Volume fluctuations and geometrical constraints in granular packs

Structural organization and correlations are studied in very large packings of equally sized acrylic spheres, reconstructed in three-dimensions by means of X-ray computed tomography. A novel technique, devised to analyze correlations among more than two spheres, shows that the structural organization can be conveniently studied in terms of a space-filling packing of irregular tetrahedra. The study of the volume distribution of such tetrahedra reveals an exponential decay in the region of large volumes; a behavior that is in very good quantitative agreement with theoretical prediction. I argue that the system's structure can be described as constituted of two phases: 1) an `unconstrained' phase which freely shares the volume; 2) a `constrained' phase which assumes configurations accordingly with the geometrical constraints imposed by the condition of non-overlapping between spheres and mechanical stability. The granular system exploits heterogeneity maximizing freedom and entropy while constraining mechanical stability.Comment: 5 pages, 4 figure

Migration of germline progenitor cells is directed by sphingosine-1-phosphate signalling in a basal chordate.

The colonial ascidian Botryllus schlosseri continuously regenerates entire bodies in an asexual budding process. The germ line of the newly developing bodies is derived from migrating germ cell precursors, but the signals governing this homing process are unknown. Here we show that germ cell precursors can be prospectively isolated based on expression of aldehyde dehydrogenase and integrin alpha-6, and that these cells express germ cell markers such as vasa, pumilio and piwi, as well as sphingosine-1-phosphate receptor. In vitro, sphingosine-1-phosphate (S1P) stimulates migration of germ cells, which depends on integrin alpha-6 activity. In vivo, S1P signalling is essential for homing of germ cells to newly developing bodies. S1P is generated by sphingosine kinase in the developing germ cell niche and degraded by lipid phosphate phosphatase in somatic tissues. These results demonstrate a previously unknown role of the S1P signalling pathway in germ cell migration in the ascidian Botryllus schlosseri

HMDB: A Large Video Database for Human Motion Recognition

With nearly one billion online videos viewed everyday, an emerging new frontier in computer vision research is recognition and search in video. While much effort has been devoted to the collection and annotation of large scalable static image datasets containing thousands of image categories, human action datasets lag far behind. Current action recognition databases contain on the order of ten different action categories collected under fairly controlled conditions. State-of-the-art performance on these datasets is now near ceiling and thus there is a need for the design and creation of new benchmarks. To address this issue we collected the largest action video database to-date with 51 action categories, which in total contain around 7,000 manually annotated clips extracted from a variety of sources ranging from digitized movies to YouTube. We use this database to evaluate the performance of two representative computer vision systems for action recognition and explore the robustness of these methods under various conditions such as camera motion, viewpoint, video quality and occlusion.United States. Defense Advanced Research Projects Agency. Information Processing Techniques OfficeUnited States. Defense Advanced Research Projects Agency. System Science Division. Defense Sciences OfficeNational Science Foundation (U.S.) (NSF-0640097)National Science Foundation (U.S.) (NSF-0827427)United States. Air Force Office of Scientific Research (FA8650-05- C-7262)Adobe SystemsKing Abdullah University of Science and TechnologyNEC ElectronicsSony CorporationEugene McDermott FoundationBrown University. Center for Computing and VisualizationRobert J. and Nancy D. Carney Fund for Scientific InnovationUnited States. Defense Advanced Research Projects Agency (DARPA-BAA-09-31)United States. Office of Naval Research (ONR-BAA-11-001)Ministry of Science, Research and the Arts of Baden Württemberg, German

Anomalous RR Lyrae stars(?). III. CM Leonis

Time series of B,V,I CCD photometry and radial velocity measurements from high resolution spectroscopy (R=30,000) covering the full pulsation cycle are presented for the field RR Lyrae star CM Leonis. The photometric data span a 6 year interval from 1994 to 1999, and allow us to firmly establish the pulsation mode and periodicity of the variable. The derived period P=0.361699 days (+/- 0.000001) is very close to the value published in the Fourth Edition of the General Catalogue of Variable Stars (P=0.361732 days). However, contrary to what was previously found, the amplitude and shape of the light curve qualify CM Leo as a very regular first overtone pulsator with a prominent hump on the rising branch of its multicolour light curves. According to an abundace analysis performed on three spectra taken near minimum light (0.42 < phase < 0.61), CM Leo is a metal-poor star with metal abundance [Fe/H]=-1.93 +/- 0.20. The photometric and radial velocity curves of CM Leo have been compared with the predictions of suitable pulsational models to infer tight constraints on the stellar mass, effective temperature, and distance modulus of the star. We derive a true distance modulus of CM Leo of (m-M)0=13.11 +/- 0.02 mag and a corresponding absolute magnitude of Mv=0.47 +/- 0.04. This absolute magnitude, once corrected for evolutionary and metallicity effects, leads to a true distance modulus of the Large Magellanic Cloud of (m-M)0=18.43 +/- 0.06 mag, in better agreement with the long astronomical distance scale.Comment: 14 pages, 10 figures, accepted for publication in MNRA

