The Lyman Alpha Reference Sample. VIII. Characterizing Lyman-Alpha Scattering in Nearby Galaxies

We examine the dust geometry and Ly{\alpha} scattering in the galaxies of the Lyman Alpha Reference Sample (LARS), a set of 14 nearby (0.02 < $z$ < 0.2) Ly{\alpha} emitting and starbursting systems with Hubble Space Telescope Ly{\alpha}, H{\alpha}, and H{\beta} imaging. We find that the global dust properties determined by line ratios are consistent with other studies, with some of the LARS galaxies exhibiting clumpy dust media while others of them show significantly lower Ly{\alpha} emission compared to their Balmer decrement. With the LARS imaging, we present Ly{\alpha}/H{\alpha} and H{\alpha}/H{\beta} maps with spatial resolutions as low as $\sim$ 40 pc, and use these data to show that in most galaxies, the dust geometry is best modeled by three distinct regions: a central core where dust acts as a screen, an annulus where dust is distributed in clumps, and an outer envelope where Ly{\alpha} photons only scatter. We show that the dust that affects the escape of Ly{\alpha} is more restricted to the galaxies' central regions, while the larger Ly{\alpha} halos are generated by scattering at large radii. We present an empirical modeling technique to quantify how much Ly{\alpha} scatters in the halo, and find that this "characteristic" scattering distance correlates with the measured size of the Ly{\alpha} halo. We note that there exists a slight anti-correlation between the scattering distance of Ly{\alpha} and global dust properties.Comment: 32 pages, 51 figures, accepted to Ap

Covalency-driven Structural Evolution in the Polar Pyrochlore Series Cd2Nb2O7-xSx

The arrangement of cations on the triangular pyrochlore lattice leads to a wealth of interesting physical phenomena influenced by geometric frustration. Although uncommon, several pyrochlore materials overcome this frustration and exhibit polar structures. Unraveling the origin of such behavior is key to understanding how broken inversion symmetry arises in complex crystal structures. Here, we investigate the effect of varying degrees of covalency in the pyrochlore lattice through a detailed structural and lattice dynamical analysis of the pyrochlore oxysulfide series Cd2Nb2O7-xSx above and below the ferroelectric transition temperatures (TC) using synchrotron X-ray diffraction and first principles calculations. All compositions exhibit the cubic Fd3 m pyrochlore aristotype above TC, whereas the amplitude and character of various structural distortions are found to be composition-dependent below TC. For x = 0, large Cd and Nb cation displacements occur to produce the polar Ima2 structure accompanied by a change in translational symmetry. Our symmetry and lattice dynamical calculations indicate that Cd2Nb2O7 undergoes a proper ferroelectric transition through TC. Analysis of the sulfur-substituted niobates indicates that although the polar space group Fdd2 is adopted by the nominal x = 0.25 sample, the transition into the polar phase is improper. For the nominally x = 0.7 composition, the lattice remains nearly cubic, but exhibits a high degree of structural disorder in the pyrochlore channel, with a deviation from the linear Cd-X′-Cd bond by nearly 15° to accommodate the large size of S while preventing extreme stretching of the Nb-O bond. This highly distorted Cd-X′ network is accompanied by a highly distorted NbO6 network, which is accommodated by the polarizable NbO6 coordination environment. This sheds light on the limited existence of oxysulfide pyrochlores; for example, the lack of reported S substitution in the case of the similar yet less-polarizable Cd2Ta2O7. Our work provides a new understanding of how inversion-symmetry lifting displacements arise and how anion substitution, which tunes covalent cation-anion interactions, is a useful strategy for manipulating polar behavior in a pyrochlore lattice

Towards rotation sensing with a single atomic clock

We discuss a scheme to implement a gyroscopic atom sensor with magnetically trapped ultra-cold atoms. Unlike standard light or matter wave Sagnac interferometers no free wave propagation is used. Interferometer operation is controlled only with static, radio-frequency and microwave magnetic fields, which removes the need for interferometric stability of optical laser beams. Due to the confinement of atoms, the scheme may allow the construction of small scale portable sensors. We discuss the main elements of the scheme and report on recent results and efforts towards its experimental realization

ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries.

