Rate dependent shear bands in a shear transformation zone model of amorphous solids

We use Shear Transformation Zone (STZ) theory to develop a deformation map for amorphous solids as a function of the imposed shear rate and initial material preparation. The STZ formulation incorporates recent simulation results [Haxton and Liu, PRL 99 195701 (2007)] showing that the steady state effective temperature is rate dependent. The resulting model predicts a wide range of deformation behavior as a function of the initial conditions, including homogeneous deformation, broad shear bands, extremely thin shear bands, and the onset of material failure. In particular, the STZ model predicts homogeneous deformation for shorter quench times and lower strain rates, and inhomogeneous deformation for longer quench times and higher strain rates. The location of the transition between homogeneous and inhomogeneous flow on the deformation map is determined in part by the steady state effective temperature, which is likely material dependent. This model also suggests that material failure occurs due to a runaway feedback between shear heating and the local disorder, and provides an explanation for the thickness of shear bands near the onset of material failure. We find that this model, which resolves dynamics within a sheared material interface, predicts that the stress weakens with strain much more rapidly than a similar model which uses a single state variable to specify internal dynamics on the interface.Comment: 10 pages, 13 figures, corrected typos, added section on rate strengthening vs. rate weakening material

Patterns of positive selection in seven ant genomes.

The evolution of ants is marked by remarkable adaptations that allowed the development of very complex social systems. To identify how ant-specific adaptations are associated with patterns of molecular evolution, we searched for signs of positive selection on amino-acid changes in proteins. We identified 24 functional categories of genes which were enriched for positively selected genes in the ant lineage. We also reanalyzed genome-wide data sets in bees and flies with the same methodology to check whether positive selection was specific to ants or also present in other insects. Notably, genes implicated in immunity were enriched for positively selected genes in the three lineages, ruling out the hypothesis that the evolution of hygienic behaviors in social insects caused a major relaxation of selective pressure on immune genes. Our scan also indicated that genes implicated in neurogenesis and olfaction started to undergo increased positive selection before the evolution of sociality in Hymenoptera. Finally, the comparison between these three lineages allowed us to pinpoint molecular evolution patterns that were specific to the ant lineage. In particular, there was ant-specific recurrent positive selection on genes with mitochondrial functions, suggesting that mitochondrial activity was improved during the evolution of this lineage. This might have been an important step toward the evolution of extreme lifespan that is a hallmark of ants

Signal sequence analysis of expressed sequence tags from the nematode Nippostrongylus brasiliensis and the evolution of secreted proteins in parasites

BACKGROUND: Parasitism is a highly successful mode of life and one that requires suites of gene adaptations to permit survival within a potentially hostile host. Among such adaptations is the secretion of proteins capable of modifying or manipulating the host environment. Nippostrongylus brasiliensis is a well-studied model nematode parasite of rodents, which secretes products known to modulate host immunity. RESULTS: Taking a genomic approach to characterize potential secreted products, we analyzed expressed sequence tag (EST) sequences for putative amino-terminal secretory signals. We sequenced ESTs from a cDNA library constructed by oligo-capping to select full-length cDNAs, as well as from conventional cDNA libraries. SignalP analysis was applied to predicted open reading frames, to identify potential signal peptides and anchors. Among 1,234 ESTs, 197 (~16%) contain predicted 5' signal sequences, with 176 classified as conventional signal peptides and 21 as signal anchors. ESTs cluster into 742 distinct genes, of which 135 (18%) bear predicted signal-sequence coding regions. Comparisons of clusters with homologs from Caenorhabditis elegans and more distantly related organisms reveal that the majority (65% at P < e(-10)) of signal peptide-bearing sequences from N. brasiliensis show no similarity to previously reported genes, and less than 10% align to conserved genes recorded outside the phylum Nematoda. Of all novel sequences identified, 32% contained predicted signal peptides, whereas this was the case for only 3.4% of conserved genes with sequence homologies beyond the Nematoda. CONCLUSIONS: These results indicate that secreted proteins may be undergoing accelerated evolution, either because of relaxed functional constraints, or in response to stronger selective pressure from host immunity

