Connections Between Local and Global Turbulence in Accretion Disks

We analyze a suite of global magnetohydrodynamic (MHD) accretion disk simulations in order to determine whether scaling laws for turbulence driven by the magnetorotational instability, discovered via local shearing box studies, are globally robust. The simulations model geometrically-thin disks with zero net magnetic flux and no explicit resistivity or viscosity. We show that the local Maxwell stress is correlated with the self-generated local vertical magnetic field in a manner that is similar to that found in local simulations. Moreover, local patches of vertical field are strong enough to stimulate and control the strength of angular momentum transport across much of the disk. We demonstrate the importance of magnetic linkages (through the low-density corona) between different regions of the disk in determining the local field, and suggest a new convergence requirement for global simulations -- the vertical extent of the corona must be fully captured and resolved. Finally, we examine the temporal convergence of the average stress, and show that an initial long-term secular drift in the local flux-stress relation dies away on a time scale that is consistent with turbulent mixing of the initial magnetic field.Comment: 8 Pages, 7 Figures ApJ, In Pres

A Comparison of the Morphology and Stability of Relativistic and Nonrelativistic Jets

We compare results from a relativistic and a nonrelativistic set of 2D axisymmetric jet simulations. For a set of five relativistic simulations that either increase the Lorentz factor or decrease the adiabatic index we compute nonrelativistic simulations with equal useful power or thrust. We examine these simulations for morphological and dynamical differences, focusing on the velocity field, the width of the cocoon, the age of the jets, and the internal structure of the jet itself. The primary result of these comparisons is that the velocity field of nonrelativistic jet simulations cannot be scaled up to give the spatial distribution of Lorentz factors seen in relativistic simulations. Since the local Lorentz factor plays a major role in determining the total intensity for parsec scale extragalactic jets, this suggests that a nonrelativistic simulation cannot yield the proper intensity distribution for a relativistic jet. Another general result is that each relativistic jet and its nonrelativistic equivalents have similar ages (in dynamical time units, = R/a_a, where R is the initial radius of a cylindrical jet and a_a is the sound speed in the ambient medium). In addition to these comparisons, we have completed four new relativistic simulations to investigate the effect of varying thermal pressure on relativistic jets. The simulations generally confirm that faster (larger Lorentz factor) and colder jets are more stable, with smaller amplitude and longer wavelength internal variations. The apparent stability of these jets does not follow from linear normal mode analysis, which suggests that there are available growing Kelvin-Helmholtz modes. (Abridged.)Comment: 32 pages, AASTEX, to appear in May 10, 1999 issue of ApJ, better versions of Figures 1 and 6 are available at http://crux.astr.ua.edu/~rosen/rel/rhdh.htm

ASCA Observation of an X-Ray-Luminous Active Nucleus in Markarian 231

We have obtained a moderately long (100 kilosecond) ASCA observation of the Seyfert 1 galaxy Markarian 231, the most luminous of the local ultraluminous infrared galaxy (ULIRG) population. In the best-fitting model we do not see the X-ray source directly; the spectrum consists of a scattered power-law component and a reflection component, both of which have been absorbed by a column N_H \approx 3 X 10^(22)/cm^2. About 3/4 of the observed hard X-rays arise from the scattered component, reducing the equivalent width of the iron K alpha line. The implied ratio of 1-10 keV X-ray luminosity to bolometric luminosity, L_x/L_bol \sim 2%, is typical of Sy 1 galaxies and radio-quiet QSOs of comparable bolometric luminosities, and indicates that the bolometric luminosity is dominated by the AGN. Our estimate of the X-ray luminosity also moves Mrk 231 in line with the correlations found for AGN with extremely strong Fe II emission. A second source separated by about 2 arcminutes is also clearly detected, and contributes about 25% of the total flux.Comment: 11 pages, 3 figures; to appear in ApJ Letter

Structure and functional motifs of GCR1, the only plant protein with a GPCR fold?