This review summarizes the last decade of work by the ENIGMA (Enhancing NeuroImaging Genetics through Meta Analysis) Consortium, a global alliance of over 1400 scientists across 43 countries, studying the human brain in health and disease. Building on large-scale genetic studies that discovered the first robustly replicated genetic loci associated with brain metrics, ENIGMA has diversified into over 50 working groups (WGs), pooling worldwide data and expertise to answer fundamental questions in neuroscience, psychiatry, neurology, and genetics. Most ENIGMA WGs focus on specific psychiatric and neurological conditions, other WGs study normal variation due to sex and gender differences, or development and aging; still other WGs develop methodological pipelines and tools to facilitate harmonized analyses of "big data" (i.e., genetic and epigenetic data, multimodal MRI, and electroencephalography data). These international efforts have yielded the largest neuroimaging studies to date in schizophrenia, bipolar disorder, major depressive disorder, post-traumatic stress disorder, substance use disorders, obsessive-compulsive disorder, attention-deficit/hyperactivity disorder, autism spectrum disorders, epilepsy, and 22q11.2 deletion syndrome. More recent ENIGMA WGs have formed to study anxiety disorders, suicidal thoughts and behavior, sleep and insomnia, eating disorders, irritability, brain injury, antisocial personality and conduct disorder, and dissociative identity disorder. Here, we summarize the first decade of ENIGMA's activities and ongoing projects, and describe the successes and challenges encountered along the way. We highlight the advantages of collaborative large-scale coordinated data analyses for testing reproducibility and robustness of findings, offering the opportunity to identify brain systems involved in clinical syndromes across diverse samples and associated genetic, environmental, demographic, cognitive, and psychosocial factors

Were progenitors of local L* galaxies Lyman-alpha emitters at high redshift?

The Lya emission has been observed from galaxies over a redshift span z ~ 0 - 8.6. However, the evolution of high-redshift Lya emitters (LAEs), and the link between these populations and local galaxies, remain poorly understood. Here, we investigate the Lya properties of progenitors of a local L* galaxy by combining cosmological hydrodynamic simulations with three-dimensional radiative transfer calculations using the new ART^2 code. We find that the main progenitor (the most massive one) of a Milky Way-like galaxy has a number of Lya properties close to those of observed LAEs at z ~ 2 - 6, but most of the fainter ones appear to fall below the detection limits of current surveys. The Lya photon escape fraction depends sensitively on a number of physical properties of the galaxy, such as mass, star formation rate, and metallicity, as well as galaxy morphology and orientation. Moreover, we find that high-redshift LAEs show blue-shifted Lya line profiles characteristic of gas inflow, and that the Lya emission by excitation cooling increases with redshift, and becomes dominant at z > 6. Our results suggest that some observed LAEs at z ~ 2-6 with luminosity of L_Lya ~ 10^{42-43} ergs/s may be similar to the main progenitor of the Milky Way at high redshift, and that they may evolve into present-day L* galaxies.Comment: 15 pages, 13 figures, accepted for publication in Ap

X-ray Constraints on the Lyman-Alpha Escape Fraction

We have coadded X-ray flux of all known Lyman Alpha Emitters (LAEs) in the 4 Msec Chandra Deep Field South (CDF-S) region, to place sensitive upper limits on the average unobscured star-formation rate (SFR_X) in these galaxies. A very small fraction of Lyman-Alpha galaxies in the field are individually detected in the X-rays, implying a low fraction of AGN activity. After excluding the few X-ray detected LAEs, we stack the undetected LAEs located in the 4 Ms CDF-S data and 250 ks Extended CDF-S (ECDFS) data, and compute a 1-\sigma upper limit on SFR_X < 14, 28, 28, 140, 440, 880 M_{\sun} yr$^{-1}$ for LAEs located at z = 2.1, 3.1, 3.2, 4.5, 5.7 and 6.5, respectively. The upper limit of SFR_X in LAEs can be then be compared to SFR$_{Ly\alpha}$ derived from Lyman-Alpha line and thus can constrain on the Lyman-Alpha escape fraction ($f^{Esc}_{Ly\alpha}$). We derive a lower limit on f(Lyman-Alpha Escape) > 14% (84 % confidence level, 1-\sigma lower limit) for LAEs at redshift z ~ 2.1 and z ~ 3.1-3.2. At z > 4, the current LAE samples are not of sufficient size to constrain SFR_X well. By averaging all the LAEs at z> 2, the X-ray non-detection constrains f(Lyman-Alpha Escape) > 17% (84 % confidence level, 1-\sigma lower limit), and rejects f(Lyman-Alpha Escape) < 5.7% at the 99.87% confidence level from 2.1 < z < 6.5.Comment: 11 pages, 3 tables, 3 figures, ApJ accepte

