bluuebunny/crossref_metadata_2025_split huggingface dataset:
Stuart Hall's Discursive Turn
Authors: GARCIA JAY 
Published: June 2019

Recalling his work as cofounder and contributor toUniversities and Left Review, or the ULR group, in the lead-up to the founding of cultural studies during the 1950s, Stuart Hall noted that much of that work had to do with the United States. “In geopolitical terms we were of course neutralists, hostile to the politics emanating from the State Department in Washington,” Hall wrote, “but culturally we were nonetheless attracted by the vitality of American popular life, indeed to the domain of mass culture itself.” If the ULR group and similar collectives shared an “anxiety about the stupendous power of the booming consumer capitalism of post-war America,” they were also united by an appreciation for the ways the “vitality and raucousness of American culture certainly loosened England's tight-lipped, hierarchical class cultures and carried inside it possibilities – or the collective dream? – for a better future, which we felt was a serious political loss to deny.” Not unrelatedly, by the 1960s and 1970s, cultural studies and certain quarters of American intellectual life were proceeding along comparable tracks. Many American scholars and at least some working in cultural studies moved toward social history that emphasized the “hidden experiences of subordinated groups and classes.” Undertaken in concert with the new social movements of the 1960s and 1970s, this version of social history would ramify widely, furnishing the very questions and analytic habits of many fields, not least American studies.
“The Grace of God” as evidence for a written Uthmanic archetype: the importance of shared orthographic idiosyncrasies
Authors: van Putten Marijn 
Published: June 2019

AbstractThis paper takes a novel approach to the question of when and how the text of the Quran was codified into its present form, usually referred to as the Uthmanic text type. In the Quran the phrase niʿmat allāh/rabbi-ka “the grace of god/your lord” can spell niʿmat “grace” either with tāʾ or tāʾ marbūṭah. By examining 14 early Quranic manuscripts, it is shown that this phrase is consistently spelled using only one of the two spellings in the same position in all of these different manuscripts. It is argued that such consistency can only be explained by assuming that all these manuscripts come from a single written archetype, meaning there must have been a codification project sometime in the first century. The results also imply that these manuscripts, and by extension, Quran manuscripts in general, were copied from written exemplars since the earliest days.
Evaluation of seminal vesicle volume variability in patients receiving radiotherapy to the prostate
Authors: Bairstow Rhianna , Cain Michelle , Reynolds Phil , Bridge Pete 
Published: June 2019

AbstractIntroduction:Prostate positional variability has been widely explored with seminal vesicle (SV) variability, coming into the forefront only in recent years. While planning target volume (PTV) margins and preparation protocols ameliorate the effects of bladder and rectum volume changes on prostate, studies on SV variation have looked at only position, not volume variability.Aim:The aim of this study was to investigate whether the inter-fraction volume variability of the VSs can exist in patients receiving radiotherapy to the prostate.Method:SV variability was investigated by comparing four on-treatment cone beam computer tomography scans to a planning computer tomography (CT) image for two patients receiving prostate radiotherapy. For each case, variation in volumes (cm3) was compared with intra-observer variation.Results:SV volume variability was seen in both patients, with the largest change in volume being 78·38%. This variance was considerably (between 2 and 10 times) larger than the measured intra-observer variance.Conclusion:This study identified the potential for daily SV volume variability in patients receiving prostate radiotherapy. Future large-scale studies are warranted to identify the extent of this motion and potential clinical impact. Evidence-informed PTV margins and possible SV volume control protocols may need to be adopted.
Early life adversity increases the salience of later life stress: an investigation of interactive effects in the PSID
Authors: Saxton Katherine , Chyu Laura 
Published: June 2019

