The statistical investigation of type Ib/c and II supernovae and their host galaxies

This is a statistical study of the properties of type Ib/c and II supernovae and of the integral parameters of their spiral host galaxies. The methods of one-dimensional and multivariate statistics were applied to the data sample. It was found that the Ib/c supernovae are more concentrated radially toward the centers of the galaxies than those of type II. The distributions of the radial distances R(SN)/R(25) for the type Ib/c and II supernovae in active galaxies are more concentrated toward the center than in normal galaxies. This effect is stronger for type Ib/c than for type II supernovae.Comment: 8 pages, 2 figure

X-ray, Optical, and Radio Observations of the Type II Supernovae 1999em and 1998S

Observations of the Type II-P (plateau) Supernova (SN) 1999em and Type IIn (narrow emission line) SN 1998S have enabled estimation of the profile of the SN ejecta, the structure of the circumstellar medium (CSM) established by the pre-SN stellar wind, and the nature of the shock interaction. SN 1999em is the first Type II-P detected at both X-ray and radio wavelengths. The Chandra X-ray data indicate non-radiative interaction of SN ejecta with a power-law density profile (rho \propto r^{-n} with n ~ 7) with a pre-SN wind with a low mass-loss rate of ~2 \times 10^{-6} M_sun/yr for a wind velocity of 10 km/sec, in agreement with radio mass-loss rate estimates. The Chandra data show an unexpected, temporary rise in the 0.4--2.0 keV X-ray flux at ~100 days after explosion. SN 1998S, at an age of >3 years, is still bright in X-rays and is increasing in flux density at cm radio wavelengths. Spectral fits to the Chandra data show that many heavy elements (Ne, Al, Si, S, Ar, and Fe) are overabundant with respect to solar values. We compare the observed elemental abundances and abundance ratios to theoretical calculations and find that our data are consistent with a progenitor mass of approximately 15-20 M_sun if the heavy element ejecta are radially mixed out to a high velocity. If the X-ray emission is from the reverse shock wave region, the supernova density profile must be moderately flat at a velocity ~10^4 km/sec, the shock front is non-radiative at the time of the observations, and the mass-loss rate is 1-2 \times 10^{-4} M_sun/yr for a pre-supernova wind velocity of 10 km/sec. This result is also supported by modeling of the radio emission which implies that SN 1998S is surrounded by a clumpy or filamentary CSM established by a high mass-loss rate, ~2 \times 10^{-4} M_sun/yr, from the pre-supernova star.Comment: 14 pages, 10 figures, accepted by ApJ, includes new data (one new obs. each of SN 1999em and SN 1998S), expanded discussion of spectral fit

Proper genomic profiling of (BRCA1-mutated) basal-like breast carcinomas requires prior removal of tumor infiltrating lymphocytes

BRCA1-mutated breast carcinomas may have distinct biological features, suggesting the involvement of specific oncogenic pathways in tumor development. The identification of genomic aberrations characteristic for BRCA1-mutated breast carcinomas could lead to a better understanding of BRCA1-associated oncogenic events and could prove valuable in clinical testing for BRCA1-involvement in patients. Methods: For this purpose, genomic and gene expression profiles of basal-like BRCA1-mutated breast tumors (n=27) were compared with basal-like familial BRCAX (non-. BRCA1/. 2/. CHEK2*1100delC) tumors (n=14) in a familial cohort of 120 breast carcinomas. Results: Genome wide copy number profiles of the BRCA1-mutated breast carcinomas in our data appeared heterogeneous. Gene expression analyses identifi

Spitzer SAGE survey of the Large Magellanic Cloud II: Evolved Stars and Infrared Color Magnitude Diagrams

Color-magnitude diagrams (CMDs) are presented for the Spitzer SAGE (Surveying the Agents of a Galaxy's Evolution) survey of the Large Magellanic Cloud (LMC). IRAC and MIPS 24 um epoch one data are presented. These data represent the deepest, widest mid-infrared CMDs of their kind ever produced in the LMC. Combined with the 2MASS survey, the diagrams are used to delineate the evolved stellar populations in the Large Magellanic Cloud as well as Galactic foreground and extragalactic background populations. Some 32000 evolved stars brighter than the tip of the red giant branch are identified. Of these, approximately 17500 are classified as oxygen-rich, 7000 carbon-rich, and another 1200 as ``extreme'' asymptotic giant branch (AGB) stars. Brighter members of the latter group have been called ``obscured'' AGB stars in the literature owing to their dusty circumstellar envelopes. A large number (1200) of luminous oxygen--rich AGB stars/M supergiants are also identified. Finally, there is strong evidence from the 24 um MIPS channel that previously unexplored, lower luminosity oxygen-rich AGB stars contribute significantly to the mass loss budget of the LMC (1200 such sources are identified).Comment: LaTex, 31 pages, 10 figures. Accepted for publication in the Astronomical Journa

Spitzer Sage Survey of the Large Magellanic Cloud. III. Star Formation and ~1000 New Candidate Young Stellar Objects