The Fourteenth Data Release of the Sloan Digital Sky Survey: First Spectroscopic Data from the extended Baryon Oscillation Spectroscopic Survey and from the second phase of the Apache Point Observatory Galactic Evolution Experiment

The fourth generation of the Sloan Digital Sky Survey (SDSS-IV) has been in operation since July 2014. This paper describes the second data release from this phase, and the fourteenth from SDSS overall (making this, Data Release Fourteen or DR14). This release makes public data taken by SDSS-IV in its first two years of operation (July 2014-2016). Like all previous SDSS releases, DR14 is cumulative, including the most recent reductions and calibrations of all data taken by SDSS since the first phase began operations in 2000. New in DR14 is the first public release of data from the extended Baryon Oscillation Spectroscopic Survey (eBOSS); the first data from the second phase of the Apache Point Observatory (APO) Galactic Evolution Experiment (APOGEE-2), including stellar parameter estimates from an innovative data driven machine learning algorithm known as "The Cannon"; and almost twice as many data cubes from the Mapping Nearby Galaxies at APO (MaNGA) survey as were in the previous release (N = 2812 in total). This paper describes the location and format of the publicly available data from SDSS-IV surveys. We provide references to the important technical papers describing how these data have been taken (both targeting and observation details) and processed for scientific use. The SDSS website (www.sdss.org) has been updated for this release, and provides links to data downloads, as well as tutorials and examples of data use. SDSS-IV is planning to continue to collect astronomical data until 2020, and will be followed by SDSS-V.Comment: SDSS-IV collaboration alphabetical author data release paper. DR14 happened on 31st July 2017. 19 pages, 5 figures. Accepted by ApJS on 28th Nov 2017 (this is the "post-print" and "post-proofs" version; minor corrections only from v1, and most of errors found in proofs corrected

Antimicrobial resistance among migrants in Europe: a systematic review and meta-analysis

BACKGROUND: Rates of antimicrobial resistance (AMR) are rising globally and there is concern that increased migration is contributing to the burden of antibiotic resistance in Europe. However, the effect of migration on the burden of AMR in Europe has not yet been comprehensively examined. Therefore, we did a systematic review and meta-analysis to identify and synthesise data for AMR carriage or infection in migrants to Europe to examine differences in patterns of AMR across migrant groups and in different settings. METHODS: For this systematic review and meta-analysis, we searched MEDLINE, Embase, PubMed, and Scopus with no language restrictions from Jan 1, 2000, to Jan 18, 2017, for primary data from observational studies reporting antibacterial resistance in common bacterial pathogens among migrants to 21 European Union-15 and European Economic Area countries. To be eligible for inclusion, studies had to report data on carriage or infection with laboratory-confirmed antibiotic-resistant organisms in migrant populations. We extracted data from eligible studies and assessed quality using piloted, standardised forms. We did not examine drug resistance in tuberculosis and excluded articles solely reporting on this parameter. We also excluded articles in which migrant status was determined by ethnicity, country of birth of participants' parents, or was not defined, and articles in which data were not disaggregated by migrant status. Outcomes were carriage of or infection with antibiotic-resistant organisms. We used random-effects models to calculate the pooled prevalence of each outcome. The study protocol is registered with PROSPERO, number CRD42016043681. FINDINGS: We identified 2274 articles, of which 23 observational studies reporting on antibiotic resistance in 2319 migrants were included. The pooled prevalence of any AMR carriage or AMR infection in migrants was 25·4% (95% CI 19·1-31·8; I2 =98%), including meticillin-resistant Staphylococcus aureus (7·8%, 4·8-10·7; I2 =92%) and antibiotic-resistant Gram-negative bacteria (27·2%, 17·6-36·8; I2 =94%). The pooled prevalence of any AMR carriage or infection was higher in refugees and asylum seekers (33·0%, 18·3-47·6; I2 =98%) than in other migrant groups (6·6%, 1·8-11·3; I2 =92%). The pooled prevalence of antibiotic-resistant organisms was slightly higher in high-migrant community settings (33·1%, 11·1-55·1; I2 =96%) than in migrants in hospitals (24·3%, 16·1-32·6; I2 =98%). We did not find evidence of high rates of transmission of AMR from migrant to host populations. INTERPRETATION: Migrants are exposed to conditions favouring the emergence of drug resistance during transit and in host countries in Europe. Increased antibiotic resistance among refugees and asylum seekers and in high-migrant community settings (such as refugee camps and detention facilities) highlights the need for improved living conditions, access to health care, and initiatives to facilitate detection of and appropriate high-quality treatment for antibiotic-resistant infections during transit and in host countries. Protocols for the prevention and control of infection and for antibiotic surveillance need to be integrated in all aspects of health care, which should be accessible for all migrant groups, and should target determinants of AMR before, during, and after migration. FUNDING: UK National Institute for Health Research Imperial Biomedical Research Centre, Imperial College Healthcare Charity, the Wellcome Trust, and UK National Institute for Health Research Health Protection Research Unit in Healthcare-associated Infections and Antimictobial Resistance at Imperial College London

