The Numerical Simulation of Radiative Shocks I: The elimination of numerical shock instabilities using a localized oscillation filter

We address a numerical instability that arises in the directionally split computation of hydrodynamic flows when shock fronts are parallel to a grid plane. Transverse oscillations in pressure, density and temperature are produced that are exacerbated by thermal instability when cooling is present, forming post--shock `stripes'. These are orthogonal to the classic post--shock 'ringing' fluctuations. The resulting post--shock `striping' substantially modifies the flow. We discuss three different methods to resolve this problem. These include (1) a method based on artificial viscosity; (2) grid--jittering and (3) a new localized oscillation filter that acts on specific grid cells in the shock front. These methods are tested using a radiative wall shock problem with an embedded shear layer. The artificial viscosity method is unsatisfactory since, while it does reduce post--shock ringing, it does not eliminate the stripes and the excessive shock broadening renders the calculation of cooling inaccurate, resulting in an incorrect shock location. Grid--jittering effectively counteracts striping. However, elsewhere on the grid, the shear layer is unphysically diffused and this is highlighted in an extreme case. The oscillation filter method removes stripes and permits other high velocity gradient regions of the flow to evolve in a physically acceptable manner. It also has the advantage of only acting on a small fraction of the cells in a two or three dimensional simulation and does not significantly impair performance.Comment: 20 pages, 6 figures, revised version submitted to ApJ Supplement Serie

Space station integrated propulsion and fluid systems study

The program study was performed in two tasks: Task 1 addressed propulsion systems and Task 2 addressed all fluid systems associated with the Space Station elements, which also included propulsion and pressurant systems. Program results indicated a substantial reduction in life cycle costs through integrating the oxygen/hydrogen propulsion system with the environmental control and life support system, and through supplying nitrogen in a cryogenic gaseous supercritical or subcritical liquid state. A water sensitivity analysis showed that increasing the food water content would substantially increase the amount of water available for propulsion use and in all cases, the implementation of the BOSCH CO2 reduction process would reduce overall life cycle costs to the station and minimize risk. An investigation of fluid systems and associated requirements revealed a delicate balance between the individual propulsion and fluid systems across work packages and a strong interdependence between all other fluid systems

A remark on the trace-map for the Silver mean sequence

In this work we study the Silver mean sequence based on substitution rules by means of a transfer-matrix approach. Using transfer-matrix method we find a recurrence relation for the traces of general transfer-matrices which characterizes electronic properties of the quasicrystal in question. We also find an invariant of the trace-map.Comment: 5 pages, minor improvements in style and presentation of calculation

Spatially Resolved Far-Ultraviolet Spectroscopy of the Nuclear Region of NGC 1068

We carry out high-resolution FUSE spectroscopy of the nuclear region of NGC 1068. The first set of spectra was obtained with a 30" square aperture that collects all emission from the narrow-line region. The data reveal a strong broad OVI component of FWHM ~3500 kms-1 and two narrow OVI 1031/1037 components of ~350 kms-1. The CIII 977 and NIII 991 emission lines in this spectrum can be fitted with a narrow component of FWHM ~1000 kms-1 and a broad one of ~2500 kms-1. Another set of seven spatially resolved spectra were made using a long slit of 1.25" X 20", at steps of ~1" along the axis of the emission-line cone. We find that (1) Major emission lines in the FUSE wavelength range consist of a broad and a narrow component; (2) There is a gradient in the velocity field for the narrow OVI component of ~200 kms-1 from ~2" southwest of the nucleus to ~4" northeast. A similar pattern is also observed with the broad OVI component, with a gradient of ~3000 kms-1. These are consistent with the HST/STIS findings and suggest a biconical structure in which the velocity field is mainly radial outflow; (3) A major portion of the CIII and NIII line flux is produced in the compact core. They are therefore not effective temperature diagnostics for the conical region; and (4) The best-fitted UV continuum suggests virtually no reddening, and the HeII 1085/1640 ratio suggests a consistently low extinction factor across the cone.Comment: To appear in the Astrophysical Journal. 37 pages with 12 figure

Human bladder cancer invasion model using rat bladder in vitro and its use to test mechanisms and therapeutic inhibitors of invasion

