Neutral atomic hydrogen (H i) gas evolution in field galaxies at z similar to 0.1 and similar to 0.2

<p>We measure the neutral atomic hydrogen (H i) gas content of field galaxies at intermediate redshifts of z similar to 0.1 and similar to 0.2 using hydrogen 21-cm emission lines observed with the Westerbork Synthesis Radio Telescope. In order to make high signal-to-noise ratio detections, an H i signal stacking technique is applied: H i emission spectra from multiple galaxies, optically selected by the second Canadian Network for Observational Cosmology redshift survey project, are co-added to measure the average H i mass of galaxies in the two redshift bins. We calculate the cosmic H i gas densities ((Hi)) at the two redshift regimes and compare those with measurements at other redshifts to investigate the global evolution of the H i gas density over cosmic time. From a total of 59 galaxies at z similar to 0.1 we find (Hi) = (0.33 +/- 0.05) x 10(-3), and at z similar to 0.2 we find (Hi) = (0.34 +/- 0.09) x 10(-3), based on 96 galaxies. These measurements help bridge the gap between high-z damped Lyman alpha observations and blind 21-cm surveys at z = 0. We find that our measurements of (Hi) at z similar to 0.1 and similar to 0.2 are consistent with the H i gas density at z similar to 0 and that all measurements of (Hi) from 21-cm emission observations at z less than or similar to 0.2 are in agreement with no evolution of the H i gas content in galaxies during the last 2.4 Gyr.</p>

Novel Modifications of Parallel Jacobi Algorithms

We describe two main classes of one-sided trigonometric and hyperbolic Jacobi-type algorithms for computing eigenvalues and eigenvectors of Hermitian matrices. These types of algorithms exhibit significant advantages over many other eigenvalue algorithms. If the matrices permit, both types of algorithms compute the eigenvalues and eigenvectors with high relative accuracy. We present novel parallelization techniques for both trigonometric and hyperbolic classes of algorithms, as well as some new ideas on how pivoting in each cycle of the algorithm can improve the speed of the parallel one-sided algorithms. These parallelization approaches are applicable to both distributed-memory and shared-memory machines. The numerical testing performed indicates that the hyperbolic algorithms may be superior to the trigonometric ones, although, in theory, the latter seem more natural.Comment: Accepted for publication in Numerical Algorithm

High-Resolution Rotation Curves and Galaxy Mass Models from THINGS

We present rotation curves of 19 galaxies from THINGS, The HI Nearby Galaxy Survey. The high spatial and velocity resolution of THINGS make these the highest quality HI rotation curves available to date for a large sample of nearby galaxies, spanning a wide range of HI masses and luminosities. The high quality of the data allows us to derive the geometrical and dynamical parameters using HI data alone. We do not find any declining rotation curves unambiguously associated with a cut-off in the mass distribution out to the last measured point. The rotation curves are combined with 3.6 um data from SINGS (Spitzer Infrared Nearby Galaxies Survey) to construct mass models. Our best-fit, dynamical disk masses, derived from the rotation curves, are in good agreement with photometric disk masses derived from the 3.6 um images in combination with stellar population synthesis arguments and two different assumptions for the stellar Initial Mass Function (IMF). We test the Cold Dark Matter-motivated cusp model, and the observationally motivated central density core model and find that (independent of IMF) for massive, disk-dominated galaxies, all halo models fit apparently equally well; for low-mass galaxies, however, a core-dominated halo is clearly preferred over a cuspy halo. The empirically derived densities of the dark matter halos of the late-type galaxies in our sample are half of what is predicted by CDM simulations, again independent of the assumed IMF.Comment: Accepted for publication in the AJ special THINGS issue. For a high-resolution version visit: http://www.mpia.de/THINGS/Publications.html [v2 typo fixed

PPARγ Variant Influences Angiographic Outcome and 10-Year Cardiovascular Risk in Male Symptomatic Coronary Artery Disease Patients

