Interaction of Infall and Winds in Young Stellar Objects

The interaction of a stellar or disk wind with a collapsing environment holds promise for explaining a variety of outflow phenomena observed around young stars. In this paper we present the first simulations of these interactions. The focus here is on exploring how ram pressure balance between wind and ambient gas and post-shock cooling affects the shape of the resulting outflows. In our models we explore the role of ram pressure and cooling by holding the wind speed constant and adjusting the ratio of the inflow mass flux to the wind mass flux (Mdot_a/Mdot_w) Assuming non-spherical cloud collapse, we find that relatively strong winds can carve out wide, conical outflow cavities and that relatively weak winds can be strongly collimated into jet-like structures. If the winds become weak enough, they can be cut off entirely by the infalling environment. We identify discrepancies between results from standard snowplow models and those presented here that have important implications for molecular outflows. We also present mass vs. velocity curves for comparison with observations.Comment: 35 pages, 11 figures (PNG and EPS

NICMOS Images of the GG Tau Circumbinary Disk

We present deep, near-infrared images of the circumbinary disk surrounding the pre-main-sequence binary star, GG Tau A, obtained with NICMOS aboard the Hubble Space Telescope. The spatially resolved proto-planetary disk scatters roughly 1.5% of the stellar flux, with a near-to-far side flux ratio of ~1.4, independent of wavelength, and colors that are comparable to the central source; all of these properties are significantly different from the earlier ground-based observations. New Monte Carlo scattering simulations of the disk emphasize that the general properties of the disk, such as disk flux, near side to far side flux ratio and integrated colors, can be approximately reproduced using ISM-like dust grains, without the presence of either circumstellar disks or large dust grains, as had previously been suggested. A single parameter phase function is fitted to the observed azimuthal variation in disk flux, providing a lower limit on the median grain size of 0.23 micron. Our analysis, in comparison to previous simulations, shows that the major limitation to the study of grain growth in T Tauri disk systems through scattered light lies in the uncertain ISM dust grain properties. Finally, we use the 9 year baseline of astrometric measurements of the binary to solve the complete orbit, assuming that the binary is coplanar with the circumbinary ring. We find that the estimated 1 sigma range on disk inner edge to semi-major axis ratio, 3.2 < Rin/a < 6.7, is larger than that estimated by previous SPH simulations of binary-disk interactions.Comment: 40 pages, 8 postscript figures, accepted for publication in Ap

Optical and Near Infrared Study of the Cepheus E outflow, a very low excitation object

We present images and spectra of the Cepheus E (Cep E) region at both optical and infrared wavelengths. Only the brightest region of the southern lobe of the Cep E outflow reveals optical emission, suggesting that the extinction close to the outflow source plays an important r\^ole in the observed difference between the optical and IR morphologies. Cep E is a unique object since it provides a link between the spectroscopic properties of the optical Herbig-Haro (HH) objects and those of deeply embedded outflows.Comment: Accepted Astron. J., 8 files: paper, tables plus 6 figure

Reducing the risk of iatrogenic Creutzfeldt–Jakob disease by improving the cleaning of neurosurgical instruments

Background: In all, there have been 178 variant Creutzfeldt–Jakob disease (vCJD) patients diagnosed in the UK, with an estimated maximum 1:2000 carriage rate based on archived appendix and tonsil tissue, implying that infection may be rare but carriage relatively frequent. Previous workers have identified that maintenance of surgical instruments in a humid atmosphere after use and prior to cleaning assists cleaning efficacy. Recently the Department of Health/Advisory Committee on Dangerous Pathogens UK have recommended a surgical instrument cleanliness threshold post cleaning of &lt;5 μg protein per instrument side. Aim: To quantify cleanliness of neurosurgical instruments and to investigate cost-effective measures for improved cleaning. Methods: Two instrument protein quantification methods were used: one based on the International Standard (15883 series) using sodium dodecyl sulphate elution and ortho-phthalaldehyde reaction, and a second in-situ protein fluorescence detection system (ProReveal) providing results per instrument side. In-vitro investigation of the efficacy of some commercial and in-house pre-clean wetting agents was undertaken using artificial test soil and stainless steel discs under standard conditions. In-vivo evaluation of best-performing in-vitro agents was undertaken on craniotomy sets. Findings: ProReveal technology demonstrated that 163 out of 187 (87%) neurosurgical instruments had &lt;5 μg residual protein per instrument side. The use of proprietary National Health Service plastic bags and sterile water-soaked wound pads were equivalent in efficacy to commercial pre-cleaning wetting products and significantly less expensive. Conclusion: Although we demonstrate low in-situ protein levels on neurosurgical instruments and the beneficial effects of keeping instruments moist, other cleaning critical-control points such as instrument loading patterns should also be monitored

