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  • 1
    Publication Date: 2015-08-12
    Description: Large surveys have shown that red galaxies are preferentially aligned with their haloes, while blue galaxies have a more isotropic distribution. Since haloes generally align with their filaments, this introduces a bias in the measurement of the cosmic shear from weak lensing. It is therefore vitally important to understand why this difference arises. We explore the stability of different disc orientations within triaxial haloes. We show that, in the absence of gas, the disc orientation is most stable when its spin is along the minor axis of the halo. Instead when gas cools on to a disc, it is able to form in almost arbitrary orientation, including off the main planes of the halo (but avoiding an orientation perpendicular to the halo's intermediate axis). Substructure helps gasless galaxies reach alignment with the halo faster, but has less effect on galaxies when gas is cooling on to the disc. Our results provide a novel and natural interpretation for why red, gas poor galaxies are preferentially aligned with their halo, while blue, star-forming, galaxies have nearly random orientations, without requiring a connection between galaxies’ current star formation rate and their merger history.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 2
    Publication Date: 2013-06-09
    Description: In a recent study, we used cosmological simulations to show that active galactic nuclei (AGN) feedback on the gas distribution in clusters of galaxies can be important in determining the spatial distribution of stars and dark matter in the central regions of these systems. The hierarchical assembly of dark matter, baryons and black holes obscures the physical mechanism behind the restructuring process. Here, we use idealized simulations to follow the response of a massive dark matter halo as we feed the central black hole with a controlled supply of cold gas. This removes most of the complexity taking place in the cosmological simulations that may have biased our previous study. We confirm our previous results: gas heated and expelled from the central regions of the halo by AGN feedback can return after cooling; repeated cycles generate gravitational potential fluctuations responsible for irreversible modifications of the dark matter mass profile. The main result is the expulsion of large amounts of baryons and dark matter from the central regions of the halo. According to the work presented here, outflow-induced fluctuations represent the only mechanism able to efficiently create dark matter cores in clusters of galaxies.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 3
    Publication Date: 2015-07-03
    Description: We explore fundamental properties of the distribution of low-mass dark matter haloes within the cosmic web using warm dark matter (WDM) and cold dark matter (CDM) cosmological simulations. Using self-abundance-matched mock galaxy catalogues, we show that the distribution of dwarf galaxies in a WDM universe, wherein low-mass halo formation is heavily suppressed, is nearly indistinguishable to that of a CDM universe whose low-mass haloes are not seen because galaxy formation is suppressed below some threshold halo mass. However, if the scatter between dwarf galaxy luminosity and halo properties is large enough, low-mass CDM haloes would sometimes host relatively bright galaxies thereby populating CDM voids with the occasional isolated galaxy and reducing the numbers of completely empty voids. Otherwise, without high mass to light scatter, all mock galaxy clustering statistics that we consider – the auto-correlation function, the numbers and radial profiles of satellites, the numbers of isolated galaxies, and the probability distribution function of small voids – are nearly identical in CDM and WDM. WDM voids are neither larger nor emptier than CDM voids, when constructed from abundance-matched halo catalogues. It is thus a challenge to determine whether the CDM problem of the overabundance of small haloes with respect to the number density of observed dwarf galaxies has a cosmological solution or an astrophysical solution. However, some clues about the dark matter particle and the scatter between the properties of dwarf galaxies and their dark matter halo hosts might be found in the cosmic web of galaxies in future surveys of the local volume.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 4
    Publication Date: 2016-02-27
    Description: : Many fundamental questions in evolutionary biology entail estimating rates of lineage diversification (speciation–extinction) that are modeled using birth–death branching processes. We leverage recent advances in branching-process theory to develop a flexible Bayesian framework for specifying diversification models—where rates are constant, vary continuously, or change episodically through time—and implement numerical methods to estimate parameters of these models from molecular phylogenies, even when species sampling is incomplete. We enable both statistical inference and efficient simulation under these models. We also provide robust methods for comparing the relative and absolute fit of competing branching-process models to a given tree, thereby providing rigorous tests of biological hypotheses regarding patterns and processes of lineage diversification. Availability and implementation: The source code for TESS is freely available at http://cran.r-project.org/web/packages/TESS/ . Contact: Sebastian.Hoehna@gmail.com
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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  • 5
    Publication Date: 2014-04-02
    Description: Future large-scale structure surveys of the Universe will aim to constrain the cosmological model and the true nature of dark energy with unprecedented accuracy. In order for these surveys to achieve their designed goals, they will require predictions for the non-linear matter power spectrum to sub-percent accuracy. Through the use of a large ensemble of cosmological N -body simulations, we demonstrate that if we do not understand the uncertainties associated with simulating structure formation, i.e. knowledge of the ‘optimal’ simulation parameters, and simply seek to marginalize over them, then the constraining power of such future surveys can be significantly reduced. However, for the parameters { n s , h , b , m }, this effect can be largely mitigated by adding the information from a cosmic microwave background experiment, like Planck . In contrast, for the amplitude of fluctuations 8 and the time-evolving equation of state of dark energy { w 0 , w a }, the mitigation is mild. On marginalizing over the simulation parameters, we find that the dark-energy figure of merit can be degraded by ~2. This is likely an optimistic assessment, since we do not take into account other important simulation parameters. A caveat is our assumption that the Hessian of the likelihood function does not vary significantly when moving from our adopted to the optimal simulation parameter set. This paper therefore provides strong motivation for rigorous convergence testing of N -body codes to meet the future challenges of precision cosmology.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 6
