Astro-WISE: Chaining to the Universe

The recent explosion of recorded digital data and its processed derivatives threatens to overwhelm researchers when analysing their experimental data or when looking up data items in archives and file systems. While current hardware developments allow to acquire, process and store 100s of terabytes of data at the cost of a modern sports car, the software systems to handle these data are lagging behind. This general problem is recognized and addressed by various scientific communities, e.g., DATAGRID/EGEE federates compute and storage power over the high-energy physical community, while the astronomical community is building an Internet geared Virtual Observatory, connecting archival data. These large projects either focus on a specific distribution aspect or aim to connect many sub-communities and have a relatively long trajectory for setting standards and a common layer. Here, we report "first light" of a very different solution to the problem initiated by a smaller astronomical IT community. It provides the abstract "scientific information layer" which integrates distributed scientific analysis with distributed processing and federated archiving and publishing. By designing new abstractions and mixing in old ones, a Science Information System with fully scalable cornerstones has been achieved, transforming data systems into knowledge systems. This break-through is facilitated by the full end-to-end linking of all dependent data items, which allows full backward chaining from the observer/researcher to the experiment. Key is the notion that information is intrinsic in nature and thus is the data acquired by a scientific experiment. The new abstraction is that software systems guide the user to that intrinsic information by forcing full backward and forward chaining in the data modelling.Comment: To be published in ADASS XVI ASP Conference Series, 2006, R. Shaw, F. Hill and D. Bell, ed

The depolarisation properties of powerful extragalactic radio sources as a function of cosmic epoch

We use the observed polarisation properties of a sample of 26 powerful radio galaxies and radio-loud quasars to constrain the conditions in the Faraday screens local to the sources. We adopt the cosmological redshift, low-frequency radio luminosity and physical size of the large-scale radio structures as our `fundamental' parameters. We find no correlation of the radio spectral index with any of the fundamental parameters. The observed rotation measure is also independent of these parameters. The difference between the rotation measures of the two lobes of an individual source as well as the dispersion of the rotation measure show significant correlations with the source redshift, but not with the radio luminosity or source size. Thus the small-scale structure observed in the rotation measure is caused by a Faraday screen local to the sources. The observed asymmetries between the lobes of our sources show no significant trends with each other or other source properties. Finally, we show that the commonly used model for the depolarisation of synchrotron radio emission by foreground Faraday screens is inconsistent with our observations. We apply alternative models to our data and show that they require a strong increase of the dispersion of the rotation measure inside the Faraday screens with cosmological redshift. Correcting our observations with these models for redshift effects, we find a strong correlation of the depolarisation measure with redshift and a significantly weaker correlation with radio luminosity. All our results are consistent with a decrease in the order of the magnetic field structure of the Faraday screen local to the sources for increasing cosmological redshift. (abridged)Comment: 14 pages, 16 eps figures, accepted by MNRA

A new search for distant radio galaxies in the southern hemisphere - I. Sample definition and radio properties

This paper introduces a new program to find high-redshift radio galaxies in the southern hemisphere through ultra-steep spectrum (USS) selection. We define a sample of 234 USS radio sources with spectral indices alpha_408^843 < -1.0 and flux densities S_408 > 200 mJy in a region of 0.35 sr, chosen by cross-correlating the revised 408 MHz Molonglo Reference Catalogue, the 843 MHz Sydney University Molonglo Sky Survey and the 1400 MHz NRAO VLA Sky Survey in the overlap region -40 deg < delta < -30 deg. We present Australia Telescope Compact Array (ATCA) high-resolution 1384 and 2368 MHz radio data for each source, which we use to analyse the morphological, spectral index and polarization properties of our sample. We find that 85 per cent of the sources have observed-frame spectral energy distributions that are straight over the frequency range 408-2368 MHz, and that, on average, sources with smaller angular sizes have slightly steeper spectral indices and lower fractional linear polarization. Fractional polarization is anti-correlated with flux density at both 1400 and 2368 MHz. We also use the ATCA data to determine observed-frame Faraday rotation measures for half of the sample.Comment: 28 pages, 9 figures, 10 tables, accepted for publication in MNRAS. Correct version of SUMSS catalogue now noted in Section 2.1.2; analysis and conclusions unchanged. A higher-resolution version of Figure 1 is available at http://www.physics.usyd.edu.au/~jess/papers.htm

The JVAS/CLASS search for 6-arcsec to 15-arcsec image separation lensing

The Jodrell Bank-VLA Astrometric Survey (JVAS) and the Cosmic Lens All Sky Survey (CLASS) have been systematically searched for multiple gravitational imaging of sources with image separations between 6 arcsec and 15 arcsec, associated with galaxy group and cluster lensing masses. The radio and optical follow-up observations of all candidates are presented. From a total of similar to 15000 sources only one weak candidate remains and this is not contained in the statistically complete sample of flat-spectrum JVAS/CLASS sources of 11670 sources. A simple Press-Schechter analysis is performed. For singular isothermal sphere lenses the lack of multiple image systems is inconsistent with the currently favoured cosmologies with (Omega (M), Omega (A)) = (0.3, 0.7) at the 4.2 sigma level. Cored isothermal lenses reduce the expected number of lens systems and we suggest that the most probable interpretation of our results is that the surface mass density of groups and clusters of galaxies is not high enough to cause multiple imaging and the presence of the mass concentrations associated with individual galaxies is required to produce image separations such as those in B0957+561

