The effects of opacity on gravitational stability in protoplanetary discs

In this paper we consider the effects of opacity regimes on the stability of self-gravitating protoplanetary discs to fragmentation into bound objects. Using a self-consistent 1-D viscous disc model, we show that the ratio of local cooling to dynamical timescales Omega*tcool has a strong dependence on the local temperature. We investigate the effects of temperature-dependent cooling functions on the disc's gravitational stability through controlled numerical experiments using an SPH code. We find that such cooling functions raise the susceptibility of discs to fragmentation through the influence of temperature perturbations - the average value of Omega*tcool has to increase to prevent local variability leading to collapse. We find the effects of temperature dependence to be most significant in the "opacity gap" associated with dust sublimation, where the average value of Omega*tcool at fragmentation is increased by over an order of magnitude. We then use this result to predict where protoplanetary discs will fragment into bound objects, in terms of radius and accretion rate. We find that without temperature dependence, for radii < ~10AU a very large accretion rate ~10^-3 Msun/yr is required for fragmentation, but that this is reduced to 10^-4 Msun/yr with temperature-dependent cooling. We also find that the stability of discs with accretion rates < ~10^-7 Msun/yr at radii > ~50AU is enhanced by a lower background temperature if the disc becomes optically thin.Comment: 12 pages, 10 figures, 4 tables. Accepted by MNRA

The Nature of Angular Momentum Transport in Radiative Self-Gravitating Protostellar Discs

Semi-analytic models of self-gravitating discs often approximate the angular momentum transport generated by the gravitational instability using the phenomenology of viscosity. This allows the employment of the standard viscous evolution equations, and gives promising results. It is, however, still not clear when such an approximation is appropriate. This paper tests this approximation using high resolution 3D smoothed particle hydrodynamics (SPH) simulations of self-gravitating protostellar discs with radiative transfer. The nature of angular momentum transport associated with the gravitational instability is characterised as a function of both the stellar mass and the disc-to-star mass ratio. The effective viscosity is calculated from the Reynolds and gravitational stresses in the disc. This is then compared to what would be expected if the effective viscosity were determined by assuming local thermodynamic equilibrium or, equivalently, that the local dissipation rate matches the local cooling rate. In general, all the discs considered here settle into a self-regulated state where the heating generated by the gravitational instability is modulated by the local radiative cooling. It is found that low-mass discs can indeed be represented by a local "alpha-parametrisation", provided that the disc aspect ratio is small (H/R < 0.1) which is generally the case when the disc-to-star mass ratio q <0.5. However, this result does not extend to discs with masses approaching that of the central object. These are subject to transient burst events and global wave transport, and the effective viscosity is not well modelled by assuming local thermodynamic equilibrium. In spite of these effects, it is shown that massive (compact) discs can remain stable and not fragment, evolving rapidly to reduce their disc-to-star mass ratios through stellar accretion and radial spreading.Comment: 13 pages, 44 figures, accepted for publication in MNRA

Resolved images of self-gravitating circumstellar discs with ALMA

In this paper we present simulated observations of massive self-gravitating circumstellar discs using the Atacama Large Millimetre/sub-millimetre Array (ALMA). Using a smoothed particle hydrodynamics model of a $0.2M_{\odot}$ disc orbiting a $1M_{\odot}$ protostar, with a cooling model appropriate for discs at temperatures below $\sim 160$K and representative dust opacities, we have constructed maps of the expected emission at sub-mm wavelengths. We have then used the CASA ALMA simulator to generate simulated images and visibilities with various array configurations and observation frequencies, taking into account the expected thermal noise and atmospheric opacities. We find that at 345 GHz (870 $\mu$m) spiral structures at a resolution of a few AU should be readily detectable in approximately face-on discs out to distances of the Taurus-Auriga star-forming complex.Comment: 8 pages, 6 figures, accepted to MNRAS. Figure quality degraded. Full paper with higher quality figures available at http://www2.fisica.unimi.it/lodato/CossinsLodatoTesti1.pd

Characterising the Gravitational Instability in Cooling Accretion Discs

We perform numerical analyses of the structure induced by gravitational instabilities in cooling gaseous accretion discs. For low enough cooling rates a quasi-steady configuration is reached, with the instability saturating at a finite amplitude in a marginally stable disc. We find that the saturation amplitude scales with the inverse square root of the cooling parameter beta = t_cool / t_dyn, which indicates that the heating rate induced by the instability is proportional to the energy density of the induced density waves. We find that at saturation the energy dissipated per dynamical time by weak shocks due is of the order of 20 per cent of the wave energy. From Fourier analysis of the disc structure we find that while the azimuthal wavenumber is roughly constant with radius, the mean radial wavenumber increases with radius, with the dominant mode corresponding to the locally most unstable wavelength. We demonstrate that the density waves excited in relatively low mass discs are always close to co-rotation, deviating from it by approximately 10 per cent. This can be understood in terms of the flow Doppler-shifted phase Mach number -- the pattern speed self-adjusts so that the flow into spiral arms is always sonic. This has profound effects on the degree to which transport through self-gravity can be modelled as a viscous process. Our results thus provide (a) a detailed description of how the self-regulation mechanism is established for low cooling rates, (b) a clarification of the conditions required for describing the transport induced by self-gravity through an effective viscosity, (c) an estimate of the maximum amplitude of the density perturbation before fragmentation occurs, and (d) a simple recipe to estimate the density perturbation in different thermal regimes.Comment: 16 pages, 22 figures. Accepted for publication in MNRAS 11 November 200