Whether GPCRs exist in plants is a fundamental biological question. Interest in deorphanizing new G protein coupled receptors (GPCRs), arises because of their importance in signaling. Within plants, this is controversial as genome analysis has identified 56 putative GPCRs, including GCR1 which is reportedly a remote homologue to class A, B and E GPCRs. Of these, GCR2, is not a GPCR; more recently it has been proposed that none are, not even GCR1. We have addressed this disparity between genome analysis and biological evidence through a structural bioinformatics study, involving fold recognition methods, from which only GCR1 emerges as a strong candidate. To further probe GCR1, we have developed a novel helix alignment method, which has been benchmarked against the the class A – class B - class F GPCR alignments. In addition, we have presented a mutually consistent set of alignments of GCR1 homologues to class A, class B and class F GPCRs, and shown that GCR1 is closer to class A and /or class B GPCRs than class A, class B or class F GPCRs are to each other. To further probe GCR1, we have aligned transmembrane helix 3 of GCR1 to each of the 6 GPCR classes. Variability comparisons provide additional evidence that GCR1 homologues have the GPCR fold. From the alignments and a GCR1 comparative model we have identified motifs that are common to GCR1, class A, B and E GPCRs. We discuss the possibilities that emerge from this controversial evidence that GCR1 has a GPCR fol

Assessing the effect of dynamics on the closed-loop protein-folding hypothesis

The closed-loop (loop-n-lock) hypothesis of protein folding suggests that loops of about 25 residues, closed through interactions between the loop ends (locks), play an important role in protein structure. Coarse-grain elastic network simulations, and examination of loop lengths in a diverse set of proteins, each supports a bias towards loops of close to 25 residues in length between residues of high stability. Previous studies have established a correlation between total contact distance (TCD), a metric of sequence distances between contacting residues (cf. contact order), and the log-folding rate of a protein. In a set of 43 proteins, we identify an improved correlation ( r 2 = 0.76), when the metric is restricted to residues contacting the locks, compared to the equivalent result when all residues are considered ( r 2 = 0.65). This provides qualified support for the hypothesis, albeit with an increased emphasis upon the importance of a much larger set of residues surrounding the locks. Evidence of a similar-sized protein core/extended nucleus (with significant overlap) was obtained from TCD calculations in which residues were successively eliminated according to their hydrophobicity and connectivity, and from molecular dynamics simulations. Our results suggest that while folding is determined by a subset of residues that can be predicted by application of the closed-loop hypothesis, the original hypothesis is too simplistic; efficient protein folding is dependent on a considerably larger subset of residues than those involved in lock formation. </jats:p

Maternal obesity during pregnancy and premature mortality from cardiovascular event in adult offspring : follow-up of 1 323 275 person years

Peer reviewedPublisher PD

A deep X-ray observation of NGC 4258 and its surrounding field

We present a deep X-ray observation of the low-luminosity active galactic nucleus in NGC4258 (M106) using ASCA. The soft X-ray spectrum <2keV is dominated by thermal emission from optically-thin plasma with kT~0.5keV. The hard X-ray emission is clearly due to a power-law component with photon index Gamma=1.8 absorbed by a column density of N_H=8x10^22/cm^2. The power-law is readily identified with primary X-ray emission from the AGN central engine. We also clearly detect a narrow iron K-alpha emission line at 6.4keV. No broad component is detected. We suggest that the bulk of this narrow line comes from the accretion disk and, furthermore, that the power-law X-ray source which excites this line emission (which is typically identified with a disk corona) must be at least 100GM/c^2 in extent. This is in stark contrast to many higher-luminosity Seyfert galaxies which display a broad iron line indicating a small 10 GM/c^2 X-ray emitting region. It must be stressed that this study constrains the size of the X-ray emitting corona rather than the presence/absence of a radiatively efficient accretion disk in the innermost regions. If, instead, a substantial fraction of the observed narrow line originates from material not associated with the accretion disk, limits can be placed on the parameter space of possible allowed relativistically broad iron lines. By comparing our data with previous ASCA observations, we find marginal evidence for a change in absorbing column density through to the central engine, and good evidence for a change in the AGN flux.Comment: 11 pages, 9 postscript figures. Accepted for publication in Ap

