bluuebunny/crossref_metadata_2025_split huggingface dataset:
Tragedy as Philosophy in the Reformation World
Authors: Leo Russ 
Published: February 2019

Abstract
Tragedy as Philosophy in the Reformation World examines how a series of influential poets, theologians, and humanist critics turned to tragedy to understand providence and agencies human and divine across diverse Reformation milieux. Rejecting familiar assumptions about tragedy, crucial figures like Philipp Melanchthon, David Pareus, Lodovico Castelvetro, John Rainolds, and Daniel Heinsius developed distinctly philosophical ideas of tragedy, irreducible to drama or performance, inextricable from rhetoric, dialectic, and metaphysics. In its proximity to philosophy, tragedy afforded careful readers crucial insight into causality, probability, necessity, and the terms of human affect and action. With these resources at hand, Reformed theologians, poets, and critics produced daring and influential theses on tragedy between the 1550s and the 1630s, all directly related to pressing Reformation debates. And while some poets employed tragedy to render sacred history palpable with new energy and urgency, others marshalled a precise philosophical notion of tragedy directly against spectacle and stage-playing, endorsing anti-theatrical theses on tragedy inflected by Aristotle’s Poetics. Uncovering a tradition of Reformation poetics in which tragedy often opposes performance, the work also explores the impact of these scholarly debates on more familiar works of vernacular tragedy, illustrating how William Shakespeare’s Hamlet and John Milton’s 1671 poems take shape in conversation with philosophical and philological investigations of tragedy. Tragedy as Philosophy in the Reformation World demonstrates how Reformation took shape in poetic as well as theological and political terms while simultaneously exposing the importance of tragedy to the history of philosophy.
The UV spectral slope β and stellar population of most active star-forming galaxies at z ∼ 4
Authors: Yamanaka Satoshi , Yamada Toru 
Published: February 2019

Abstract
We investigate a stellar population of star-forming galaxies at z ∼ 4 by focusing on the slope of their rest-frame ultraviolet (UV) continuum, β, where fλ ∝ λβ. We investigate a sample of bright Lyman break galaxies (LBGs) with i′ ≤ 26.0 in the Subaru/XMM-Newton Deep Survey field by using a spectral energy distribution fitting analysis. We find that the apparently redder (βobs &gt; −1.73) LBGs tend to be dusty (AV &gt; 1.0), and have young stellar populations (βint &lt; −2.42) and intrinsically active star-forming galaxies (SFR ≳ a few $\times \ 10^{2}\, {M_{\odot }}\:\mbox{yr}^{-1}$). This means that a significant fraction of the UV-selected LBGs at z ∼ 4 contains on-going, active, and dust-obscured star-forming galaxies. We compare the infrared to UV luminosity ratio, which is estimated from our optical/near-infrared data assuming dust attenuation laws, with sub-millimeter observations from previous works. The result suggests that the Calzetti-like dust attenuation law is preferable for active and dusty star-forming LBGs at z = 4. We also find that an extrapolation of the βint–MUV, int relation toward the fainter magnitude range below our sample magnitude limit intersects the βobs–MUV, obs relation previously obtained in deeper narrow-area observations at MUV = −18.9 and β = −1.94, which coincides with the break point of the βobs–MUV, obs relation observed so far. This coincidence suggests that we see an almost dust-free population at MUV, obs ≳ −18.9.
Whiteness, Heteropaternalism, and the Gendered Politics of Settler Colonial Populist Backlash Culture in Australia1
Authors: Nicholas Lucy 
Published: February 2019

Abstract
This article analyzes backlashes to queer and Indigenous diversity-affirmative practices in Australia that entail perceived loss of dominance by the majority culture. The case studies outlined here demonstrate how whiteness, nationhood, and (gendered) heterosexuality are playing out in parallel ways through populist backlashes that have the purpose of containing queerness and indigeneity in “respectable” modes that do not challenge the default neutrality of a constructed “Australian” subject. The rhetorical and political strategies of erasing the queer and Indigenous others so as to reify the norm will be analyzed.
The Search for Common Origin: Homology Revisited
Authors: Ochoterena Helga , Vrijdaghs Alexander , Smets Erik , Claßen-Bockhoff Regine 
Published: February 2019