We present ~1000 new candidate Young Stellar Objects (YSOs) in the Large Magellanic Cloud selected from Spitzer Space Telescope data, as part of the Surveying the Agents of a Galaxy's Evolution (SAGE) Legacy program. The YSOs, detected by their excess infrared (IR) emission, represent early stages of evolution, still surrounded by disks and/or infalling envelopes. Previously, fewer than 20 such YSOs were known. The candidate YSOs were selected from the SAGE Point Source Catalog from regions of color-magnitude space least confused with other IR-bright populations. The YSOs are biased toward intermediate- to high-mass and young evolutionary stages, because these overlap less with galaxies and evolved stars in color-magnitude space. The YSOs are highly correlated spatially with atomic and molecular gas, and are preferentially located in the shells and bubbles created by massive stars inside. They are more clustered than generic point sources, as expected if star formation occurs in filamentary clouds or shells. We applied a more stringent color-magnitude selection to produce a subset of "high-probability" YSO candidates. We fitted the spectral-energy distributions (SEDs) of this subset and derived physical properties for those that were well fitted. The total mass of these well-fitted YSOs is ~2900 M_☉ and the total luminosity is ~2.1 × 10^6 L_☉ . By extrapolating the mass function with a standard initial mass function and integrating, we calculate a current star-formation rate of ~0.06 M_☉ yr^(–1), which is at the low end of estimates based on total ultraviolet and IR flux from the galaxy (~0.05 – 0.25 M_☉ yr^(–1)), consistent with the expectation that our current YSO list is incomplete. Follow-up spectroscopy and further data mining will better separate the different IR-bright populations and likely increase the estimated number of YSOs. The full YSO list is available as electronic tables, and the SEDs are available as an electronic figure for further use by the scientific community

Discovery of an intermediate-luminosity red transient in M51 and its likely dust-obscured, infrared-variable progenitor

We present the discovery of an optical transient (OT) in Messier 51, designated M51 OT2019-1 (also ZTF19aadyppr, AT 2019abn, ATLAS19bzl), by the Zwicky Transient Facility (ZTF). The OT rose over 15 days to an observed luminosity of $M_r=-13$ (${\nu}L_{\nu}=9\times10^6~L_{\odot}$), in the luminosity gap between novae and typical supernovae (SNe). Spectra during the outburst show a red continuum, Balmer emission with a velocity width of $\approx400$ km s$^{-1}$, Ca II and [Ca II] emission, and absorption features characteristic of an F-type supergiant. The spectra and multiband light curves are similar to the so-called "SN impostors" and intermediate-luminosity red transients (ILRTs). We directly identify the likely progenitor in archival Spitzer Space Telescope imaging with a $4.5~\mu$m luminosity of $M_{[4.5]}\approx-12.2$ and a $[3.6]-[4.5]$ color redder than 0.74 mag, similar to those of the prototype ILRTs SN 2008S and NGC 300 OT2008-1. Intensive monitoring of M51 with Spitzer further reveals evidence for variability of the progenitor candidate at [4.5] in the years before the OT. The progenitor is not detected in pre-outburst Hubble Space Telescope optical and near-IR images. The optical colors during outburst combined with spectroscopic temperature constraints imply a higher reddening of $E(B-V)\approx0.7$ mag and higher intrinsic luminosity of $M_r\approx-14.9$ (${\nu}L_{\nu}=5.3\times10^7~L_{\odot}$) near peak than seen in previous ILRT candidates. Moreover, the extinction estimate is higher on the rise than on the plateau, suggestive of an extended phase of circumstellar dust destruction. These results, enabled by the early discovery of M51 OT2019-1 and extensive pre-outburst archival coverage, offer new clues about the debated origins of ILRTs and may challenge the hypothesis that they arise from the electron-capture induced collapse of extreme asymptotic giant branch stars.Comment: 21 pages, 5 figures, published in ApJ

Optimized two-dimensional thin layer chromatography to monitor the intracellular concentration of acetyl phosphate and other small phosphorylated molecules

Acetyl phosphate (acetyl-P) serves critical roles in coenzyme A recycling and ATP synthesis. It is the intermediate of the Pta-AckA pathway that inter-converts acetyl-coenzyme A and acetate. Acetyl-P also can act as a global signal by donating its phosphoryl group to specific two-component response regulators. This ability derives from its capacity to store energy in the form of a high-energy phosphate bond. This bond, while critical to its function, also destabilizes acetyl-P in cell extracts. This lability has greatly complicated biochemical analysis, leading in part to widely varying acetyl-P measurements. We therefore developed an optimized protocol based on two-dimensional thin layer chromatography that includes metabolic labeling under aerated conditions and careful examination of the integrity of acetyl-P within extracts. This protocol results in greatly improved reproducibility, and thus permits precise measurements of the intracellular concentration of acetyl-P, as well as that of other small phosphorylated molecules

High-Throughput Phenotypic Characterization of Pseudomonas aeruginosa Membrane Transport Genes

The deluge of data generated by genome sequencing has led to an increasing reliance on bioinformatic predictions, since the traditional experimental approach of characterizing gene function one at a time cannot possibly keep pace with the sequence-based discovery of novel genes. We have utilized Biolog phenotype MicroArrays to identify phenotypes of gene knockout mutants in the opportunistic pathogen and versatile soil bacterium Pseudomonas aeruginosa in a relatively high-throughput fashion. Seventy-eight P. aeruginosa mutants defective in predicted sugar and amino acid membrane transporter genes were screened and clear phenotypes were identified for 27 of these. In all cases, these phenotypes were confirmed by independent growth assays on minimal media. Using qRT-PCR, we demonstrate that the expression levels of 11 of these transporter genes were induced from 4- to 90-fold by their substrates identified via phenotype analysis. Overall, the experimental data showed the bioinformatic predictions to be largely correct in 22 out of 27 cases, and led to the identification of novel transporter genes and a potentially new histamine catabolic pathway. Thus, rapid phenotype identification assays are an invaluable tool for confirming and extending bioinformatic predictions

Classification of Supernovae

The current classification scheme for supernovae is presented. The main observational features of the supernova types are described and the physical implications briefly addressed. Differences between the homogeneous thermonuclear type Ia and similarities among the heterogeneous core collapse type Ib, Ic and II are highlighted. Transforming type IIb, narrow line type IIn, supernovae associated with GRBs and few peculiar objects are also discussed.Comment: 16 Pages, 4 figures, to be published in "Supernovae and Gamma-Ray Bursters," ed. Kurt W. Weile