MHD Models of Axisymmetric Protostellar Jets

We present the results of a series of axisymmetric time-dependent magnetohydrodynamic (MHD) simulations of the propagation of cooling, overdense jets, motivated by the properties of outflows associated with young stellar objects. A variety of initial field strengths and configurations are explored for both steady and time-variable (pulsed) jets. Even apparently weak magnetic fields with strengths B < 60 micro-G in the pre-shocked jet beam can have a significant effect on the dynamics, for example by altering the density, width, and fragmentation of thin shells formed by cooling gas. A linear analysis predicts that axisymmetric pinch modes of the MHD Kelvin-Helmholtz instability should grow only slowly for the highly supermagnetosonic jets studied here; we find no evidence for them in our simulations. Some of our models appear unstable to current-driven pinch modes, however the resulting pressure and density variations induced in the jet beam are not large, making this mechanism an unlikely source of emission knots in the jet beam. In the case of pulsed jets, radial hoop stresses confine shocked jet material in the pulses to the axis, resulting in a higher density in the pulses in comparison to purely hydrodynamic models.Comment: 28 pages, 16 figures, accepted by Ap.

HST NICMOS Images of the HH 7/11 Outflow in NGC1333

We present near infrared images in H2 at 2.12um of the HH 7/11 outflow and its driving source SVS 13 taken with HST NICMOS 2 camera, as well as archival Ha and [SII] optical images obtained with the WFPC2 camera. The NICMOS high angular resolution observations confirm the nature of a small scale jet arising from SVS 13, and resolve a structure in the HH 7 working surface that could correspond to Mach disk H2 emission. The H2 jet has a length of 430 AU (at a distance of 350 pc), an aspect ratio of 2.2 and morphologically resembles the well known DG Tau optical micro-jet. The kinematical age of the jet (approx. 10 yr) coincides with the time since the last outburst from SVS 13. If we interpret the observed H2 flux density with molecular shock models of 20-30 km/s, then the jet has a density as high as 1.e+5 cc. The presence of this small jet warns that contamination by H2 emission from an outflow in studies searching for H2 in circumstellar disks is possible. At the working surface, the smooth H2 morphology of the HH 7 bowshock indicates that the magnetic field is strong, playing a major role in stabilizing this structure. The H2 flux density of the Mach disk, when compared with that of the bowshock, suggests that its emission is produced by molecular shocks of less than 20 km/s. The WFPC2 optical images display several of the global features already inferred from groundbased observations, like the filamentary structure in HH 8 and HH 10, which suggests a strong interaction of the outflow with its cavity. The H2 jet is not detected in {SII] or Ha, however, there is a small clump at approx. 5'' NE of SVS 13 that could be depicting the presence either of a different outburst event or the north edge of the outflow cavity.Comment: 13 pages, 5 figures (JPEGs