OBJECTIVE: Activation of peroxisome proliferator-activated receptor (PPAR)-gamma signaling influences metabolic profiles and the propensity toward inflammation. Small-molecule stimulation of PPARgamma is investigated for secondary prevention of cardiovascular disease. The common PPARgamma Pro12Ala variant has functional and prognostic consequences. A protective effect of the 12Ala-allele carriership on diabetes and myocardial infarction in healthy populations has been suggested. The relevance of this pathway also needs exploration in patients with manifest vascular disease. We investigated the effects of carriership of the Pro12Ala variant on angiographic and cardiovascular event outcomes in male patients with symptomatic coronary artery disease (CAD). RESEARCH DESIGN AND METHODS: The Regression Growth Evaluation Statin Study (REGRESS) cohort was genotyped for the Pro12Ala variant (rs1801282). Ten-year follow-up was derived from nation-wide registries, and risks were estimated using proportional hazards. Quantitative coronary angiography measurements were obtained and relations with genotype estimated using a generalized linear model. RESULTS: Genotypes ascertained (n = 679) comprised 540 (80%) Pro/Pro, 126 (19%) Pro/Ala, and 13 (2%) Ala/Ala subjects. The 12Ala allele was associated with less extensive focal (P = 0.001) and diffuse (P = 0.002) atherosclerosis and lower 10-year cardiovascular risk. Hazard ratios were 0.10 (95% CI 0.01-0.70, P = 0.02) for ischemic heart disease and 0.24 (0.08-0.74, P = 0.013) for vascular death, per each added copy of 12Ala, respectively. CONCLUSIONS: Carriers of the 12Ala allele of PPARgamma have less widespread CAD and are considerably protected against 10-year (cardio)vascular morbidity and mortality. These long-term findings in patients with manifest CAD support an important role of PPARgamma in determining vascular ris

Influence of phosphorus on copper sensitivity of fluvial periphyton: the role of chemical, physiological and community-related factors

The influence of eutrophication of fluvial ecosystems (caused by increased phosphorus concentrations) on periphyton Cu sensitivity is explored from a multi-scale perspective, going from the field to the laboratory. The study design included three tiers: a field study including the characterization of land use and the ecological state of the corresponding river sections in the Fluvià River watershed, an experimental investigation performed with natural periphyton from the previously studied stream sites in indoor channels, and finally a culture study in the laboratory. Results showed that differences in copper sensitivity of natural periphyton communities followed the gradient of nutrient concentration found in the field. Results from the culture experiments demonstrated that both, P-conditions during growth and P-content in the media are important factors modulating the toxicological response of algae to Cu. The observations from this study indicate that the ecological effects of metal pollution in rivers might be obscured by eutrophication

Cross-validated stepwise regression for identification of novel non-nucleoside reverse transcriptase inhibitor resistance associated mutations

<p>Abstract</p> <p>Background</p> <p>Linear regression models are used to quantitatively predict drug resistance, the phenotype, from the HIV-1 viral genotype. As new antiretroviral drugs become available, new resistance pathways emerge and the number of resistance associated mutations continues to increase. To accurately identify which drug options are left, the main goal of the modeling has been to maximize predictivity and not interpretability. However, we originally selected linear regression as the preferred method for its transparency as opposed to other techniques such as neural networks. Here, we apply a method to lower the complexity of these phenotype prediction models using a 3-fold cross-validated selection of mutations.</p> <p>Results</p> <p>Compared to standard stepwise regression we were able to reduce the number of mutations in the reverse transcriptase (RT) inhibitor models as well as the number of interaction terms accounting for synergistic and antagonistic effects. This reduction in complexity was most significant for the non-nucleoside reverse transcriptase inhibitor (NNRTI) models, while maintaining prediction accuracy and retaining virtually all known resistance associated mutations as first order terms in the models. Furthermore, for etravirine (ETR) a better performance was seen on two years of unseen data. By analyzing the phenotype prediction models we identified a list of forty novel NNRTI mutations, putatively associated with resistance. The resistance association of novel variants at known NNRTI resistance positions: 100, 101, 181, 190, 221 and of mutations at positions not previously linked with NNRTI resistance: 102, 139, 219, 241, 376 and 382 was confirmed by phenotyping site-directed mutants.</p> <p>Conclusions</p> <p>We successfully identified and validated novel NNRTI resistance associated mutations by developing parsimonious resistance prediction models in which repeated cross-validation within the stepwise regression was applied. Our model selection technique is computationally feasible for large data sets and provides an approach to the continued identification of resistance-causing mutations.</p

The Antioxidant Protein Peroxiredoxin 4 Is Epigenetically Down Regulated in Acute Promyelocytic Leukemia

The antioxidant peroxiredoxin (PRDX) protein family comprises 6 members, which are implicated in a variety of cellular responses, including growth factor signal transduction. PRDX4 resides in the endoplasmic reticulum (ER), where it locally controls oxidative stress by reducing H2O2levels. We recently provided evidence for a regulatory function of PRDX4 in signal transduction from a myeloid growth factor receptor, the granulocyte colony-stimulating factor receptor (G-CSFR). Upon activation, the ligand-induced G-CSFR undergoes endocytosis and routes via the early endosomes where it physically interacts with ER-resident PRDX4. PRDX4 negatively regulates G-CSFR mediated signaling. Here, we investigated whether PRDX4 is affected in acute myeloid leukemia (AML); genomic alterations and expression levels of PRDX4 were investigated. We show that genomic abnormalities involving PRDX4 are rare in AML. However, we find a strong reduction in PRDX4 expression levels in acute promyelocytic leukemia (APL) compared to normal promyelocytes and different molecular subtypes of AML. Subsequently, the possible role of DNA methylation and histone modifications in silencing of PRDX4 in APLs was investigated. We show that the reduced expression is not due to methylation of the CpG island in the promoter region of PRDX4 but correlates with increased trimethylation of histone 3 lysine residue 27 (H3K27me3) and lysine residue 4 (H3K4me3) at the transcriptional start site (TSS) of PRDX4, indicative of a bivalent histone code involved in transcriptional silencing. These findings suggest that the control of G-CSF responses by the antioxidant protein PRDX4 may be perturbed in APL

