient condition which is applicative for both central and upwind CE/SE schemes. Finally, we implement the upwind maximum-principle-satisfying CE/SE scheme to solve the volume-fraction-based five-equation model for compressible multifluids. Several numerical examples are carried out to carefully examine the accuracy, efficiency, conservativeness and maximum-principle-satisfying property of the proposed approach.

Maximum-principle-satisfying space-time conservation element and solution element scheme applied to compressible multifluids

KAUST Repository

Shen, Hua

2016-10-19

A maximum-principle-satisfying space-time conservation element and solution element (CE/SE) scheme is constructed to solve a reduced five-equation model coupled with the stiffened equation of state for compressible multifluids. We first derive a sufficient condition for CE/SE schemes to satisfy maximum-principle when solving a general conservation law. And then we introduce a slope limiter to ensure the sufficient condition which is applicative for both central and upwind CE/SE schemes. Finally, we implement the upwind maximum-principle-satisfying CE/SE scheme to solve the volume-fraction-based five-equation model for compressible multifluids. Several numerical examples are carried out to carefully examine the accuracy, efficiency, conservativeness and maximum-principle-satisfying property of the proposed approach.

Autocorrelation exponent of conserved spin systems in the scaling regime following a critical quench.

Science.gov (United States)

Sire, Clément

2004-09-24

We study the autocorrelation function of a conserved spin system following a quench at the critical temperature. Defining the correlation length L(t) approximately t(1/z), we find that for times t' and t satisfying L(t')infinity limit, we show that lambda(')(c)=d+2 and phi=z/2. We give a heuristic argument suggesting that this result is, in fact, valid for any dimension d and spin vector dimension n. We present numerical simulations for the conserved Ising model in d=1 and d=2, which are fully consistent with the present theory.

La 3D au service de la conservation des grottes ornées, l’exemple de Lascaux et du simulateur Lascaux

Directory of Open Access Journals (Sweden)

Delphine Lacanette

2012-04-01

Full Text Available La simulation numérique en mécanique des fluides est appliquée ici à la conservation du patrimoine et plus particulièrement à la grotte de Lascaux en Dordogne. Un relevé laser 3D très précis de la grotte de plus de 150 millions de points a servi de base au simulateur Lascaux, outil numérique permettant de tester en laboratoire, sur ordinateur, les modifications à apporter éventuellement à la cavité et de vérifier la façon dont elle réagit avant des réaliser ces changements in situ. Il est en cela un outil de conservation préventive innovant.Numerical simulation in fluid mechanics is applied here to the conservation of the patrimony and more particularly to the Lascaux cave, in Dordogne, France. A very accurate 3D laser survey of the cavity of more than 150 million points was used as a base of the Lascaux simulator, a numerical tool allowing to test in laboratory, on a computer, the modifications to bring eventually to the cave, and to check the way it reacts before achieving these modifications in situ. The simulator is an innovative conserving tool for preventive conservation.

A method for solving the KDV equation and some numerical experiments

International Nuclear Information System (INIS)

Chang Jinjiang.

1993-01-01

In this paper, by means of difference method for discretization of space partial derivatives of KDV equation, an initial value problem in ordinary differential equations of large dimensions is produced. By using this ordinary differential equations the existence and the uniqueness of the solution of the KDV equation and the conservation of scheme are proved. This ordinary differential equation can be solved by using implicit Runge-Kutta methods, so a new method for finding the numerical solution of the KDV equation is presented. Numerical experiments not only describe in detail the procedure of two solitons collision, soliton reflex and soliton produce, but also show that this method is very effective. (author). 7 refs, 3 figs

Numerical modeling of a fast-neutron collimator for the Alcator A fusion device

International Nuclear Information System (INIS)

Fisher, W.A.

1982-12-01

A numerical procedure is developed to analyze neutron collimators used for spatial neutron measurements of plasma neutrons. The procedure is based upon Monte-Carlo methods and uses a standard Monte-Carlo code. The specific developments described herein involve a new approach to represent complex spatial details in a method that is conservative of computer time, retains accuracy and required only modest changes in already-developed Monte-Carlo procedures. The procedure was used to model the Alcator A collimator. The collimator consists of 448 cells and has a measured spatial point source response of 0.7 cm. The numerical procedure successfully predicts this response

Integrated numerical platforms for environmental dose assessments of large tritium inventory facilities

International Nuclear Information System (INIS)

Castro, P.; Ardao, J.; Velarde, M.; Sedano, L.; Xiberta, J.

2013-01-01

Related with a prospected new scenario of large inventory tritium facilities [KATRIN at TLK, CANDUs, ITER, EAST, other coming] the prescribed dosimetric limits by ICRP-60 for tritium committed-doses are under discussion requiring, in parallel, to surmount the highly conservative assessments by increasing the refinement of dosimetric-assessments in many aspects. Precise Lagrangian-computations of dosimetric cloud-evolution after standardized (normal/incidental/SBO) tritium cloud emissions are today numerically open to the perfect match of real-time meteorological-data, and patterns data at diverse scales for prompt/early and chronic tritium dose assessments. The trends towards integrated-numerical-platforms for environmental-dose assessments of large tritium inventory facilities under development.

Effects of Alternative Framing on the Publics Perceived Importance of Environmental Conservation

Directory of Open Access Journals (Sweden)

Amanda E Sorensen

2015-05-01

Full Text Available Effective communication of science to the general public is important for numerous reasons, including support for policy, funding, informed public decision making, among others. Prior research has found that scientists participating in public policy and public communication must frame their communication efforts in order to connect with audiences. A frame is the mechanism that individuals use to understand and interpret the world around them. Framing can encourage specific interpretations and reference points for a particular issue or event; especially when meaning is negotiated between the media and public audiences. In this study, we looked at the effect of framing within an environmental conservation context. To do this we had survey respondents rank common issues, among them being environmental conservation, from most important to least important for the government to address. We framed environmental conservation using three synonymous terms (environmental security, ecosystem services, and environmental quality to assess whether there was an effect on rankings dependent on how we framed environmental conservation. We also investigated the effect of individuals’ personality characteristics (identity frame on those environmental conservation rankings. We found that individuals who self-identified as environmentalist were positively associated with ranking highly (most important environmental conservation when it was framed as either environmental quality or ecosystem services, but not when it was framed as environmental security. Conversely, those individuals who did not rank themselves highly as self-identified environmentalists were positively associated with environmental conservation when it was framed as environmental security. This research suggests that framing audience specific messages can engender audience support in hot-button issues such as environmental conservation and climate change.

Charm-conserving strangeness-changing two body hadronic decays of charmed baryons

International Nuclear Information System (INIS)

Khanna, M.P.

1993-10-01

The charm-conserving strangeness-changing two body hadronic decays of charmed baryons are examined in the SU(4) symmetry scheme. In addition to the 20''-Hamiltonian, we consider a 15-piece of the weak Hamiltonian which may arise due to SU(4) breaking or due to some non-conventional dynamics. The numerical estimates for decay widths of some of the modes are presented. (author). 15 refs, 3 tabs

Use of monitoring data to support conservation management and policy decisions in Micronesia.

Science.gov (United States)

Montambault, Jensen Reitz; Wongbusarakum, Supin; Leberer, Trina; Joseph, Eugene; Andrew, Wayne; Castro, Fran; Nevitt, Brooke; Golbuu, Yimnang; Oldiais, Noelle W; Groves, Craig R; Kostka, Willy; Houk, Peter

2015-10-01

Adaptive management implies a continuous knowledge-based decision-making process in conservation. Yet, the coupling of scientific monitoring and management frameworks remains rare in practice because formal and informal communication pathways are lacking. We examined 4 cases in Micronesia where conservation practitioners are using new knowledge in the form of monitoring data to advance marine conservation. These cases were drawn from projects in Micronesia Challenge jurisdictions that received funding for coupled monitoring-to-management frameworks and encompassed all segments of adaptive management. Monitoring in Helen Reef, Republic of Palau, was catalyzed by coral bleaching and revealed evidence of overfishing that led to increased enforcement and outreach. In Nimpal Channel, Yap, Federated States of Micronesia (FSM), monitoring the recovery of marine food resources after customary restrictions were put in place led to new, more effective enforcement approaches. Monitoring in Laolao Bay, Saipan, Commonwealth of the Northern Mariana Islands, was catalyzed by observable sediment loads from poor land-use practices and resulted in actions that reduced land-based threats, particularly littering and illegal burning, and revealed additional threats from overfishing. Pohnpei (FSM) began monitoring after observed declines in grouper spawning aggregations. This data led to adjusting marine conservation area boundaries and implementing market-based size class restrictions. Two themes emerged from these cases. First, in each case monitoring was conducted in a manner relevant to the social and ecological systems and integrated into the decision-making process. Second, conservation practitioners and scientists in these cases integrated culturally appropriate stakeholder engagement throughout all phases of the adaptive management cycle. More broadly, our study suggests, when describing adaptive management, providing more details on how monitoring and management activities are

Research and Monitoring Special Use Permit [Minnesota Zoo's Prairie Butterfly Conservation Program on Chase Lake National Wildlife Refuge : 2016

Data.gov (United States)

Department of the Interior — The Minnesota Zoo’s Prairie Butterfly Conservation Program partners with numerous federal, state, and local agencies to establish the world’s first and only ex situ...

77 FR 59712 - Energy Conservation Program: Energy Conservation Standards for Dishwashers

Science.gov (United States)

2012-10-01

... amended energy conservation standards, DOE conducted a market survey using all available public... Energy Conservation Program: Energy Conservation Standards for Dishwashers AGENCY: Office of Energy... establish amended energy conservation standards for dishwashers in the Federal Register on May 30, 2012. DOE...

Conservative approach to the acute management of a large mesenteric cyst.

Science.gov (United States)

Leung, Billy C; Sankey, Ruth; Fronza, Matteo; Maatouk, Mohamed

2017-09-16

Mesenteric cysts are rare, benign gastrointestinal cystic lesions, which are often non-troublesome and present as an incidental radiological finding. However, surgery is often performed in the acute setting to remove lesions that are symptomatic. This report highlights the case of a large, symptomatic mesenteric cyst managed successfully with initial conservative measures followed by planned elective surgery. A 44-year-old female presented with a four-day history of generalised abdominal pain associated with distension, fever, diarrhoea and vomiting. Computer tomography revealed a large (21.7 cm × 11.8 cm × 14 cm) mesenteric cyst within the left abdomen cavity. She was admitted and treated conservatively with intravenous fluids and antibiotics for four days, which lead to complete symptom resolution. Follow-up at intervals of one and three months revealed no return of symptoms. An elective laparotomy and excision of the mesenteric cyst was then scheduled and performed safely at nine months after the initial presentation. Compared to acute surgery, acute conservative management followed by planned elective resection of a symptomatic mesenteric cyst may prove safer. The withholding of an immediate operation may potentially avoid unnecessary operative risk and should be considered in patients without obstructive and peritonitic symptoms. Our case demonstrated the safe use of initial conservative management followed by planned elective surgery of a mesenteric cyst found in the acute setting, which was symptomatic but was not obstructive or causing peritonitic symptoms.

Numerical simulation of two-phase filtration in the near well bore zone

Science.gov (United States)

Maksat, Kalimoldayev; Kalipa, Kuspanova; Kulyash, Baisalbayeva; Orken, Mamyrbayev; Assel, Abdildayeva

2018-04-01

On the basis of the fundamental laws of energy conservation, nonstationary processes of filtration of two-phase liquids in multilayered reservoirs in the near well bore zone are considered. Number of reservoirs, fluid pressure in the given reservoirs, reservoir permeability, oil viscosity, etc. are taken into account upon that. Plane-parallel flow and axisymmetric cases have been studied. In the numerical solution, non-structured meshes are used. Closer to the well, the meshes thicken. The integration step over time is defined by the generalized Courant inequality. As a result, there are no large oscillations in the numerical solutions obtained. Oil production rates, Poisson's ratios, D-diameters of the well, filter height, filter permeability, and cumulative thickness of the filter cake and the area have been taken as the main inputs in numerical simulation of non-stationary processes of two-phase filtration.

A simple mass-conserved level set method for simulation of multiphase flows

Science.gov (United States)

Yuan, H.-Z.; Shu, C.; Wang, Y.; Shu, S.

2018-04-01

In this paper, a modified level set method is proposed for simulation of multiphase flows with large density ratio and high Reynolds number. The present method simply introduces a source or sink term into the level set equation to compensate the mass loss or offset the mass increase. The source or sink term is derived analytically by applying the mass conservation principle with the level set equation and the continuity equation of flow field. Since only a source term is introduced, the application of the present method is as simple as the original level set method, but it can guarantee the overall mass conservation. To validate the present method, the vortex flow problem is first considered. The simulation results are compared with those from the original level set method, which demonstrates that the modified level set method has the capability of accurately capturing the interface and keeping the mass conservation. Then, the proposed method is further validated by simulating the Laplace law, the merging of two bubbles, a bubble rising with high density ratio, and Rayleigh-Taylor instability with high Reynolds number. Numerical results show that the mass is a well-conserved by the present method.

Towards standard testbeds for numerical relativity

International Nuclear Information System (INIS)

Alcubierre, Miguel; Allen, Gabrielle; Bona, Carles; Fiske, David; Goodale, Tom; Guzman, F Siddhartha; Hawke, Ian; Hawley, Scott H; Husa, Sascha; Koppitz, Michael; Lechner, Christiane; Pollney, Denis; Rideout, David; Salgado, Marcelo; Schnetter, Erik; Seidel, Edward; Shinkai, Hisa-aki; Shoemaker, Deirdre; Szilagyi, Bela; Takahashi, Ryoji; Winicour, Jeff

2004-01-01

In recent years, many different numerical evolution schemes for Einstein's equations have been proposed to address stability and accuracy problems that have plagued the numerical relativity community for decades. Some of these approaches have been tested on different spacetimes, and conclusions have been drawn based on these tests. However, differences in results originate from many sources, including not only formulations of the equations, but also gauges, boundary conditions, numerical methods and so on. We propose to build up a suite of standardized testbeds for comparing approaches to the numerical evolution of Einstein's equations that are designed to both probe their strengths and weaknesses and to separate out different effects, and their causes, seen in the results. We discuss general design principles of suitable testbeds, and we present an initial round of simple tests with periodic boundary conditions. This is a pivotal first step towards building a suite of testbeds to serve the numerical relativists and researchers from related fields who wish to assess the capabilities of numerical relativity codes. We present some examples of how these tests can be quite effective in revealing various limitations of different approaches, and illustrating their differences. The tests are presently limited to vacuum spacetimes, can be run on modest computational resources and can be used with many different approaches used in the relativity community

Towards standard testbeds for numerical relativity

Energy Technology Data Exchange (ETDEWEB)

Alcubierre, Miguel [Inst. de Ciencias Nucleares, Univ. Nacional Autonoma de Mexico, Apartado Postal 70-543, Mexico Distrito Federal 04510 (Mexico); Allen, Gabrielle; Goodale, Tom; Guzman, F Siddhartha; Hawke, Ian; Husa, Sascha; Koppitz, Michael; Lechner, Christiane; Pollney, Denis; Rideout, David [Max-Planck-Inst. fuer Gravitationsphysik, Albert-Einstein-Institut, 14476 Golm (Germany); Bona, Carles [Departament de Fisica, Universitat de les Illes Balears, Ctra de Valldemossa km 7.5, 07122 Palma de Mallorca (Spain); Fiske, David [Dept. of Physics, Univ. of Maryland, College Park, MD 20742-4111 (United States); Hawley, Scott H [Center for Relativity, Univ. of Texas at Austin, Austin, Texas 78712 (United States); Salgado, Marcelo [Inst. de Ciencias Nucleares, Univ. Nacional Autonoma de Mexico, Apartado Postal 70-543, Mexico Distrito Federal 04510 (Mexico); Schnetter, Erik [Inst. fuer Astronomie und Astrophysik, Universitaet Tuebingen, 72076 Tuebingen (Germany); Seidel, Edward [Max-Planck-Inst. fuer Gravitationsphysik, Albert-Einstein-Inst., 14476 Golm (Germany); Shinkai, Hisa-aki [Computational Science Div., Inst. of Physical and Chemical Research (RIKEN), Hirosawa 2-1, Wako, Saitama 351-0198 (Japan); Shoemaker, Deirdre [Center for Radiophysics and Space Research, Cornell Univ., Ithaca, NY 14853 (United States); Szilagyi, Bela [Dept. of Physics and Astronomy, Univ. of Pittsburgh, Pittsburgh, PA 15260 (United States); Takahashi, Ryoji [Theoretical Astrophysics Center, Juliane Maries Vej 30, 2100 Copenhagen, (Denmark); Winicour, Jeff [Max-Planck-Inst. fuer Gravitationsphysik, Albert-Einstein-Institut, 14476 Golm (Germany)

2004-01-21

In recent years, many different numerical evolution schemes for Einstein's equations have been proposed to address stability and accuracy problems that have plagued the numerical relativity community for decades. Some of these approaches have been tested on different spacetimes, and conclusions have been drawn based on these tests. However, differences in results originate from many sources, including not only formulations of the equations, but also gauges, boundary conditions, numerical methods and so on. We propose to build up a suite of standardized testbeds for comparing approaches to the numerical evolution of Einstein's equations that are designed to both probe their strengths and weaknesses and to separate out different effects, and their causes, seen in the results. We discuss general design principles of suitable testbeds, and we present an initial round of simple tests with periodic boundary conditions. This is a pivotal first step towards building a suite of testbeds to serve the numerical relativists and researchers from related fields who wish to assess the capabilities of numerical relativity codes. We present some examples of how these tests can be quite effective in revealing various limitations of different approaches, and illustrating their differences. The tests are presently limited to vacuum spacetimes, can be run on modest computational resources and can be used with many different approaches used in the relativity community.

Improving spatial prioritisation for remote marine regions: optimising biodiversity conservation and sustainable development trade-offs

Science.gov (United States)

Moore, Cordelia H.; Radford, Ben T.; Possingham, Hugh P.; Heyward, Andrew J.; Stewart, Romola R.; Watts, Matthew E.; Prescott, Jim; Newman, Stephen J.; Harvey, Euan S.; Fisher, Rebecca; Bryce, Clay W.; Lowe, Ryan J.; Berry, Oliver; Espinosa-Gayosso, Alexis; Sporer, Errol; Saunders, Thor

2016-08-01

Creating large conservation zones in remote areas, with less intense stakeholder overlap and limited environmental information, requires periodic review to ensure zonation mitigates primary threats and fill gaps in representation, while achieving conservation targets. Follow-up reviews can utilise improved methods and data, potentially identifying new planning options yielding a desirable balance between stakeholder interests. This research explored a marine zoning system in north-west Australia-a biodiverse area with poorly documented biota. Although remote, it is economically significant (i.e. petroleum extraction and fishing). Stakeholder engagement was used to source the best available biodiversity and socio-economic data and advanced spatial analyses produced 765 high resolution data layers, including 674 species distributions representing 119 families. Gap analysis revealed the current proposed zoning system as inadequate, with 98.2% of species below the Convention on Biological Diversity 10% representation targets. A systematic conservation planning algorithm Maxan provided zoning options to meet representation targets while balancing this with industry interests. Resulting scenarios revealed that conservation targets could be met with minimal impacts on petroleum and fishing industries, with estimated losses of 4.9% and 7.2% respectively. The approach addressed important knowledge gaps and provided a powerful and transparent method to reconcile industry interests with marine conservation.

Multi-dimensional, fully-implicit, spectral method for the Vlasov-Maxwell equations with exact conservation laws in discrete form

Science.gov (United States)

Delzanno, G. L.

2015-11-01

A spectral method for the numerical solution of the multi-dimensional Vlasov-Maxwell equations is presented. The plasma distribution function is expanded in Fourier (for the spatial part) and Hermite (for the velocity part) basis functions, leading to a truncated system of ordinary differential equations for the expansion coefficients (moments) that is discretized with an implicit, second order accurate Crank-Nicolson time discretization. The discrete non-linear system is solved with a preconditioned Jacobian-Free Newton-Krylov method. It is shown analytically that the Fourier-Hermite method features exact conservation laws for total mass, momentum and energy in discrete form. Standard tests involving plasma waves and the whistler instability confirm the validity of the conservation laws numerically. The whistler instability test also shows that we can step over the fastest time scale in the system without incurring in numerical instabilities. Some preconditioning strategies are presented, showing that the number of linear iterations of the Krylov solver can be drastically reduced and a significant gain in performance can be obtained.

Conservation of the Sinclair Inn Museum, and the Painted Room Annapolis Royal, Nova Scotia, Canada

Science.gov (United States)

Shaftel, A.; Ward, J.

2017-08-01

Conservation of the historic 18thC. Sinclair Inn Museum, and of the recently discovered late 18th/early 19thC. unique panoramic wall paintings located in an upstairs room, are co-dependent. This project was carried out with Canadian Conservation Institute (CCI) staff, and Conservator in Private Practice Ann Shaftel. This paper will introduce the Sinclair Inn Museum, outline the CCI murals and building investigations of 2011-15, the mural investigation of 2015-16, which confirmed that the mural extended to all four walls of the function room, now referred to as the Painted Room, and to describe how it has been revealed and conserved to date.