    Publication Date: 2014-10-10
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 7
    Publication Date: 2013-09-06
    Description: Models of the Sagittarius stream have consistently found that the Milky Way disc is oriented such that its short axis is along the intermediate axis of the triaxial dark matter halo. We attempt to build models of disc galaxies in such an ‘intermediate-axis orientation’. We do this with three models. In the first two cases we simply rigidly grow a disc in a triaxial halo such that the disc ends up perpendicular to the global intermediate axis. We also attempt to coax a disc to form in an intermediate-axis orientation by producing a gas+dark matter triaxial system with gas angular momentum about the intermediate axis. In all cases we fail to produce systems which remain with stellar angular momentum aligned with the halo's intermediate axis, even when the disc's potential flattens the inner halo such that the disc is everywhere perpendicular to the halo's local minor axis. For one of these unstable simulations we show that the potential is even rounder than the models of the Milky Way potential in the region probed by the Sagittarius stream. We conclude that the Milky Way's disc is very unlikely to be in an intermediate-axis orientation. However we find that a disc can persist off one of the principal planes of the potential. We propose that the disc of the Milky Way must be tilted relative to the principal axes of the dark matter halo. Direct confirmation of this prediction would constitute a critical test of Modified Newtonian Dynamics.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 8
    Publication Date: 2014-04-06
    Description: We study the effect of baryonic processes on the halo mass function in the galaxy cluster mass range using a catalogue of 153 high-resolution cosmological hydrodynamical simulations performed with the AMR code ramses . We use the results of our simulations within a simple analytical model to gauge the effects of baryon physics on the halo mass function. Neglect of AGN feedback leads to a significant boost in the cluster mass function similar to that reported by other authors. However, including AGN feedback not only gives rise to systems that are similar to observed galaxy clusters, but they also reverse the global baryonic effects on the clusters. The resulting mass function is closer to the unmodified dark matter halo mass function but still contains a mass dependent bias at the 5–10 per cent level. These effects bias measurements of the cosmological parameters, such as 8 and m . For current cluster surveys baryonic effects are within the noise for current survey volumes, but forthcoming and planned large SZ, X-ray and multiwavelength surveys will be biased at the per cent level by these processes. The predictions for the halo mass function including baryonic effects need to be carefully studied with larger and improved simulations. However, simulations of full cosmological boxes with the resolution we achieve and including AGN feedback are still computationally challenging.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 9
    Publication Date: 2014-09-17
    Description: Galaxy formation models and simulations rely on various feedback mechanisms to reproduce the observed baryonic scaling relations and galaxy morphologies. Although dwarf galaxy and giant elliptical properties can be explained using feedback from supernova and active galactic nuclei, Milky Way-sized galaxies still represent a challenge to current theories of galaxy formation. In this paper, we explore the possible role of feedback from stellar radiation in regulating the main properties of disc galaxies such as our own Milky Way. We have performed a suite of cosmological simulations of the same ~10 12 M halo selected based on its rather typical mass accretion history. We have implemented radiative feedback from young stars using a crude model of radiative transfer for ultraviolet and infrared radiation. However, the model is realistic enough such that the dust opacity plays a direct role in regulating the efficiency of our feedback mechanism. We have explored various models for the dust opacity, assuming different constant dust temperatures, as well as a varying dust temperature model. We find that while strong radiative feedback appears as a viable mechanism to regulate the stellar mass fraction in massive galaxies, it also prevents the formation of discs with reasonable morphologies. In models with strong stellar radiation feedback, stellar discs are systematically too thick while the gas disc morphology is completely destroyed due to the efficient mixing between the feedback-affected gas and its surroundings. At the resolution of our simulation suite, we find it impossible to preserve spiral disc morphology while at the same time expelling enough baryons to satisfy the abundance matching constraints.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 10
    Publication Date: 2016-03-19
    Description: Plants are a tremendous source of diverse chemicals, including many natural product-derived drugs. It has recently become apparent that the genes for the biosynthesis of numerous different types of plant natural products are organized as metabolic gene clusters, thereby unveiling a highly unusual form of plant genome architecture and offering novel avenues for discovery and exploitation of plant specialized metabolism. Here we show that these clustered pathways are characterized by distinct chromatin signatures of histone 3 lysine trimethylation (H3K27me3) and histone 2 variant H2A.Z, associated with cluster repression and activation, respectively, and represent discrete windows of co-regulation in the genome. We further demonstrate that knowledge of these chromatin signatures along with chromatin mutants can be used to mine genomes for cluster discovery. The roles of H3K27me3 and H2A.Z in repression and activation of single genes in plants are well known. However, our discovery of highly localized operon-like co-regulated regions of chromatin modification is unprecedented in plants. Our findings raise intriguing parallels with groups of physically linked multi-gene complexes in animals and with clustered pathways for specialized metabolism in filamentous fungi.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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