Potential conservation of circadian clock proteins in the phylum Nematoda as revealed by bioinformatic searches

Although several circadian rhythms have been described in C. elegans, its molecular clock remains elusive. In this work we employed a novel bioinformatic approach, applying probabilistic methodologies, to search for circadian clock proteins of several of the best studied circadian model organisms of different taxa (Mus musculus, Drosophila melanogaster, Neurospora crassa, Arabidopsis thaliana and Synechoccocus elongatus) in the proteomes of C. elegans and other members of the phylum Nematoda. With this approach we found that the Nematoda contain proteins most related to the core and accessory proteins of the insect and mammalian clocks, which provide new insights into the nematode clock and the evolution of the circadian system.Fil: Romanowski, Andrés. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología. Laboratorio de Cronobiología; ArgentinaFil: Garavaglia, Matías Javier. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología. Laboratorio de Ing.genética y Biolog.molecular y Celular. Area Virus de Insectos; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Goya, María Eugenia. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología. Laboratorio de Cronobiología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Ghiringhelli, Pablo Daniel. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología. Laboratorio de Ing.genética y Biolog.molecular y Celular. Area Virus de Insectos; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Golombek, Diego Andres. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología. Laboratorio de Cronobiología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentin

Comparing the effects of sun exposure and vitamin D supplementation on vitamin D insufficiency, and immune and cardio-metabolic function: The Sun Exposure and Vitamin D Supplementation (SEDS) Study

Background: Adults living in the sunny Australian climate are at high risk of skin cancer, but vitamin D deficiency (defined here as a serum 25-hydroxyvitamin D (25(OH)D) concentration of less than 50 nmol/L) is also common. Vitamin D deficiency may be a risk factor for a range of diseases. However, the optimal strategies to achieve and maintain vitamin D adequacy (sun exposure, vitamin D supplementation or both), and whether sun exposure itself has benefits over and above initiating synthesis of vitamin D, remain unclear. The Sun Exposure and Vitamin D Supplementation (SEDS) Study aims to compare the effectiveness of sun exposure and vitamin D supplementation for the management of vitamin D insufficiency, and to test whether these management strategies differentially affect markers of immune and cardio-metabolic function. Methods/Design: The SEDS Study is a multi-centre, randomised controlled trial of two different daily doses of vitamin D supplementation, and placebo, in conjunction with guidance on two different patterns of sun exposure. Participants recruited from across Australia are aged 18-64 years and have a recent vitamin D test result showing a serum 25(OH)D level of 40-60 nmol/L. Discussion: This paper discusses the rationale behind the study design, and considers the challenges but necessity of data collection within a non-institutionalised adult population, in order to address the study aims. We also discuss the challenges of participant recruitment and retention, ongoing engagement of referring medical practitioners and address issues of compliance and participant retention. Trial registration: Australia New Zealand Clinical Trials Registry: ACTRN12613000290796 Registered 14 March 2013

WALLABY Pilot Survey:The Diversity of Ram Pressure Stripping of the Galactic H I Gas in the Hydra Cluster

This study uses HI image data from the WALLABY pilot survey with the ASKAP telescope, covering the Hydra cluster out to 2.5$r_{200}$. We present the projected phase-space distribution of HI-detected galaxies in Hydra, and identify that nearly two thirds of the galaxies within $1.25r_{200}$ may be in the early stages of ram pressure stripping. More than half of these may be only weakly stripped, with the ratio of strippable HI (i.e., where the galactic restoring force is lower than the ram pressure in the disk) mass fraction (over total HI mass) distributed uniformly below 90%. Consequently, the HI mass is expected to decrease by only a few 0.1 dex after the currently strippable portion of HI in these systems has been stripped. A more detailed look at the subset of galaxies that are spatially resolved by WALLABY observations shows that, while it typically takes less than 200 Myr for ram pressure stripping to remove the currently strippable portion of HI, it may take more than 600 Myr to significantly change the total HI mass. Our results provide new clues to understanding the different rates of HI depletion and star formation quenching in cluster galaxies.Comment: 25 pages, 10 figures, 1 table. Accepted for publication at Ap