AbstractUnderstanding the evolution of biodiversity on Earth is a central aim in biology. Currently, various disciplines of science contribute to unravel evolution at all levels of life, from individual organisms to species and higher ranks, using different approaches and specific terminologies. The search for common origin, traditionally called homology, is a connecting paradigm of all studies related to evolution. However, it is not always sufficiently taken into account that defining homology depends on the hierarchical level studied (organism, population, and species), which can cause confusion. Therefore, we propose a framework to define homologies making use of existing terms, which refer to homology in different fields, but restricting them to an unambiguous meaning and a particular hierarchical level. We propose to use the overarching term “homology” only when “morphological homology,” “vertical gene transfer,” and “phylogenetic homology” are confirmed. Consequently, neither phylogenetic nor morphological homology is equal to homology. This article is intended for readers with different research backgrounds. We challenge their traditional approaches, inviting them to consider the proposed framework and offering them a new perspective for their own research.
Low birth weight in Bangladesh and associated maternal and socioeconomic factors: results from a recent nationally-representative survey
Authors: Hossain Fariha Binte , Adhikary Gourab , Arafat Yasir , Shawon Md Shajedur Rahman 
Published: February 2019

ABSTRACTObjectivesLittle is known about the relative contributions of maternal and socioeconomic factors on low birth weight in Bangladesh and whether they differ by sex. We examined the prevalence and associated maternal and socioeconomic factors of low birth weight separately among boys and girls.Design and settingsThis is a cross-sectional study based on the Bangladesh Demographic and Health Survey 2014.ParticipantsA total of 4728 children with information on birth size were included in this study.Outcome measureLow birth weight was defined according to mother’s perception of birth size of their children. Logistic regression analysis was used to estimate the association between maternal and socioeconomic factors with low birth weight.ResultsThe overall prevalence of low birth weight was 17.8% among boys and 22.4% among girls. Low birth weight was associated with maternal factors like maternal age of <20 years at birth (adjusted OR vs. 20-29 years: 1.40, 95% CI 1.09-1.78), and maternal undernutrition (adjusted OR 1.33, 95% CI 1.05-1.69) among boys while only the association with maternal undernutrition was significant among girls. The association for no antenatal care visit was explained by socioeconomic factors. Lower level of mother’s education and poorest wealth index were found to be associated with low birth weight in both sexes.ConclusionOur study identifies that maternal factors are associated with increased risk of having low birth weight babies, which cannot be explained by socioeconomic factors, and vice versa. Community-based interventions to reduce low birth weight in Bangladesh should focus on these factors.Strengths and limitations of this studyTo the best of our knowledge our study is the first study in Bangladesh that has looked at the factors for low birth weight separately among boys and girls.We used multiple logistic regression to examine the associations of maternal and socioeconomic factors with low birth weight in a large and nationally-representative sample.This study is limited because we used mother’s perception of child’s size at birth to define low birth weight.We did not have information about gestational age and thereby could not take prematurity into account in our study.
Trait-based life-history strategies explain succession scenario for complex bacterial communities under varying disturbance
Authors: Santillan Ezequiel , Seshan Hari , Constancias Florentin , Wuertz Stefan 
Published: February 2019