Finite volume schemes with equilibrium type discretization of source terms for scalar conservation laws

International Nuclear Information System (INIS)

Botchorishvili, Ramaz; Pironneau, Olivier

2003-01-01

We develop here a new class of finite volume schemes on unstructured meshes for scalar conservation laws with stiff source terms. The schemes are of equilibrium type, hence with uniform bounds on approximate solutions, valid in cell entropy inequalities and exact for some equilibrium states. Convergence is investigated in the framework of kinetic schemes. Numerical tests show high computational efficiency and a significant advantage over standard cell centered discretization of source terms. Equilibrium type schemes produce accurate results even on test problems for which the standard approach fails. For some numerical tests they exhibit exponential type convergence rate. In two of our numerical tests an equilibrium type scheme with 441 nodes on a triangular mesh is more accurate than a standard scheme with 5000 2 grid points

A Comparative Transcriptomic Analysis Reveals Conserved Features of Stem Cell Pluripotency in Planarians and Mammals

Science.gov (United States)

Labbé, Roselyne M.; Irimia, Manuel; Currie, Ko W.; Lin, Alexander; Zhu, Shu Jun; Brown, David D.R.; Ross, Eric J.; Voisin, Veronique; Bader, Gary D.; Blencowe, Benjamin J.; Pearson, Bret J.

2014-01-01

Many long-lived species of animals require the function of adult stem cells throughout their lives. However, the transcriptomes of stem cells in invertebrates and vertebrates have not been compared, and consequently, ancestral regulatory circuits that control stem cell populations remain poorly defined. In this study, we have used data from high-throughput RNA sequencing to compare the transcriptomes of pluripotent adult stem cells from planarians with the transcriptomes of human and mouse pluripotent embryonic stem cells. From a stringently defined set of 4,432 orthologs shared between planarians, mice and humans, we identified 123 conserved genes that are ≥5-fold differentially expressed in stem cells from all three species. Guided by this gene set, we used RNAi screening in adult planarians to discover novel stem cell regulators, which we found to affect the stem cell-associated functions of tissue homeostasis, regeneration, and stem cell maintenance. Examples of genes that disrupted these processes included the orthologs of TBL3, PSD12, TTC27, and RACK1. From these analyses, we concluded that by comparing stem cell transcriptomes from diverse species, it is possible to uncover conserved factors that function in stem cell biology. These results provide insights into which genes comprised the ancestral circuitry underlying the control of stem cell self-renewal and pluripotency. PMID:22696458

Identifying all moiety conservation laws in genome-scale metabolic networks.

Science.gov (United States)

De Martino, Andrea; De Martino, Daniele; Mulet, Roberto; Pagnani, Andrea

2014-01-01

The stoichiometry of a metabolic network gives rise to a set of conservation laws for the aggregate level of specific pools of metabolites, which, on one hand, pose dynamical constraints that cross-link the variations of metabolite concentrations and, on the other, provide key insight into a cell's metabolic production capabilities. When the conserved quantity identifies with a chemical moiety, extracting all such conservation laws from the stoichiometry amounts to finding all non-negative integer solutions of a linear system, a programming problem known to be NP-hard. We present an efficient strategy to compute the complete set of integer conservation laws of a genome-scale stoichiometric matrix, also providing a certificate for correctness and maximality of the solution. Our method is deployed for the analysis of moiety conservation relationships in two large-scale reconstructions of the metabolism of the bacterium E. coli, in six tissue-specific human metabolic networks, and, finally, in the human reactome as a whole, revealing that bacterial metabolism could be evolutionarily designed to cover broader production spectra than human metabolism. Convergence to the full set of moiety conservation laws in each case is achieved in extremely reduced computing times. In addition, we uncover a scaling relation that links the size of the independent pool basis to the number of metabolites, for which we present an analytical explanation.

Identifying all moiety conservation laws in genome-scale metabolic networks.

Directory of Open Access Journals (Sweden)

Andrea De Martino

Full Text Available The stoichiometry of a metabolic network gives rise to a set of conservation laws for the aggregate level of specific pools of metabolites, which, on one hand, pose dynamical constraints that cross-link the variations of metabolite concentrations and, on the other, provide key insight into a cell's metabolic production capabilities. When the conserved quantity identifies with a chemical moiety, extracting all such conservation laws from the stoichiometry amounts to finding all non-negative integer solutions of a linear system, a programming problem known to be NP-hard. We present an efficient strategy to compute the complete set of integer conservation laws of a genome-scale stoichiometric matrix, also providing a certificate for correctness and maximality of the solution. Our method is deployed for the analysis of moiety conservation relationships in two large-scale reconstructions of the metabolism of the bacterium E. coli, in six tissue-specific human metabolic networks, and, finally, in the human reactome as a whole, revealing that bacterial metabolism could be evolutionarily designed to cover broader production spectra than human metabolism. Convergence to the full set of moiety conservation laws in each case is achieved in extremely reduced computing times. In addition, we uncover a scaling relation that links the size of the independent pool basis to the number of metabolites, for which we present an analytical explanation.

Conservative treatment of bronchobiliary fistula evaluated with magnetic resonance imaging

Directory of Open Access Journals (Sweden)

Adžić-Vukičević Tatjana N.

2015-01-01

Full Text Available Introduction. Bronchobiliary fistula (BBF is a pathological communication between the bronchial system and the biliary tree that presents with bilioptysis. Many conditions can cause its development. There is still no optimal therapy for BBF. Conservative treatment is rarely indicated, as was published before in a few cases. Case report. We presented a 71-year-old Caucasian Serbian woman with BBF secondary to previous laparotomy due to multiple echinococcus liver cysts. The diagnosis was established by the presence of bilirubin and bile acids in sputum and magnetic resonance cholangiopancreatography (MRCP. A repeat MRCP performed after conservative procedure, did not reveal fistulous communication. Conclusion. We suggest that in small and less severe fistulas between the biliary and the bronchial tract, conservative treatment may be used successfully, and invasive treatment methods are not needed in all patients.

A Locally Conservative Eulerian--Lagrangian Method for a Model Two-Phase Flow Problem in a One-Dimensional Porous Medium

KAUST Repository

Arbogast, Todd; Huang, Chieh-Sen; Russell, Thomas F.

2012-01-01

Motivated by possible generalizations to more complex multiphase multicomponent systems in higher dimensions, we develop an Eulerian-Lagrangian numerical approximation for a system of two conservation laws in one space dimension modeling a

Conservation

NARCIS (Netherlands)

Noteboom, H.P.

1985-01-01

The IUCN/WWF Plants Conservation Programme 1984 — 1985. World Wildlife Fund chose plants to be the subject of their fund-raising campaign in the period 1984 — 1985. The objectives were to: 1. Use information techniques to achieve the conservation objectives of the Plants Programme – to save plants;

ChIP-seq Identification of Weakly Conserved Heart Enhancers

Energy Technology Data Exchange (ETDEWEB)

Blow, Matthew J.; McCulley, David J.; Li, Zirong; Zhang, Tao; Akiyama, Jennifer A.; Holt, Amy; Plajzer-Frick, Ingrid; Shoukry, Malak; Wright, Crystal; Chen, Feng; Afzal, Veena; Bristow, James; Ren, Bing; Black, Brian L.; Rubin, Edward M.; Visel, Axel; Pennacchio, Len A.

2010-07-01

Accurate control of tissue-specific gene expression plays a pivotal role in heart development, but few cardiac transcriptional enhancers have thus far been identified. Extreme non-coding sequence conservation successfully predicts enhancers active in many tissues, but fails to identify substantial numbers of heart enhancers. Here we used ChIP-seq with the enhancer-associated protein p300 from mouse embryonic day 11.5 heart tissue to identify over three thousand candidate heart enhancers genome-wide. Compared to other tissues studied at this time-point, most candidate heart enhancers are less deeply conserved in vertebrate evolution. Nevertheless, the testing of 130 candidate regions in a transgenic mouse assay revealed that most of them reproducibly function as enhancers active in the heart, irrespective of their degree of evolutionary constraint. These results provide evidence for a large population of poorly conserved heart enhancers and suggest that the evolutionary constraint of embryonic enhancers can vary depending on tissue type.

An online conserved SSR discovery through cross-species comparison

Directory of Open Access Journals (Sweden)

Tun-Wen Pai

2009-02-01

Full Text Available Tun-Wen Pai1, Chien-Ming Chen1, Meng-Chang Hsiao1, Ronshan Cheng2, Wen-Shyong Tzou3, Chin-Hua Hu31Department of Computer Science and Engineering; 2Department of Aquaculture, 3Institute of Bioscience and Biotechnology, National Taiwan Ocean University, Keelung, Taiwan, Republic of ChinaAbstract: Simple sequence repeats (SSRs play important roles in gene regulation and genome evolution. Although there exist several online resources for SSR mining, most of them only extract general SSR patterns without providing functional information. Here, an online search tool, CG-SSR (Comparative Genomics SSR discovery, has been developed for discovering potential functional SSRs from vertebrate genomes through cross-species comparison. In addition to revealing SSR candidates in conserved regions among various species, it also combines accurate coordinate and functional genomics information. CG-SSR is the first comprehensive and efficient online tool for conserved SSR discovery.Keywords: microsatellites, genome, comparative genomics, functional SSR, gene ontology, conserved region

Higher order Godunov methods for general systems of hyperbolic conservation laws

International Nuclear Information System (INIS)

Bell, J.B.; Colella, P.; Trangenstein, J.A.

1989-01-01

We describe an extension of higher order Godunov methods to general systems of hyperbolic conservation laws. This extension allow the method to be applied to problems that are not strictly hyperbolic and exhibit local linear degeneracies in the wave fields. The method constructs an approximation of the Riemann problem from local wave information. A generalization of the Engquist--Osher flux for systems is then used to compute a numerical flux based on this approximation. This numerical flux replaces the Godunov numerical flux in the algorithm, thereby eliminating the need for a global Riemann problem solution. The additional modifications to the Godunov methodology that are needed to treat loss of strict hyperbolicity are described in detail. The method is applied to some simple model problems for which the glocal analytic structure is known. The method is also applied to the black-oil model for multiphase flow in petroleum reservoirs. copyright 1989 Academic Press, Inc

Energy conserving, linear scaling Born-Oppenheimer molecular dynamics.

Science.gov (United States)

Cawkwell, M J; Niklasson, Anders M N

2012-10-07

Born-Oppenheimer molecular dynamics simulations with long-term conservation of the total energy and a computational cost that scales linearly with system size have been obtained simultaneously. Linear scaling with a low pre-factor is achieved using density matrix purification with sparse matrix algebra and a numerical threshold on matrix elements. The extended Lagrangian Born-Oppenheimer molecular dynamics formalism [A. M. N. Niklasson, Phys. Rev. Lett. 100, 123004 (2008)] yields microcanonical trajectories with the approximate forces obtained from the linear scaling method that exhibit no systematic drift over hundreds of picoseconds and which are indistinguishable from trajectories computed using exact forces.

African wildlife conservation and the evolution of hunting institutions

Science.gov (United States)

't Sas-Rolfes, Michael

2017-11-01

Hunting regulation presents a significant challenge for contemporary global conservation governance. Motivated by various incentives, hunters may act legally or illegally, for or against the interests of conservation. Hunter incentives are shaped by the interactions between unevenly evolving formal and informal institutions, embedded in socio-ecological systems. To work effectively for conservation, regulatory interventions must take these evolving institutional interactions into account. Drawing on analytical tools from evolutionary institutional economics, this article examines the trajectory of African hunting regulation and its consequences. Concepts of institutional dynamics, fit, scale, and interplay are applied to case studies of rhinoceros and lion hunting to highlight issues of significance to conservation outcomes. These include important links between different forms of hunting and dynamic interplay with institutions of trade. The case studies reveal that inappropriate formal regulatory approaches may be undermined by adaptive informal market responses. Poorly regulated hunting may lead to calls for stricter regulations or bans, but such legal restrictions may in turn perversely lead to more intensified and organised illegal hunting activity, further undermining conservation objectives. I conclude by offering insights and recommendations to guide more effective future regulatory interventions and priorities for further research. Specifically, I advocate approaches that move beyond simplistic regulatory interventions toward more complex, but supportive, institutional arrangements that align formal and informal institutions through inclusive stakeholder engagement.

Jaguar conservation in southern Belize: Conflicts, perceptions, and prospects among mayan hunters

Directory of Open Access Journals (Sweden)

Michael K Steinberg

2016-01-01

Full Text Available Belize has emerged as an international leader in jaguar conservation through the creation of numerous protected areas that contain prime cat habitat and by strengthening conservation laws. For example, in 1984, Belize created the Cockscomb Basin Jaguar Preserve, the first special jaguar protection area in the Americas. In 1995, the government expanded Cockscomb by creating the adjacent Chiquibul National Park. In 2010, the government continued this commitment to jaguar conservation by creating the Labouring Creek Jaguar Corridor Wildlife Sanctuary in central Belize. As a result of these protected areas, Belize has been rightfully lauded as a leader in nature-based tourism and protected areas creation in Central America. However, outside national parks and communities that directly benefit from ecotourism, it is less clear how supportive rural residents are of cat conservation. It is also not clear if jaguars persist outside protected areas in locations such as southern Belize, where the environment has been significantly altered by human activities. Through interviews with Mayan hunters, this paper investigates the attitudes towards jaguars, human-jaguar conflicts, and potential community-based jaguar conservation in two Mayan villages in the Toledo District in southern Belize. Also, using indirect methods, the paper documents the presence/absence and other temporal/spatial aspects of jaguars in a heavily altered landscape in southern Belize.

HYDRA-II: A hydrothermal analysis computer code: Volume 1, Equations and numerics

International Nuclear Information System (INIS)

McCann, R.A.

1987-04-01

HYDRA-II is a hydrothermal computer code capable of three-dimensional analysis of coupled conduction, convection, and thermal radiation problems. This code is especially appropriate for simulating the steady-state performance of spent fuel storage systems. The code has been evaluated for this application for the US Department of Energy's Commercial Spent Fuel Management Program. HYDRA-II provides a finite difference solution in Cartesian coordinates to the equations governing the conservation of mass, momentum, and energy. A cylindrical coordinate system may also be used to enclose the Cartesian coordinate system. This exterior coordinate system is useful for modeling cylindrical cask bodies. The difference equations for conservation of momentum are enhanced by the incorporation of directional porosities and permeabilities that aid in modeling solid structures whose dimensions may be smaller than the computational mesh. The equation for conservation of energy permits of modeling of orthotropic physical properties and film resistances. Several automated procedures are available to model radiation transfer within enclosures and from fuel rod to fuel rod. The documentation of HYDRA-II is presented in three separate volumes. This volume, Volume I - Equations and Numerics, describes the basic differential equations, illustrates how the difference equations are formulated, and gives the solution procedures employed. Volume II - User's Manual contains code flow charts, discusses the code structure, provides detailed instructions for preparing an input file, and illustrates the operation of the code by means of a model problem. The final volume, Volume III - Verification/Validation Assessments, presents results of numerical simulations of single- and multiassembly storage systems and comparisons with experimental data. 4 refs

The ionic structure of liquid sodium obtained by numerical simulation from 'first principles' and ab initio 'norm-conserving' pseudopotentials

International Nuclear Information System (INIS)

Harchaoui, N; Hellal, S; Grosdidier, B; Gasser, J G

2008-01-01

The physical properties of disordered matter depend on the 'atomic structure' i.e. the arrangement of the atoms. This arrangement is described by the structure factor S (q) in reciprocal space and by the pair correlation function g(r) in real space. The structure factor is obtained experimentally while the numerical simulation enables us to obtain the pair correlation function. Liquid sodium is one of the elements the most studied and one can wonder about new scientific contribution appropriateness. The majority of theoretical calculations are compared with the experiment of Waseda. However two other posterior measurements have been published and give different results, in particular with regard to the height of the first peak of the structure factor. Three models of pseudopotential are considered to describe the electron-ion interaction. The first is a local pseudopotential with the alternative known as 'individual' of the model suggested by Fiolhais et al. The second model considered is that of Bachelet et al. This one, ab-initio and 'norm conserving', is non local. The last model is that proposed by Shaw known as 'first principles' and 'energy dependent'. Various static dielectric functions characteristic of the effects of exchange and correlation have been used and developed by Hellal et al. We calculated the form factors (pseudopotential in reciprocal space) and deduce the normalized energy-wave-number characteristic F N (q), the interatomic pair potential V eff (r), then the pair correlation function g(r) by molecular dynamics. The structure factor S(q) is obtained by Fourier transform and is compared with the experiment. Our calculations with the Bachelet and Shaw pseudopotentials are close to the last experiments of Greenfield et al. and of Huijben et al. Our results are discussed

A numerical scheme for a kinetic model for mixtures in the diffusive limit using the moment method

OpenAIRE

Bondesan , Andrea; Boudin , Laurent; Grec , Bérénice

2018-01-01

In this article, we consider a multi-species kinetic model which leads to the Maxwell-Stefan equations under a standard diffusive scaling (small Knudsen and Mach numbers). We propose a suitable numerical scheme which approximates both the solution of the kinetic model in rarefied regime and the one in the diffusion limit. We prove some a priori estimates (mass conservation and nonnegativity) and well-posedness of the discrete problem. We also present numerical examples where we observe the as...

Conservation inequality and the charismatic cat: Felis felicis

Directory of Open Access Journals (Sweden)

E.A. Macdonald

2015-01-01

Full Text Available Conservation resources are limited, making it impossible to invest equally in all threatened species. One way to maximise conservation gains is to focus upon those species with particular public appeal, using them to generate funding and support that could also benefit less charismatic species. Although this approach is already used by many conservation organisations, no reliable metrics currently exist to determine the likely charisma of a given species, and therefore identify the most appropriate targets for such campaigns. Here we use market research techniques on over 1500 people from five continents to assess the relative charisma of different mammals, which factors appear to drive it, and how these patterns vary between countries. Felids and primates emerged as highly favoured species for conservation, with the tiger (Panthera tigris the top species by a wide margin. Using an information theoretic approach we develop models that successfully predict respondents’ preferences across the entire sample, suggesting global commonalities in the attributes that people prefer for conservation. However, by analysing each country separately we are able to improve our models, thus highlighting the importance of identifying locally specific flagships for conservation. The most important attributes were body size and IUCN status, although the extent of baldness, whether the species was a potential threat to humans and whether the eyes were forward or side facing were also widely important. Several of the key attributes revealed in this study could be extrapolated to nearly all terrestrial mammals, paving the way for a standardised global identification of species likely to prove effective for future conservation campaigns. The public preferred species with which they had affinity and familiarity, and we discuss how these aspects could be increased to promote the under-achievers, whilst maximising the funding potential of the highly charismatic mammals

Averaged multivalued solutions and time discretization for conservation laws

International Nuclear Information System (INIS)

Brenier, Y.

1985-01-01

It is noted that the correct shock solutions can be approximated by averaging in some sense the multivalued solution given by the method of characteristics for the nonlinear scalar conservation law (NSCL). A time discretization for the NSCL equation based on this principle is considered. An equivalent analytical formulation is shown to lead quite easily to a convergence result, and a third formulation is introduced which can be generalized for the systems of conservation laws. Various numerical schemes are constructed from the proposed time discretization. The first family of schemes is obtained by using a spatial grid and projecting the results of the time discretization. Many known schemes are then recognized (mainly schemes by Osher, Roe, and LeVeque). A second way to discretize leads to a particle scheme without space grid, which is very efficient (at least in the scalar case). Finally, a close relationship between the proposed method and the Boltzmann type schemes is established. 14 references

Propagation of multidimensional nonlinear waves and kinematical conservation laws

CERN Document Server

Prasad, Phoolan

2017-01-01

This book formulates the kinematical conservation laws (KCL), analyses them and presents their applications to various problems in physics. Finally, it addresses one of the most challenging problems in fluid dynamics: finding successive positions of a curved shock front. The topics discussed are the outcome of collaborative work that was carried out mainly at the Indian Institute of Science, Bengaluru, India. The theory presented in the book is supported by referring to extensive numerical results. The book is organised into ten chapters. Chapters 1–4 offer a summary of and briefly discuss the theory of hyperbolic partial differential equations and conservation laws. Formulation of equations of a weakly nonlinear wavefront and those of a shock front are briefly explained in Chapter 5, while Chapter 6 addresses KCL theory in space of arbitrary dimensions. The remaining chapters examine various analyses and applications of KCL equations ending in the ultimate goal-propagation of a three-dimensional curved sho...

Conservation.

Science.gov (United States)

National Audubon Society, New York, NY.

This set of teaching aids consists of seven Audubon Nature Bulletins, providing the teacher and student with informational reading on various topics in conservation. The bulletins have these titles: Plants as Makers of Soil, Water Pollution Control, The Ground Water Table, Conservation--To Keep This Earth Habitable, Our Threatened Air Supply,…

Conservation of Salmonella infection mechanisms in plants and animals.

Directory of Open Access Journals (Sweden)

Adam Schikora

Full Text Available Salmonella virulence in animals depends on effectors injected by Type III Secretion Systems (T3SSs. In this report we demonstrate that Salmonella mutants that are unable to deliver effectors are also compromised in infection of Arabidopsis thaliana plants. Transcriptome analysis revealed that in contrast to wild type bacteria, T3SS mutants of Salmonella are compromised in suppressing highly conserved Arabidopsis genes that play a prominent role during Salmonella infection of animals. We also found that Salmonella originating from infected plants are equally virulent for human cells and mice. These results indicate a high degree of conservation in the defense and infection mechanism of animal and plant hosts during Salmonella infection.