Th1 cells alter the inflammatory signature of IL-6 by channeling STAT transcription factors to Alu-like retroelements

Cytokines that signal via STAT1 and STAT3 transcription factors instruct decisions affecting tissue homeostasis, anti-microbial host defense, and inflammation-induced tissue injury. To understand the coordination of these activities, we applied RNA-seq, ChIP-seq, and ATAC-seq to identify the transcriptional output of STAT1 and STAT3 in peritoneal tissues during acute resolving inflammation and inflammation primed to drive fibrosis. Bioinformatics focussed on the transcriptional signature of the immuno-modulatory cytokine IL-6 in both settings and examined how pro-fibrotic IFNg- secreting CD4+ T-cells altered the interpretation of STAT1 and STAT3 cytokine cues. In resolving inflammation, STAT1 and STAT3 cooperated to drive stromal gene expression affecting anti-microbial immunity and tissue homeostasis. The introduction of IFNg-secreting CD4+ T-cells altered this transcriptional program and channeled STAT1 and STAT3 to a previously latent GAS motif in Alu-like elements. STAT1 and STAT3 binding to this conserved sequence revealed evidence of reciprocal cross-regulation and gene signatures relevant to pathophysiology. Thus, we propose that effector T-cells re-tune the transcriptional output of IL-6 by shaping a regulatory interplay between STAT1 and STAT3 in inflammation

Interpopulation differences in expression of candidate genes for salinity tolerance in winter migrating anadromous brown trout (Salmo trutta L.)

<p>Abstract</p> <p>Background</p> <p>Winter migration of immature brown trout (<it>Salmo trutta</it>) into freshwater rivers has been hypothesized to result from physiologically stressful combinations of high salinity and low temperature in the sea.</p> <p>Results</p> <p>We sampled brown trout from two Danish populations entering different saline conditions and quantified expression of the <it>hsp70 </it>and <it>Na/K-ATPases α 1b </it>genes following acclimation to freshwater and full-strength seawater at 2°C and 10°C. An interaction effect of low temperature and high salinity on expression of both <it>hsp70 </it>and <it>Na/K-ATPase α 1b </it>was found in trout from the river entering high saline conditions, while a temperature independent up-regulation of both genes in full-strength seawater was found for trout entering marine conditions with lower salinities.</p> <p>Conclusion</p> <p>Overall our results support the hypothesis that physiologically stressful conditions in the sea drive sea-run brown trout into freshwater rivers in winter. However, our results also demonstrate intra-specific differences in expression of important stress and osmoregulative genes most likely reflecting adaptive differences between trout populations on a regional scale, thus strongly suggesting local adaptations driven by the local marine environment.</p

DAF-16 and Δ9 Desaturase Genes Promote Cold Tolerance in Long-Lived Caenorhabditis elegans age-1 Mutants

In Caenorhabditis elegans, mutants of the conserved insulin/IGF-1 signalling (IIS) pathway are long-lived and stress resistant due to the altered expression of DAF-16 target genes such as those involved in cellular defence and metabolism. The three Δ9 desaturase genes, fat-5, fat-6 and fat-7, are included amongst these DAF-16 targets, and it is well established that Δ9 desaturase enzymes play an important role in survival at low temperatures. However, no assessment of cold tolerance has previously been reported for IIS mutants. We demonstrate that long-lived age-1(hx546) mutants are remarkably resilient to low temperature stress relative to wild type worms, and that this is dependent upon daf-16. We also show that cold tolerance following direct transfer to low temperatures is increased in wild type worms during the facultative, daf-16 dependent, dauer stage. Although the cold tolerant phenotype of age-1(hx546) mutants is predominantly due to the Δ9 desaturase genes, additional transcriptional targets of DAF-16 are also involved. Surprisingly, survival of wild type adults following a rapid temperature decline is not dependent upon functional daf-16, and cellular distributions of a DAF-16::GFP fusion protein indicate that DAF-16 is not activated during low temperature stress. This suggests that cold-induced physiological defences are not specifically regulated by the IIS pathway and DAF-16, but expression of DAF-16 target genes in IIS mutants and dauers is sufficient to promote cross tolerance to low temperatures in addition to other forms of stress

Correction to: Solving patients with rare diseases through programmatic reanalysis of genome-phenome data

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