AbstractA large body of evidence has shown that stress throughout life is associated with health trajectories, but the combination of adverse experiences at different stages of the life course is not yet well understood. This study examines the interactions between childhood adversity, adulthood adversity, and adult physical and mental health. Using data from The Childhood Retrospective Circumstances Study (CRCS) supplement to the Panel Study of Income Dynamics (PSID), we created indices of early life adversity (EAI) and adult adversity (AAI). We used logistic regression to examine the effects of EAI and AAI, adjusting for age, sex, race/ethnicity, health behaviors, and childhood health as covariates in all models. We repeated this analysis for the outcomes of fair/poor health, two or more chronic conditions, and psychological distress in adulthood. For all the three outcomes, our findings suggest increasing salience of adult adversity among those who experienced higher levels of early adversity. Individuals with high EAI and high AAI exhibited the highest odds of fair/poor health (OR = 5.71), chronic conditions (OR = 3.06), and psychological distress (OR = 13.08) compared to those with low EAI and low AAI. These findings are consistent with the accumulation of risk or dual risk model of stress and health. Adversity in childhood amplifies the health risks associated with stress in adulthood for multiple health outcomes.
Weed management practices in Argentina crops
Authors: Scursoni Julio Alejandro , Vera Alejandra Carolina Duarte , Oreja Fernando Hugo , Kruk Betina Claudia , de la Fuente Elba Beatriz 
Published: June 2019

AbstractData from surveys are used to help quantitatively diagnose the relative importance of chemical and nonchemical management practices, identify weed problems, and provide potential solutions. However, to our knowledge, such surveys have not been conducted in Argentina. In 2016, advisors and crop producers from cropping areas across Argentina were surveyed through email with the objectives to identify the main weed species problems and assess the use of chemical and nonchemical weed management practices in different crop production areas in Argentina. Fleabane, pigweed, johnsongrass, fingergrass, goosegrass, barnyardgrass, and ryegrass were considered the most important weeds. More than 53% of the producers used only chemical options; 86% used chemical fallow (i.e., keeping weed free with chemical application); 62% used full herbicide rates; 46% used proper herbicide timing; 41% used multiple modes of action; and 32% used rotation of herbicide modes of action. The main nonchemical practices used were crop rotation (45%); avoiding seed production during (31%) and after (25%) the crop cycle; narrow row spacing (19%); and cultivars with greater competitive ability (18%). Less than 15% of the people surveyed used increased crop densities or altered date of sowing. There is a high dependence on chemical control in the main crops grown in Argentina. Extension efforts are needed to emphasize the importance of integrated weed management.
Dynamics, EPMA Th‐U‐Total Pb Monazite Geochronology and Tectonic Implications of Deformational Fabric in the Lower‐Middle Crustal Rocks: A Case Study of Ambaji Granulite, NW India
Authors: Tiwari Sudheer Kumar , Biswal Tapas Kumar 
Published: June 2019

AbstractStrain fabric and monazite microstructure were studied and dated by Electron Probe Microanalyser (EPMA) in situ Th‐U‐total Pb monazite geochronology in the Ambaji granulite, South Delhi terrane, NW India. The Ambaji granulite comprises pelitic, calcareous, and mafic granulites with several phases of granite intrusions, G0‐3. The granulites were deformed by three phases of folding, F1–3, during South De lhi orogeny and marked by a subhorizontal pervasive fabric, S1, axial planar to isoclinal‐recumbent F1 folds that developed during granulite facies metamorphism. S1 is overprinted by discrete sets of subvertical shear zones associated with a mylonitic fabric, S2, that were developed axial planar to NE‐SW striking upright F2 folds and facilitated exhumation of granulite facies rocks to the upper crust. The shear zones show early history of high‐temperature thrust sense shear and late stage low‐temperature sinistral shear. The NW‐SE striking F3 folds also affected the granulite facies rocks resulting in interference patterns and variations in regional structural trends. Brittle strike slip, and normal fault (Sf fabric) that developed post F3, led the final exhumation of the granulite facies rocks to the surface. The S1 monazites are Y‐depleted and recrystallized through dislocation creep, and the S2‐Sf monazites are Y‐enriched and recrystallized through dissolution‐precipitation creep. Different monazite population yielded distinct ages of circa 875‐857, 834‐778, and 764‐650 Ma for S1, S2, and Sf strain, respectively, indicating that the South Delhi orogeny spanned 875‐650 Ma overlapping with the early phase of the Pan‐African orogeny or representing a transition between Grenvillian and Pan‐African orogeny.
Overlooked Genetic Diversity of Ammonia Oxidizing Archaea Lineages in the Global Oceans
Authors: Cheung Shunyan , Mak Wingkwan , Xia Xiaomin , Lu Yanhong , Cheung Yanyin , Liu Hongbin 
Published: June 2019