SummaryTrait-based approaches are increasingly gaining importance in community ecology, as a way of finding general rules for the mechanisms driving changes in community structure and function under the influence of perturbations. Frameworks for life-history strategies have been successfully applied to describe changes in plant and animal communities upon disturbance. To evaluate their applicability to complex bacterial communities, we operated replicated wastewater treatment bioreactors for 35 days and subjected them to eight different disturbance frequencies of a toxic pollutant (3-chloroaniline), starting with a mixed inoculum from a full-scale treatment plant. Relevant ecosystem functions were tracked and microbial communities assessed through metagenomics and 16S rRNA gene sequencing. Combining a series of ordination, statistical and network analysis methods, we associated different life-history strategies with microbial communities across the disturbance range. These strategies were evaluated using tradeoffs in community function and genotypic potential, and changes in bacterial genus composition. We further compared our findings with other ecological studies and adopted a semi-quantitative CSR (competitors, ruderals, stress-tolerants) classification. The framework reduces complex datasets of microbial traits, functions, and taxa into ecologically meaningful components to help understand the system response to disturbance, and hence represents a promising tool for managing microbial communities.Originality-Significance StatementThis study establishes, for the first time, CSR life-history strategies in the context of bacterial communities. This framework is explained using community aggregated traits in an environment other than soil, also a first, using a combination of ordination methods, network analysis, and genotypic information from shotgun metagenomics and 16S rRNA gene amplicon sequencing.
Delineating and validating higher-order dimensions of psychopathology in the Adolescent Brain Cognitive Development (ABCD) study
Authors: Michelini Giorgia , Barch Deanna M. , Tian Yuan , Watson David , Klein Daniel N. , Kotov Roman 
Published: February 2019

ABSTRACTHierarchical dimensional systems of psychopathology promise more informative descriptions for understanding risk and predicting outcome than traditional diagnostic systems, but it is unclear how many major dimensions they should include. We delineated the hierarchy of childhood and adult psychopathology and validated it against clinically-relevant measures. Participants were 4,524 9- and 10-year-old children and their parents from the Adolescent Brain Cognitive Development (ABCD) study. Factor analyses on items from the Child Behavior Checklist and Adult Self-Report characterized a dimensional hierarchy. We examined the familial aggregation of the psychopathology dimensions, and the ability of different factor solutions to account for risks factors, social, educational and cognitive functioning, and physical and mental health service utilization. A hierarchical structure with a general psychopathology (‘p’) factor at the apex and five specific factors (internalizing, somatoform, detachment, neurodevelopmental, and externalizing) emerged in children. Adult factors were similar, but externalizing behaviors separated into disinhibited and antagonistic factors. Child and parent p-factors correlated highly (r=.61, P<.001), and smaller but significant correlations emerged for convergent dimensions between parents and children after controlling for p-factors (r=.10-20, P<.001). A model with childhood p-factor alone explained mental health service utilization (R2=.13, P<.001), but up to five dimensions provided incremental validity to account for developmental risk and current functioning (R2=.03-.20, P<.001). In this first investigation comprehensively mapping the psychopathology hierarchy in children and adults, we delineated a hierarchy of higher-order dimensions associated with a range of clinically-relevant validators. These findings hold important implications for psychiatric nosology and future research in this sample.
Deconvolution of bulk blood eQTL effects into immune cell subpopulations
Authors: Aguirre-Gamboa R. , de Klein N. , di Tommaso J. , Claringbould A. , Võsa U. , Zorro M. , Chu X. , Bakker O.B. , Borek Z. , Ricaño-Ponce I. , Deelen P. , Xu C.J. , Swertz M. , Jonkers I. , Withoff S. , Joosten I. , Sanna S. , Kumar V. , Koenen H.J.P.M. , Joosten L.A.B. , Netea M.G. , Wijmenga C. ,   BIOS Consortium, Franke L. , Li Y. 
Published: February 2019

