Fast direct solution of method of moments applied to multiscale problems

In a recent publication [1], we proposed a new convergence criterion for the Adapted Cross Approximation (ACA) algorithm, based on random sampling of the matrix that represents the residual error at each step of the algorithm. We presented some practical examples involving RCS computations of perfectly conducting benchmark targets exhibiting multiscale features, meaning that the mesh-size of the discrete model of the target is highly variable. These examples demonstrated a considerable improvement in the accuracy of the RCS result without appreciable loss of efficiency. In the presented examples, the solution was obtained by an iterative solver applied to an ACA-compressed Method of Moments impedance matrix. In this paper we apply the new method from [1] to the direct (non-iterative) solution of the MoM matrix. The results demonstrate that in this case, the advantage of the new method is far more important. Compared to ordinary ACA, the same accuracy is obtained in less than a quarter of the computation time

Phage inducible islands in the gram-positive cocci

The SaPIs are a cohesive subfamily of extremely common phage-inducible chromosomal islands (PICIs) that reside quiescently at specific att sites in the staphylococcal chromosome and are induced by helper phages to excise and replicate. They are usually packaged in small capsids composed of phage virion proteins, giving rise to very high transfer frequencies, which they enhance by interfering with helper phage reproduction. As the SaPIs represent a highly successful biological strategy, with many natural Staphylococcus aureus strains containing two or more, we assumed that similar elements would be widespread in the Gram-positive cocci. On the basis of resemblance to the paradigmatic SaPI genome, we have readily identified large cohesive families of similar elements in the lactococci and pneumococci/streptococci plus a few such elements in Enterococcus faecalis. Based on extensive ortholog analyses, we found that the PICI elements in the four different genera all represent distinct but parallel lineages, suggesting that they represent convergent evolution towards a highly successful lifestyle. We have characterized in depth the enterococcal element, EfCIV583, and have shown that it very closely resembles the SaPIs in functionality as well as in genome organization, setting the stage for expansion of the study of elements of this type. In summary, our findings greatly broaden the PICI family to include elements from at least three genera of cocci

A High-Resolution Multiband Survey of Westerlund 2 With the Hubble Space Telescope I: Is the Massive Star Cluster Double?

We present first results from a high resolution multi-band survey of the Westerlund 2 region with the Hubble Space Telescope. Specifically, we imaged Westerlund 2 with the Advanced Camera for Surveys through the $F555W$, $F814W$, and $F658N$ filters and with the Wide Field Camera 3 in the $F125W$, $F160W$, and $F128N$ filters. We derive the first high resolution pixel-to-pixel map of the color excess $E(B-V)_g$ of the gas associated with the cluster, combining the H$\alpha$ ($F658N$) and Pa$\beta$ ($F128N$) line observations. We demonstrate that, as expected, the region is affected by significant differential reddening with a median of $E(B-V)_g=1.87$~mag. After separating the populations of cluster members and foreground contaminants using a $(F814W-F160W)$ vs. $F814W$ color-magnitude diagram, we identify a pronounced pre-main-sequence population in Westerlund 2 showing a distinct turn-on. After dereddening each star of Westerlund 2 individually in the color-magnitude diagram we find via over-plotting PARSEC isochrones that the distance is in good agreement with the literature value of $\sim4.16 \pm 0.33$~kpc. With zero-age-main-sequence fitting to two-color-diagrams, we derive a value of total to selective extinction of $R_V=3.95 \pm 0.135$. A spatial density map of the stellar content reveals that the cluster might be composed of two clumps. We estimate the same age of 0.5-2.0 Myr for both clumps. While the two clumps appear to be coeval, the northern clump shows a $\sim 20 \%$ lower stellar surface density.Comment: 24 pages, 27 figures, 7 tables; Accepted for publication to The Astronomical Journa

LEGUS Discovery of a Light Echo Around Supernova 2012aw

We have discovered a luminous light echo around the normal Type II-Plateau Supernova (SN) 2012aw in Messier 95 (M95; NGC 3351), detected in images obtained approximately two years after explosion with the Wide Field Channel 3 on-board the Hubble Space Telescope (HST) by the Legacy ExtraGalactic Ultraviolet Survey (LEGUS). The multi-band observations span from the near-ultraviolet through the optical (F275W, F336W, F438W, F555W, and F814W). The apparent brightness of the echo at the time was ~21--22 mag in all of these bands. The echo appears circular, although less obviously as a ring, with an inhomogeneous surface brightness, in particular, a prominent enhanced brightness to the southeast. The SN itself was still detectable, particularly in the redder bands. We are able to model the light echo as the time-integrated SN light scattered off of diffuse interstellar dust in the SN environment. We have assumed that this dust is analogous to that in the Milky Way with R_V=3.1. The SN light curves that we consider also include models of the unobserved early burst of light from the SN shock breakout. Our analysis of the echo suggests that the distance from the SN to the scattering dust elements along the echo is ~45 pc. The implied visual extinction for the echo-producing dust is consistent with estimates made previously from the SN itself. Finally, our estimate of the SN brightness in F814W is fainter than that measured for the red supergiant star at the precise SN location in pre-SN images, possibly indicating that the star has vanished and confirming it as the likely SN progenitor.Comment: 10 pages, 9 figures, to appear in the Astrophysical Journa

Low-density colloid centrifugation removes bacteria from boar semen doses after spiking with selected species