Development of Rapid Detection and Genetic Characterization of Salmonella in Poultry Breeder Feeds

Salmonella is a leading cause of foodborne illness in the United States, with poultry and poultry products being a primary source of infection to humans. Poultry may carry some Salmonella serovars without any signs or symptoms of disease and without causing any adverse effects to the health of the bird. Salmonella may be introduced to a flock by multiple environmental sources, but poultry feed is suspected to be a leading source. Detecting Salmonella in feed can be challenging because low levels of the bacteria may not be recovered using traditional culturing techniques. Numerous detection methodologies have been examined over the years for quantifying Salmonella in feeds and many have proven to be effective for Salmonella isolation and detection in a variety of feeds. However, given the potential need for increased detection sensitivity, molecular detection technologies may the best candidate for developing rapid sensitive methods for identifying small numbers of Salmonella in the background of large volumes of feed. Several studies have been done using polymerase chain reaction (PCR) assays and commercial kits to detect Salmonella spp. in a wide variety of feed sources. In addition, DNA array technology has recently been utilized to track the dissemination of a specific Salmonella serotype in feed mills. This review will discuss the processing of feeds and potential points in the process that may introduce Salmonella contamination to the feed. Detection methods currently used and the need for advances in these methods also will be discussed. Finally, implementation of rapid detection for optimizing control methods to prevent and remove any Salmonella contamination of feeds will be considered

A Portrait of the Transcriptome of the Neglected Trematode, Fasciola gigantica—Biological and Biotechnological Implications

Fasciola gigantica (Digenea) is an important foodborne trematode that causes liver fluke disease (fascioliasis) in mammals, including ungulates and humans, mainly in tropical climatic zones of the world. Despite its socioeconomic impact, almost nothing is known about the molecular biology of this parasite, its interplay with its hosts, and the pathogenesis of fascioliasis. Modern genomic technologies now provide unique opportunities to rapidly tackle these exciting areas. The present study reports the first transcriptome representing the adult stage of F. gigantica (of bovid origin), defined using a massively parallel sequencing-coupled bioinformatic approach. From >20 million raw sequence reads, >30,000 contiguous sequences were assembled, of which most were novel. Relative levels of transcription were determined for individual molecules, which were also characterized (at the inferred amino acid level) based on homology, gene ontology, and/or pathway mapping. Comparisons of the transcriptome of F. gigantica with those of other trematodes, including F. hepatica, revealed similarities in transcription for molecules inferred to have key roles in parasite-host interactions. Overall, the present dataset should provide a solid foundation for future fundamental genomic, proteomic, and metabolomic explorations of F. gigantica, as well as a basis for applied outcomes such as the development of novel methods of intervention against this neglected parasite