AbstractExpression quantitative trait loci (eQTL) studies are used to interpret the function of disease-associated genetic risk factors. To date, most eQTL analyses have been conducted in bulk tissues, such as whole blood and tissue biopsies, which are likely to mask the cell type context of the eQTL regulatory effects. Although this context can be investigated by generating transcriptional profiles from purified cell subpopulations, the current methods are labor-intensive and expensive. Here we introduce a new method, Decon2, a statistical framework for estimating cell proportions using expression profiles from bulk blood samples (Decon-cell) and consecutive deconvolution of cell type eQTLs (Decon-eQTL). The estimated cell proportions from Decon-cell agree with experimental measurements across cohorts (R ≥ 0.77). Using Decon-cell we can predict the proportions of 34 circulating cell types for 3,194 samples from a population-based cohort. Next we identified 16,362 whole blood eQTLs and assign them to a cell type with Decon-eQTL using the predicted cell proportions from Decon-cell. Deconvoluted eQTLs show excellent allelic directional concordance with those of eQTL(≥ 96%) and chromatin mark QTL (≥87%) studies that used either purified cell subpopulations or single-cell RNA-seq. Our new method provides a way to assign cell type effects to eQTLs from bulk blood, which is useful in pinpointing the most relevant cell type for a certain complex disease. Decon2 is available as an R package and Java application (https://github.com/molgenis/systemsgenetics/tree/master/Decon2), and as a web tool (www.molgenis.org/deconvolution).
Multiple evolutionary trajectories for non-O157 Shiga toxigenic Escherichia coli
Authors: Alikhan Nabil-Fareed , Bachmann Nathan L. , Zakour Nouri L. Ben , Petty Nicola K. , Stanton-Cook Mitchell , Gawthorne Jayde A. , Easton Donna M. , Mahony Timothy J. , Cobbold Rowland , Schembri Mark A. , Beatson Scott A. 
Published: February 2019

AbstractBackgroundShiga toxigenic Escherichia coli (STEC) is an emerging global pathogen and remains a major cause of food-borne illness with more severe symptoms including hemorrhagic colitis and hemolytic-uremic syndrome. Since the characterization of the archetypal STEC serotype, E. coli O157:H7, more than 250 STEC serotypes have been defined. Many of these non-O157 STEC are associated with clinical cases of equal severity as O157. In this study, we utilize whole genome sequencing of 44 STEC strains from eight serogroups associated with human infection to establish their evolutionary relationships and contrast this with their virulence gene profiles and established typing methods.ResultsOur phylogenomic analysis delineated these STEC strains into seven distinct lineages, each with a characteristic repertoire of virulence factors. Some lineages included commensal or other E. coli pathotypes. Multiple independent acquisitions of the Locus for Enterocyte Effacement were identified, each associated with a distinct repertoire of effector genes. Lineages were inconsistent with O-antigen typing in several instances, consistent with lateral gene transfer within the O-antigen locus. STEC lineages could be defined by the conservation of clustered regularly interspaced short palindromic repeats (CRISPRs), however, no CRISPR profile could differentiate STEC from other E. coli strains. Six genomic regions (ranging from 500 bp - 10 kbp) were found to be conserved across all STEC in this dataset and may dictate interactions with Stx phage lysogeny.ConclusionsThe genomic analyses reported here present non-O157 STEC as a diverse group of pathogenic E. coli emerging from multiple lineages that independently acquired mobile genetic elements that promote pathogenesis.
TNFR2 induced priming of NLRP3-inflammasome via RIPK1 leads to pyroptosis in XIAP deficient cells
Authors: Knop Janin , Spilgies Lisanne M. , Rufli Stefanie , Reinhart Ramona , Vasilikos Lazaros , Yabal Monica , Jost Philipp J. , Wajant Harald , Robinson Mark D. , Kaufmann Thomas , Wong W. Wei-Lynn 
Published: February 2019

SummaryRecent data suggests that LPS stimulation can trigger inflammasome activation through a TNFR2/TNF/TNFR1 mediated loop inxiap−/−macrophages. Yet, the direct role TNFR2-specific activation plays in the absence of XIAP is unknown. We found TNFR2-specific activation lead to cell death inxiap−/−myeloid cells, particularly in the absence the RING domain. RIPK1/TAK1 kinase activity downstream of TNFR2 resulted in a TNF/TNFR1 cell death independent of necroptosis. TNFR2-specific activation lead to a similar inflammatory NF-kB driven transcriptional profile as TNFR1 activation with the exception of up-regulation of NLRP3 and caspase-11. Activation and up-regulation of the canonical inflammasome was mediated by RIPK1 kinase activity and ROS production. While both RIPK1 kinase activity and ROS production reduced cell death as well as release of IL-1β, the release of IL-18 was not reduced to basal levels. This study supports, targeting TNFR2 specifically to reduce IL-18 release in XIAP deficient (XLP-2) patients.
A Novel Taxon of RNA Viruses Endemic to Planarian Flatworms
Authors: Burrows Jeffrey , Depierreux Delphine , Nibert Max L. , Pearson Bret J. 
Published: February 2019

