bluuebunny/crossref_metadata_2025_split huggingface dataset:
Hantavirus infections in humans in Poland—current state of knowledge and perspectives for research
Authors: Stojak Joanna 
Published: July 2019

Abstract

Background
In Europe, hantaviruses cause serious human disease, hemorrhagic fever with renal syndrome (HFRS). The geographic distribution of human cases of HFRS is a consequence of distribution of reservoir host species. Epidemiology of HFRS is well-studied in Western Europe, while data from Central and Eastern Europe are poor or unavailable.

Methods
The data on hantavirus infections in humans during 2007–2017 were gathered to distinguish pattern of HFRS occurrence and characterize potential factors shaping HFRS epidemiology in Poland.

Results
The south-eastern part of Poland (Podkarpackie voivodeship) was recognized as endemic area of hantavirus prevalence. Incidence rate of HFRS in Poland was positively correlated with mast years and higher abundance of rodents, urbanization index, and forest cover, while the climatic factors (average temperatures in January and July and average annual precipitation) have had no significant impact.

Conclusions
In Poland, HFRS is still not recognized entity. Further studies on hantavirus infection rate in reservoir host species (rodents, shrews, and bats) and virus transmission to humans are needed to prevent outbreaks of HFRS in the future.
Quantitative analysis of chondroitin sulfate disaccharides from human and rodent fixed brain tissue by electrospray ionization-tandem mass spectrometry
Authors: Alonge Kimberly M , Logsdon Aric F , Murphree Taylor A , Banks William A , Keene C Dirk , Edgar J Scott , Whittington Dale , Schwartz Michael W , Guttman Miklos 
Published: July 2019

AbstractChondroitin sulfates (CS) are long, negatively charged, unbranched glycosaminoglycan (GAG) chains attached to CS-proteoglycan (CSPG) core proteins that comprise the glycan component in both loose interstitial extracellular matrices (ECMs) and in rigid, structured perineuronal net (PNN) scaffolds within the brain. As aberrant CS-PNN formations have been linked to a range of pathological states, including Alzheimer’s disease (AD) and schizophrenia, the analysis of CS-GAGs in brain tissue at the disaccharide level has great potential to enhance disease diagnosis and prognosis. Two mass-spectrometry (MS)-based approaches were adapted to detect CS disaccharides from minute fixed tissue samples with low picomolar sensitivity and high reproducibility. The first approach employed a straightforward, quantitative direct infusion (DI)-tandem mass spectrometry (MS/MS) technique to determine the percentages of Δ4S- and Δ6S-CS disaccharides within the 4S/6S-CS ratio, while the second used a comprehensive liquid chromatography (LC)–MS/MS technique to determine the relative percentages of Δ0S-, Δ4S-, Δ6S-, Δ4S6S-CS and Δ2S6S-CS disaccharides, with internal validation by full chondroitin lyase activity. The quantitative accuracy of the five primary biologically relevant CS disaccharides was validated using a developmental time course series in fixed rodent brain tissue. We then analyzed the CS disaccharide composition in formalin-fixed human brain tissue, thus providing the first quantitative report of CS sulfation patterns in the human brain. The ability to comprehensively analyze the CS disaccharide composition from fixed brain tissue provides a means with which to identify alterations in the CS-GAG composition in relation to the onset and/or progression of neurological diseases.
Design centrality, design investments and innovation performance: an empirical analysis of European firms
Authors: Montresor Sandro , Vezzani Antonio 
Published: July 2019

AbstractThis article provides new evidence on the relationship between design and innovation performance at the firm level. In particular, we integrate previous analyses of the link between design investments and innovation by considering the extent to which firms put design at the center of their business activities. Moreover, we distinguish between the effect of design on innovation and its effect on the success of innovation, as captured by firms’ innovative turnover. The use of the European Innobarometer survey, covering a unique set of questions on the topic, allows us to test a set of hypotheses about these relationships on a large sample of firms. The results show that a firm’s approach to design plays an important role in its propensity to innovate: the more central the role of design within a firm, the higher the likelihood it innovates. The same holds true when considering the share of turnover from innovation. However, sales associated with innovation do not increase linearly with design investments, as we find a positive effect only for firms investing intensively in design. Overall it emerges that the centrality of design is strongly associated with firms’ innovation performance, while design investment per se has a more nuanced role.
Beyond the 3 Rs to a More Comprehensive Framework of Principles for Animal Research Ethics
Authors: DeGrazia David , Beauchamp Tom L 
Published: July 2019