Multipion correlations induced by isospin conservation of coherent emission

International Nuclear Information System (INIS)

Gangadharan, Dhevan

2016-01-01

Recent measurements have revealed a significant suppression of multipion Bose–Einstein correlations in heavy-ion collisions at the LHC. The suppression may be explained by postulating coherent pion emission. Typically, the suppression of Bose–Einstein correlations due to coherence is taken into account with the coherent state formalism in quantum optics. However, since charged pion correlations are most often measured, the additional constraint of isospin conservation, which is absent in quantum optics, needs to be taken into account. As a consequence, correlations emerge between pions of opposite charge. A calculation of the correlations induced by isospin conservation of coherent emission is made for two, three- and four-pion correlation functions and compared to the data from the LHC.

Advanced numerical methods for three dimensional two-phase flow calculations in PWR

International Nuclear Information System (INIS)

Toumi, I.; Gallo, D.; Royer, E.

1997-01-01

This paper is devoted to new numerical methods developed for three dimensional two-phase flow calculations. These methods are finite volume numerical methods. They are based on an extension of Roe's approximate Riemann solver to define convective fluxes versus mean cell quantities. To go forward in time, a linearized conservative implicit integrating step is used, together with a Newton iterative method. We also present here some improvements performed to obtain a fully implicit solution method that provides fast running steady state calculations. This kind of numerical method, which is widely used for fluid dynamic calculations, is proved to be very efficient for the numerical solution to two-phase flow problems. This numerical method has been implemented for the three dimensional thermal-hydraulic code FLICA-4 which is mainly dedicated to core thermal-hydraulic transient and steady-state analysis. Hereafter, we will also find some results obtained for the EPR reactor running in a steady-state at 60% of nominal power with 3 pumps out of 4, and a thermal-hydraulic core analysis for a 1300 MW PWR at low flow steam-line-break conditions. (author)

Climate change as an ecosystem architect: implications to rare plant ecology, conservation, and restoration

Science.gov (United States)

Constance I. Millar

2003-01-01

Recent advances in earth system sciences have revealed significant new information relevant to rare plant ecology and conservation. Analysis of climate change at high resolution with new and precise proxies of paleotemperatures reveals a picture over the past two million years of oscillatory climate change operating simultaneously at multiple timescales. Low-frequency...

Numerical Model of Fluid Flow through Heterogeneous Rock for High Level Radioactive Waste Disposal

International Nuclear Information System (INIS)

Shirai, M.; Chiba, R.; Takahashi, T.; Hashida, T.; Fomin, S.; Chugunov, V.; Niibori, Y.

2007-01-01

An international consensus has emerged that deep geological disposal on land is one of the most appropriate means for high level radioactive wastes (HLW). The fluid transport is slow and radioactive elements are dangerous, so it's impossible to experiment over thousands of years. Instead, numerical model in such natural barrier as fractured underground needs to be considered. Field observations reveal that the equation with fractional derivative is more appropriate for describing physical phenomena than the equation which is based on the Fick's law. Thus, non-Fickian diffusion into inhomogeneous underground appears to be important in the assessment of HLW disposal. A solute transport equation with fractional derivative has been suggested and discussed in literature. However, no attempts were made to apply this equation for modeling of HLW disposal with account for the radioactive decay. In this study, we suggest the use of a novel fractional advection-diffusion equation which accounts for the effect of radioactive disintegration and for interactions between major, macro pores and fractal micro pores. This model is fundamentally different from previous proposed model of HLW, particularly in utilizing fractional derivative. Breakthrough curves numerically obtained by the present model are presented for a variety of rock types with respect to some important nuclides. Results of the calculation showed that for longer distance our model tends to be more conservative than the conventional Fickian model, therefore our model can be said to be safer

Numerical simulation of moderator flow and temperature distributions in a CANDU reactor vessel

International Nuclear Information System (INIS)

Carlucci, L.N.

1982-10-01

This paper describes numerical predictions of the two-dimensional flow and temperature fields of an internally-heated liquid in a typical CANDU reactor vessel. Turbulence momentum and energy transport are simulated using the k-epsilon model. Both steady-state and transient results are discussed. The finite control volume analogues of the conservation equations are solved using a modified version of the TEACH code

On the elimination of numerical Cerenkov radiation in PIC simulations

International Nuclear Information System (INIS)

Greenwood, Andrew D.; Cartwright, Keith L.; Luginsland, John W.; Baca, Ernest A.

2004-01-01

Particle-in-cell (PIC) simulations are a useful tool in modeling plasma in physical devices. The Yee finite difference time domain (FDTD) method is commonly used in PIC simulations to model the electromagnetic fields. However, in the Yee FDTD method, poorly resolved waves at frequencies near the cut off frequency of the grid travel slower than the physical speed of light. These slowly traveling, poorly resolved waves are not a problem in many simulations because the physics of interest are at much lower frequencies. However, when high energy particles are present, the particles may travel faster than the numerical speed of their own radiation, leading to non-physical, numerical Cerenkov radiation. Due to non-linear interaction between the particles and the fields, the numerical Cerenkov radiation couples into the frequency band of physical interest and corrupts the PIC simulation. There are two methods of mitigating the effects of the numerical Cerenkov radiation. The computational stencil used to approximate the curl operator can be altered to improve the high frequency physics, or a filtering scheme can be introduced to attenuate the waves that cause the numerical Cerenkov radiation. Altering the computational stencil is more physically accurate but is difficult to implement while maintaining charge conservation in the code. Thus, filtering is more commonly used. Two previously published filters by Godfrey and Friedman are analyzed and compared to ideally desired filter properties

Numerical Hydrodynamics and Magnetohydrodynamics in General Relativity

Directory of Open Access Journals (Sweden)

Font José A.

2008-09-01

Full Text Available This article presents a comprehensive overview of numerical hydrodynamics and magnetohydrodynamics (MHD in general relativity. Some significant additions have been incorporated with respect to the previous two versions of this review (2000, 2003, most notably the coverage of general-relativistic MHD, a field in which remarkable activity and progress has occurred in the last few years. Correspondingly, the discussion of astrophysical simulations in general-relativistic hydrodynamics is enlarged to account for recent relevant advances, while those dealing with general-relativistic MHD are amply covered in this review for the first time. The basic outline of this article is nevertheless similar to its earlier versions, save for the addition of MHD-related issues throughout. Hence, different formulations of both the hydrodynamics and MHD equations are presented, with special mention of conservative and hyperbolic formulations well adapted to advanced numerical methods. A large sample of numerical approaches for solving such hyperbolic systems of equations is discussed, paying particular attention to solution procedures based on schemes exploiting the characteristic structure of the equations through linearized Riemann solvers. As previously stated, a comprehensive summary of astrophysical simulations in strong gravitational fields is also presented. These are detailed in three basic sections, namely gravitational collapse, black-hole accretion, and neutron-star evolutions; despite the boundaries, these sections may (and in fact do overlap throughout the discussion. The material contained in these sections highlights the numerical challenges of various representative simulations. It also follows, to some extent, the chronological development of the field, concerning advances in the formulation of the gravitational field, hydrodynamics and MHD equations and the numerical methodology designed to solve them. To keep the length of this article reasonable

Quantification of fatty acids in salmon fillets conserved by different methods

Directory of Open Access Journals (Sweden)

Renata Menoci Gonçalves

2017-09-01

Full Text Available Lipid contents and the composition of fatty acids of fillets from Chilean salmon (Salmo salar were determined under different conservation methods: fresh salmon, frozen salmon, water-conserved canned salmon and frozen salmon in long-term storage. Fatty acid contents were determined by gas chromatography. The fillets had high lipid levels, ranging between 9.71 and 12.86%. All samples presented high levels of monounsaturated fatty acids, between 363.69 and 425.30 mg g-1 of total lipids, followed by polyunsaturated fatty acids (294.46 - 342.45 mg g-1 of total lipids and saturated fatty acids (203.32 - 223.17 mg g-1 of total lipids. Although samples revealed different lipid contents, all proved to be great sources of omega-3 fatty acids, regardless of the manner of conservation.

Genome Analysis of Conserved Dehydrin Motifs in Vascular Plants

Directory of Open Access Journals (Sweden)

Ahmad A. Malik

2017-05-01

Full Text Available Dehydrins, a large family of abiotic stress proteins, are defined by the presence of a mostly conserved motif known as the K-segment, and may also contain two other conserved motifs known as the Y-segment and S-segment. Using the dehydrin literature, we developed a sequence motif definition of the K-segment, which we used to create a large dataset of dehydrin sequences by searching the Pfam00257 dehydrin dataset and the Phytozome 10 sequences of vascular plants. A comprehensive analysis of these sequences reveals that lysine residues are highly conserved in the K-segment, while the amino acid type is often conserved at other positions. Despite the Y-segment name, the central tyrosine is somewhat conserved, but can be substituted with two other small aromatic amino acids (phenylalanine or histidine. The S-segment contains a series of serine residues, but in some proteins is also preceded by a conserved LHR sequence. In many dehydrins containing all three of these motifs the S-segment is linked to the K-segment by a GXGGRRKK motif (where X can be any amino acid, suggesting a functional linkage between these two motifs. An analysis of the sequences shows that the dehydrin architecture and several biochemical properties (isoelectric point, molecular mass, and hydrophobicity score are dependent on each other, and that some dehydrin architectures are overexpressed during certain abiotic stress, suggesting that they may be optimized for a specific abiotic stress while others are involved in all forms of dehydration stress (drought, cold, and salinity.

Comparative transcriptome analysis within the Lolium/Festuca species complex reveals high sequence conservation

DEFF Research Database (Denmark)

Czaban, Adrian; Sharma, Sapna; Byrne, Stephen

2015-01-01

species from the Lolium-Festuca complex, ranging from 52,166 to 72,133 transcripts per assembly. We have also predicted a set of proteins and validated it with a high-confidence protein database from three closely related species (H. vulgare, B. distachyon and O. sativa). We have obtained gene family...... clusters for the four species using OrthoMCL and analyzed their inferred phylogenetic relationships. Our results indicate that VRN2 is a candidate gene for differentiating vernalization and non-vernalization types in the Lolium-Festuca complex. Grouping of the gene families based on their BLAST identity...... enabled us to divide ortholog groups into those that are very conserved and those that are more evolutionarily relaxed. The ratio of the non-synonumous to synonymous substitutions enabled us to pinpoint protein sequences evolving in response to positive selection. These proteins may explain some...

Assessing the impact of international conservation aid on deforestation in sub-Saharan Africa

Science.gov (United States)

Bare, Matthew; Kauffman, Craig; Miller, Daniel C.

2015-12-01

International conservation donors have spent at least 3.4 billion to protect biodiversity and stem tropical deforestation in Africa since the early 1990s. Despite more than two decades of experience, however, there is little research on the effect of this aid at a region-wide scale. Numerous case studies exist, but show mixed results. Existing research is usually based on community perception or focused on short-term donor objectives rather than specific conservation outcomes, like deforestation rates. Thus, the impact of billions of dollars of conservation aid on deforestation rates remains an open question. This article uses an original dataset to analyze the effect of international conservation aid on deforestation rates in 42 African countries between 2000 and 2013. We first describe patterns of conservation aid across the continent and then assess its impact (with one to five-year lags), controlling for other factors that may also affect deforestation, including rural population, protected areas (PAs), governance, and other economic and commodity production variables. We find that conservation aid is associated with higher rates of forest loss after one- or two-year lags. A similar result holds for PA extent, suggesting possible displacement of deforestation from PAs. However, governance quality in high forest cover countries moderates these effects such that deforestation rates are reduced. Rural population is the most consistent factor associated with forest loss, confirming previous studies of this driver. Our results suggest that in heavily forested countries, development projects designed to support conservation work initially in conditions of good governance, but that conservation aid alone is insufficient to mitigate larger deforestation drivers.

Setting conservation priorities.

Science.gov (United States)

Wilson, Kerrie A; Carwardine, Josie; Possingham, Hugh P

2009-04-01

A generic framework for setting conservation priorities based on the principles of classic decision theory is provided. This framework encapsulates the key elements of any problem, including the objective, the constraints, and knowledge of the system. Within the context of this framework the broad array of approaches for setting conservation priorities are reviewed. While some approaches prioritize assets or locations for conservation investment, it is concluded here that prioritization is incomplete without consideration of the conservation actions required to conserve the assets at particular locations. The challenges associated with prioritizing investments through time in the face of threats (and also spatially and temporally heterogeneous costs) can be aided by proper problem definition. Using the authors' general framework for setting conservation priorities, multiple criteria can be rationally integrated and where, how, and when to invest conservation resources can be scheduled. Trade-offs are unavoidable in priority setting when there are multiple considerations, and budgets are almost always finite. The authors discuss how trade-offs, risks, uncertainty, feedbacks, and learning can be explicitly evaluated within their generic framework for setting conservation priorities. Finally, they suggest ways that current priority-setting approaches may be improved.

Numerical simulation of bubble deformation in magnetic fluids by finite volume method

International Nuclear Information System (INIS)

Yamasaki, Haruhiko; Yamaguchi, Hiroshi

2017-01-01

Bubble deformation in magnetic fluids under magnetic field is investigated numerically by an interface capturing method. The numerical method consists of a coupled level-set and VOF (Volume of Fluid) method, combined with conservation CIP (Constrained Interpolation Profile) method with the self-correcting procedure. In the present study considering actual physical properties of magnetic fluid, bubble deformation under given uniform magnetic field is analyzed for internal magnetic field passing through a magnetic gaseous and liquid phase interface. The numerical results explain the mechanism of bubble deformation under presence of given magnetic field. - Highlights: • A magnetic field analysis is developed to simulate the bubble dynamics in magnetic fluid with two-phase interface. • The elongation of bubble increased with increasing magnetic flux intensities due to strong magnetic normal force. • Proposed technique explains the bubble dynamics, taking into account of the continuity of the magnetic flux density.

Crystal structure of Arabidopsis thaliana Dawdle forkhead-associated domain reveals a conserved phospho-threonine recognition cleft for dicer-like 1 binding.

Science.gov (United States)

Machida, Satoru; Yuan, Y Adam

2013-07-01

Dawdle (DDL) is a microRNA processing protein essential for the development of Arabidopsis. DDL contains a putative nuclear localization signal at its amino-terminus and forkhead-associated (FHA) domain at the carboxyl-terminus. Here, we report the crystal structure of the FHA domain of Arabidopsis Dawdle, determined by multiple-wavelength anomalous dispersion method at 1.7-Å resolution. DDL FHA structure displays a seven-stranded β-sandwich architecture that contains a unique structural motif comprising two long anti-parallel strands. Strikingly, crystal packing of the DDL FHA domain reveals that a glutamate residue from the symmetry-related DDL FHA domain, a structural mimic of the phospho-threonine, is specifically recognized by the structurally conserved phospho-threonine binding cleft. Consistently with the structural observations, co-immuno-precipitation experiments performed in Nicotiana benthamiana show that the DDL FHA domain co-immuno-precipitates with DCL1 fragments containing the predicted pThr+3(Ile/Val/Leu/Asp) motif. Taken together, we count the recognition of the target residue by the canonical binding cleft of the DDL FHA domain as the key molecular event to instate FHA domain-mediated protein-protein interaction in plant miRNA processing.

The effect of using games in teaching conservation

Directory of Open Access Journals (Sweden)

Cedric Kai Wei Tan

2018-04-01

Full Text Available Games are an increasingly popular approach for conservation teaching. However, we know little about the effectiveness of the games on students’ experiences and knowledge acquisition. Many current games are supplemental games (SG that have no meaningful interaction with the subject matter. We adapted the experiential gaming (EG model where students were immersed in goal-orientated tasks found in real-life situations, and they tackled questions to complete actions for their main task. Classroom-based games were created for eight different conservation topics for an annual Wildlife Conservation Course and an annual Diploma in International Wildlife Conservation Practice. Data were collected over two cycles, a total sample size of 55 multinational students. We used a combination of repeated-measures design and counterbalanced measures design; each student was subjected at least twice to each of the EG and didactic instruction (DI treatments, and at least once to the SG approach. We compared students’ perception, learning and behavioural responses to the treatments, including measures of student personality types and learning styles as explanatory variables. Findings revealed multiple benefits of the classroom EG compared to the DI approach, such as increased attention retention, increased engagement and added intrinsic motivation. The improved level of intrinsic motivation was mainly facilitated by increased social bonding between participants. Further, we show that this EG approach appeals to a wide range of learning styles and personalities. The performance of SG was generally intermediate between that of EG and DI. We propose EG as a beneficial complement to traditional classroom teaching and current gamified classes for conservation education.

The effect of using games in teaching conservation.

Science.gov (United States)

Tan, Cedric Kai Wei; Lee, Jiin Woei; Hii, Adeline; Loo, Yen Yi; Campos-Arceiz, Ahimsa; Macdonald, David W

2018-01-01

Games are an increasingly popular approach for conservation teaching. However, we know little about the effectiveness of the games on students' experiences and knowledge acquisition. Many current games are supplemental games (SG) that have no meaningful interaction with the subject matter. We adapted the experiential gaming (EG) model where students were immersed in goal-orientated tasks found in real-life situations, and they tackled questions to complete actions for their main task. Classroom-based games were created for eight different conservation topics for an annual Wildlife Conservation Course and an annual Diploma in International Wildlife Conservation Practice. Data were collected over two cycles, a total sample size of 55 multinational students. We used a combination of repeated-measures design and counterbalanced measures design; each student was subjected at least twice to each of the EG and didactic instruction (DI) treatments, and at least once to the SG approach. We compared students' perception, learning and behavioural responses to the treatments, including measures of student personality types and learning styles as explanatory variables. Findings revealed multiple benefits of the classroom EG compared to the DI approach, such as increased attention retention, increased engagement and added intrinsic motivation. The improved level of intrinsic motivation was mainly facilitated by increased social bonding between participants. Further, we show that this EG approach appeals to a wide range of learning styles and personalities. The performance of SG was generally intermediate between that of EG and DI. We propose EG as a beneficial complement to traditional classroom teaching and current gamified classes for conservation education.

Conservation Value

OpenAIRE

Tisdell, Clement A.

2010-01-01

This paper outlines the significance of the concept of conservation value and discusses ways in which it is determined paying attention to views stemming from utilitarian ethics and from deontological ethics. The importance of user costs in relation to economic decisions about the conservation and use of natural resources is emphasised. Particular attention is given to competing views about the importance of conserving natural resources in order to achieve economic sustainability. This then l...

Direct Numerical Simulation of Driven Cavity Flows

NARCIS (Netherlands)

Verstappen, R.; Wissink, J.G.; Veldman, A.E.P.

Direct numerical simulations of 2D driven cavity flows have been performed. The simulations exhibit that the flow converges to a periodically oscillating state at Re=11,000, and reveal that the dynamics is chaotic at Re=22,000. The dimension of the attractor and the Kolmogorov entropy have been

The Mediator complex of Caenorhabditis elegans: insights into the developmental and physiological roles of a conserved transcriptional coregulator.

Science.gov (United States)

Grants, Jennifer M; Goh, Grace Y S; Taubert, Stefan

2015-02-27

The Mediator multiprotein complex ('Mediator') is an important transcriptional coregulator that is evolutionarily conserved throughout eukaryotes. Although some Mediator subunits are essential for the transcription of all protein-coding genes, others influence the expression of only subsets of genes and participate selectively in cellular signaling pathways. Here, we review the current knowledge of Mediator subunit function in the nematode Caenorhabditis elegans, a metazoan in which established and emerging genetic technologies facilitate the study of developmental and physiological regulation in vivo. In this nematode, unbiased genetic screens have revealed critical roles for Mediator components in core developmental pathways such as epidermal growth factor (EGF) and Wnt/β-catenin signaling. More recently, important roles for C. elegans Mediator subunits have emerged in the regulation of lipid metabolism and of systemic stress responses, engaging conserved transcription factors such as nuclear hormone receptors (NHRs). We emphasize instances where similar functions for individual Mediator subunits exist in mammals, highlighting parallels between Mediator subunit action in nematode development and in human cancer biology. We also discuss a parallel between the association of the Mediator subunit MED12 with several human disorders and the role of its C. elegans ortholog mdt-12 as a regulatory hub that interacts with numerous signaling pathways. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

A High-Accuracy Linear Conservative Difference Scheme for Rosenau-RLW Equation

Directory of Open Access Journals (Sweden)

Jinsong Hu

2013-01-01

Full Text Available We study the initial-boundary value problem for Rosenau-RLW equation. We propose a three-level linear finite difference scheme, which has the theoretical accuracy of Oτ2+h4. The scheme simulates two conservative properties of original problem well. The existence, uniqueness of difference solution, and a priori estimates in infinite norm are obtained. Furthermore, we analyze the convergence and stability of the scheme by energy method. At last, numerical experiments demonstrate the theoretical results.

Conservation Laws for Gyrokinetic Equations for Large Perturbations and Flows

Science.gov (United States)

Dimits, Andris

2017-10-01

Gyrokinetic theory has proved to be very useful for the understanding of magnetized plasmas, both to simplify analytical treatments and as a basis for efficient numerical simulations. Gyrokinetic theories were previously developed in two extended orderings that are applicable to large fluctuations and flows as may arise in the tokamak edge and scrapeoff layer. In the present work, we cast the resulting equations in a field-theoretical variational form, and derive, up to second order in the respective orderings, the associated global and local energy and (linear and toroidal) momentum conservation relations that result from Noether's theorem. The consequences of these for the various possible choices of numerical discretization used in gyrokinetic simulations are considered. Prepared for US DOE by LLNL under Contract DE-AC52-07NA27344 and supported by the U.S. DOE, OFES.