AbstractIn this study, we used miTAG approach to analyze the distributional pattern and fine‐scale genetic diversity of the ammonia oxidizing archaea (AOA) lineages in the global oceans with the metagenomics data sets of the Tara Oceans global expedition (2009–2013). Using the ammonium monooxygenase alpha subunit gene as a biomarker, the AOA communities in the global oceans were recovered with highly diverse operational taxonomic units that affiliated to previously defined clades, including water column A (WCA), water column B (WCB), and SCM1‐like clades. In general, the AOA communities were obviously segregated with depth (except the upwelling regions), and the communities in the euphotic zones were more heterogeneous than in the mesopelagic zones (MPZs). The WCA distributed more evenly and widely in the euphotic zone and MPZs, while WCB and SCM1‐like clade mainly distributed in MPZ and high‐latitude waters, respectively. At fine‐scale genetic diversity, SCM1‐like and 2 WCA subclades showed distinctive niche separations of distributional pattern. We further divided the AOA subclades into ecological significant taxonomic units (ESTUs), which were delineated from the distribution pattern of their corresponding subclades. For example, ESTUs of WCA have different correlations with depth, nitrate to silicate ratio, and salinity; SCM1‐like A was negatively correlated with irradiation, whereas other SCM1‐like ESTUs preferred low‐temperature and high‐nutrient conditions. Our result showed that the previously defined AOA clades and ecotypes consist of highly diverse sublineages, whose diversity might be overlooked in the past. The distribution patterns of different ESTUs imply their ecophysiological characteristics and potential roles in biogeochemical cycling.
Simulation and Observations of the Polar Tongue of Ionization at Different Heights During the 2015 St. Patrick's Day Storms
Authors: Klimenko Maxim V. , Zakharenkova Irina E. , Klimenko Vladimir V. , Lukianova Renata Yu. , Cherniak Iurii V. 
Published: June 2019

AbstractWe present the observational and modeling study focused on the major factors determining the spatiotemporal structure of the high‐latitude ionospheric plasma density enhancement—the tongue of ionization (TOI) structure—during the 2015 St. Patrick's Day geomagnetic storm. We use the Global Self‐consistent Model of the Thermosphere, Ionosphere, Protonosphere (GSM TIP) to reproduce the plasma density distribution, and the results are compared with the observational data as deduced from the ground‐based global positioning system total electron content and in situ plasma probe measurements at different altitudes. Both the simulation and observation results show that a large‐scale TOI‐like structure of enhanced plasma density extends from the dayside midlatitude region toward the central polar cap along the antisunward cross‐polar convection flow. We reveal an important role of the clockwise convection cell rotation for the modification of TOI structure. According to model results during the storm main phase, the neutral thermospheric composition, particularly the “tongue” in n(N2), modifies the spatial structure of TOI in such a way that (1) the near‐pole region of enhanced plasma density is shifted to the duskside and, (2) at F region heights, the TOI is split into the dusk and dawn branches. The signature of TOI in the topside ionosphere considerably differs from that in the F region because of a lesser influence of the neutral composition changes at higher altitudes. Model results revealed that at plasmaspheric heights, the TOI structure appears in both the dawn and dusk convection cells.
Disentangling the Effects of Temperature, Moisture, and Substrate Availability on Soil CO2 Efflux
Authors: Mitra Bhaskar , Miao Guofang , Minick Kevan , McNulty Steve G. , Sun Ge , Gavazzi Michael , King John S. , Noormets Asko 
Published: June 2019