Registered Replication Report: Dijksterhuis and van Knippenberg (1998)

Dijksterhuis and van Knippenberg (1998) reported that participants primed with a category associated with intelligence ("professor") subsequently performed 13% better on a trivia test than participants primed with a category associated with a lack of intelligence ("soccer hooligans"). In two unpublished replications of this study designed to verify the appropriate testing procedures, Dijksterhuis, van Knippenberg, and Holland observed a smaller difference between conditions (2%-3%) as well as a gender difference: Men showed the effect (9.3% and 7.6%), but women did not (0.3% and -0.3%). The procedure used in those replications served as the basis for this multilab Registered Replication Report. A total of 40 laboratories collected data for this project, and 23 of these laboratories met all inclusion criteria. Here we report the meta-analytic results for those 23 direct replications (total N = 4,493), which tested whether performance on a 30-item general-knowledge trivia task differed between these two priming conditions (results of supplementary analyses of the data from all 40 labs, N = 6,454, are also reported). We observed no overall difference in trivia performance between participants primed with the "professor" category and those primed with the "hooligan" category (0.14%) and no moderation by gender

Host Specific Diversity in Lactobacillus johnsonii as Evidenced by a Major Chromosomal Inversion and Phage Resistance Mechanisms

Genetic diversity and genomic rearrangements are a driving force in bacterial evolution and niche adaptation. We sequenced and annotated the genome of Lactobacillus johnsonii DPC6026, a strain isolated from the porcine intestinal tract. Although the genome of DPC6026 is similar in size (1.97mbp) and GC content (34.8%) to the sequenced human isolate L. johnsonii NCC 533, a large symmetrical inversion of approximately 750 kb differentiated the two strains. Comparative analysis among 12 other strains of L. johnsonii including 8 porcine, 3 human and 1 poultry isolate indicated that the genome architecture found in DPC6026 is more common within the species than that of NCC 533. Furthermore a number of unique features were annotated in DPC6026, some of which are likely to have been acquired by horizontal gene transfer (HGT) and contribute to protection against phage infection. A putative type III restriction-modification system was identified, as were novel Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) elements. Interestingly, these particular elements are not widely distributed among L. johnsonii strains. Taken together these data suggest intra-species genomic rearrangements and significant genetic diversity within the L. johnsonii species and indicate towards a host-specific divergence of L. johnsonii strains with respect to genome inversion and phage exposure

International Society of Sports Nutrition Position Stand: Probiotics.

Position statement: The International Society of Sports Nutrition (ISSN) provides an objective and critical review of the mechanisms and use of probiotic supplementation to optimize the health, performance, and recovery of athletes. Based on the current available literature, the conclusions of the ISSN are as follows: 1)Probiotics are live microorganisms that, when administered in adequate amounts, confer a health benefit on the host (FAO/WHO).2)Probiotic administration has been linked to a multitude of health benefits, with gut and immune health being the most researched applications.3)Despite the existence of shared, core mechanisms for probiotic function, health benefits of probiotics are strain- and dose-dependent.4)Athletes have varying gut microbiota compositions that appear to reflect the activity level of the host in comparison to sedentary people, with the differences linked primarily to the volume of exercise and amount of protein consumption. Whether differences in gut microbiota composition affect probiotic efficacy is unknown.5)The main function of the gut is to digest food and absorb nutrients. In athletic populations, certain probiotics strains can increase absorption of key nutrients such as amino acids from protein, and affect the pharmacology and physiological properties of multiple food components.6)Immune depression in athletes worsens with excessive training load, psychological stress, disturbed sleep, and environmental extremes, all of which can contribute to an increased risk of respiratory tract infections. In certain situations, including exposure to crowds, foreign travel and poor hygiene at home, and training or competition venues, athletes' exposure to pathogens may be elevated leading to increased rates of infections. Approximately 70% of the immune system is located in the gut and probiotic supplementation has been shown to promote a healthy immune response. In an athletic population, specific probiotic strains can reduce the number of episodes, severity and duration of upper respiratory tract infections.7)Intense, prolonged exercise, especially in the heat, has been shown to increase gut permeability which potentially can result in systemic toxemia. Specific probiotic strains can improve the integrity of the gut-barrier function in athletes.8)Administration of selected anti-inflammatory probiotic strains have been linked to improved recovery from muscle-damaging exercise.9)The minimal effective dose and method of administration (potency per serving, single vs. split dose, delivery form) of a specific probiotic strain depends on validation studies for this particular strain. Products that contain probiotics must include the genus, species, and strain of each live microorganism on its label as well as the total estimated quantity of each probiotic strain at the end of the product's shelf life, as measured by colony forming units (CFU) or live cells.10)Preclinical and early human research has shown potential probiotic benefits relevant to an athletic population that include improved body composition and lean body mass, normalizing age-related declines in testosterone levels, reductions in cortisol levels indicating improved responses to a physical or mental stressor, reduction of exercise-induced lactate, and increased neurotransmitter synthesis, cognition and mood. However, these potential benefits require validation in more rigorous human studies and in an athletic population