Numerical Modeling of Conjugate Heat Transfer in Fluid Network

Science.gov (United States)

Majumdar, Alok

2004-01-01

Fluid network modeling with conjugate heat transfer has many applications in Aerospace engineering. In modeling unsteady flow with heat transfer, it is important to know the variation of wall temperature in time and space to calculate heat transfer between solid to fluid. Since wall temperature is a function of flow, a coupled analysis of temperature of solid and fluid is necessary. In cryogenic applications, modeling of conjugate heat transfer is of great importance to correctly predict boil-off rate in propellant tanks and chill down of transfer lines. In TFAWS 2003, the present author delivered a paper to describe a general-purpose computer program, GFSSP (Generalized Fluid System Simulation Program). GFSSP calculates flow distribution in complex flow circuit for compressible/incompressible, with or without heat transfer or phase change in all real fluids or mixtures. The flow circuit constitutes of fluid nodes and branches. The mass, energy and specie conservation equations are solved at the nodes where as momentum conservation equations are solved at the branches. The proposed paper describes the extension of GFSSP to model conjugate heat transfer. The network also includes solid nodes and conductors in addition to fluid nodes and branches. The energy conservation equations for solid nodes solves to determine the temperatures of the solid nodes simultaneously with all conservation equations governing fluid flow. The numerical scheme accounts for conduction, convection and radiation heat transfer. The paper will also describe the applications of the code to predict chill down of cryogenic transfer line and boil-off rate of cryogenic propellant storage tank.

Plasma electron hole kinematics. I. Momentum conservation

Energy Technology Data Exchange (ETDEWEB)

Hutchinson, I. H.; Zhou, C. [Plasma Science and Fusion Center, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139 (United States)

2016-08-15

We analyse the kinematic properties of a plasma electron hole: a non-linear self-sustained localized positive electric potential perturbation, trapping electrons, which behaves as a coherent entity. When a hole accelerates or grows in depth, ion and electron plasma momentum is changed both within the hole and outside, by an energization process we call jetting. We present a comprehensive analytic calculation of the momentum changes of an isolated general one-dimensional hole. The conservation of the total momentum gives the hole's kinematics, determining its velocity evolution. Our results explain many features of the behavior of hole speed observed in numerical simulations, including self-acceleration at formation, and hole pushing and trapping by ion streams.

Comparative sequence analysis of Solanum and Arabidopsis in a hot spot for pathogen resistance on potato chromosome V reveals a patchwork of conserved and rapidly evolving genome segments

Directory of Open Access Journals (Sweden)

Bruggmann Rémy

2007-05-01

Full Text Available Abstract Background Quantitative phenotypic variation of agronomic characters in crop plants is controlled by environmental and genetic factors (quantitative trait loci = QTL. To understand the molecular basis of such QTL, the identification of the underlying genes is of primary interest and DNA sequence analysis of the genomic regions harboring QTL is a prerequisite for that. QTL mapping in potato (Solanum tuberosum has identified a region on chromosome V tagged by DNA markers GP21 and GP179, which contains a number of important QTL, among others QTL for resistance to late blight caused by the oomycete Phytophthora infestans and to root cyst nematodes. Results To obtain genomic sequence for the targeted region on chromosome V, two local BAC (bacterial artificial chromosome contigs were constructed and sequenced, which corresponded to parts of the homologous chromosomes of the diploid, heterozygous genotype P6/210. Two contiguous sequences of 417,445 and 202,781 base pairs were assembled and annotated. Gene-by-gene co-linearity was disrupted by non-allelic insertions of retrotransposon elements, stretches of diverged intergenic sequences, differences in gene content and gene order. The latter was caused by inversion of a 70 kbp genomic fragment. These features were also found in comparison to orthologous sequence contigs from three homeologous chromosomes of Solanum demissum, a wild tuber bearing species. Functional annotation of the sequence identified 48 putative open reading frames (ORF in one contig and 22 in the other, with an average of one ORF every 9 kbp. Ten ORFs were classified as resistance-gene-like, 11 as F-box-containing genes, 13 as transposable elements and three as transcription factors. Comparing potato to Arabidopsis thaliana annotated proteins revealed five micro-syntenic blocks of three to seven ORFs with A. thaliana chromosomes 1, 3 and 5. Conclusion Comparative sequence analysis revealed highly conserved collinear regions

Complementary benefits of tourism and hunting to communal conservancies in Namibia.

Science.gov (United States)

Naidoo, Robin; Weaver, L Chris; Diggle, Richard W; Matongo, Greenwell; Stuart-Hill, Greg; Thouless, Chris

2016-06-01

Tourism and hunting both generate substantial revenues for communities and private operators in Africa, but few studies have quantitatively examined the trade-offs and synergies that may result from these two activities. We evaluated financial and in-kind benefit streams from tourism and hunting on 77 communal conservancies in Namibia from 1998 to 2013, where community-based wildlife conservation has been promoted as a land-use that complements traditional subsistence agriculture. We used data collected annually for all communal conservancies to characterize whether benefits were derived from hunting or tourism. We classified these benefits into 3 broad classes and examined how benefits flowed to stakeholders within communities under the status quo and under a simulated ban on hunting. Across all conservancies, total benefits from hunting and tourism increased at roughly the same rate, although conservancies typically started generating benefits from hunting within 3 years of formation as opposed to after 6 years for tourism. Disaggregation of data revealed that the main benefits from hunting were income for conservancy management and food in the form of meat for the community at large. The majority of tourism benefits were salaried jobs at lodges. A simulated ban on trophy hunting significantly reduced the number of conservancies that could cover their operating costs, whereas eliminating income from tourism did not have as severe an effect. Given that the benefits generated from hunting and tourism typically begin at different times in a conservancy's life-span (earlier vs. later, respectively) and flow to different segments of local communities, these 2 activities together may provide the greatest incentives for conservation on communal lands in Namibia. A singular focus on either hunting or tourism would reduce the value of wildlife as a competitive land-use option and have grave repercussions for the viability of community-based conservation efforts in Namibia

Numerical study of a mathematical model of internal erosion of soil

Science.gov (United States)

Sibin, A.

2017-10-01

The process of internal erosion in a three-phase saturated soil is studied. A mathematical model describing the process consists of the equations of mass conservation, Darcy’s law and equation for capillary pressure. The original system of equations is reduced to a system of three equations for porosity, pressure and water saturation. Obtained equation for the water saturation is degenerate. The degenerate problem in an one-dimensional domain is solved numerically using the finite-difference method.

On the coupling of systems of hyperbolic conservation laws with ordinary differential equations

International Nuclear Information System (INIS)

Borsche, Raul; Colombo, Rinaldo M; Garavello, Mauro

2010-01-01

Motivated by applications to the piston problem, to a manhole model, to blood flow and to supply chain dynamics, this paper deals with a system of conservation laws coupled with a system of ordinary differential equations. The former is defined on a domain with boundary and the coupling is provided by the boundary condition. For each of the examples considered, numerical integrations are provided

Reconciling Mining with the Conservation of Cave Biodiversity: A Quantitative Baseline to Help Establish Conservation Priorities.

Science.gov (United States)

Jaffé, Rodolfo; Prous, Xavier; Zampaulo, Robson; Giannini, Tereza C; Imperatriz-Fonseca, Vera L; Maurity, Clóvis; Oliveira, Guilherme; Brandi, Iuri V; Siqueira, José O

2016-01-01

Caves pose significant challenges for mining projects, since they harbor many endemic and threatened species, and must therefore be protected. Recent discussions between academia, environmental protection agencies, and industry partners, have highlighted problems with the current Brazilian legislation for the protection of caves. While the licensing process is long, complex and cumbersome, the criteria used to assign caves into conservation relevance categories are often subjective, with relevance being mainly determined by the presence of obligate cave dwellers (troglobites) and their presumed rarity. However, the rarity of these troglobitic species is questionable, as most remain unidentified to the species level and their habitats and distribution ranges are poorly known. Using data from 844 iron caves retrieved from different speleology reports for the Carajás region (South-Eastern Amazon, Brazil), one of the world's largest deposits of high-grade iron ore, we assess the influence of different cave characteristics on four biodiversity proxies (species richness, presence of troglobites, presence of rare troglobites, and presence of resident bat populations). We then examine how the current relevance classification scheme ranks caves with different biodiversity indicators. Large caves were found to be important reservoirs of biodiversity, so they should be prioritized in conservation programs. Our results also reveal spatial autocorrelation in all the biodiversity proxies assessed, indicating that iron caves should be treated as components of a cave network immersed in the karst landscape. Finally, we show that by prioritizing the conservation of rare troglobites, the current relevance classification scheme is undermining overall cave biodiversity and leaving ecologically important caves unprotected. We argue that conservation efforts should target subterranean habitats as a whole and propose an alternative relevance ranking scheme, which could help simplify the

The gene order on Human Chromosome 15 and Chicken Chromosome 10 reveal multiple inter- and intrachromosomal rearrangements

NARCIS (Netherlands)

Crooijmans, R.P.M.A.; Dijkhof, R.J.M.; Veenendaal, T.; Poel, van der J.J.; Groenen, M.A.M.

2001-01-01

Comparative mapping between the human and chicken genomes has revealed a striking conservation of synteny between the genomes of these two species, but the results have been based on low-resolution comparative maps. To address this conserved synteny in much more detail, a high-resolution

Genomic dissection of conserved transcriptional regulation in intestinal epithelial cells.

Directory of Open Access Journals (Sweden)

Colin R Lickwar

2017-08-01

Full Text Available The intestinal epithelium serves critical physiologic functions that are shared among all vertebrates. However, it is unknown how the transcriptional regulatory mechanisms underlying these functions have changed over the course of vertebrate evolution. We generated genome-wide mRNA and accessible chromatin data from adult intestinal epithelial cells (IECs in zebrafish, stickleback, mouse, and human species to determine if conserved IEC functions are achieved through common transcriptional regulation. We found evidence for substantial common regulation and conservation of gene expression regionally along the length of the intestine from fish to mammals and identified a core set of genes comprising a vertebrate IEC signature. We also identified transcriptional start sites and other putative regulatory regions that are differentially accessible in IECs in all 4 species. Although these sites rarely showed sequence conservation from fish to mammals, surprisingly, they drove highly conserved IEC expression in a zebrafish reporter assay. Common putative transcription factor binding sites (TFBS found at these sites in multiple species indicate that sequence conservation alone is insufficient to identify much of the functionally conserved IEC regulatory information. Among the rare, highly sequence-conserved, IEC-specific regulatory regions, we discovered an ancient enhancer upstream from her6/HES1 that is active in a distinct population of Notch-positive cells in the intestinal epithelium. Together, these results show how combining accessible chromatin and mRNA datasets with TFBS prediction and in vivo reporter assays can reveal tissue-specific regulatory information conserved across 420 million years of vertebrate evolution. We define an IEC transcriptional regulatory network that is shared between fish and mammals and establish an experimental platform for studying how evolutionarily distilled regulatory information commonly controls IEC development

Hybridization Capture Reveals Evolution and Conservation across the Entire Koala Retrovirus Genome

Science.gov (United States)

Ishida, Yasuko; Cui, Pin; Vielgrader, Hanna; Helgen, Kristofer M.; Roca, Alfred L.; Greenwood, Alex D.

2014-01-01

The koala retrovirus (KoRV) is the only retrovirus known to be in the midst of invading the germ line of its host species. Hybridization capture and next generation sequencing were used on modern and museum DNA samples of koala (Phascolarctos cinereus) to examine ca. 130 years of evolution across the full KoRV genome. Overall, the entire proviral genome appeared to be conserved across time in sequence, protein structure and transcriptional binding sites. A total of 138 polymorphisms were detected, of which 72 were found in more than one individual. At every polymorphic site in the museum koalas, one of the character states matched that of modern KoRV. Among non-synonymous polymorphisms, radical substitutions involving large physiochemical differences between amino acids were elevated in env, potentially reflecting anti-viral immune pressure or avoidance of receptor interference. Polymorphisms were not detected within two functional regions believed to affect infectivity. Host sequences flanking proviral integration sites were also captured; with few proviral loci shared among koalas. Recently described variants of KoRV, designated KoRV-B and KoRV-J, were not detected in museum samples, suggesting that these variants may be of recent origin. PMID:24752422

Hybridization capture reveals evolution and conservation across the entire Koala retrovirus genome.

Directory of Open Access Journals (Sweden)

Kyriakos Tsangaras

Full Text Available The koala retrovirus (KoRV is the only retrovirus known to be in the midst of invading the germ line of its host species. Hybridization capture and next generation sequencing were used on modern and museum DNA samples of koala (Phascolarctos cinereus to examine ca. 130 years of evolution across the full KoRV genome. Overall, the entire proviral genome appeared to be conserved across time in sequence, protein structure and transcriptional binding sites. A total of 138 polymorphisms were detected, of which 72 were found in more than one individual. At every polymorphic site in the museum koalas, one of the character states matched that of modern KoRV. Among non-synonymous polymorphisms, radical substitutions involving large physiochemical differences between amino acids were elevated in env, potentially reflecting anti-viral immune pressure or avoidance of receptor interference. Polymorphisms were not detected within two functional regions believed to affect infectivity. Host sequences flanking proviral integration sites were also captured; with few proviral loci shared among koalas. Recently described variants of KoRV, designated KoRV-B and KoRV-J, were not detected in museum samples, suggesting that these variants may be of recent origin.

Mass conservation for instantaneous sources in FEM3 simulations of material dispersion

International Nuclear Information System (INIS)

Rodean, H.C.

1987-11-01

This report presents the results of a systematic study in which it is shown that the numerical integration errors in determining material mass content are negligible; the material phase-change model by itself is not a cause of material mass variation; and a linear relation between fractional mass change and fractional density change at the source center for given mesh and source geometries exists over a range of values from 10 -5 to 10 -1 . This suggests that the omission of the ∂ rho/∂t term from the mass conservation equation is the cause of the observed non-conservation of mass by FEM3. It is shown that these mass variations can be minimized by minimizing the initial density gradients in the source region. 5 refs., 18 figs., 4 tabs

Interactions of Delta Shock Waves for Zero-Pressure Gas Dynamics with Energy Conservation Law

OpenAIRE

Wei Cai; Yanyan Zhang

2016-01-01

We study the interactions of delta shock waves and vacuum states for the system of conservation laws of mass, momentum, and energy in zero-pressure gas dynamics. The Riemann problems with initial data of three piecewise constant states are solved case by case, and four different configurations of Riemann solutions are constructed. Furthermore, the numerical simulations completely coinciding with theoretical analysis are shown.

Accelerated Evolution of Conserved Noncoding Sequences in theHuman Genome

Energy Technology Data Exchange (ETDEWEB)

Prambhakar, Shyam; Noonan, James P.; Paabo, Svante; Rubin, EdwardM.

2006-07-06

Genomic comparisons between human and distant, non-primatemammals are commonly used to identify cis-regulatory elements based onconstrained sequence evolution. However, these methods fail to detect"cryptic" functional elements, which are too weakly conserved amongmammals to distinguish from nonfunctional DNA. To address this problem,we explored the potential of deep intra-primate sequence comparisons. Wesequenced the orthologs of 558 kb of human genomic sequence, coveringmultiple loci involved in cholesterol homeostasis, in 6 nonhumanprimates. Our analysis identified 6 noncoding DNA elements displayingsignificant conservation among primates, but undetectable in more distantcomparisons. In vitro and in vivo tests revealed that at least three ofthese 6 elements have regulatory function. Notably, the mouse orthologsof these three functional human sequences had regulatory activity despitetheir lack of significant sequence conservation, indicating that they arecryptic ancestral cis-regulatory elements. These regulatory elementscould still be detected in a smaller set of three primate speciesincluding human, rhesus and marmoset. Since the human and rhesus genomesequences are already available, and the marmoset genome is activelybeing sequenced, the primate-specific conservation analysis describedhere can be applied in the near future on a whole-genome scale, tocomplement the annotation provided by more distant speciescomparisons.

Conservatives Anticipate and Experience Stronger Emotional Reactions to Negative Outcomes.

Science.gov (United States)

Joel, Samantha; Burton, Caitlin M; Plaks, Jason E

2014-02-01

The present work examined whether conservatives and liberals differ in their anticipation of their own emotional reactions to negative events. In two studies, participants imagined experiencing positive or negative outcomes in domains that do not directly concern politics. In Study 1, 190 American participants recruited online (64 male, Mage  = 32 years) anticipated their emotional responses to romantic relationship outcomes. In Study 2, 97 Canadian undergraduate students (26 male, Mage  = 21 years) reported on their anticipated and experienced emotional responses to academic outcomes. In both studies, more conservative participants predicted they would feel stronger negative emotions following negative outcomes than did more liberal participants. Furthermore, a longitudinal follow-up of Study 2 participants revealed that more conservative participants actually felt worse than more liberal participants after receiving a lower-than-desired exam grade. These effects remained even when controlling for the Big Five traits, prevention focus, and attachment style (Study 1), and optimism (Study 2). We discuss how the relationship between political orientation and anticipated affect likely contributes to differences between conservatives and liberals in styles of decision and policy choices. © 2013 Wiley Periodicals, Inc.

Conserved structure and expression of hsp70 paralogs in teleost fishes

DEFF Research Database (Denmark)

Metzger, David C.H.; Hansen, Jakob Hemmer; Schulte, Patricia M.

2016-01-01

present in the F. heteroclitus genome. Comparison of expression patterns in F. heteroclitus and Gasterosteus aculeatus demonstrates that hsp70-2 has a higher fold increase than hsp70-1 following heat shock in gill but not in muscle tissue, revealing a conserved difference in expression patterns between...

A mathematical model and numerical solution of interface problems for steady state heat conduction

Directory of Open Access Journals (Sweden)

Z. Muradoglu Seyidmamedov

2006-01-01

(isolation Ωδ tends to zero. For each case, the local truncation errors of the used conservative finite difference scheme are estimated on the nonuniform grid. A fast direct solver has been applied for the interface problems with piecewise constant but discontinuous coefficient k=k(x. The presented numerical results illustrate high accuracy and show applicability of the given approach.

Mathematical modelling and numerical resolution of multi-phase compressible fluid flows problems

International Nuclear Information System (INIS)

Lagoutiere, Frederic

2000-01-01

This work deals with Eulerian compressible multi-species fluid dynamics, the species being either mixed or separated (with interfaces). The document is composed of three parts. The first parts devoted to the numerical resolution of model problems: advection equation, Burgers equation, and Euler equations, in dimensions one and two. The goal is to find a precise method, especially for discontinuous initial conditions, and we develop non dissipative algorithms. They are based on a downwind finite-volume discretization under some stability constraints. The second part treats of the mathematical modelling of fluids mixtures. We construct and analyse a set of multi-temperature and multi-pressure models that are entropy, symmetrizable, hyperbolic, not ever conservative. In the third part, we apply the ideas developed in the first part (downwind discretization) to the numerical resolution of the partial differential problems we have constructed for fluids mixtures in the second part. We present some numerical results in dimensions one and two. (author) [fr

Conservation Genetics of the Cheetah: Lessons Learned and New Opportunities.

Science.gov (United States)

O'Brien, Stephen J; Johnson, Warren E; Driscoll, Carlos A; Dobrynin, Pavel; Marker, Laurie

2017-09-01

The dwindling wildlife species of our planet have become a cause célèbre for conservation groups, governments, and concerned citizens throughout the world. The application of powerful new genetic technologies to surviving populations of threatened mammals has revolutionized our ability to recognize hidden perils that afflict them. We have learned new lessons of survival, adaptation, and evolution from viewing the natural history of genomes in hundreds of detailed studies. A single case history of one species, the African cheetah, Acinonyx jubatus, is here reviewed to reveal a long-term story of conservation challenges and action informed by genetic discoveries and insights. A synthesis of 3 decades of data, interpretation, and controversy, capped by whole genome sequence analysis of cheetahs, provides a compelling tale of conservation relevance and action to protect this species and other threatened wildlife. © The American Genetic Association 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Socio-Economic Factors Assessment Affecting the Adoption of Soil Conservation Technologies on Rwenzori Mountain

Directory of Open Access Journals (Sweden)

Nabalegwa Wambede Muhamud

2015-06-01

Full Text Available This study analysed the role of socio-economic factors in influencing farmers’ adoption to soil conservation technologies in Bugoye Sub-county, Rwenzori Mountain. A cross sectional household survey design was used in this study, using systematic sampling to obtain 150 household samples. Qualitative analysis and chi-square tests were used to analyze these data. Results indicated that only 54% of the sampled households have adopted soil conservation, and revealed that eight of the nine factors significantly influenced farmers’ adoption, which are slope, farm size, farm distance from home, education level, family income, training, membership to NGOs, and credit accessibility. Only family size was insignificant. Other constraints are labour demands, cost of conservation work, land fragmentation, crop pests, and the limited agricultural extension services. It is recommended to perform training for farmers on designing soil conservation structures. Policies for empowering farmers with extra income are crucial to increase the adoption of soil conservation efforts.

Numerical simulation of an oxygen-fed wire-to-cylinder negative corona discharge in the glow regime

Energy Technology Data Exchange (ETDEWEB)

Yanallah, K; Pontiga, F [Dpt. Fisica Aplicada II, Universidad de Sevilla (Spain); Castellanos, A [Dpt. Electronica y Electromagnetismo, Universidad de Sevilla (Spain)

2011-02-09

Negative glow corona discharge in flowing oxygen has been numerically simulated for a wire-to-cylinder electrode geometry. The corona discharge is modelled using a fluid approximation. The radial and axial distributions of charged and neutral species are obtained by solving the corresponding continuity equations, which include the relevant plasma-chemical kinetics. Continuity equations are coupled with Poisson's equation and the energy conservation equation, since the reaction rate constants may depend on the electric field and temperature. The experimental values of the current-voltage characteristic are used as input data into the numerical calculations. The role played by different reactions and chemical species is analysed, and the effect of electrical and geometrical parameters on ozone generation is investigated. The reliability of the numerical model is verified by the reasonable agreement between the numerical predictions of ozone concentration and the experimental measurements.