As well as being a passive support, the extracellular matrix also regulates key biological processes such as invasion, differentiation and angiogenesis. We have therefore developed an in vitro model of bladder cancer invasion using de-epithelialized rat bladder to allow for tumour cell–extracellular matrix interactions. Onto this we have seeded a panel of human bladder cancer cell lines (RT4, RT112, 253J and EJ28 (T24)) representing progression from well to poorly differentiated phenotypes and used as models of superficial to invasive bladder cancer. The better differentiated cell lines RT4 and RT112 reproducibly grew as stratified epithelium, whereas poorly differentiated EJ28 cells invaded across a broad front. Invasion was not simply related to proliferation rate, measured either as doubling time on plastic (non-invasive 253J and invasive EJ28 having the same doubling time) or by Ki-67 proliferation index within the model. We used the model to test the ability of 4 compounds that interfere with tumour cell–extracellular matrix interactions (suramin, N-acetylcysteine and the urokinase plasminogen activator pathway antagonists Å5 compound and monoclonal antibody Mab 3936) to inhibit invasion. At non-toxic concentrations, all significantly inhibited invasion (P< 0.05), although to varying degrees, suramin and Å5 almost completely and N-acetylcysteine the least. In conclusion, this model shows the urokinase system is important for bladder invasion and can be used to investigate other mechanisms of bladder cancer invasion and also for the testing of intravesical drugs. © 2001 Cancer Research Campaign http://www.bjcancer.co

Elevated transcription of transposable elements is accompanied by het-siRNA-driven de novo DNA methylation in grapevine embryogenic callus

Background: Somatic variation is a valuable source of trait diversity in clonally propagated crops. In grapevine, which has been clonally propagated worldwide for centuries, important phenotypes such as white berry colour are the result of genetic changes caused by transposable elements. Additionally, epiallele formation may play a role in determining geo-specific (‘terroir’) differences in grapes and thus ultimately in wine. This genomic plasticity might be co-opted for crop improvement via somatic embryogenesis, but that depends on a species-specific understanding of the epigenetic regulation of transposable element (TE) expression and silencing in these cultures. For this reason, we used whole-genome bisulphite sequencing, mRNA sequencing and small RNA sequencing to study the epigenetic status and expression of TEs in embryogenic callus, in comparison with leaf tissue. Results: We found that compared with leaf tissue, grapevine embryogenic callus cultures accumulate relatively high genome-wide CHH methylation, particularly across heterochromatic regions. This de novo methylation is associated with an abundance of transcripts from highly replicated TE families, as well as corresponding 24 nt heterochromatic siRNAs. Methylation in the TE-specific CHG context was relatively low over TEs located within genes, and the expression of TE loci within genes was highly correlated with the expression of those genes. Conclusions: This multi-‘omics analysis of grapevine embryogenic callus in comparison with leaf tissues reveals a high level of genome-wide transcription of TEs accompanied by RNA-dependent DNA methylation of these sequences in trans. This provides insight into the genomic conditions underlying somaclonal variation and epiallele formation in plants regenerated from embryogenic cultures, which is an important consideration when using these tissues for plant propagation and genetic improvement

Interactions of a Light Hypersonic Jet with a Non-Uniform Interstellar Medium

We present three dimensional simulations of the interaction of a light hypersonic jet with an inhomogeneous thermal and turbulently supported disk in an elliptical galaxy. We model the jet as a light, supersonic non-relativistic flow with parameters selected to be consistent with a relativistic jet with kinetic power just above the FR1/FR2 break. We identify four generic phases in the evolution of such a jet with the inhomogeneous interstellar medium: 1) an initial ``flood and channel'' phase, where progress is characterized by high pressure gas finding changing weak points in the ISM, flowing through channels that form and re-form over time, 2) a spherical, energy-driven bubble phase, were the bubble is larger than the disk scale, but the jet remains fully disrupted close to the nucleus, 3) a rapid, jet break--out phase the where jet breaks free of the last dense clouds, becomes collimated and pierces the spherical bubble, and 4) a classical phase, the jet propagates in a momentum-dominated fashion leading to the classical jet + cocoon + bow-shock structure. Mass transport in the simulations is investigated, and we propose a model for the morphology and component proper motions in the well-studied Compact Symmetric Object 4C31.04.Comment: 66 pages, 22 figures, PDFLaTeX, aastex macros, graphicx and amssymb packages, Accepted, to be published 2007 ApJ