AbstractSoil respiration (Rs), the largest carbon emission flux in ecosystems, is usually modeled as an empirically parameterized function of temperature, and sometimes water availability. The likely contribution by other factors, such as carbohydrate substrate supply from photosynthesis, has been recognized, but modeling capacity to use this information is limited. Wavelet transformations of the residuals of a seasonal Q10 temperature response model indicated structure at different temporal scales. We hypothesize that this indicates the lack of explicit representation of relevant processes in the models. Using cross‐spectral analysis, we found that time series of photosynthetically active radiation explained most of the diurnal variation, temperature, explained variability at multiple time scales (diurnal‐synoptic), whereas volumetric soil water content correlated with variability in Rs at scales 15‐30 days. The results suggest that the time domains of influence for different driving variables of Rs are discrete, and largely nonoverlapping, and represent functional relationships between soil biological activity and its constraints. Analysis of phase angles showed that Rs lagged photosynthetically active radiation by 1.5‐3.0 hr. As this time lag was the same in both young and mature trees, with more than fivefold difference in transport distances, we hypothesize that this finding adds to the body of literature that support the pressure‐concentration‐wave model of carbohydrate availability in plants.
Expression of UPR effector proteins ATF6 and XBP1 reduce colorectal cancer cell proliferation and stemness by activating PERK signaling
Authors: Spaan Claudia N. , Smit Wouter L. , van Lidth de Jeude Jooske F. , Meijer Bartolomeus J. , Muncan Vanesa , van den Brink Gijs R. , Heijmans Jarom 
Published: June 2019

AbstractThe unfolded protein response (UPR) acts through its downstream branches, PERK-eIF2α signaling, IRE1α-XBP1 signaling and ATF6 signaling. In the intestine, activation of the UPR through the kinase PERK results in differentiation of intestinal epithelial stem cells and colon cancer stem cells, whereas deletion of XBP1 results in increased stemness and adenomagenesis. How downstream activation of XBP1 and ATF6 influences intestinal stemness and proliferation remains largely unknown. We generated colorectal cancer cells (LS174T) that harbor doxycycline inducible expression of the active forms of either XBP1(s) or ATF61-373. Activation of either XBP1 or ATF6 resulted in reduced cellular proliferation and reduced expression of markers of intestinal epithelial stemness. Moreover, XBP1 and ATF6 activation reduced global protein synthesis and lowered the threshold for UPR activation. XBP1-mediated loss of stemness and proliferation resulted from crossactivation of PERK-eIF2α signaling and could be rescued by constitutive expression of eIF2α phosphatase GADD34. We thus find that enforced activation of XBP1 and ATF6 results in reduction of stemness and proliferation. We expose a novel interaction between XBP1 and PERK-eIF2α signaling.
Site-selectively generated photon emitters in monolayer MoS2 via local helium ion irradiation
Authors: Klein J. , Lorke M. , Florian M. , Sigger F. , Sigl L. , Rey S. , Wierzbowski J. , Cerne J. , Müller K. , Mitterreiter E. , Zimmermann P. , Taniguchi T. , Watanabe K. , Wurstbauer U. , Kaniber M. , Knap M. , Schmidt R. , Finley J. J. , Holleitner A. W. 
Published: June 2019

AbstractQuantum light sources in solid-state systems are of major interest as a basic ingredient for integrated quantum photonic technologies. The ability to tailor quantum emitters via site-selective defect engineering is essential for realizing scalable architectures. However, a major difficulty is that defects need to be controllably positioned within the material. Here, we overcome this challenge by controllably irradiating monolayer MoS2 using a sub-nm focused helium ion beam to deterministically create defects. Subsequent encapsulation of the ion exposed MoS2 flake with high-quality hBN reveals spectrally narrow emission lines that produce photons in the visible spectral range. Based on ab-initio calculations we interpret these emission lines as stemming from the recombination of highly localized electron–hole complexes at defect states generated by the local helium ion exposure. Our approach to deterministically write optically active defect states in a single transition metal dichalcogenide layer provides a platform for realizing exotic many-body systems, including coupled single-photon sources and interacting exciton lattices that may allow the exploration of Hubbard physics.
Topologically-guided continuous protein crystallization controls bacterial surface layer self-assembly
Authors: Comerci Colin J. , Herrmann Jonathan , Yoon Joshua , Jabbarpour Fatemeh , Zhou Xiaofeng , Nomellini John F. , Smit John , Shapiro Lucy , Wakatsuki Soichi , Moerner W. E. 
Published: June 2019