Single-layer centrifugation (SLC) with a low-density colloid is an efficient method for removing contaminating microorganisms from boar semen while recovering most spermatozoa from the original sample. This study tested the performance of this technique, using 50-ml tubes, by spiking commercial semen doses prepared without antibiotics with selected bacterial species followed by storage at 17 degrees C. The doses were spiked up to 102/ml CFU (colony forming units) of the bacteria Burkholderia ambifaria, Pseudomonas aeruginosa, and Staphylococcus sim-ulans. The semen was processed by SLC (15 ml of sample and 15 ml of colloid) with the colloid Porcicoll at 20% (P20) and 30% (P30), with a spiked control (CTL) and an unspiked control (CTL0), analyzing microbiology and sperm quality on days 0, 3 and 7. SLC completely removed B. ambifaria and S. simulans, considerably reducing P. aeruginosa and overall contamination (especially P30, similar to 104 CFU/ml of total contamination on day 7, median). Sperm viability was lower in P20 and P30 samples at day 0, with higher cytoplasmic ROS. Still, results were similar in all groups on day 3 and reversed on day 7, indicating a protective effect of SLC (possibly directly by removal of damaged sperm and indirectly because of lower bacterial contamination). Sperm chromatin was affected by the treatment (lower DNA fragmentation and chromatin decondensation) and storage (higher overall condensation on day 7 as per chromomycin A3 and monobromobimane staining). In conclusion, SLC with low-density colloids can remove most bacteria in a controlled contamination design while potentially improving sperm quality and long-term storage at practical temperatures

Sequence determinants for DNA packaging specificity in the S. aureus pathogenicity island SaPI1

The SaPIs and their relatives are a family of genomic islands that exploit helper phages for high frequency horizontal transfer. One of the mechanisms used by SaPIs to accomplish this molecular piracy is the redirection of the helper phage DNA packaging machinery. SaPIs encode a small terminase subunit that can be substituted for that of the phage. In this study we have determined the initial packaging cleavage sites for helper phage 80α, which uses the phage-encoded small terminase subunit, and for SaPI1, which uses the SaPI-encoded small terminase subunit. We have identified a 19 nt SaPI1 sequence that is necessary and sufficient to allow high frequency 80α transduction of a plasmid by a terminase carrying the SaPI1-encoded small subunit. We also show that the hybrid enzyme with the SaPI1 small terminase subunit is capable of generalized transduction.This work was performed in part under FDA's Medical Countermeasures Initiative, Contract #HHSF2232010000521 and NIH 1R56 AI081837 (to GEC). JCB was supported by the Portuguese Institute Fundacao para a Ciencia e Tecnologia (FCT), PhD Fellowship SFRH/BD/66250/2009. E.K.R. was supported by the National Academies National Research Council; his contribution to this study was carried out at NICHHD, NIH, Bethesda, MD, in the laboratory of the late Robert A. Weisberg. Plasmid pCN51 (in strain NRS613) and strain RN4282 (NRS145) were obtained through the Network of Antimicrobial Resistance in Staphylococcus aureus (NARSA) program supported under NIAID/NIFI contract #HHSN272200700055C

Compounds from multilayer plastic bags cause reproductive failures in artificial insemination

High levels of reproductive failure were detected in some Spanish sow farms in the Spring of 2010. Regular returns to estrus and variable reductions in litter size were observed. The problem started suddenly and did not appear to be related to the quality of the ejaculates, disease, alterations of body condition or any other apparent reasons. Subsequent studies determined that the problem was the origin of the plastic bags used for semen storage. Chemical analysis of the suspicious bags identified unexpected compounds such as BADGE, a cyclic lactone and an unknown phthalate that leached into the semen at concentrations of 0.2 to 2.5 mg/L. Spermatozoa preserved in these bags passed all of the routine quality control tests, and no differences were observed between storage in the control and suspicious bags (p . 0.05). In vitro fecundation tests and endocrine profiler panel analysis (EPP) did not show any alterations, whereas the in vivo tests confirmed the described failure. This is the first described relationship between reproductive failure and toxic compounds released from plastic bags

LEGUS and Halpha-LEGUS Observations of Star Clusters in NGC 4449: Improved Ages and the Fraction of Light in Clusters as a Function of Age

We present a new catalog and results for the cluster system of the starburst galaxy NGC 4449 based on multi-band imaging observations taken as part of the LEGUS and Halpha-LEGUS surveys. We improve the spectral energy fitting method used to estimate cluster ages and find that the results, particularly for older clusters, are in better agreement with those from spectroscopy. The inclusion of Halpha measurements, the role of stochasticity for low mass clusters, the assumptions about reddening, and the choices of SSP model and metallicity all have important impacts on the age-dating of clusters. A comparison with ages derived from stellar color-magnitude diagrams for partially resolved clusters shows reasonable agreement, but large scatter in some cases. The fraction of light found in clusters relative to the total light (i.e., T_L) in the U, B, and V filters in 25 different ~kpc-size regions throughout NGC 4449 correlates with both the specific Region Luminosity, R_L, and the dominant age of the underlying stellar population in each region. The observed cluster age distribution is found to decline over time as dN/dt ~ t^g, with g=-0.85+/-0.15, independent of cluster mass, and is consistent with strong, early cluster disruption. The mass functions of the clusters can be described by a power law with dN/dM ~ M^b and b=-1.86+/-0.2, independent of cluster age. The mass and age distributions are quite resilient to differences in age-dating methods. There is tentative evidence for a factor of 2-3 enhancement in both the star and cluster formation rate ~100 - 300 Myr ago, indicating that cluster formation tracks star formation generally. The enhancement is probably associated with an earlier interaction event