Glass transition in self organizing cellular patterns

We have considered the dynamical evolution of cellular patterns controlled by a stochastic Glauber process determined by the deviations of local cell topology from that of a crystalline structure. Above a critical temperature evolution is towards a common equilibrium state from any initial configuration, but beneath this temperature there is a dynamical phase transition, with a start from a quasi-random state leading to non-equilibrium glassy freezing whereas an ordered start rests almost unchanged. A temporal persistence function decays exponentially in the high temperature equilibrating state but has a characteristic slow non-equilibrium aging-like behaviour in the low temperature glassy phase.Comment: Added references, text minor change

Identification of Universally Applicable and Species-Specific Marker Peptides for Bacillus anthracis

Anthrax is a zoonotic infection caused by the bacterium Bacillus anthracis (BA). Specific identification of this pathogen often relies on targeting genes located on two extrachromosomal plasmids, which represent the major pathogenicity factors of BA. However, more recent findings show that these plasmids have also been found in other closely related Bacillus species. In this study, we investigated the possibility of identifying species-specific and universally applicable marker peptides for BA. For this purpose, we applied a high-resolution mass spectrometry-based approach for 42 BA isolates. Along with the genomic sequencing data and by developing a bioinformatics data evaluation pipeline, which uses a database containing most of the publicly available protein sequences worldwide (UniParc), we were able to identify eleven universal marker peptides unique to BA. These markers are located on the chromosome and therefore, might overcome known problems, such as observable loss of plasmids in environmental species, plasmid loss during cultivation in the lab, and the fact that the virulence plasmids are not necessarily a unique feature of BA. The identified chromosomally encoded markers in this study could extend the small panel of already existing chromosomal targets and along with targets for the virulence plasmids, may pave the way to an even more reliable identification of BA using genomics- as well as proteomics-based techniques

XMM-Newton observations of the black hole X-ray transient XTE J1650-500 in quiescence

We report the result of an XMM-Newton observation of the black-hole X-ray transient XTE J1650-500 in quiescence. The source was not detected and we set upper limits on the 0.5-10 keV luminosity of 0.9e31-1.0e31 erg/s (for a newly derived distance of 2.6 kpc). These limits are in line with the quiescent luminosities of black-hole X-ray binaries with similar orbital periods (~7-8 hr)Comment: 3 pages. Accepted for publication in MNRA

High frequency quasi-periodic oscillations in the black hole X-ray transient XTE J1650-500

We report the detection of high frequency variability in the black hole X-ray transient XTE J1650-500. A quasi-periodic oscillation (QPO) was found at 250 Hz during a transition from the hard to the soft state. We also detected less coherent variability around 50 Hz, that disappeared when the 250 Hz QPO showed up. There are indications that when the energy spectrum hardened the QPO frequency increased from ~110 Hz to ~270 Hz, although the observed frequencies are also consistent with being 1:2:3 harmonics of each other. Interpreting the 250 Hz as the orbital frequency at the innermost stable orbit around a Schwarzschild black hole leads to a mass estimate of 8.2 Msun. The spectral results by Miller et al.(2002, ApJ, 570, L69), which suggest considerable black hole spin, would imply a higher mass.Comment: Submitted to ApJ, 12 pages including 2 figure

Comparison of commercial DNA preparation kits for the detection of Brucellae in tissue using quantitative real-time PCR

<p>Abstract</p> <p>Background</p> <p>The detection of Brucellae in tissue specimens using PCR assays is difficult because the amount of bacteria is usually low. Therefore, optimised DNA extraction methods are critical. The aim of this study was to assess the performance of commercial kits for the extraction of <it>Brucella </it>DNA.</p> <p>Methods</p> <p>Five kits were evaluated using clinical specimens: QIAamp™ DNA Mini Kit (QIAGEN), peqGold™ Tissue DNA Mini Kit (PeqLab), UltraClean™ Tissue and Cells DNA Isolation Kit (MoBio), DNA Isolation Kit for Cells and Tissues (Roche), and NucleoSpin™ Tissue (Macherey-Nagel). DNA yield was determined using a quantitative real-time PCR assay targeting IS<it>711 </it>that included an internal amplification control.</p> <p>Results</p> <p>Kits of QIAGEN and Roche provided the highest amount of DNA, Macherey-Nagel and Peqlab products were intermediate whereas MoBio yielded the lowest amount of DNA. Differences were significant (p < 0.05) and of diagnostic relevance. Sample volume, elution volume, and processing time were also compared.</p> <p>Conclusions</p> <p>We observed differences in DNA yield as high as two orders of magnitude for some samples between the best and the worst DNA extraction kits and inhibition was observed occasionally. This indicates that DNA purification may be more relevant than expected when the amount of DNA in tissue is very low.</p