Abstract
We have produced a framework of general moral principles for animal research ethics in a book, Principles of Animal Research Ethics, which is forthcoming with Oxford University Press in fall 2019. This book includes a detailed statement and defense of our framework along with critical commentaries on our work from seven eminent scholars: Larry Carbone, Frans de Waal, Rebecca Dresser, Joseph Garner, Brian Hare, Margaret Landi, and Julian Savulescu. In the present paper, we explain the motivation for our project and present our framework of principles. The first section explains why a new framework is both needed and timely, on the basis of six important developments in recent decades. The second section challenges assertions of an unbridgeable gulf dividing the animal-research and animal-protection communities on the issue of animal research. It does so, first, by indicating common ground in the core values of social benefit and animal welfare and, then, by presenting and briefly defending our framework: three principles of social benefit and three principles of animal welfare. These six principles, we argue, constitute a more suitable framework than any other that is currently available, including the canonical 3 Rs advanced in 1959 by William M. S. Russell and Rex L. Burch.
Reproducibility and Rigor in Animal-Based Research
Authors: Macleod Malcolm , Mohan Swapna 
Published: July 2019

Abstract
Increasing focus on issues of research reproducibility affords us the opportunity to review some of the key issues related in vivo research. First, we set out some key definitions, to guide the reader through the rest of the paper. Next we consider issues of epistemology, of how animal experiments lead to changes in our understanding of biomedicine and, potentially, to the development of new therapeutics. Here we consider the meaning of statistical significance; the importance of understanding whether findings have general truth; and the advances in knowledge which can result from ‘failed’ replication. Then, we consider weaknesses in the design, conduct and reporting of experiments, and review evidence for this from systematic reviews and from experimental studies addressing these issues. We consider the impact that these weaknesses have on the development of new treatments for human disease, and reflect on the response to these issues from the biomedical research community. Finally, we consider strategies for improvement including increased use of brief, pre-registered study protocols; pre-registration, open publication and open data; and the central importance of education in improving research performance.
Multi-directed Graph Complexes and Quasi-isomorphisms Between Them II: Sourced Graphs
Authors: Živković Marko 
Published: July 2019

Abstract
We prove that the projection from graph complex with at least one source to oriented graph complex is a quasi-isomorphism, showing that homology of the “sourced” graph complex is also equal to the homology of standard Kontsevich’s graph complex. This result may have applications in theory of multi-vector fields $T_{\textrm{poly}}^{\geq 1}$ of degree at least one, and to the hairy graph complex that computes the rational homotopy of the space of long knots. The result is generalized to multi-directed graph complexes, showing that all such graph complexes are quasi-isomorphic. These complexes play a key role in the deformation theory of multi-oriented props recently invented by Sergei Merkulov. We also develop a theory of graph complexes with arbitrary edge types.
Genetic parameters of meat quality, carcass composition, and growth traits in commercial swine
Authors: Khanal Piush , Maltecca Christian , Schwab Clint , Gray Kent , Tiezzi Francesco 
Published: July 2019