Numerical simulation of an oxygen-fed wire-to-cylinder negative corona discharge in the glow regime

Science.gov (United States)

Yanallah, K.; Pontiga, F.; Castellanos, A.

2011-02-01

Negative glow corona discharge in flowing oxygen has been numerically simulated for a wire-to-cylinder electrode geometry. The corona discharge is modelled using a fluid approximation. The radial and axial distributions of charged and neutral species are obtained by solving the corresponding continuity equations, which include the relevant plasma-chemical kinetics. Continuity equations are coupled with Poisson's equation and the energy conservation equation, since the reaction rate constants may depend on the electric field and temperature. The experimental values of the current-voltage characteristic are used as input data into the numerical calculations. The role played by different reactions and chemical species is analysed, and the effect of electrical and geometrical parameters on ozone generation is investigated. The reliability of the numerical model is verified by the reasonable agreement between the numerical predictions of ozone concentration and the experimental measurements.

Numerical simulation of an oxygen-fed wire-to-cylinder negative corona discharge in the glow regime

International Nuclear Information System (INIS)

Yanallah, K; Pontiga, F; Castellanos, A

2011-01-01

Negative glow corona discharge in flowing oxygen has been numerically simulated for a wire-to-cylinder electrode geometry. The corona discharge is modelled using a fluid approximation. The radial and axial distributions of charged and neutral species are obtained by solving the corresponding continuity equations, which include the relevant plasma-chemical kinetics. Continuity equations are coupled with Poisson's equation and the energy conservation equation, since the reaction rate constants may depend on the electric field and temperature. The experimental values of the current-voltage characteristic are used as input data into the numerical calculations. The role played by different reactions and chemical species is analysed, and the effect of electrical and geometrical parameters on ozone generation is investigated. The reliability of the numerical model is verified by the reasonable agreement between the numerical predictions of ozone concentration and the experimental measurements.

Mechanistic species distribution modelling as a link between physiology and conservation.

Science.gov (United States)

Evans, Tyler G; Diamond, Sarah E; Kelly, Morgan W

2015-01-01

Climate change conservation planning relies heavily on correlative species distribution models that estimate future areas of occupancy based on environmental conditions encountered in present-day ranges. The approach benefits from rapid assessment of vulnerability over a large number of organisms, but can have poor predictive power when transposed to novel environments and reveals little in the way of causal mechanisms that define changes in species distribution or abundance. Having conservation planning rely largely on this single approach also increases the risk of policy failure. Mechanistic models that are parameterized with physiological information are expected to be more robust when extrapolating distributions to future environmental conditions and can identify physiological processes that set range boundaries. Implementation of mechanistic species distribution models requires knowledge of how environmental change influences physiological performance, and because this information is currently restricted to a comparatively small number of well-studied organisms, use of mechanistic modelling in the context of climate change conservation is limited. In this review, we propose that the need to develop mechanistic models that incorporate physiological data presents an opportunity for physiologists to contribute more directly to climate change conservation and advance the field of conservation physiology. We begin by describing the prevalence of species distribution modelling in climate change conservation, highlighting the benefits and drawbacks of both mechanistic and correlative approaches. Next, we emphasize the need to expand mechanistic models and discuss potential metrics of physiological performance suitable for integration into mechanistic models. We conclude by summarizing other factors, such as the need to consider demography, limiting broader application of mechanistic models in climate change conservation. Ideally, modellers, physiologists and

Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

DEFF Research Database (Denmark)

Larsen, Sara C; Sylvestersen, Kathrine B; Mund, Andreas

2016-01-01

to the frequency of somatic mutations at arginine methylation sites throughout the proteome, we observed that somatic mutations were common at arginine methylation sites in proteins involved in mRNA splicing. Furthermore, in HeLa and U2OS cells, we found that distinct arginine methyltransferases differentially...... kidney 293 cells, indicating that the occurrence of this modification is comparable to phosphorylation and ubiquitylation. A site-level conservation analysis revealed that arginine methylation sites are less evolutionarily conserved compared to arginines that were not identified as modified...... as coactivator-associated arginine methyltransferase 1 (CARM1)] or PRMT1 increased the RNA binding function of HNRNPUL1. High-content single-cell imaging additionally revealed that knocking down CARM1 promoted the nuclear accumulation of SRSF2, independent of cell cycle phase. Collectively, the presented human...

Building Maintenance in Old Buildings Conservation Approach: An Overview of Related Problems

Directory of Open Access Journals (Sweden)

Brit Kayan

2006-12-01

Full Text Available Building maintenance in conservation of old buildings is one of the approaches applied within the built environment of Malaysia. For instance, it is realised that these old buildings contribute an important significance to our nation's priceless heritage and unique historical development. However, most of these buildings' maintenance is influenced by related problems that affect the overall building conservation approach. Therefore, these old buildings face problems which greatly affect their overall condition and performance: building structure; building appearance and aesthetic; building materials and building character. In most critical situations, there is a greater possibility that we could lose the cultural significance and heritage values of these old buildings through ignoring the related problems. This paper tries to identify the related problems, reveal the findings and discuss suitable approaches to conserving these old buildings.

78 FR 73589 - Energy Conservation Program: Energy Conservation Standards for Commercial and Industrial Electric...

Science.gov (United States)

2013-12-06

... Conservation Program: Energy Conservation Standards for Commercial and Industrial Electric Motors; Proposed... Conservation Program: Energy Conservation Standards for Commercial and Industrial Electric Motors AGENCY... proposes energy conservation standards for a number of different groups of electric motors that DOE has not...

Managing post-therapy fatigue for cancer survivors using energy conservation training.

Science.gov (United States)

Yuen, Hon Keung; Mitcham, Maralynne; Morgan, Larissa

2006-01-01

This pilot study evaluated the effectiveness of energy conservation training to help post-therapy cancer survivors manage their fatigue. Twelve post-therapy cancer survivors were randomly assigned to an energy conservation training or usual care control (6 in each group). Participants in the intervention group received 1 to 2 hours of individual, face-to-face energy conservation training from an occupational therapist followed by once-a-week telephone monitoring sessions in the subsequent three weeks. Participants in the control group received standard care from their oncologist. Analysis of pre- and post-training data from the Piper Fatigue Scale (PFS) revealed significant reduction only in the sensory subscale of the PFS (Z = 2.21; p = 0.027) for the intervention group; but no significant reduction in the four subscale or total scores of the PFS for the control group. Findings demonstrate partial support for the effectiveness of energy conservation training in helping post-therapy cancer survivors manage their fatigue. Energy conservation training seems to be a viable strategy for managing cancer-related fatigue, though its efficacy is modest. Incorporating specific energy restoration strategies such as relaxation and meditation for future research may help advance the growing body of knowledge in symptom management for post-therapy cancer survivors.

Teaching Thermal Hydraulics & Numerical Methods: An Introductory Control Volume Primer

Energy Technology Data Exchange (ETDEWEB)

Lucas, D.S.

2004-10-03

This paper covers the basics of the implementation of the control volume method in the context of the Homogeneous Equilibrium Model (HEM)(T/H) code using the conservation equations of mass, momentum, and energy. This primer uses the advection equation as a template. The discussion will cover the basic equations of the control volume portion of the course in the primer, which includes the advection equation, numerical methods, along with the implementation of the various equations via FORTRAN into computer programs and the final result for a three equation HEM code and its validation.

Fixism and conservation science.

Science.gov (United States)

Robert, Alexandre; Fontaine, Colin; Veron, Simon; Monnet, Anne-Christine; Legrand, Marine; Clavel, Joanne; Chantepie, Stéphane; Couvet, Denis; Ducarme, Frédéric; Fontaine, Benoît; Jiguet, Frédéric; le Viol, Isabelle; Rolland, Jonathan; Sarrazin, François; Teplitsky, Céline; Mouchet, Maud

2017-08-01

The field of biodiversity conservation has recently been criticized as relying on a fixist view of the living world in which existing species constitute at the same time targets of conservation efforts and static states of reference, which is in apparent disagreement with evolutionary dynamics. We reviewed the prominent role of species as conservation units and the common benchmark approach to conservation that aims to use past biodiversity as a reference to conserve current biodiversity. We found that the species approach is justified by the discrepancy between the time scales of macroevolution and human influence and that biodiversity benchmarks are based on reference processes rather than fixed reference states. Overall, we argue that the ethical and theoretical frameworks underlying conservation research are based on macroevolutionary processes, such as extinction dynamics. Current species, phylogenetic, community, and functional conservation approaches constitute short-term responses to short-term human effects on these reference processes, and these approaches are consistent with evolutionary principles. © 2016 Society for Conservation Biology.

Personal circumstances and social characteristics as determinants of landholder participation in biodiversity conservation programs.

Science.gov (United States)

Moon, Katie; Marshall, Nadine; Cocklin, Chris

2012-12-30

Adequate conservation of biodiversity on private land remains elusive due, in part, to a failure to understand the personal circumstances and social characteristics of private landholders. Our aim was to identify those personal and social dimensions of landholders that might contribute to improved conservation policy and program design and, thereby, participation in private land conservation. We tested whether personal circumstances of landholders (e.g., lifestyle and wellbeing, information and knowledge, financial security) and social characteristics (e.g., attitudes, norms, and trust) would be important predictors of landholders' capacity and willingness to participate in biodiversity conservation programs. Forty-five participants and twenty-nine non-participants of biodiversity conservation programs in north Queensland, Australia, were surveyed to: 1) examine differences between their personal circumstances and social characteristics that may influence participation; and 2) explore whether personal circumstances and social characteristics were influenced by participation. The results revealed that, compared to participants, non-participants in conservation programs had significantly different personal circumstances and social characteristics for four of eight measured variables. Compared to participants, non-participants demonstrated a reduced capacity and willingness to participate in conservation programs. Participation did not appear to have a strong influence on participants' personal circumstances or social characteristics, and when social norms supported conservation, programs did not demonstrate additionality. Conservation policies that maintain or improve landholders' personal circumstances and that promote pro-environmental norms may result in increased participation and thereby conservation outcomes. Copyright © 2012 Elsevier Ltd. All rights reserved.

Cosmetic results of conservative treatment for early breast cancer

International Nuclear Information System (INIS)

Kim, Bo Kyoung; Shin, Seong Soo; Kim, Seong Deok; Ha, Sung Whan; Noh, Dong Young

2001-01-01

This study was performed to evaluate the cosmetic outcome of conservative treatment for early breast cancer and to analyze the factors influencing cosmetic outcome. From February 1992 through January 1997, 120 patients with early breast cancer were treated with conservative surgery and postoperative radiotherapy. The types of conservative surgery were quadrantectomy and axillary node dissection for 108 patients (90%) and lumpectomy or excisional biopsy for 10 patients (8.3%). Forty six patients (38%) received adjuvant chemotherapy (CMF or CAF). Cosmetic result evaluation was carried out between 16 and 74 months (median, 33 months) after surgery. The cosmetic results were classified into four categories, i.e., excellent, good, fair, and poor. The appearances of the patients' breasts were also analyzed for symmetry using the differences in distances from the stemal notch to right and left nipples. A logistic regression analysis was performed to identify independent variables influencing the cosmetic outcome. Cosmetic score was excellent or good in 76% (91/120), fair in 19% (23/120) and poor in 5% (6/ 120) of the patients. Univariate analysis showed that tumor size (T1 versus T2) (p=0.04), axillary node status (NO versus N1) (p=0.0002), extent of surgery (quadrantectomy versus lumpectomy or excisional biopsy) (p=0.02), axillary node irradiation (p=0.0005) and chemotherapy (p=0,0001) affected cosmetic score. Multivariate analysis revealed that extent of surgery (p=0.04) and chemotherapy (p=0.0002) were significant factors. For breast symmetry, univariate analysis confirmed exactly the same factors as above. Multivariate analysis revealed that tumor size (p=0.003) and lymph node status (p=0.007) affected breast symmetry. Conservative surgery and postoperative radiotherapy resulted in excellent or good cosmetic outcome in a large portion of the patients. Better cosmetic results were achieved generally in the group of patients with smaller tumor size, without axillary

Opportunities and obstacles for rangeland conservation in San Diego County, California, USA

Directory of Open Access Journals (Sweden)

Kathleen A. Farley

2017-03-01

Full Text Available Working landscapes such as rangelands are increasingly recognized as having high conservation value, providing a variety of ecosystem services, including food, fiber, habitat, recreation, open space, carbon storage, and water, in addition to a broad range of social benefits. However, conversion of rangelands to other land uses has been prevalent throughout the western United States, leading to greater attention in the conservation community to the importance of collaborating with private landowners. The level of interest in collaborative conservation among private landowners and the types of conservation programs they choose to participate in depend on the social, economic, and environmental context. We used GIS analysis and interviews with ranchers to evaluate rangeland conversion and participation in conservation programs among ranchers in San Diego County, California, USA, which is part of a biodiversity hotspot with high plant species richness and a large number of endemic and rare species. We found that > 25% of rangelands were converted to other uses, primarily urbanization, over the past 25 years while the area of public rangeland increased by 9%. Interviews revealed that ranchers in San Diego County have had limited involvement with most conservation programs, and a critical factor for nonparticipation was providing programs access to private land, along with other issues related to trust and social values. Among ranchers who had participated in conservation programs, the payment level and the agency or organization administering the program were key factors. Our results provide insight into factors influencing whether and when ranchers are likely to participate in conservation initiatives and illustrate that private and public land conservation are strongly linked and would be more effective if the two strategies were better integrated.

A zebrafish transgenic model of Ewing's sarcoma reveals conserved mediators of EWS-FLI1 tumorigenesis.

Science.gov (United States)

Leacock, Stefanie W; Basse, Audrey N; Chandler, Garvin L; Kirk, Anne M; Rakheja, Dinesh; Amatruda, James F

2012-01-01

Ewing's sarcoma, a malignant bone tumor of children and young adults, is a member of the small-round-blue-cell tumor family. Ewing's sarcoma family tumors (ESFTs), which include peripheral primitive neuroectodermal tumors (PNETs), are characterized by chromosomal translocations that generate fusions between the EWS gene and ETS-family transcription factors, most commonly FLI1. The EWS-FLI1 fusion oncoprotein represents an attractive therapeutic target for treatment of Ewing's sarcoma. The cell of origin of ESFT and the molecular mechanisms by which EWS-FLI1 mediates tumorigenesis remain unknown, and few animal models of Ewing's sarcoma exist. Here, we report the use of zebrafish as a vertebrate model of EWS-FLI1 function and tumorigenesis. Mosaic expression of the human EWS-FLI1 fusion protein in zebrafish caused the development of tumors with histology strongly resembling that of human Ewing's sarcoma. The incidence of tumors increased in a p53 mutant background, suggesting that the p53 pathway suppresses EWS-FLI1-driven tumorigenesis. Gene expression profiling of the zebrafish tumors defined a set of genes that might be regulated by EWS-FLI1, including the zebrafish ortholog of a crucial EWS-FLI1 target gene in humans. Stable zebrafish transgenic lines expressing EWS-FLI1 under the control of the heat-shock promoter exhibit altered embryonic development and defective convergence and extension, suggesting that EWS-FLI1 interacts with conserved developmental pathways. These results indicate that functional targets of EWS-FLI1 that mediate tumorigenesis are conserved from zebrafish to human and provide a novel context in which to study the function of this fusion oncogene.

Spacing conservation practice: Place-making, social learning, and adaptive governance in natural resource management [Chapter 15

Science.gov (United States)

Daniel R. Williams

2018-01-01

Nature conservation constitutes an important realm of professional practice with strong connections to the discourses on nature and sustainability. In recent decades much of that discourse has taken an explicitly spatial turn, observable across numerous domains of ecological, social, and political thought (Williams et al., 2013; Wu, 2006). The aim of this chapter is to...

Ethics of conservation triage

Directory of Open Access Journals (Sweden)

Kerrie A Wilson

2016-09-01

Full Text Available Conservation triage seems to be at a stalemate between those who accept triage based on utilitarian rationalization, and those that reject it based on a number of ethical principles. We argue that without considered attention to the ethics of conservation triage we risk further polarization in the field of conservation. We draw lessons from the medical sector, where triage is more intuitive and acceptable, and also from disaster planning, to help navigate the challenges that triage entails for conservation science, practice, and policy. We clarify the consequentialist, deontological, and virtue ethical stances that influence the level of acceptance of triage. We emphasize the ethical dimensions of conservation triage in principle and in practice, particularly in the context of stakeholder diversity, a wide range of possible objectives and actions, broader institutions, and significant uncertainties. A focus on a more diverse set of ethics, more considered choice of triage as a conservation tool, open communication of triage objectives and protocols, greater consideration of risk preferences, and regular review and adaptation of triage protocols is required for conservation triage to become more acceptable among diverse conservation practitioners, institutions, and the general public. Accepting conservation triage as fundamentally an ethical problem would foster more open dialogue and constructive debate about the role of conservation triage in a wider system of care.

Interactions of Delta Shock Waves for Zero-Pressure Gas Dynamics with Energy Conservation Law

Directory of Open Access Journals (Sweden)

Wei Cai

2016-01-01

Full Text Available We study the interactions of delta shock waves and vacuum states for the system of conservation laws of mass, momentum, and energy in zero-pressure gas dynamics. The Riemann problems with initial data of three piecewise constant states are solved case by case, and four different configurations of Riemann solutions are constructed. Furthermore, the numerical simulations completely coinciding with theoretical analysis are shown.

The polychrome works “Prayer of Tobias and Sarah” and “The Archangel Raphael reveals himself to Tobi and his son Tobias”, inside the Cathedral of Cosenza: diagnostic investigations and considerations on the conditions of conservation

Directory of Open Access Journals (Sweden)

Gianluca Nava

2008-04-01

Full Text Available The oil paintings and “Prayer of Tobias and Sarah” and “The Archangel Raphael reveals himself to Tobi and his son Tobias”, executed by Francesco Bruno at the end of the XVIII century on oval Conservation Science in Cultural Heritage 210 shaped canvas, were investigated by integrated physica-chemical and analytical methodologies in order to obtain scientific data capable of elucidating the state of conservation and the painting technique. Optical (OM and electronic (SEM-EDS microscopy, micro-FT-IR spectroscopy, were applied on some microfragments whilst the two whole paintings were analyzed by the non invasive IR reflectografy technique. The reflectography evidenced some pentimenti of author on the canvas “Prayer of Tobias and Sarah”, while invasive analysis made it possible to locate the stratigraphic sequence of each canvas and to characterise the constituent materials.

Economic aspects of possible residential heating conservation

Energy Technology Data Exchange (ETDEWEB)

Hopkowicz, M.; Szul, A. [Technical Univ., Cracow (Poland)

1995-12-31

The paper presents methods of evaluation of energy and economy related effects of different actions aimed at conservation in residential buildings. It identifies also the method of selecting the most effective way of distribution funds assigned to weatherization as well as necessary improvements to be implemented within the heating node and the internal heating system of the building. The analysis of data gathered for four 11-stories high residential buildings of {open_quotes}Zeran{close_quotes} type being subject of the Conservation Demonstrative Project, included a differentiated scope of weatherization efforts and various actions aimed at system upgrading. Basing upon the discussion of the split of heat losses in a building as well as the established energy savings for numerous options of upgrading works, the main problem has been defined. It consists in optimal distribution of financial means for the discussed measures if the total amount of funds assigned for modifications is defined. The method based upon the principle of relative increments has been suggested. The economical and energy specifications of the building and its components, required for this method have also been elaborated. The application of this method allowed to define the suggested optimal scope of actions within the entire fund assigned for the comprehensive weatherization.

Analytical and numerical investigation of nonlinear internal gravity waves

Directory of Open Access Journals (Sweden)

S. P. Kshevetskii

2001-01-01

Full Text Available The propagation of long, weakly nonlinear internal waves in a stratified gas is studied. Hydrodynamic equations for an ideal fluid with the perfect gas law describe the atmospheric gas behaviour. If we neglect the term Ͽ dw/dt (product of the density and vertical acceleration, we come to a so-called quasistatic model, while we name the full hydro-dynamic model as a nonquasistatic one. Both quasistatic and nonquasistatic models are used for wave simulation and the models are compared among themselves. It is shown that a smooth classical solution of a nonlinear quasistatic problem does not exist for all t because a gradient catastrophe of non-linear internal waves occurs. To overcome this difficulty, we search for the solution of the quasistatic problem in terms of a generalised function theory as a limit of special regularised equations containing some additional dissipation term when the dissipation factor vanishes. It is shown that such solutions of the quasistatic problem qualitatively differ from solutions of a nonquasistatic nature. It is explained by the fact that in a nonquasistatic model the vertical acceleration term plays the role of a regularizator with respect to a quasistatic model, while the solution qualitatively depends on the regularizator used. The numerical models are compared with some analytical results. Within the framework of the analytical model, any internal wave is described as a system of wave modes; each wave mode interacts with others due to equation non-linearity. In the principal order of a perturbation theory, each wave mode is described by some equation of a KdV type. The analytical model reveals that, in a nonquasistatic model, an internal wave should disintegrate into solitons. The time of wave disintegration into solitons, the scales and amount of solitons generated are important characteristics of the non-linear process; they are found with the help of analytical and numerical investigations. Satisfactory

Profitability and Farmers Conservation Efforts on Sustainable Potato Farming in Wonosobo Regency

Directory of Open Access Journals (Sweden)

Liana Fatma Leslie Pratiwi

2017-07-01

Full Text Available It takes into account in potato farming sustainability, since it was recognised as a holticultural commodity for farmers’ subsistence in Wonosobo Regency. For the reason that farming land was being degraded by errossion, the potato productivity apparently continued to decline. Potato farming sustainability can be deliberated from economic (profitability and environmental (conservation efforts points of view in order to remain profitable in a long term sustainable environment. This study is aimed to (1 to analyse the profitability of potato farming; (2 to analyse farmers’ effort on soil conservation and factors which affected sustainability of potato farming. The method used in this study was basic descriptive analysis. The study site was in Kejajar District, Wonosobo Regency, subsequently 50 random farmers as respondences was obtained. Gross Margin, Return on Invested Capital, and Operating Ratio were used to measure the profitability of potato farming. Conservation Activity Index (CAI was used to measure farmers’ effort on soil conservation, while paired liner regression model with Ordinary Least Square (OLS method was used to understand the factors which affected the conservation efforts of test sites. The study results revealed that the potato farming was profitable. Farmers conservation efforts mostly was in average category (74%, and only view in high category (16% and low category (10%. Factors affected the farmers conservation efforts i.e. land area, potato products, potato price, the off-farm income, number of family members, farmers ages, and village dummy.