AbstractThe phylum Platyhelminthes is composed of both parasitic and non-parasitic flatworms. While the parasitic species have drawn attention for their wide effects on human and livestock heath, free-living flatworms, such as freshwater planarians, have become molecular models of regeneration and stem cell biology in the laboratory. However, one aspect of planarian biology that remains understudied is the relationship between host and any endemic viruses. Here we used searches of multiple transcriptomes from Schmidtea mediterranea asexual strain CIW4 and detected a novel, double-stranded RNA (dsRNA) virus, named S. mediterranea tricladivirus (SmedTV), which represents a distinct taxon (proposed new genus) within a larger taxon of monosegmented dsRNA viruses of diverse hosts. Experimental evidence for SmedTV in S. mediterranea CIW4 was obtained through whole-mount in situ hybridization (WISH). SmedTV “expression” (detected by both sense and anti-sense probes) was discrete yet variable from worm to worm and cell type to cell type, suggesting a persistent infection. Single-cell RNA sequencing (scRNAseq) further supported that SmedTV expression was low in stem cells, but substantially higher in multiple, though not all, differentiated tissues, with notable neural enrichment.Interestingly, knockdown of SmedTV by RNA-interference resulted in a “cure” of SmedTV after 10 RNAi doses, and expression remained undetectable by WISH even after 90 days. Due to being able to evade host defenses and the endogenous RNAi pathway, we believe SmedTV represents a novel animal model to study host-virus evolution.Statement of significancePlanarians are freshwater flatworms and emerging models to study the molecular mechanisms of adult stem cell and regenerative biology. However, they also live in aquatic environments with high amounts of viruses, bacteria, fungi, and protist pathogens. How the planarian immune system copes with all of these is largely unknown and only 2 types of virus have been described. Here we find a novel dsRNA virus, endemic to multiple types of flatworms. We show that it is a persistent infection, and likely transmits from stem cell to differentiated cell in the planarian, while avoiding endogenous RNA-interference machinery and mechanisms used to suppress viruses. We present this as a new model to study host-virus defense and evolution.
Differences in word learning: bilingualism or linguistic experience?
Authors: Borragan Maria , de Bruin Angela , Havas Viktoria , de Diego-Balaguer Ruth , Vulchanova Mila Dimitrova , Vulchanov Valentin , Duñabeitia Jon Andoni 
Published: February 2019

AbstractBilinguals may be better than monolinguals at word learning due to their increased experience with language learning. In addition, bilinguals that have languages that are orthotactically different could be more used to dissimilar orthotactic patterns. The current study examines how bilinguals with languages that are orthotactically similar and dissimilar and monolinguals learn novel words that violate or respect the orthotactic legality of the languages they know and how this learning may be affected by the similarity between the bilinguals’ two languages. In Experiment 1, three groups of children were tested: monolinguals, Spanish-Basque bilinguals (dissimilar orthotactic languages), and Spanish-Catalan bilinguals (similar orthotactic languages). After an initial word learning phase, they were tested in a recall task and a recognition task. Results showed that Spanish-Basque bilingual children performed differently than the other two groups. While Spanish monolinguals and Spanish-Catalan bilinguals recognized illegal words worse than legal words, Spanish-Basque bilinguals showed equal performance in learning illegal and legal patterns. A replication study conducted with two new groups of Spanish-Basque children (one group with high Basque proficiency and one group with a lower proficiency) indicated that the effects were not driven by the proficiency in the second language since a similar performance on legal and illegal patterns was observed in both groups. In Experiment 2, two groups of adults, monolinguals and Spanish-Basque bilinguals, were tested with the same task used in Experiment 1. The effect seen in children seems to be absent in adults. Spanish-Basque bilingual adults showed better overall learning performance than monolinguals, irrespective of the illegality of the items. Differences between groups could be due to the effect of having acquired literacy and linguistic competence.