AbstractSwine industry breeding goals are mostly directed towards meat quality and carcass traits due to their high economic value. Yet, studies on meat quality and carcass traits including both phenotypic and genotypic information remain limited, particularly in commercial crossbred swine. The objectives of this study were to estimate the heritabilities for different carcass composition traits and meat quality traits and to estimate the genetic and phenotypic correlations between meat quality, carcass composition, and growth traits in 2 large commercial swine populations: The Maschhoffs LLC (TML) and Smithfield Premium Genetics (SPG), using genotypes and phenotypes data. The TML data set consists of 1,254 crossbred pigs genotyped with 60K SNP chip and phenotyped for meat quality, carcass composition, and growth traits. The SPG population included over 35,000 crossbred pigs phenotyped for meat quality, carcass composition, and growth traits. For TML data sets, the model included fixed effects of dam line, contemporary group (CG), gender, as well as random additive genetic effect and pen nested within CG. For the SPG data set, fixed effects included parity, gender, and CG, as well as random additive genetic effect and harvest group. Analyses were conducted using BLUPF90 suite of programs. Univariate and bivariate analyses were implemented to estimate heritabilities and correlations among traits. Primal yield traits were uniquely created in this study. Heritabilities [high posterior density interval] of meat quality traits ranged from 0.08 [0.03, 0.16] for pH and 0.08 [0.03, 0.1] for Minolta b* to 0.27 [0.22, 0.32] for marbling score, except intramuscular fat with the highest estimate of 0.52 [0.40, 0.62]. Heritabilities of primal yield traits were higher than that of primal weight traits and ranged from 0.17 [0.13, 0.25] for butt yield to 0.45 [0.36, 0.55] for ham yield. The genetic correlations of meat quality and carcass composition traits with growth traits ranged from moderate to high in both directions. High genetic correlations were observed for male and female for all traits except pH. The genetic parameter estimates of this study indicate that a multitrait approach should be considered for selection programs aimed at meat quality and carcass composition in commercial swine populations.
Genetic Diversity and Population Structure of Wild Sunflower (Helianthus annuus L.) in Argentina: Reconstructing Its Invasion History
Authors: Hernández Fernando , Presotto Alejandro , Poverene Mónica , Mandel Jennifer R 
Published: July 2019

AbstractStudying the levels and patterns of genetic diversity of invasive populations is important to understand the evolutionary and ecological factors promoting invasions and for better designing preventive and control strategies. Wild sunflower (Helianthus annuus L.) is native to North America and was introduced, and has become invasive, in several countries, including Argentina (ARG). Here, using classical population genetic analyses and approximate Bayesian computation (ABC) modeling, we studied the invasion history of wild sunflower in ARG. We analyzed 115 individuals belonging to 15 populations from ARG (invasive range) and United States (US, native range) at 14 nuclear and 3 chloroplast simple sequence repeat markers along with 23 phenotypic variables. Populations from ARG showed similar levels of nuclear genetic diversity to US populations and higher genetic diversity in the chloroplast genome, indicating no severe genetic bottlenecks during the invasion process. Bayesian clustering analysis, based on nuclear markers, suggests the presence of 3 genetic clusters, all present in both US and ARG. Discriminant analysis of principal components (DAPC) detected an overall low population structure between central US and ARG populations but separated 2 invasive populations from the rest. ABC modeling supports multiple introductions but also a southward dispersal within ARG. Genetic and phenotypic data support the central US as a source of introduction while the source of secondary introductions could not be resolved. Finally, using genetic markers from the chloroplast genome, we found lower population structure in ARG when compared with US populations, suggesting a role for seed-mediated gene flow in Argentina.
Survival of molecular gas in a stellar feedback-driven outflow witnessed with the MUSE TIMER project and ALMA
Authors: Leaman Ryan , Fragkoudi Francesca , Querejeta Miguel , Leung Gigi Y C , Gadotti Dimitri A , Husemann Bernd , Falcón-Barroso Jesus , Sánchez-Blázquez Patricia , van de Ven Glenn , Kim Taehyun , Coelho Paula , Lyubenova Mariya , de Lorenzo-Cáceres Adriana , Martig Marie , Martinez-Valpuesta Inma , Neumann Justus , Pérez Isabel , Seidel Marja 
Published: July 2019