Planning tiger recovery: Understanding intraspecific variation for effective conservation

Science.gov (United States)

Wilting, Andreas; Courtiol, Alexandre; Christiansen, Per; Niedballa, Jürgen; Scharf, Anne K.; Orlando, Ludovic; Balkenhol, Niko; Hofer, Heribert; Kramer-Schadt, Stephanie; Fickel, Jörns; Kitchener, Andrew C.

2015-01-01

Although significantly more money is spent on the conservation of tigers than on any other threatened species, today only 3200 to 3600 tigers roam the forests of Asia, occupying only 7% of their historical range. Despite the global significance of and interest in tiger conservation, global approaches to plan tiger recovery are partly impeded by the lack of a consensus on the number of tiger subspecies or management units, because a comprehensive analysis of tiger variation is lacking. We analyzed variation among all nine putative tiger subspecies, using extensive data sets of several traits [morphological (craniodental and pelage), ecological, molecular]. Our analyses revealed little variation and large overlaps in each trait among putative subspecies, and molecular data showed extremely low diversity because of a severe Late Pleistocene population decline. Our results support recognition of only two subspecies: the Sunda tiger, Panthera tigris sondaica, and the continental tiger, Panthera tigris tigris, which consists of two (northern and southern) management units. Conservation management programs, such as captive breeding, reintroduction initiatives, or trans-boundary projects, rely on a durable, consistent characterization of subspecies as taxonomic units, defined by robust multiple lines of scientific evidence rather than single traits or ad hoc descriptions of one or few specimens. Our multiple-trait data set supports a fundamental rethinking of the conventional tiger taxonomy paradigm, which will have profound implications for the management of in situ and ex situ tiger populations and boost conservation efforts by facilitating a pragmatic approach to tiger conservation management worldwide. PMID:26601191

Congenital scoliosis - presentation of three severe cases treated conservatively.

Science.gov (United States)

Weiss, H-R

2008-01-01

In view of the very limited data about conservative treatment of patients with congenital scoliosis (CS) available, early surgery is suggested already in mild cases with formation failures in the first three years of life. It is common sense that patients with failures of segmentation will not benefit from conservative treatment at all and the same applies to failures of formation with curves of >50 degrees in infancy. Two patients with rib synostosis denied surgery before entering the pubertal growth spurt. These patients have been treated conservatively with braces and Scoliosis In-Patient Rehabilitation (SIR) and now are beyond the pubertal growth spurt. One patient with a formation failure and a curve of >50 degrees lumbar has been treated with the help of braces and physiotherapy from 1.6 years on and is still under treatment now at the age of 15 years. Severe decompensation was prevented in the two patients with failure of segmentation, however a severe thoracic deformity is evident with underdeveloped lung function and severe restrictive ventilation disorder. The patient with failure of formation is well developed, now without cosmetic or physical complaints although his curve progressed at the end of the growth spurt due to final mal-compliance. Failures of segmentation should be advised to have surgery before entering the pubertal growth spurt. In case they deny, conservative treatment can at least in part be beneficial. For patients with failures of formation conservative treatment should be suggested in the first place because long-term outcomes of early surgery beyond pubertal growth spurt are not yet revealed.

Planning tiger recovery: Understanding intraspecific variation for effective conservation.

Science.gov (United States)

Wilting, Andreas; Courtiol, Alexandre; Christiansen, Per; Niedballa, Jürgen; Scharf, Anne K; Orlando, Ludovic; Balkenhol, Niko; Hofer, Heribert; Kramer-Schadt, Stephanie; Fickel, Jörns; Kitchener, Andrew C

2015-06-01

Although significantly more money is spent on the conservation of tigers than on any other threatened species, today only 3200 to 3600 tigers roam the forests of Asia, occupying only 7% of their historical range. Despite the global significance of and interest in tiger conservation, global approaches to plan tiger recovery are partly impeded by the lack of a consensus on the number of tiger subspecies or management units, because a comprehensive analysis of tiger variation is lacking. We analyzed variation among all nine putative tiger subspecies, using extensive data sets of several traits [morphological (craniodental and pelage), ecological, molecular]. Our analyses revealed little variation and large overlaps in each trait among putative subspecies, and molecular data showed extremely low diversity because of a severe Late Pleistocene population decline. Our results support recognition of only two subspecies: the Sunda tiger, Panthera tigris sondaica, and the continental tiger, Panthera tigris tigris, which consists of two (northern and southern) management units. Conservation management programs, such as captive breeding, reintroduction initiatives, or trans-boundary projects, rely on a durable, consistent characterization of subspecies as taxonomic units, defined by robust multiple lines of scientific evidence rather than single traits or ad hoc descriptions of one or few specimens. Our multiple-trait data set supports a fundamental rethinking of the conventional tiger taxonomy paradigm, which will have profound implications for the management of in situ and ex situ tiger populations and boost conservation efforts by facilitating a pragmatic approach to tiger conservation management worldwide.

Conservation of Mass and Preservation of Positivity with Ensemble-Type Kalman Filter Algorithms

Science.gov (United States)

Janjic, Tijana; Mclaughlin, Dennis; Cohn, Stephen E.; Verlaan, Martin

2014-01-01

This paper considers the incorporation of constraints to enforce physically based conservation laws in the ensemble Kalman filter. In particular, constraints are used to ensure that the ensemble members and the ensemble mean conserve mass and remain nonnegative through measurement updates. In certain situations filtering algorithms such as the ensemble Kalman filter (EnKF) and ensemble transform Kalman filter (ETKF) yield updated ensembles that conserve mass but are negative, even though the actual states must be nonnegative. In such situations if negative values are set to zero, or a log transform is introduced, the total mass will not be conserved. In this study, mass and positivity are both preserved by formulating the filter update as a set of quadratic programming problems that incorporate non-negativity constraints. Simple numerical experiments indicate that this approach can have a significant positive impact on the posterior ensemble distribution, giving results that are more physically plausible both for individual ensemble members and for the ensemble mean. In two examples, an update that includes a non-negativity constraint is able to properly describe the transport of a sharp feature (e.g., a triangle or cone). A number of implementation questions still need to be addressed, particularly the need to develop a computationally efficient quadratic programming update for large ensemble.

Sequence analysis of serum albumins reveals the molecular evolution of ligand recognition properties.

Science.gov (United States)

Fanali, Gabriella; Ascenzi, Paolo; Bernardi, Giorgio; Fasano, Mauro

2012-01-01

Serum albumin (SA) is a circulating protein providing a depot and carrier for many endogenous and exogenous compounds. At least seven major binding sites have been identified by structural and functional investigations mainly in human SA. SA is conserved in vertebrates, with at least 49 entries in protein sequence databases. The multiple sequence analysis of this set of entries leads to the definition of a cladistic tree for the molecular evolution of SA orthologs in vertebrates, thus showing the clustering of the considered species, with lamprey SAs (Lethenteron japonicum and Petromyzon marinus) in a separate outgroup. Sequence analysis aimed at searching conserved domains revealed that most SA sequences are made up by three repeated domains (about 600 residues), as extensively characterized for human SA. On the contrary, lamprey SAs are giant proteins (about 1400 residues) comprising seven repeated domains. The phylogenetic analysis of the SA family reveals a stringent correlation with the taxonomic classification of the species available in sequence databases. A focused inspection of the sequences of ligand binding sites in SA revealed that in all sites most residues involved in ligand binding are conserved, although the versatility towards different ligands could be peculiar of higher organisms. Moreover, the analysis of molecular links between the different sites suggests that allosteric modulation mechanisms could be restricted to higher vertebrates.

Conserving marine biodiversity: insights from life-history trait candidate genes in Atlantic cod (Gadus morhua)

DEFF Research Database (Denmark)

Hansen, Jakob Hemmer; Therkildsen, Nina Overgaard; Meldrup, Dorte

2014-01-01

Recent technological developments have facilitated an increased focus on identifying genomic regions underlying adaptive trait variation in natural populations, and it has been advocated that this information should be important for designating population units for conservation. In marine fishes...... are under selection in natural populations of Atlantic cod. Furthermore, we find that patterns of variation in outlier markers do not align with those observed at selectively neutral markers, and that outlier markers identify conservation units on finer geographical scales than those revealed when analysing...... only neutral markers. Accordingly, results also suggest that information about adaptive genetic variation will be useful for targeted conservation and management in this and other marine species...

ADM pseudotensors, conserved quantities and covariant conservation laws in general relativity

International Nuclear Information System (INIS)

Fatibene, L.; Ferraris, M.; Francaviglia, M.; Lusanna, L.

2012-01-01

The ADM formalism is reviewed and techniques for decomposing generic components of metric, connection and curvature are obtained. These techniques will turn out to be enough to decompose not only Einstein equations but also covariant conservation laws. Then a number of independent sets of hypotheses that are sufficient (though not necessary) to obtain standard ADM quantities (and Hamiltonian) from covariant conservation laws are considered. This determines explicitly the range in which standard techniques are equivalent to covariant conserved quantities. The Schwarzschild metric in different coordinates is then considered, showing how the standard ADM quantities fail dramatically in non-Cartesian coordinates or even worse when asymptotically flatness is not manifest; while, in view of their covariance, covariant conservation laws give the correct result in all cases. - Highlights: ► In the paper ADM conserved quantities for GR are obtained from augmented conservation laws. ► Boundary conditions for this to be possible are considered and compared with the literature. ► Some different forms of Schwarzschild solutions are considered as simple examples of different boundary conditions.

A locally conservative non-negative finite element formulation for anisotropic advective-diffusive-reactive systems

Science.gov (United States)

Mudunuru, M. K.; Shabouei, M.; Nakshatrala, K.

2015-12-01

Advection-diffusion-reaction (ADR) equations appear in various areas of life sciences, hydrogeological systems, and contaminant transport. Obtaining stable and accurate numerical solutions can be challenging as the underlying equations are coupled, nonlinear, and non-self-adjoint. Currently, there is neither a robust computational framework available nor a reliable commercial package known that can handle various complex situations. Herein, the objective of this poster presentation is to present a novel locally conservative non-negative finite element formulation that preserves the underlying physical and mathematical properties of a general linear transient anisotropic ADR equation. In continuous setting, governing equations for ADR systems possess various important properties. In general, all these properties are not inherited during finite difference, finite volume, and finite element discretizations. The objective of this poster presentation is two fold: First, we analyze whether the existing numerical formulations (such as SUPG and GLS) and commercial packages provide physically meaningful values for the concentration of the chemical species for various realistic benchmark problems. Furthermore, we also quantify the errors incurred in satisfying the local and global species balance for two popular chemical kinetics schemes: CDIMA (chlorine dioxide-iodine-malonic acid) and BZ (Belousov--Zhabotinsky). Based on these numerical simulations, we show that SUPG and GLS produce unphysical values for concentration of chemical species due to the violation of the non-negative constraint, contain spurious node-to-node oscillations, and have large errors in local and global species balance. Second, we proposed a novel finite element formulation to overcome the above difficulties. The proposed locally conservative non-negative computational framework based on low-order least-squares finite elements is able to preserve these underlying physical and mathematical properties

A conservative fully implicit algorithm for predicting slug flows

Science.gov (United States)

Krasnopolsky, Boris I.; Lukyanov, Alexander A.

2018-02-01

An accurate and predictive modelling of slug flows is required by many industries (e.g., oil and gas, nuclear engineering, chemical engineering) to prevent undesired events potentially leading to serious environmental accidents. For example, the hydrodynamic and terrain-induced slugging leads to unwanted unsteady flow conditions. This demands the development of fast and robust numerical techniques for predicting slug flows. The presented in this paper study proposes a multi-fluid model and its implementation method accounting for phase appearance and disappearance. The numerical modelling of phase appearance and disappearance presents a complex numerical challenge for all multi-component and multi-fluid models. Numerical challenges arise from the singular systems of equations when some phases are absent and from the solution discontinuity when some phases appear or disappear. This paper provides a flexible and robust solution to these issues. A fully implicit formulation described in this work enables to efficiently solve governing fluid flow equations. The proposed numerical method provides a modelling capability of phase appearance and disappearance processes, which is based on switching procedure between various sets of governing equations. These sets of equations are constructed using information about the number of phases present in the computational domain. The proposed scheme does not require an explicit truncation of solutions leading to a conservative scheme for mass and linear momentum. A transient two-fluid model is used to verify and validate the proposed algorithm for conditions of hydrodynamic and terrain-induced slug flow regimes. The developed modelling capabilities allow to predict all the major features of the experimental data, and are in a good quantitative agreement with them.

Practical implications of understanding the influence of motivations on commitment to voluntary urban conservation stewardship.

Science.gov (United States)

Asah, Stanley T; Blahna, Dale J

2013-08-01

Although the word commitment is prevalent in conservation biology literature and despite the importance of people's commitment to the success of conservation initiatives, commitment as a psychological phenomenon and its operation in specific conservation behaviors remains unexplored. Despite increasing calls for conservation psychology to play a greater role in meeting conservation goals, applications of the psychological sciences to specific conservation behaviors, illustrating their utility to conservation practice, are rare. We examined conservation volunteers' motivations and commitment to urban conservation volunteering. We interviewed key informant volunteers and used interview findings to develop psychometric scales that we used to assess motivations and commitment to volunteer. We surveyed 322 urban conservation volunteers and used factor analysis to reveal how volunteers structure their motivations and commitment to volunteer for urban conservation activities. Six categories of motivations and 2 categories of commitment emerged from factor analysis. Volunteers were motivated by desires to help the environment, defend and enhance the ego, career and learning opportunities, escape and exercise, social interactions, and community building. Two forms of commitment, affective and normative commitment, psychologically bind people to urban conservation volunteerism. We used linear-regression models to examine how these categories of motivations influence volunteers' commitment to conservation volunteerism. Volunteers' tendency to continue to volunteer for urban conservation, even in the face of fluctuating counter urges, was motivated by personal, social, and community functions more than environmental motivations. The environment, otherwise marginally important, was a significant motivator of volunteers' commitment only when volunteering met volunteers' personal, social, and community-building goals. Attention to these personal, social, and community

Beyond the geodesic approximation: Conservative effects of the gravitational self-force in eccentric orbits around a Schwarzschild black hole

International Nuclear Information System (INIS)

Barack, Leor; Sago, Norichika

2011-01-01

We study conservative finite-mass corrections to the motion of a particle in a bound (eccentric) strong-field orbit around a Schwarzschild black hole. We assume the particle's mass μ is much smaller than the black hole mass M, and explore post-geodesic corrections of O(μ/M). Our analysis uses numerical data from a recently developed code that outputs the Lorenz-gauge gravitational self-force (GSF) acting on the particle along the eccentric geodesic. First, we calculate the O(μ/M) conservative correction to the periastron advance of the orbit, as a function of the (gauge-dependent) semilatus rectum and eccentricity. A gauge-invariant description of the GSF precession effect is made possible in the circular-orbit limit, where we express the correction to the periastron advance as a function of the invariant azimuthal frequency. We compare this relation with results from fully nonlinear numerical-relativistic simulations. In order to obtain a gauge-invariant measure of the GSF effect for fully eccentric orbits, we introduce a suitable generalization of Detweiler's circular-orbit ''redshift'' invariant. We compute the O(μ/M) conservative correction to this invariant, expressed as a function of the two invariant frequencies that parametrize the orbit. Our results are in good agreement with results from post-Newtonian calculations in the weak-field regime, as we shall report elsewhere. The results of our study can inform the development of analytical models for the dynamics of strongly gravitating binaries. They also provide an accurate benchmark for future numerical-relativistic simulations.

Experimental investigation and numerical modelling of positive corona discharge: ozone generation

Energy Technology Data Exchange (ETDEWEB)

Yanallah, K; Castellanos, A [Departamento de Electronica y Electromagnetismo, Universidad de Sevilla (Spain); Pontiga, F; Fernandez-Rueda, A [Departamento de FIsica Aplicada II, Universidad de Sevilla (Spain)

2009-03-21

The spatial distribution of the species generated in a wire-cylinder positive corona discharge in pure oxygen has been computed using a plasma chemistry model that includes the most significant reactions between electrons, ions, atoms and molecules. The plasma chemistry model is included in the continuity equations of each species, which are coupled with Poisson's equation for the electric field and the energy conservation equation for the gas temperature. The current-voltage characteristic measured in the experiments has been used as an input data to the numerical simulation. The numerical model is able to reproduce the basic structure of the positive corona discharge and highlights the importance of Joule heating on ozone generation. The average ozone density has been computed as a function of current intensity and compared with the experimental measurements of ozone concentration determined by UV absorption spectroscopy.

Experimental investigation and numerical modelling of positive corona discharge: ozone generation

International Nuclear Information System (INIS)

Yanallah, K; Castellanos, A; Pontiga, F; Fernandez-Rueda, A

2009-01-01

The spatial distribution of the species generated in a wire-cylinder positive corona discharge in pure oxygen has been computed using a plasma chemistry model that includes the most significant reactions between electrons, ions, atoms and molecules. The plasma chemistry model is included in the continuity equations of each species, which are coupled with Poisson's equation for the electric field and the energy conservation equation for the gas temperature. The current-voltage characteristic measured in the experiments has been used as an input data to the numerical simulation. The numerical model is able to reproduce the basic structure of the positive corona discharge and highlights the importance of Joule heating on ozone generation. The average ozone density has been computed as a function of current intensity and compared with the experimental measurements of ozone concentration determined by UV absorption spectroscopy.

Experimental investigation and numerical modelling of positive corona discharge: ozone generation

Science.gov (United States)

Yanallah, K; Pontiga, F; Fernández-Rueda, A; Castellanos, A

2009-03-01

The spatial distribution of the species generated in a wire-cylinder positive corona discharge in pure oxygen has been computed using a plasma chemistry model that includes the most significant reactions between electrons, ions, atoms and molecules. The plasma chemistry model is included in the continuity equations of each species, which are coupled with Poisson's equation for the electric field and the energy conservation equation for the gas temperature. The current-voltage characteristic measured in the experiments has been used as an input data to the numerical simulation. The numerical model is able to reproduce the basic structure of the positive corona discharge and highlights the importance of Joule heating on ozone generation. The average ozone density has been computed as a function of current intensity and compared with the experimental measurements of ozone concentration determined by UV absorption spectroscopy.

Decoupling Subtraction Conserving Full Gauge Symmetries : Particles and Fields

OpenAIRE

Noriyasu, OHTSUBO; Hideo, MIYATA; Department of Phycics, Kanazawa Technical College; Department of Information Science, Kanazawa Institute of Technolgy

1984-01-01

A new subtraction scheme (^^^) which realizes the decoupling and conserves the symmetries of full gauge group simultaneously, is proposed. One particle irreducible Green's functions subtracted by ^^^ reveal the effective low energy symmetries at -p^2≪M^2 and the full symmetries at -p^2≫M^2, where M denotes a heavy mass. Also discussed are conditions in order to carry out ^^^ under two-loop approximation.