ACBAR: The Arcminute Cosmology Bolometer Array Receiver

We describe the Arcminute Cosmology Bolometer Array Receiver (ACBAR); a multifrequency millimeter-wave receiver designed for observations of the Cosmic Microwave Background (CMB) and the Sunyaev-Zel'dovich effect in clusters of galaxies. The ACBAR focal plane consists of a 16-pixel, background-limited, 240 mK bolometer array that can be configured to observe simultaneously at 150, 220, 280, and 350 GHz. With 4-5' FWHM Gaussian beam sizes and a 3 degree azimuth chop, ACBAR is sensitive to a wide range of angular scales. ACBAR was installed on the 2 m Viper telescope at the South Pole in January 2001. We describe the design of the instrument and its performance during the 2001 and 2002 observing seasons.Comment: 59 pages, 16 figures -- updated to reflect version published in ApJ

MesonNet 2013 International Workshop. Mini-proceedings

The mini-proceedings of the MesonNet 2013 International Workshop held in Prague from June 17th to 19th, 2013, are presented. MesonNet is a research network within EU HadronPhysics3 project (1/2012 -- 12/2014). The web page of the conference, which contains all talks, can be found at http://ipnp.mff.cuni.cz/mesonnet13Comment: 106 pages, 53 contributions. Mini-proceedings of the MesonNet 2013 International Workshop. Editors: K. Kampf, A. Kupsc, and P. Masjua

Effective numerical simulation of the Klein–Gordon–Zakharov system in the Zakharov limit

Solving the Klein-Gordon-Zakharov (KGZ) system in the high-plasma frequency regime $c\gg1$ is numerically severely challenging due to the highly oscillatory nature or the problem. To allow reliable approximations classical numerical schemes require severe step size restrictions depending on the small parameter $c^{−2}$ . This leads to large errors and huge computational costs. In the singular limit $c\to\infty$ the Zakharov system appears as the regular limit system for the KGZ system. It is the purpose of this paper to use this approximation in the construction of an effective numerical scheme for the KGZ system posed on the torus in the highly oscillatory regime $c\gg1$. The idea is to filter out the highly oscillatory phases explicitly in the solution. This allows us to play back the numerical task to solving the non-oscillatory Zakharov limit system. The latter can be solved very efficiently without any step size restrictions. The numerical approximation error is then estimated by showing that solutions of the KGZ system in this singular limit can be approximated via the solutions of the Zakharov system and by proving error estimates for the numerical approximation of the Zakharov system. We close the paper with numerical experiments which show that this method is more effective than other methods in the high-plasma frequency regime $c\gg1$

The physical structure of the point-symmetric and quadrupolar planetary nebula NGC 6309

We analyse the point-symmetric planetary nebula NGC 6309 in terms of its three-dimensional structure and of internal variations of the physical conditions to deduce the physical processes involved in its formation. We used VLA-D 3.6-cm continuum, ground-based, and HST-archive imaging as well as long slit high- and low-dispersion spectroscopy. The low-dispersion spectra indicate a high excitation nebula, with low to medium variations of its internal physical conditions. In the optical images, the point-symmetric knots show a lack of [NII] emission as compared with similar features previously known in other PNe. A rich internal structure of the central region is seen in the HST images, resembling a deformed torus. Long slit high-dispersion spectra reveal a complex kinematics in the central region. The spectral line profiles from the external regions of NGC 6309 indicate expanding lobes (~40 km/s) as those generally found in bipolar nebulae. Finally, we have found evidence for the presence of a faint halo, possibly related to the envelope of the AGB-star progenitor. Our data indicate that NGC 6309 is a quadrupolar nebula with two pairs of bipolar lobes whose axes are oriented PA=40 and PA=76. Equatorial and polar velocities for these two pairs of lobes are 29 and 86 km/s for the bipolar system at PA=40 and 25 and 75 km/s for the bipolar system at PA=76. There is also a central torus that is expanding at 25 km/s. Kinematical age for all these structures is around 3700 to 4000 yr. We conclude that NGC 6309 was formed by a set of well-collimated bipolar outflows (jets), which were ejected in the initial stages of its formation as a planetary nebula. These jets carved the bipolar lobes in the previous AGB wind and their remnants are now observed as the point-symmetric knots tracing the edges of the lobes.Comment: To be published in Astronomy & Astrophysics; 11 pages, 8 figures, 4 table