The lower mass function of the young open cluster Blanco 1: from 30 Mjup to 3 Mo

We performed a deep wide field optical survey of the young (~100-150 Myr) open cluster Blanco1 to study its low mass population well down into the brown dwarf regime and estimate its mass function over the whole cluster mass range.The survey covers 2.3 square degrees in the I and z-bands down to I ~ z ~ 24 with the CFH12K camera. Considering two different cluster ages (100 and 150 Myr), we selected cluster member candidates on the basis of their location in the (I,I-z) CMD relative to the isochrones, and estimated the contamination by foreground late-type field dwarfs using statistical arguments, infrared photometry and low-resolution optical spectroscopy. We find that our survey should contain about 57% of the cluster members in the 0.03-0.6 Mo mass range, including 30-40 brown dwarfs. The candidate's radial distribution presents evidence that mass segregation has already occured in the cluster. We took it into account to estimate the cluster mass function across the stellar/substellar boundary. We find that, between 0.03Mo and 0.6Mo, the cluster mass distribution does not depend much on its exact age, and is well represented by a single power-law, with an index alpha=0.69 +/- 0.15. Over the whole mass domain, from 0.03Mo to 3Mo, the mass function is better fitted by a log-normal function with m0=0.36 +/- 0.07Mo and sigma=0.58 +/- 0.06. Comparison between the Blanco1 mass function, other young open clusters' MF, and the galactic disc MF suggests that the IMF, from the substellar domain to the higher mass part, does not depend much on initial conditions. We discuss the implications of this result on theories developed to date to explain the origin of the mass distribution.Comment: 18 pages, 15 figures and 5 tables accepted in A&

The Stability of Radiatively Cooled Jets in Three Dimensions

The effect of optically thin radiative cooling on the Kelvin-Helmholtz instability of three dimensional jets is investigated via linear stability theory and nonlinear hydrodynamical simulation. Two different cooling functions are considered: radiative cooling is found to have a significant effect on the stability of the jet in each case. The wavelengths and growth rates of unstable modes in the numerical simulations are found to be in good agreement with theoretical predictions. Disruption of the jet is found to be sensitive to the precessional frequency at the origin with lower frequencies leading to more rapid disruption. Strong nonlinear effects are observed as the result of the large number of normal modes in three dimensions which provide rich mode-mode interactions. These mode-mode interactions provide new mechanisms for the formation of knots in the flows. Significant structural features found in the numerical simulations appear similar to structures observed on protostellar jets.Comment: 32 pages, 13 figures, figures included in page tota

ROCker Models for Reliable Detection and Typing of Short-Read Sequences Carrying beta-Lactamase Genes

Identification of genes encoding beta-lactamases (BLs) from short-read sequences remains challenging due to the high frequency of shared amino acid functional domains and motifs in proteins encoded by BL genes and related non-BL gene sequences. Divergent BL homologs can be frequently missed during similarity searches, which has important practical consequences for monitoring antibiotic resistance. To address this limitation, we built ROCker models that targeted broad classes (e.g., class A, B, C, and D) and individual families (e.g., TEM) of BLs and challenged them with mock 150-bp- and 250-bp-read data sets of known composition. ROCker identifies most-discriminant bit score thresholds in sliding windows along the sequence of the target protein sequence and hence can account for nondiscriminative domains shared by unrelated proteins. BL ROCker models showed a 0% false-positive rate (FPR), a 0% to 4% false-negative rate (FNR), and an up-to-50-fold-higher F1 score [2 x precision x recall/(precision + recall)] compared to alternative methods, such as similarity searches using BLASTx with various e-value thresholds and BL hidden Markov models, or tools like DeepARG, ShortBRED, and AMRFinder. The ROCker models and the underlying protein sequence reference data sets and phylogenetic trees for read placement are freely available through http://enve-omics.ce.gatech.edu/data/rocker-bla. Application of these BL ROCker models to metagenomics, metatranscriptomics, and high-throughput PCR gene amplicon data should facilitate the reliable detection and quantification of BL variants encoded by environmental or clinical isolates and microbiomes and more accurate assessment of the associated public health risk, compared to the current practice. IMPORTANCE Resistance genes encoding beta-lactamases (BLs) confer resistance to the widely prescribed antibiotic class beta-lactams. Therefore, it is important to assess the prevalence of BL genes in clinical or environmental samples for monitoring the spreading of these genes into pathogens and estimating public health risk. However, detecting BLs in short-read sequence data is technically challenging. Our ROCker model-based bioinformatics approach showcases the reliable detection and typing of BLs in complex data sets and thus contributes toward solving an important problem in antibiotic resistance surveillance. The ROCker models developed substantially expand the toolbox for monitoring antibiotic resistance in clinical or environmental settings