Numerical approach of multi-field two-phase flow models in the OVAP code

International Nuclear Information System (INIS)

Anela Kumbaro

2005-01-01

Full text of publication follows: A significant progress has been made in modeling the complexity of vapor-liquid two-phase flow. Different three-dimensional models exist in order to simulate the evolution of parameters which characterize a two-phase model. These models can be classified into various groups depending on the inter-field coupling. A hierarchy of increasing physical complexity can be defined. The simplest group corresponds to the homogeneous mixture models where no interactions are taken into account. Another group is constituted by the two-fluid models employing physically important interfacial forces between two-phases, liquid, and water. The last group is multi-field modeling where inter-field couplings can be taken into account at different degrees, such as the MUltiple Size Group modeling [2], the consideration of separate equations for the transport and generation of mass and momentum for each field under the assumption of the same energy for all the fields of the same phase, and a full multi-field two-phase model [1]. The numerical approach of the general three-dimensional two-phase flow is by complexity of the phenomena a very challenging task; the ideal numerical method should be at the same time simple in order to apply to any model, from equilibrium to multi-field model and conservative in order to respect the fundamental conservation physical laws. The approximate Riemann solvers have the good properties of conservation of mass, momentum and energy balance and have been extended successfully to two-fluid models [3]- [5]. But, the up-winding of the flux is based on the Eigen-decomposition of the two-phase flow model and the computation of the Eigen-structure of a multi-field model can be a high cost procedure. Our contribution will present a short review of the above two-phase models, and show numerical results obtained for some of them with an approximate Riemann solver and with lower-complexity alternative numerical methods that do not

Modeling and Analysis of Energy Conservation Scheme Based on Duty Cycling in Wireless Ad Hoc Sensor Network

Science.gov (United States)

Chung, Yun Won; Hwang, Ho Young

2010-01-01

In sensor network, energy conservation is one of the most critical issues since sensor nodes should perform a sensing task for a long time (e.g., lasting a few years) but the battery of them cannot be replaced in most practical situations. For this purpose, numerous energy conservation schemes have been proposed and duty cycling scheme is considered the most suitable power conservation technique, where sensor nodes alternate between states having different levels of power consumption. In order to analyze the energy consumption of energy conservation scheme based on duty cycling, it is essential to obtain the probability of each state. In this paper, we analytically derive steady state probability of sensor node states, i.e., sleep, listen, and active states, based on traffic characteristics and timer values, i.e., sleep timer, listen timer, and active timer. The effect of traffic characteristics and timer values on the steady state probability and energy consumption is analyzed in detail. Our work can provide sensor network operators guideline for selecting appropriate timer values for efficient energy conservation. The analytical methodology developed in this paper can be extended to other energy conservation schemes based on duty cycling with different sensor node states, without much difficulty. PMID:22219676

Modeling and Analysis of Energy Conservation Scheme Based on Duty Cycling in Wireless Ad Hoc Sensor Network

Directory of Open Access Journals (Sweden)

Yun Won Chung

2010-06-01

Full Text Available In sensor network, energy conservation is one of the most critical issues since sensor nodes should perform a sensing task for a long time (e.g., lasting a few years but the battery of them cannot be replaced in most practical situations. For this purpose, numerous energy conservation schemes have been proposed and duty cycling scheme is considered the most suitable power conservation technique, where sensor nodes alternate between states having different levels of power consumption. In order to analyze the energy consumption of energy conservation scheme based on duty cycling, it is essential to obtain the probability of each state. In this paper, we analytically derive steady state probability of sensor node states, i.e., sleep, listen, and active states, based on traffic characteristics and timer values, i.e., sleep timer, listen timer, and active timer. The effect of traffic characteristics and timer values on the steady state probability and energy consumption is analyzed in detail. Our work can provide sensor network operators guideline for selecting appropriate timer values for efficient energy conservation. The analytical methodology developed in this paper can be extended to other energy conservation schemes based on duty cycling with different sensor node states, without much difficulty.

REVIEW: The evolving linkage between conservation science and practice at The Nature Conservancy.

Science.gov (United States)

Kareiva, Peter; Groves, Craig; Marvier, Michelle

2014-10-01

The Nature Conservancy (TNC) was founded by ecologists as a United States land trust to purchase parcels of habitat for the purpose of scientific study. It has evolved into a global organization working in 35 countries 'to conserve the lands and waters on which all life depends'. TNC is now the world 's largest conservation non-governmental organization (NGO), an early adopter of advances in ecological theory and a producer of new science as a result of practising conservation.The Nature Conservancy 's initial scientific innovation was the use of distributional data for rare species and ecological communities to systematically target lands for conservation. This innovation later evolved into a more rigorous approach known as 'Conservation by Design' that contained elements of systematic conservation planning, strategic planning and monitoring and evaluation.The next scientific transition at TNC was a move to landscape-scale projects, motivated by ideas from landscape ecology. Because the scale at which land could be set aside in areas untouched by humans fell far short of the spatial scale demanded by conservation, TNC became involved with best management practices for forestry, grazing, agriculture, hydropower and other land uses.A third scientific innovation at TNC came with the pursuit of multiobjective planning that accounts for economic and resource needs in the same plans that seek to protect biodiversity.The Millennium Ecosystem Assessment prompted TNC to become increasingly concerned with ecosystem services and the material risk to people posed by ecosystem deterioration.Finally, because conservation depends heavily upon negotiation, TNC has recently recruited social scientists, economists and communication experts. One aspect still missing, however, is a solid scientific understanding of thresholds that should be averted. Synthesis and applications . Over its 60-plus year history, scientific advances have informed The Nature Conservancy (TNC) 's actions

Estimating climate resilience for conservation across geophysical settings.

Science.gov (United States)

Anderson, Mark G; Clark, Melissa; Sheldon, Arlene Olivero

2014-08-01

Conservationists need methods to conserve biological diversity while allowing species and communities to rearrange in response to a changing climate. We developed and tested such a method for northeastern North America that we based on physical features associated with ecological diversity and site resilience to climate change. We comprehensively mapped 30 distinct geophysical settings based on geology and elevation. Within each geophysical setting, we identified sites that were both connected by natural cover and that had relatively more microclimates indicated by diverse topography and elevation gradients. We did this by scoring every 405 ha hexagon in the region for these two characteristics and selecting those that scored >SD 0.5 above the mean combined score for each setting. We hypothesized that these high-scoring sites had the greatest resilience to climate change, and we compared them with sites selected by The Nature Conservancy for their high-quality rare species populations and natural community occurrences. High-scoring sites captured significantly more of the biodiversity sites than expected by chance (p < 0.0001): 75% of the 414 target species, 49% of the 4592 target species locations, and 53% of the 2170 target community locations. Calcareous bedrock, coarse sand, and fine silt settings scored markedly lower for estimated resilience and had low levels of permanent land protection (average 7%). Because our method identifies-for every geophysical setting-sites that are the most likely to retain species and functions longer under a changing climate, it reveals natural strongholds for future conservation that would also capture substantial existing biodiversity and correct the bias in current secured lands. © 2014 The Authors. Conservation Biology published by Wiley Periodicals, Inc., on behalf of the Society for Conservation Biology.

Phylogeographical analysis reveals multiple conservation units in brook lampreys Lampetra planeri of Portuguese streams.

Science.gov (United States)

Pereira, A M; Robalo, J I; Freyhof, J; Maia, C; Fonseca, J P; Valente, A; Almada, V C

2010-08-01

The populations of brook lamprey Lampetra planeri of Portuguese Rivers were analysed phylogeographically using a fragment of 644 bp of the mitochondrial control region of 158 individuals from six populations. Samples representing L. planeri and migratory lampreys Lampetra fluviatilis of rivers draining to the North Sea and the Baltic Sea were also included to assess the relationships of Portuguese samples. The data support a clear differentiation of all the populations studied. Several populations, which are isolated among themselves and also from the migratory lampreys, proved to be entirely composed of private haplotypes, a finding that supports some time of independent evolutionary history for these populations. This, combined with the geographic confinement to small water bodies, justifies the recognition of at least four conservation units in the Portuguese rivers Sado, São Pedro, Nabão and Inha.

Community motivations to engage in conservation behavior to conserve the Sumatran orangutan.

Science.gov (United States)

Nilsson, Danielle; Gramotnev, Galina; Baxter, Greg; Butler, James R A; Wich, Serge A; McAlpine, Clive A

2016-08-01

Community-based conservation programs in developing countries are often based on the assumption that heteronomous motivation (e.g., extrinsic incentives such as economic rewards and pressure or coercion to act) will incite local communities to adopt conservation behaviors. However, this may not be as effective or sustainable as autonomous motivations (e.g., an intrinsic desire to act due to inherent enjoyment or self-identification with a behavior and through freedom of choice). We analyzed the comparative effectiveness of heteronomous versus autonomous approaches to community-based conservation programs through a case study of Sumatran orangutan (Pongo abelii) conservation in 3 villages in Indonesia. Each village had a different conservation program design. We surveyed people (n = 240) to determine their motivations for and behavior changes relative to orangutan and orangutan habitat (forest) protection. Heteronomous motivations (e.g., income from tourism) led to greater self-reporting of behavior change toward orangutan protection. However, they did not change self-reported behavior toward forest (i.e., orangutan habitat) protection. The most effective approach to creating self-reported behavior change throughout the community was a combination of autonomous and heteronomous motivations. Individuals who were heteronomously motivated to protect the orangutan were more likely to have changed attitudes than to have changed their self-reported behavior. These findings demonstrate that the current paradigm of motivating communities in developing countries to adopt conservation behaviors primarily through monetary incentives and rewards should consider integrating autonomous motivational techniques that promote the intrinsic values of conservation. Such a combination has a greater potential to achieve sustainable and cost-effective conservation outcomes. Our results highlight the importance of using in-depth sociopsychological analyses to inform the design and

Detection of Weakly Conserved Ancestral Mammalian RegulatorySequences by Primate Comparisons

Energy Technology Data Exchange (ETDEWEB)

Wang, Qian-fei; Prabhakar, Shyam; Chanan, Sumita; Cheng,Jan-Fang; Rubin, Edward M.; Boffelli, Dario

2006-06-01

Genomic comparisons between human and distant, non-primatemammals are commonly used to identify cis-regulatory elements based onconstrained sequence evolution. However, these methods fail to detectcryptic functional elements, which are too weakly conserved among mammalsto distinguish from nonfunctional DNA. To address this problem, weexplored the potential of deep intra-primate sequence comparisons. Wesequenced the orthologs of 558 kb of human genomic sequence, coveringmultiple loci involved in cholesterol homeostasis, in 6 nonhumanprimates. Our analysis identified 6 noncoding DNA elements displayingsignificant conservation among primates, but undetectable in more distantcomparisons. In vitro and in vivo tests revealed that at least three ofthese 6 elements have regulatory function. Notably, the mouse orthologsof these three functional human sequences had regulatory activity despitetheir lack of significant sequence conservation, indicating that they arecryptic ancestral cis-regulatory elements. These regulatory elementscould still be detected in a smaller set of three primate speciesincluding human, rhesus and marmoset. Since the human and rhesus genomesequences are already available, and the marmoset genome is activelybeing sequenced, the primate-specific conservation analysis describedhere can be applied in the near future on a whole-genome scale, tocomplement the annotation provided by more distant speciescomparisons.

Results from Numerical General Relativity

Science.gov (United States)

Baker, John G.

2011-01-01

For several years numerical simulations have been revealing the details of general relativity's predictions for the dynamical interactions of merging black holes. I will review what has been learned of the rich phenomenology of these mergers and the resulting gravitational wave signatures. These wave forms provide a potentially observable record of the powerful astronomical events, a central target of gravitational wave astronomy. Asymmetric radiation can produce a thrust on the system which may accelerate the single black hole resulting from the merger to high relative velocity.

Ecological adaptation of wild peach palm, its in situ conservation and deforestation-mediated extinction in southern Brazilian Amazonia.

Science.gov (United States)

Clement, Charles R; Santos, Ronaldo P; Desmouliere, Sylvain J M; Ferreira, Evandro J L; Neto, João Tomé Farias

2009-01-01

The Arc of Fire across southern Amazonia seasonally attracts worldwide attention as forests are cut and burned for agricultural expansion. These forests contain numerous wild relatives of native South American crops, such as peach palm. Our prospecting expeditions examined critical areas for wild peach palm in the Arc of Fire in Mato Grosso, Pará, Maranhão and Tocantins, as well as areas not previously examined in Amazonas and Amapá states. Recent digitization of the RADAM Brasil project permitted comparison among RADAM's parataxonomists' observations, previous botanical collections and our prospecting. Mapping on soils and vegetation types enabled us to hypothesize a set of ecological preferences. Wild peach palm is best adapted to Ultisols (Acrisols) in open forests across the Arc of Fire and westward into the more humid western Amazonia. Populations are generally small (fewer than 10 plants) on slopes above watercourses. In northern Mato Grosso and southern Pará soybean fields and pastures now occupy numerous areas where RADAM identified wild peach palm. The controversial BR-163 Highway is already eroding wild peach palm as deforestation expands. Many of these populations are now isolated by increasing forest fragmentation, which will lead to decreased reproduction via inbreeding depression and eventual extinction even without complete deforestation. Federal conservation areas are less numerous in the Arc of Fire than in other parts of Brazilian Amazonia, although there are indigenous lands; these conservation areas contain viable populations of wild peach palm and require better protection than they are currently receiving. Ex situ conservation of these populations is not viable given the relative lack of importance of domesticated peach palm and the difficulty of maintaining even economically interesting genetic resources.

Numerical methods for the simulation of particle generated electromagnetic fields in acclerator physics

International Nuclear Information System (INIS)

Lau, T.

2006-01-01

In this work modifications of the classical Particle-In-Cell method for the solution of the Maxwell-Vlasov equations are investigated with respect to their application in particle accelerator physics. The aim of the work is to find modifications of the method which minimize and under certain conditions even eliminate the numerical dispersion effect along the beam axis in the numerical solution of Maxwell's equations. This is achieved by the development of dedicated time-integration methods for the Finite Integration Technique and two Finite Volume Methods. The methods are theoretically investigated regarding the conservation of a discrete energy and the existence of a discrete continuity equation. Finally, some of the methods are applied to the simulation of a high frequency rf-gun. (orig.)

Numerical analysis of mass transfer with graphite oxidation in a laminar flow of multi-component gas mixture through a circular tube

International Nuclear Information System (INIS)

Ogawa, Masuro

1992-10-01

In the present paper, mass transfer has been numerically studied in a laminar flow through a circular graphite tube to evaluate graphite corrosion rate and generation rate of carbon monoxide during a pipe rupture accident in a high temperature gas cooled reactor. In the analysis, heterogeneous (graphite oxidation and graphite/carbon dioxide reaction) and homogeneous (carbon monoxide combustion) chemical reactions were dealt in the multi-component gas mixture; helium, oxygen, carbon monoxide and carbon dioxide. Multi-component diffusion coefficients were used in a diffusion term. Mass conservation equations of each gas component, mass conservation equation and momentum conservation equations of the gas mixture were solved by using SIMPLE algorism. Chemical reactions between graphite and oxygen, graphite and carbon dioxide, and carbon monoxide combustion were taken into account in the present numerical analysis. An energy equation for the gas mixture was not solved and temperature was held to be constant in order to understand basic mass transfer characteristics without heat transfer. But, an energy conservation equation for single component gas was added to know heat transfer characteristics without mass transfer. The effects of these chemical reactions on the mass transfer coefficients were quantitatively and qualitatively clarified in the range of 50 to 1000 of inlet Reynolds numbers, 0 to 0.5 of inlet oxygen mass fraction and 800 to 1600degC of temperature. (author)

Développement rural et conservation

Directory of Open Access Journals (Sweden)

Linet, C.

1985-01-01

Full Text Available Développement rural et conservation. Open strip mining for cement production, out of fossil coral limestone has left hectares of man-made quarry, a stone desert at Bamburi near Mombasa. A rehabilitation programme initiated in 1971, started with a Casuarina plantation and fish pond culture. Later on, the production of humus assisted by introducing millipedes created soils, which enabled the planting of other trees and the creation of a forest. Simultaneously, intensive Tilapia tank culture was developed to a pilot commercial scale. A small nature trail has also been set up with tortoises, hippopotamus, crocodiles, waterbucks, antelopes, and numerous other wild animals as well as plenty of birds. A small herd of oryx and elands is also successfully reared while snail, earthworm and wild fowl production experiments are under way. The principes adopted here constitute a very impressive example of how man can correct the environmental damage he is making, and that reafforestation and rehabilitation programmes can be effective under near desert like conditions.

Paradigms for parasite conservation.

Science.gov (United States)

Dougherty, Eric R; Carlson, Colin J; Bueno, Veronica M; Burgio, Kevin R; Cizauskas, Carrie A; Clements, Christopher F; Seidel, Dana P; Harris, Nyeema C

2016-08-01

Parasitic species, which depend directly on host species for their survival, represent a major regulatory force in ecosystems and a significant component of Earth's biodiversity. Yet the negative impacts of parasites observed at the host level have motivated a conservation paradigm of eradication, moving us farther from attainment of taxonomically unbiased conservation goals. Despite a growing body of literature highlighting the importance of parasite-inclusive conservation, most parasite species remain understudied, underfunded, and underappreciated. We argue the protection of parasitic biodiversity requires a paradigm shift in the perception and valuation of their role as consumer species, similar to that of apex predators in the mid-20th century. Beyond recognizing parasites as vital trophic regulators, existing tools available to conservation practitioners should explicitly account for the unique threats facing dependent species. We built upon concepts from epidemiology and economics (e.g., host-density threshold and cost-benefit analysis) to devise novel metrics of margin of error and minimum investment for parasite conservation. We define margin of error as the risk of accidental host extinction from misestimating equilibrium population sizes and predicted oscillations, while minimum investment represents the cost associated with conserving the additional hosts required to maintain viable parasite populations. This framework will aid in the identification of readily conserved parasites that present minimal health risks. To establish parasite conservation, we propose an extension of population viability analysis for host-parasite assemblages to assess extinction risk. In the direst cases, ex situ breeding programs for parasites should be evaluated to maximize success without undermining host protection. Though parasitic species pose a considerable conservation challenge, adaptations to conservation tools will help protect parasite biodiversity in the face of

Comparison of C. elegans and C. briggsae genome sequences reveals extensive conservation of chromosome organization and synteny.

Directory of Open Access Journals (Sweden)

LaDeana W Hillier

2007-07-01

Full Text Available To determine whether the distinctive features of Caenorhabditis elegans chromosomal organization are shared with the C. briggsae genome, we constructed a single nucleotide polymorphism-based genetic map to order and orient the whole genome shotgun assembly along the six C. briggsae chromosomes. Although these species are of the same genus, their most recent common ancestor existed 80-110 million years ago, and thus they are more evolutionarily distant than, for example, human and mouse. We found that, like C. elegans chromosomes, C. briggsae chromosomes exhibit high levels of recombination on the arms along with higher repeat density, a higher fraction of intronic sequence, and a lower fraction of exonic sequence compared with chromosome centers. Despite extensive intrachromosomal rearrangements, 1:1 orthologs tend to remain in the same region of the chromosome, and colinear blocks of orthologs tend to be longer in chromosome centers compared with arms. More strikingly, the two species show an almost complete conservation of synteny, with 1:1 orthologs present on a single chromosome in one species also found on a single chromosome in the other. The conservation of both chromosomal organization and synteny between these two distantly related species suggests roles for chromosome organization in the fitness of an organism that are only poorly understood presently.

Discrete Exterior Calculus Discretization of Incompressible Navier-Stokes Equations

KAUST Repository

Mohamed, Mamdouh S.

2017-05-23

A conservative discretization of incompressible Navier-Stokes equations over surface simplicial meshes is developed using discrete exterior calculus (DEC). Numerical experiments for flows over surfaces reveal a second order accuracy for the developed scheme when using structured-triangular meshes, and first order accuracy otherwise. The mimetic character of many of the DEC operators provides exact conservation of both mass and vorticity, in addition to superior kinetic energy conservation. The employment of barycentric Hodge star allows the discretization to admit arbitrary simplicial meshes. The discretization scheme is presented along with various numerical test cases demonstrating its main characteristics.

Conservation: Toward firmer ground

Science.gov (United States)

1975-01-01

The following aspects of energy conservation were reviewed in order to place the problems in proper perspective: history and goals, conservation accounting-criteria, and a method to overcome obstacles. The effect of changing prices and available supplies of energy sources and their causes on consumption levels during the last few decades were described. Some examples of attainable conservation goals were listed and justified. A number of specific criteria applicable to conservation accounting were given. Finally, a discussion was presented to relate together the following aspects of energy conservation: widespread impact, involvement of government, industry, politics, moral and ethical aspects, urgency and time element.

Community markets for conservation: Markets to advance conservation mission

OpenAIRE

Fay, J.

2008-01-01

This presentation describes the function and economics of COMACO (Community Markets for Conservation), discusses the current reality of climate change, and then explores how possible market mechanism approaches to ameliorating climate change may fit into COMACO's work and research. LTRA-2 (An Agricultural Markets Model for Biodiversity Conservation)

Detection of the onset of numerical chaotic instabilities by lyapunov exponents

Directory of Open Access Journals (Sweden)

Alicia Serfaty De Markus

2001-01-01

Full Text Available It is commonly found in the fixed-step numerical integration of nonlinear differential equations that the size of the integration step is opposite related to the numerical stability of the scheme and to the speed of computation. We present a procedure that establishes a criterion to select the largest possible step size before the onset of chaotic numerical instabilities, based upon the observation that computational chaos does not occur in a smooth, continuous way, but rather abruptly, as detected by examining the largest Lyapunov exponent as a function of the step size. For completeness, examination of the bifurcation diagrams with the step reveals the complexity imposed by the algorithmic discretization, showing the robustness of a scheme to numerical instabilities, illustrated here for explicit and implicit Euler schemes. An example of numerical suppression of chaos is also provided.

The genome sequence of the commercially cultivated mushroom Agrocybe aegerita reveals a conserved repertoire of fruiting-related genes and a versatile suite of biopolymer-degrading enzymes.