ABSTRACT
Stellar feedback plays a significant role in modulating star formation, redistributing metals, and shaping the baryonic and dark structure of galaxies – however, the efficiency of its energy deposition to the interstellar medium is challenging to constrain observationally. Here we leverage HST and ALMA imaging of a molecular gas and dust shell ($M_{\mathrm{ H}_2} \sim 2\times 10^{5}\, {\rm M}_{\odot }$) in an outflow from the nuclear star-forming ring of the galaxy NGC 3351, to serve as a boundary condition for a dynamical and energetic analysis of the outflowing ionized gas seen in our MUSE TIMER survey. We use starburst99 models and prescriptions for feedback from simulations to demonstrate that the observed star formation energetics can reproduce the ionized and molecular gas dynamics – provided a dominant component of the momentum injection comes from direct photon pressure from young stars, on top of supernovae, photoionization heating, and stellar winds. The mechanical energy budget from these sources is comparable to low luminosity active galactic neuclei, suggesting that stellar feedback can be a relevant driver of bulk gas motions in galaxy centres – although here ≲10−3 of the ionized gas mass is escaping the galaxy. We test several scenarios for the survival/formation of the cold gas in the outflow, including in situ condensation and cooling. Interestingly, the geometry of the molecular gas shell, observed magnetic field strengths and emission line diagnostics are consistent with a scenario where magnetic field lines aided survival of the dusty ISM as it was initially launched (with mass-loading factor ≲1) from the ring by stellar feedback. This system’s unique feedback-driven morphology can hopefully serve as a useful litmus test for feedback prescriptions in magnetohydrodynamical galaxy simulations.
Modelling pulsed gamma-ray emissions from millisecond pulsars with double peaks
Authors: Chang Shan , Zhang Li , Li Xiang , Jiang Zejun 
Published: July 2019

ABSTRACT
Pulsed γ-ray properties of 22 millisecond pulsars (MSPs) with double peaks are studied in the revised versions of the outer gap (OG) and the stripped wind (SW) models. The major differences between these two models are magnetic field structures, γ-ray production sites, and radiation mechanisms. In the models, γ-ray light curves of these MSPs are calculated through a Markov chain Monte Carlo (MCMC) method to pick best-fitting model parameters. Our results indicate that (1) both models can reproduce observed double-peak structures of the MSPs well, for most MSPs, a relatively large magnetic inclination angle (α ∼ 50°–90°) and small viewing angle (ζ ∼ 30°–90°) are obtained in the OG model, but a relatively small α ∈ (20°, 60°) and large ζ ∈ (70°, 150°) in the SW model; (2) phase-averaged spectra, cut-off energy, and γ-ray luminosity calculated in both models are consistent with observed those by Fermi-Large Area Telescope (LAT). Therefore, it may be concluded that the OG and the SW models for describing high-energy emissions of MSPs cannot be ruled out at present, and further studies are required.
Localization of binary black hole mergers with known inclination
Authors: Corley K Rainer , Bartos Imre , Singer Leo P , Williamson Andrew R , Haiman Zoltán , Kocsis Bence , Nissanke Samaya , Márka Zsuzsa , Márka Szabolcs 
Published: July 2019

ABSTRACT
The localization of stellar-mass binary black hole mergers using gravitational waves is critical in understanding the properties of the binaries’ host galaxies, observing possible electromagnetic emission from the mergers, or using them as a cosmological distance ladder. The precision of this localization can be substantially increased with prior astrophysical information about the binary system. In particular, constraining the inclination of the binary can reduce the distance uncertainty of the source. Here, we present the first realistic set of localizations for binary black hole mergers, including different prior constraints on the binaries’ inclinations. We find that prior information on the inclination can reduce the localization volume by a factor of 3. We discuss two astrophysical scenarios of interest: (i) follow-up searches for beamed electromagnetic/neutrino counterparts and (ii) mergers in the accretion discs of active galactic nuclei.
Two families of elliptical plasma lenses
Authors: Er Xinzhong , Rogers Adam 
Published: July 2019

ABSTRACT
Plasma lensing is the refraction of low-frequency electromagnetic rays due to free electrons in the interstellar medium. Although the phenomenon has a distinct similarity to gravitational lensing, particularly in its mathematical description, plasma lensing introduces other additional features, such as wavelength dependence, radial rather than tangential image distortions, and strong demagnification of background sources. Axisymmetrical models of plasma lenses have been well studied in the literature, but density distributions with more complicated shapes can provide new and exotic image configurations and increase the richness of the magnification properties. As a first step towards non-axisymmetrical distributions, we study two families of elliptical plasma lens, softened power law, and exponential plasma distributions. We perform numerical studies on each lens model, and present them over a parameter space. In addition to deriving elliptical plasma lens formulae, we also investigate the number of critical curves that the lens can produce by studying the lens parameter space, in particular the dependence on the lensing ellipticity. We find that the introduction of ellipticity into the plasma distribution can enhance the lensing effects as well as the complexity of the magnification map.
Subaru narrow-band imaging search for Lyman continuum from galaxies at z &gt; 3 in the GOODS-N field
Authors: Iwata Ikuru , Inoue Akio K , Micheva Genoveva , Matsuda Yuichi , Yamada Toru 
Published: July 2019