AbstractMany bacteria and most archaea possess a crystalline protein surface layer (S-layer), which surrounds their growing and topologically complicated outer surface. Constructing a macromolecular structure of this scale generally requires localized enzymatic machinery, but a regulatory framework for S-layer assembly has not been identified. By labeling, superresolution imaging, and tracking the S-layer protein (SLP) from C. crescentus, we show that 2D protein self-assembly is sufficient to build and maintain the S-layer in living cells by efficient protein crystal nucleation and growth. We propose a model supported by single-molecule tracking whereby randomly secreted SLP monomers diffuse on the lipopolysaccharide (LPS) outer membrane until incorporated at the edges of growing 2D S-layer crystals. Surface topology creates crystal defects and boundaries, thereby guiding S-layer assembly. Unsupervised assembly poses challenges for therapeutics targeting S-layers. However, protein crystallization as an evolutionary driver rationalizes S-layer diversity and raises the potential for biologically inspired self-assembling macromolecular nanomaterials.
Minimal exposure of lipid II cycle intermediates triggers cell wall antibiotic resistance
Authors: Piepenbreier Hannah , Diehl Angelika , Fritz Georg 
Published: June 2019

AbstractCell wall antibiotics are crucial for combatting the emerging wave of resistant bacteria. Yet, our understanding of antibiotic action is limited, as many strains devoid of all resistance determinants display far higher antibiotic tolerance in vivo than suggested by the antibiotic-target binding affinity in vitro. To resolve this conflict, here we develop a comprehensive theory for the bacterial cell wall biosynthetic pathway and study its perturbation by antibiotics. We find that the closed-loop architecture of the lipid II cycle of wall biosynthesis features a highly asymmetric distribution of pathway intermediates, and show that antibiotic tolerance scales inversely with the abundance of the targeted pathway intermediate. We formalize this principle of minimal target exposure as intrinsic resistance mechanism and predict how cooperative drug-target interactions can mitigate resistance. The theory accurately predicts the in vivo efficacy for various cell wall antibiotics in different Gram-positive bacteria and contributes to a systems-level understanding of antibiotic action.
Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism
Authors: Mitterer Valentin , Shayan Ramtin , Ferreira-Cerca Sébastien , Murat Guillaume , Enne Tanja , Rinaldi Dana , Weigl Sarah , Omanic Hajrija , Gleizes Pierre-Emmanuel , Kressler Dieter , Plisson-Chastang Celia , Pertschy Brigitte 
Published: June 2019

AbstractEukaryotic ribosomes are synthesized in a hierarchical process driven by a plethora of assembly factors, but how maturation events at physically distant sites on pre-ribosomes are coordinated is poorly understood. Using functional analyses and cryo-EM, we show that ribosomal protein Rps20 orchestrates communication between two multi-step maturation events across the pre-40S subunit. Our study reveals that during pre-40S maturation, formation of essential contacts between Rps20 and Rps3 permits assembly factor Ltv1 to recruit the Hrr25 kinase, thereby promoting Ltv1 phosphorylation. In parallel, a deeply buried Rps20 loop reaches to the opposite pre-40S side, where it stimulates Rio2 ATPase activity. Both cascades converge to the final maturation steps releasing Rio2 and phosphorylated Ltv1. We propose that conformational proofreading exerted via Rps20 constitutes a checkpoint permitting assembly factor release and progression of pre-40S maturation only after completion of all earlier maturation steps.
Convergent genomic signatures of flight loss in birds suggest a switch of main fuel
Authors: Pan Shengkai , Lin Yi , Liu Qiong , Duan Jinzhi , Lin Zhenzhen , Wang Yusong , Wang Xueli , Lam Sin Man , Zou Zhen , Shui Guanghou , Zhang Yu , Zhang Zhengwang , Zhan Xiangjiang 
Published: June 2019

AbstractFlight loss in birds is as characteristic of the class Aves as flight itself. Although morphological and physiological differences are recognized in flight-degenerate bird species, their contributions to recurrent flight degeneration events across modern birds and underlying genetic mechanisms remain unclear. Here, in an analysis of 295 million nucleotides from 48 bird genomes, we identify two convergent sites causing amino acid changes in ATGLSer321Glyand ACOT7Ala197Valin flight-degenerate birds, which to our knowledge have not previously been implicated in loss of flight. Functional assays suggest that Ser321Gly reduces lipid hydrolytic ability of ATGL, and Ala197Val enhances acyl-CoA hydrolytic activity of ACOT7. Modeling simulations suggest a switch of main energy sources from lipids to carbohydrates in flight-degenerate birds. Our results thus suggest that physiological convergence plays an important role in flight degeneration, and anatomical convergence often invoked may not.