Science.gov (United States)

Gupta, Deepak K; Rühl, Martin; Mishra, Bagdevi; Kleofas, Vanessa; Hofrichter, Martin; Herzog, Robert; Pecyna, Marek J; Sharma, Rahul; Kellner, Harald; Hennicke, Florian; Thines, Marco

2018-01-15

Agrocybe aegerita is an agaricomycete fungus with typical mushroom features, which is commercially cultivated for its culinary use. In nature, it is a saprotrophic or facultative pathogenic fungus causing a white-rot of hardwood in forests of warm and mild climate. The ease of cultivation and fructification on solidified media as well as its archetypal mushroom fruit body morphology render A. aegerita a well-suited model for investigating mushroom developmental biology. Here, the genome of the species is reported and analysed with respect to carbohydrate active genes and genes known to play a role during fruit body formation. In terms of fruit body development, our analyses revealed a conserved repertoire of fruiting-related genes, which corresponds well to the archetypal fruit body morphology of this mushroom. For some genes involved in fruit body formation, paralogisation was observed, but not all fruit body maturation-associated genes known from other agaricomycetes seem to be conserved in the genome sequence of A. aegerita. In terms of lytic enzymes, our analyses suggest a versatile arsenal of biopolymer-degrading enzymes that likely account for the flexible life style of this species. Regarding the amount of genes encoding CAZymes relevant for lignin degradation, A. aegerita shows more similarity to white-rot fungi than to litter decomposers, including 18 genes coding for unspecific peroxygenases and three dye-decolourising peroxidase genes expanding its lignocellulolytic machinery. The genome resource will be useful for developing strategies towards genetic manipulation of A. aegerita, which will subsequently allow functional genetics approaches to elucidate fundamentals of fruiting and vegetative growth including lignocellulolysis.

75 FR 11194 - San Diego County Water Authority Natural Communities Conservation Program/Habitat Conservation...

Science.gov (United States)

2010-03-10

... Diego County Water Authority Natural Communities Conservation Program/Habitat Conservation Plan, San... meetings for the San Diego County Water Authority's (Water Authority/Applicant) draft Natural Communities Conservation Plan (NCCP)/Habitat Conservation Plan (HCP) prepared in application to us for an incidental take...

A curvilinear, fully implicit, conservative electromagnetic PIC algorithm in multiple dimensions

Science.gov (United States)

Chacón, L.; Chen, G.

2016-07-01

We extend a recently proposed fully implicit PIC algorithm for the Vlasov-Darwin model in multiple dimensions (Chen and Chacón (2015) [1]) to curvilinear geometry. As in the Cartesian case, the approach is based on a potential formulation (ϕ, A), and overcomes many difficulties of traditional semi-implicit Darwin PIC algorithms. Conservation theorems for local charge and global energy are derived in curvilinear representation, and then enforced discretely by a careful choice of the discretization of field and particle equations. Additionally, the algorithm conserves canonical-momentum in any ignorable direction, and preserves the Coulomb gauge ∇ ṡ A = 0 exactly. An asymptotically well-posed fluid preconditioner allows efficient use of large cell sizes, which are determined by accuracy considerations, not stability, and can be orders of magnitude larger than required in a standard explicit electromagnetic PIC simulation. We demonstrate the accuracy and efficiency properties of the algorithm with numerical experiments in mapped meshes in 1D-3V and 2D-3V.

Scoliosis: review of types of curves, etiological theories and conservative treatment.

Science.gov (United States)

Shakil, Halima; Iqbal, Zaheen A; Al-Ghadir, Ahmad H

2014-01-01

Scoliosis is the deviation in the normal vertical spine. Although there are numerous studies available about treatment approaches for scoliosis, the numbers of studies that talk about its etiology and pathology are limited. Aim of this study was to discuss the different types of scoliosis; its curves and etiological theories; and to note their implication on its treatment. We examined various electronic databases including Pub MED, Medline, Cinhal, Cochrane library and Google scholar using key words "scoliosis", "etiology", "pathology" and "conservative treatment". References of obtained articles were also examined for cross references. The search was limited to articles in English language. A total of 145 papers, about Prevalence, History, Symptoms, classification, Biomechanics, Pathogenesis, Kinematics and Treatment of scoliosis were identified to be relevant. To choose the appropriate treatment approach for scoliosis we need to understand its etiology and pathogenesis first. Early intervention with conservative treatment like physiotherapy and bracing can prevent surgery.

Inequity in ecosystem service delivery: Socioeconomic gaps in the public-private conservation network

Science.gov (United States)

Villamagna, Amy M.; Mogollón, Beatriz; Angermeier, Paul L.

2017-01-01

private conservation lands included beneficiaries of significantly greater household income than benefit zones of other types of conservation areas. Our analysis of ES flows revealed significant socioeconomic gaps in how the current public-private conservation network benefits the public. These gaps warrant consideration in regional conservation plans and suggest that private conservation initiatives may be best suited for responding to the equity challenge. Enhancing the ecosystem benefits and the equity of benefit delivery from private conservation networks could build public and political support for long-term conservation strategies and ultimately enhance conservation efficacy.

[Type 2 dens fracture in the elderly and therapy-linked mortality : Conservative or operative treatment].

Science.gov (United States)

Stein, G; Meyer, C; Marlow, L; Christ, H; Müller, L P; Isenberg, J; Eysel, P; Schiffer, G; Faymonville, C

2017-02-01

Type II fractures of the odontoid process of the axis are the most common injury of the cervical spine in elderly patients. Only little evidence exists on whether elderly patients should be treated conservatively or surgically. The mortality and survival probability of 51 patients were determined in a retrospective study. The range of motion, pain and the neck disability index were clinically investigated. Of the 51 patients 37 were treated surgically and 14 conservatively. The conservatively treated group showed a higher mortality (64 % vs. 32 %). Kaplan-Meier analysis revealed a median survival of the conservatively treated group of 29 months, whereby during the first 3 months of treatment this group showed a higher survival probability and afterwards the surgically treated group showed a higher survival probability. The clinical examination of 20 patients revealed limited range of motion of the cervical spine. Additionally, moderate levels of pain and complaints were recorded using the neck disability index. Fractures of the odontoid process pose a far-reaching danger for elderly patients. A balanced assessment of the general condition should be carried out at the beginning of treatment of these patients. In the early phase following trauma no differences were found with respect to survival rates but for long-term survival the operatively treated group showed advantages; however, these advantages cannot be causally attributed to the choice of therapy.

Conservation Through Different Lenses: Reflection, Responsibility, and the Politics of Participation in Conservation Advocacy

Science.gov (United States)

Abrash Walton, Abigail

2010-01-01

This essay considers the arenas of advocacy, politics, and self-reflection in strengthening conservation and resource management initiatives. It frames key questions that reflective conservation practitioners may address in seeking to enhance the results of conservation projects, including equity and more inclusive participation by nonprivileged groups. The essay touches on the importance of understanding conservation work within particular political and historic dynamics, including the need to understand non-Western and/or indigenous or traditional perspectives on conservation. The author makes the case that Western or privileged conservation practitioners are uniquely situated to advocate effectively for change.

Optimized spatial priorities for biodiversity conservation in China: a systematic conservation planning perspective.

Science.gov (United States)

Wu, Ruidong; Long, Yongcheng; Malanson, George P; Garber, Paul A; Zhang, Shuang; Li, Diqiang; Zhao, Peng; Wang, Longzhu; Duo, Hairui

2014-01-01

By addressing several key features overlooked in previous studies, i.e. human disturbance, integration of ecosystem- and species-level conservation features, and principles of complementarity and representativeness, we present the first national-scale systematic conservation planning for China to determine the optimized spatial priorities for biodiversity conservation. We compiled a spatial database on the distributions of ecosystem- and species-level conservation features, and modeled a human disturbance index (HDI) by aggregating information using several socioeconomic proxies. We ran Marxan with two scenarios (HDI-ignored and HDI-considered) to investigate the effects of human disturbance, and explored the geographic patterns of the optimized spatial conservation priorities. Compared to when HDI was ignored, the HDI-considered scenario resulted in (1) a marked reduction (∼9%) in the total HDI score and a slight increase (∼7%) in the total area of the portfolio of priority units, (2) a significant increase (∼43%) in the total irreplaceable area and (3) more irreplaceable units being identified in almost all environmental zones and highly-disturbed provinces. Thus the inclusion of human disturbance is essential for cost-effective priority-setting. Attention should be targeted to the areas that are characterized as moderately-disturbed, conservation. We delineated 23 primary large-scale priority areas that are significant for conserving China's biodiversity, but those isolated priority units in disturbed regions are in more urgent need of conservation actions so as to prevent immediate and severe biodiversity loss. This study presents a spatially optimized national-scale portfolio of conservation priorities--effectively representing the overall biodiversity of China while minimizing conflicts with economic development. Our results offer critical insights for current conservation and strategic land-use planning in China. The approach is transferable and easy

Professional mathematicians differ from controls in their spatial-numerical associations.

Science.gov (United States)

Cipora, Krzysztof; Hohol, Mateusz; Nuerk, Hans-Christoph; Willmes, Klaus; Brożek, Bartosz; Kucharzyk, Bartłomiej; Nęcka, Edward

2016-07-01

While mathematically impaired individuals have been shown to have deficits in all kinds of basic numerical representations, among them spatial-numerical associations, little is known about individuals with exceptionally high math expertise. They might have a more abstract magnitude representation or more flexible spatial associations, so that no automatic left/small and right/large spatial-numerical association is elicited. To pursue this question, we examined the Spatial Numerical Association of Response Codes (SNARC) effect in professional mathematicians which was compared to two control groups: Professionals who use advanced math in their work but are not mathematicians (mostly engineers), and matched controls. Contrarily to both control groups, Mathematicians did not reveal a SNARC effect. The group differences could not be accounted for by differences in mean response speed, response variance or intelligence or a general tendency not to show spatial-numerical associations. We propose that professional mathematicians possess more abstract and/or spatially very flexible numerical representations and therefore do not exhibit or do have a largely reduced default left-to-right spatial-numerical orientation as indexed by the SNARC effect, but we also discuss other possible accounts. We argue that this comparison with professional mathematicians also tells us about the nature of spatial-numerical associations in persons with much less mathematical expertise or knowledge.

The Conserver Society revisited. Un regard neuf sur la societe de conservation

Energy Technology Data Exchange (ETDEWEB)

Schrecker, T

1983-01-01

A discussion paper is presented on the applicability of the ''conserver society'' concept to Canada. Such a concept involves phenomena as increasing energy efficiency throughout society, encouraging energy conservation and use of renewable resources, and promoting life styles not needing a large consumption of goods or energy. Recent encouraging signs of energy conservation trends in Canada are offset by lags in the application of state of the art energy efficiency techniques in construction and manufacturing. Institutional barriers, such as division of conservation costs between building owners and renters, are also mentioned. Some institutional innovations are being implemented to overcome these constraints, however. Renewable energy options considered in this paper are limited to solar thermal energy and biomass. Waste recycling is also considered as an area of considerable potential. Renewable resources in Canada include forests and water, and expenditures to conserve these resources are seen as essential investments for the future, especially in view of the fact that impacts take years to appear. In the economic sphere, a number of developments are outlined, relating to conserver technologies (e.g. those that reduce environmental impacts while recovering materials or energy) and industries. The effect of conserver strategies on employment is also examined. A separate section of this report discusses Quebec, its cultural development and its approach to the conserver society; government actions have been taken with respect to forests, agricultural land, home energy use, recycling, and changing of public attitudes. 50 refs.

Long non-coding RNA discovery across the genus anopheles reveals conserved secondary structures within and beyond the Gambiae complex.

Science.gov (United States)

Jenkins, Adam M; Waterhouse, Robert M; Muskavitch, Marc A T

2015-04-23

Long non-coding RNAs (lncRNAs) have been defined as mRNA-like transcripts longer than 200 nucleotides that lack significant protein-coding potential, and many of them constitute scaffolds for ribonucleoprotein complexes with critical roles in epigenetic regulation. Various lncRNAs have been implicated in the modulation of chromatin structure, transcriptional and post-transcriptional gene regulation, and regulation of genomic stability in mammals, Caenorhabditis elegans, and Drosophila melanogaster. The purpose of this study is to identify the lncRNA landscape in the malaria vector An. gambiae and assess the evolutionary conservation of lncRNAs and their secondary structures across the Anopheles genus. Using deep RNA sequencing of multiple Anopheles gambiae life stages, we have identified 2,949 lncRNAs and more than 300 previously unannotated putative protein-coding genes. The lncRNAs exhibit differential expression profiles across life stages and adult genders. We find that across the genus Anopheles, lncRNAs display much lower sequence conservation than protein-coding genes. Additionally, we find that lncRNA secondary structure is highly conserved within the Gambiae complex, but diverges rapidly across the rest of the genus Anopheles. This study offers one of the first lncRNA secondary structure analyses in vector insects. Our description of lncRNAs in An. gambiae offers the most comprehensive genome-wide insights to date into lncRNAs in this vector mosquito, and defines a set of potential targets for the development of vector-based interventions that may further curb the human malaria burden in disease-endemic countries.

Conservation: Toward firmer ground

Science.gov (United States)

1975-01-01

The following aspects of energy conservation were discussed: conservation history and goals, conservation modes, conservation accounting-criteria, and a method to overcome obstacles. The conservation modes tested fall into one of the following categories: reduced energy consumption, increased efficiency of energy utilization, or substitution of one or more forms of energy for another which is in shorter supply or in some sense thought to be of more value. The conservation accounting criteria include net energy reduction, economic, and technical criteria. A method to overcome obstacles includes (approaches such as: direct personal impact (life style, income, security, aspiration), an element of crisis, large scale involvement of environmental, safety, and health issues, connections to big government, big business, big politics, involvement of known and speculative science and technology, appeal to moral and ethical standards, the transient nature of opportunities to correct the system.

On the Numerical Modeling of Fluid Instabilities in the Small-Amplitude Limit

Science.gov (United States)

Zalesak, Steven; Schmitt, A. J.; Velikovich, A. L.

2008-11-01

The problem we wish to address is that of accurately modeling the evolution of small-amplitude perturbations to a time- dependent flow, where the unperturbed flow itself exhibits large-amplitude temporal and spatial variations. In particular, we wish to accurately model the evolution of small-amplitude perturbations to an imploding ICF pellet, which is subject to both Richtmyer-Meshkov and Rayleigh-Taylor instabilities. This modeling is difficult despite the expected linear evolution of the perturbations themselves, because these perturbations are embedded in a highly nonlinear, strongly- shocked, and highly complex flow field which in and of itself stresses numerical computation capabilities, and whose simulation often employs numerical techniques which were not designed with the proper treatment of small-amplitude perturbations in mind. We will review some of the techniques that we have found to be of use toward this end, including the imposition of a ``differentiability condition'' on the component numerical algorithms of the codes which implement such modeling, the appropriate representation of interfaces in an Eulerian hydrodynamics context, and the role of exact energy conservation.

Numerical evidences of universal trap-like aging dynamics

Science.gov (United States)

Cammarota, Chiara; Marinari, Enzo

2018-04-01

Trap models have been initially proposed as toy models for dynamical relaxation in extremely simplified rough potential energy landscapes. Their importance has recently grown considerably thanks to the discovery that the trap-like aging mechanism directly controls the out-of-equilibrium relaxation processes of more sophisticated spin models, that are considered as the solvable counterpart of real disordered systems. Further establishing the connection between these spin models, out-of-equilibrium behavior and the trap like aging mechanism could shed new light on the properties, which are still largely mysterious, for the activated out-of-equilibrium dynamics of disordered systems. In this work we discuss numerical evidence based on the computations of the permanence times of an emergent trap-like aging behavior in a variety of very simple disordered models—developed from the trap model paradigm. Our numerical results are backed by analytic derivations and heuristic discussions. Such exploration reveals some of the tricks needed to reveal the trap behavior in spite of the occurrence of secondary processes, of the existence of dynamical correlations and of strong finite system’s size effects.

What is ′Successful Development′ in Conservation and Development Projects? Insights from Two Nicaraguan Case Studies

Directory of Open Access Journals (Sweden)

Sandra K Znajda

2014-01-01

Full Text Available The lack of clear indications of success in integrated conservation and development projects has resulted in strong criticisms of these projects, and a call for the return to conservation activities that exclude local communities. Impeding this discussion is the lack of clarity around how project success is defined and measured in conservation and development projects, especially in terms of development goals. This study involved an in-depth exploration of two agroforestry-focused conservation and development projects in Nicaragua to provide insights into how success in reaching development goals is interpreted in such projects. In both projects, development was equated with increased household income, in contrast to more contemporary definitions that include aspects such as self-respect and social integration. Both projects in turn relied on income as a measure of development success, which ultimately lessened attention to impacts not easily measured quantitatively as well as participant perspectives on desired goals. The paper concludes with a discussion of implications for conservation practitioners; specifically the need for better alignment of project goals with contemporary explanations of development, and a need to move beyond primarily numerical indicators to measure change through an interdisciplinary approach in order to have a more comprehensive understanding of project impacts.

Structural and functional studies of the biotin protein ligase from Aquifex aeolicus reveal a critical role for a conserved residue in target specificity.

Science.gov (United States)

Tron, Cecile M; McNae, Iain W; Nutley, Margaret; Clarke, David J; Cooper, Alan; Walkinshaw, Malcolm D; Baxter, Robert L; Campopiano, Dominic J

2009-03-20

Biotin protein ligase (BPL; EC 6.3.4.15) catalyses the formation of biotinyl-5'-AMP from biotin and ATP, and the succeeding biotinylation of the biotin carboxyl carrier protein. We describe the crystal structures, at 2.4 A resolution, of the class I BPL from the hyperthermophilic bacteria Aquifex aeolicus (AaBPL) in its ligand-free form and in complex with biotin and ATP. The solvent-exposed beta- and gamma-phosphates of ATP are located in the inter-subunit cavity formed by the N- and C-terminal domains. The Arg40 residue from the conserved GXGRXG motif is shown to interact with the carboxyl group of biotin and to stabilise the alpha- and beta-phosphates of the nucleotide. The structure of the mutant AaBPL R40G in both the ligand-free and biotin-bound forms reveals that the mutated loop has collapsed, thus hindering ATP binding. Isothermal titration calorimetry indicated that the presence of biotin is not required for ATP binding to wild-type AaBPL in the absence of Mg(2+), and the binding of biotin and ATP has been determined to occur via a random but cooperative process. The affinity for biotin is relatively unaffected by the R40G mutation. In contrast, the thermodynamic data indicate that binding of ATP to AaBPL R40G is very weak in the absence or in the presence of biotin. The AaBPL R40G mutant remains catalytically active but shows poor substrate specificity; mass spectrometry and Western blot studies revealed that the mutant biotinylates both the target A. aeolicus BCCPDelta67 fragment and BSA, and is subject to self-biotinylation.

Strategic conservation planning for the Eastern North Carolina/Southeastern Virginia Strategic Habitat Conservation Team

Science.gov (United States)

Alexander-Vaughn, Louise B.; Collazo, Jaime A.; Drew, C. Ashton

2014-01-01

The Eastern North Carolina/Southeastern Virginia Strategic Habitat Conservation Team (ENCSEVA) is a partnership among local federal agencies and programs with a mission to apply Strategic Habitat Conservation to accomplish priority landscape-level conservation within its geographic region. ENCSEVA seeks to further landscape-scale conservation through collaboration with local partners. To accomplish this mission, ENCSEVA is developing a comprehensive Strategic Habitat Conservation Plan (Plan) to provide guidance for its members, partners, and collaborators by establishing mutual conservation goals, objectives, strategies, and metrics to gauge the success of conservation efforts. Identifying common goals allows the ENCSEVA team to develop strategies that leverage joint resources and are more likely to achieve desired impacts across the landscape. The Plan will also provide an approach for ENCSEVA to meet applied research needs (identify knowledge gaps), foster adaptive management principles, identify conservation priorities, prioritize threats (including potential impacts of climate change), and identify the required capacity to implement strategies to create more resilient landscapes. ENCSEVA seeks to support the overarching goals of the South Atlantic Landscape Conservation Cooperative (SALCC) and to provide scientific and technical support for conservation at landscape scales as well as inform the management of natural resources in response to shifts in climate, habitat fragmentation and loss, and other landscape-level challenges (South Atlantic LCC 2012). The ENCSEVA ecoregion encompasses the northern third of the SALCC geography and offers a unique opportunity to apply landscape conservation at multiple scales through the guidance of local conservation and natural resource management efforts and by reporting metrics that reflect the effectiveness of those efforts (Figure 1). The Environmental Decision Analysis Team, housed within the North Carolina Cooperative

A numerical model for design and optimization of surface textures for tilting pad thrust bearings

OpenAIRE

Gropper, Daniel; Harvey, Terence; Wang, Ling

2018-01-01

A numerical model based on the Reynolds equation to study textured tilting pad thrust bearings considering mass-conserving cavitation and thermal effects is presented. A non-uniform and adaptive finite volume method is utilized and two methods are compared and selected regarding their efficiency in handling discontinuities; specifically placing additional nodes closely around discontinuities and directly incorporating discontinuities in the discrete system. Multithreading is applied to improv...

What is a conservation actor?

Directory of Open Access Journals (Sweden)

Paul Jepson

2011-01-01

Full Text Available As a crisis-oriented discipline, conservation biology needs actions to understand the state of nature and thwart declines in biodiversity. Actors-traditionally individuals, institutions, and collectives-have been central to delivering such goals in practice. However, the definition of actors within the discipline has been narrow and their role in influencing conservation outcomes inadequately conceptualised. In this paper, we examine the question ′What is a conservation actor?′ Who or what creates the capacity to influence conservation values and actions? Drawing from theoretical developments in Actor-Network Theory and collective governance, we argue that the concept of an actor in conservation biology should be broadened to include non-humans, such as species and devices, because they have the agency and ability to influence project goals and outcomes. We illustrate this through four examples: the Asian elephant, International Union for Conservation of Nature red lists, the High Conservation Value approach, and an Integrated Conservation and Development Project. We argue that a broader conceptualisation of actors in conservation biology will produce new forms of understanding that could open up new areas of conservation research, enhance practice and draw attention to spheres of conservation activity that might require stronger oversight and governance.