Abstract
We report results of a search for galaxies at z &gt; 3 with Lyman continuum (LyC) emission using a narrow-band filter NB359  with Subaru/Suprime-Cam in an ∼800 arcmin2 blank field around the GOODS-N. We use 103 star-forming galaxies (SFGs) and 8 active galactic nuclei (AGNs) with spectroscopic redshifts in a range between 3.06 and 3.5 and 157 photometrically selected z = 3.1 Lyman α emitter (LAE) candidates as the targets. After removing galaxies spectroscopically confirmed to be contaminated by foreground sources, we found two SFGs and one AGN as candidate LyC-emitting sources among the targets with spectroscopic redshifts. Among LAE candidates, five sources are detected in the NB359 image, and three among them may be contaminated by foreground sources. We compare the sample galaxies in the GOODS-N with those in the SSA22, where a prominent protocluster at z = 3.1 is known and an LyC search using the same NB359 filter has been made. The frequency of galaxies with LyC leakage in the SSA22 field may be about two times higher than that of galaxies in the GOODS-N with the sample ultraviolet (UV) magnitude range, although the numbers of LyC detections in these fields are too small to make a statistically significant conclusion. By combining the sample galaxies in these fields, we place the 3σ upper limits of the observed LyC-to-UV flux density ratio and LyC escape fraction for galaxies at z = 3.1 with absolute UV magnitude MUV &lt; −18.8 as (fLyC/fUV)obs &lt; 0.036 and $f_\mathrm{esc}^\mathrm{abs}\,\lt\, 8$ per cent, respectively.
Globular clusters as a probe for Weyl conformal gravity
Authors: Islam Tousif 
Published: July 2019

ABSTRACT
Eventual flattening of velocity dispersion profiles of some galactic globular clusters (GCs) in the Milky Way cannot be explained in the framework of Newtonian gravity and hence in general theory of relativity in the weak field limit, without resorting to the occurrence of tidal effects. We explore the possibility of explaining such deviation from expected Keplerian fall-off in dispersion profiles within the context of Weyl conformal gravity. We choose a set of 20 GCs for which recent kinematic measurements are available. We model the GCs with approximate Hernquist mass profiles and choose a constant mass-to-light ratio throughout the cluster as the only free parameter in the model. Our analysis finds reasonable Weyl gravity fits to the observed dispersion profiles, exhibiting both Keplerian decline and eventual flattening, with acceptable mass-to-light ratios. We further recover a Tully–Fisher-like scaling relation in GCs through Weyl gravity.
A ‘poly-transfection’ method for rapid, one-pot characterization and optimization of genetic systems
Authors: Gam Jeremy J , DiAndreth Breanna , Jones Ross D , Huh Jin , Weiss Ron 
Published: July 2019

AbstractBiological research is relying on increasingly complex genetic systems and circuits to perform sophisticated operations in living cells. Performing these operations often requires simultaneous delivery of many genes, and optimizing the stoichiometry of these genes can yield drastic improvements in performance. However, sufficiently sampling the large design space of gene expression stoichiometries in mammalian cells using current methods is cumbersome, complex, or expensive. We present a ‘poly-transfection’ method as a simple yet high-throughput alternative that enables comprehensive evaluation of genetic systems in a single, readily-prepared transfection sample. Each cell in a poly-transfection represents an independent measurement at a distinct gene expression stoichiometry, fully leveraging the single-cell nature of transfection experiments. We first benchmark poly-transfection against co-transfection, showing that titration curves for commonly-used regulators agree between the two methods. We then use poly-transfections to efficiently generate new insights, for example in CRISPRa and synthetic miRNA systems. Finally, we use poly-transfection to rapidly engineer a difficult-to-optimize miRNA-based cell classifier for discriminating cancerous cells. One-pot evaluation enabled by poly-transfection accelerates and simplifies the design of genetic systems, providing a new high-information strategy for interrogating biology.