Selected plasma fatty acid levels in subsistence fed sled dogs along the Yukon River: a pilot study for biomonitoring

The introduction of the ‘western diet' marked a decline in omega-3 fatty acids rich foods and a concurrent increase in saturated and omega-6 fatty acids that persists today. Historically, circumpolar people have had a low incidence of obesity, diabetes and cardiovascular disease and this has been largely attributed to polyphenolic compounds and omega-3 fatty acids offered from subsistence foods. In this report, we studied sled dogs as an Arctic sentinel species for monitoring the effect of a changing diet on lipid profiles along the Yukon River. Subsistence fed village sled dogs along the Yukon River, maintained largely on salmon were compared with a control kennel maintained on commercial food. Profiles showed higher levels for long chain omega-3 fatty acids in village subsistence fed dogs compared to control dogs and an opposite trend for omega-6 fatty acids, establishing baseline levels for follow up studies. A comparison with data for previously published mercury levels from the same cohort of dogs revealed a positive correlation with alpha-linolenic fatty acid and a negative correlation with linoleic fatty acid. Food and nutritional security is a concern in the Arctic as the impacts of climate change and transport of contaminants become obvious. This study supports not only the nutritional value of a subsistence diet but also the utility of sled dogs as a sentinel for human dietary chang

Black hole formation via hypercritical accretion during common envelope evolution

Neutron stars inspiralling into a stellar envelope can accrete at rates vastly exceeding the Eddington limit if the flow develops pressures high enough to allow neutrinos to radiate the released gravitational energy. It has been suggested that this hypercritical mode of accretion leads inevitably to the formation of stellar mass black holes during common envelope evolution. We study the hydrodynamics of this flow at large radii (R >> R_ns), and show that for low Mach number flows, in two dimensions, modest density gradients in the stellar envelope suffice to produce a hot, advection dominated accretion disk around the accreting object. The formation of outflows from such a disk is highly probable, and we discuss the impact of the resultant mass loss and feedback of energy into the envelope for the survival of the neutron star. Unless outflows are weaker than those inferred for well observed accreting systems, we argue that in most cases insufficient accretion occurs to force collapse to a black hole before the envelope has been ejected. This conclusions is of interest for black hole formation in general, for some models of gamma ray bursts, and for predictions of the event rate in future LIGO observations.Comment: ApJ, submitte

Truncation of the Inner Accretion Disk around a Black Hole at Low Luminosity

Most black hole binaries show large changes in X-ray luminosity caused primarily by variations in mass accretion rate. An important question for understanding black hole accretion and jet production is whether the inner edge of the accretion disk recedes at low accretion rate. Measurements of the location of the inner edge (Rin) can be made using iron emission lines that arise due to fluorescence of iron in the disk, and these indicate that Rin is very close to the black hole at high and moderate luminosities (near 1% of the Eddington luminosity, Ledd). Here, we report on X-ray observations of the black hole GX 339-4 in the hard state by Suzaku and the Rossi X-ray Timing Explorer (RXTE) that extend iron line studies to 0.14% Ledd and show that Rin increases by a factor of >27 over the value found when GX 339-4 was bright. The exact value of Rin depends on the inclination of the inner disk (i), and we derive 90% confidence limits of Rin > 35 Rg at i = 0 degrees and Rin > 175 Rg at i = 30 degrees. This provides direct evidence that the inner portion of the disk is not present at low luminosity, allowing for the possibility that the inner disk is replaced by advection- or magnetically-dominated accretion flows.Comment: Accepted for ApJ Letters, 5 pages, 4 figure