bluuebunny/crossref_metadata_2025_split huggingface dataset:
An Empirical Examination of Dominant Height Projection Accuracy Using Difference Equation Models
Authors: Wang Mingliang , Montes Cristian R , Bullock Bronson P , Zhao Dehai 
Published: December 2019

Abstract
Site index models developed using the difference equation method, otherwise known as the algebraic difference approach (ADA) along with its generalization (GADA), play an important role in forest growth and yield modeling for operational use. Their projection accuracy tends to be reduced over increasing time intervals, a common modeling phenomenon not yet well understood. In this study, dominant height projections given one single prior observation using three (G)ADA models were examined in relation to pairwise height correlations on an empirical dataset consisting of height remeasurements taken on permanent plots of a second-rotation loblolly pine (Pinus taeda L.) plantation experimental study. The results indicated that the decline in projection accuracy in terms of RMSE or Rp2 (analogical to the coefficient of determination R2) with increasing time intervals is closely associated with the weakening correlations imbedded in distant height remeasurements. The squared coefficient of correlation (ρ2) between paired heights can be set as an upper bound of Rp2 in (G)ADA model prediction of heights conditional on prior observations. An examination of correlation over time interval will be informative of how projection accuracy is likely to change and what the maximal Rp2 might be for any potential (G)ADA model to be developed.
Crustal velocity structure across the Orphan Basin and Orphan Knoll to the continent–ocean transition, offshore Newfoundland, Canada
Authors: Welford J Kim , Dehler Sonya A , Funck Thomas 
Published: December 2019

SUMMARYOrphan Basin, a massive deepwater rifted basin off the northeastern coast of Newfoundland, was one of the targets of the 2009 SIGNAL (Seismic Investigations off Greenland, Newfoundland and Labrador) experiment to collect refraction/wide-angle reflection (RWAR) data from the Bonavista Platform, through the Orphan Basin, to the Orphan Knoll, and beyond into oceanic crust. Both the data from an earlier RWAR acquisition and the new data were jointly analysed in order to improve on the earlier velocity model and extend its coverage landward and seaward. The resulting velocity model is characterized by an 8–9-km-thick sedimentary package immediately outboard of the Bonavista Platform, which thins toward the Orphan Knoll and beyond. The shallowest modelled sedimentary layer, interpreted as Paleocene and younger post-rift sediments, does not show significant thickness variations and velocities do not exceed 3.3 km s–1. The second modelled sedimentary layer with laterally variable velocities ranging from 2.3 to 5.3 km s–1, interpreted as Late Cretaceous post-rift sediments, is thickest over an interpreted failed rift. The deepest modelled sedimentary layer consists of laterally variable velocities that do not exceed 5.9 km s–1 and is interpreted as possibly Jurassic to Early Cretaceous syn-rift sediments. The crust beneath the Bonavista Platform is subdivided into an upper (5.4–5.9 km s–1), middle (5.9–6.4 km s–1) and lower crust (6.4–6.9 km s–1). The middle crust is modelled as disappearing beneath the seaward limit of the Bonavista Platform at an interpreted failed rift, only to re-appear 100 km further seaward beneath the central Orphan Basin and extend to the seaward limit of the Orphan Knoll, beyond which the crust can be modelled by just an upper (5.0–6.7 km s–1) and a lower (6.7–7.0 km s–1) crustal layer. Towards land, for the first 450 km of the model, velocities generally follow the globally averaged velocity trend for rifted continental crust, albeit with slightly elevated velocities suggestive of magmatic contributions. At the failed rift, within the continental domain, hyperextended crust is modelled, overlying a limited zone of serpentinized mantle. Seaward of Orphan Knoll, the interpretation for the velocity structure is less definitive but an 80-km-wide continent–ocean transition zone consisting of either transitional embryonic oceanic crust or thinned continental crust overlying serpentinized mantle is proposed. Upper mantle velocities as low as 7.7 km s–1 are modelled beneath the interpreted failed continental rift as well as beneath the continent–ocean transition zone, while the rest of the crustal model is underlain by typical mantle velocities of 8 km s–1. Analysis of extension and thinning factors based on the velocity model reveal that the failed rift experienced hyperextension and should have achieved full crustal embrittlement, consistent with localized mantle serpentinization.
The EVITA framework for evidence-based mental health policy agenda setting in low- and middle-income countries
Authors: Votruba Nicole , Grant Jonathan , Thornicroft Graham 
Published: December 2019

Abstract
The burden of mental illness is excessive, but many countries lack evidence-based policies to improve practice. Mental health research evidence translation into policymaking is a ‘wicked problem’, often failing despite a robust evidence base. In a recent systematic review, we identified a gap in frameworks on agenda setting and actionability, and pragmatic, effective tools to guide action to link research and policy are needed. Responding to this gap, we developed the new EVITA 1.1 (EVIdence To Agenda setting) conceptual framework for mental health research–policy interrelationships in low- and middle-income countries (LMICs). We (1) drafted a provisional framework (EVITA 1.0); (2) validated it for specific applicability to mental health; (3) conducted expert in-depth interviews to (a) validate components and mechanisms and (b) assess intelligibility, functionality, relevance, applicability and effectiveness. To guide interview validation, we developed a simple evaluation framework. (4) Using deductive framework analysis, we coded and identified themes and finalized the framework (EVITA 1.1). Theoretical agenda-setting elements were added, as targeting the policy agenda-setting stage was found to lead to greater policy traction. The framework was validated through expert in-depth interviews (n = 13) and revised. EVITA 1.1 consists of six core components [advocacy coalitions, (en)actors, evidence generators, external influences, intermediaries and political context] and four mechanisms (capacity, catalysts, communication/relationship/partnership building and framing). EVITA 1.1 is novel and unique because it very specifically addresses the mental health research–policy process in LMICs and includes policy agenda setting as a novel, effective mechanism. Based on a thorough methodology, and through its specific design and mechanisms, EVITA has the potential to improve the challenging process of research evidence translation into policy and practice in LMICs and to increase the engagement and capacity of mental health researchers, policy agencies/planners, think tanks, NGOs and others within the mental health research–policy interface. Next, EVITA 1.1 will be empirically tested in a case study.
Generating Functionals for Locally Compact Quantum Groups
Authors: Skalski Adam , Viselter Ami 
Published: December 2019

Abstract
Every symmetric generating functional of a convolution semigroup of states on a locally compact quantum group is shown to admit a dense unital *-subalgebra with core-like properties in its domain. On the other hand we prove that every normalised, symmetric, hermitian conditionally positive functional on a dense *-subalgebra of the unitisation of the universal C$^*$-algebra of a locally compact quantum group, satisfying certain technical conditions, extends in a canonical way to a generating functional. Some consequences of these results are outlined, notably those related to constructing cocycles out of convolution semigroups.
Discordances between molecular assays for rifampicin resistance in Mycobacterium tuberculosis: frequency, mechanisms and clinical impact
Authors: Van Rie Annelies , Whitfield Michael G , De Vos Elise , Scott Lesley , Da Silva Pedro , Hayes Cindy , Heupink Tim H , Sirgel Frederick A , Stevens Wendy , Warren Robin M 
Published: December 2019

Abstract

Background
Molecular assays are endorsed for detection and confirmation of rifampicin-resistant TB. The frequency, causal mechanisms and impact of discordant results between molecular tests are not well understood.

Methods
The prevalence of discordant results was determined by pairwise comparison of molecular test results in a cohort of 749 rifampicin-resistant TB patients in three South African provinces. Culture isolates were sent to a research laboratory for WGS and rifampicin MIC determination. Clinical information was collected through medical file review.

Results
The prevalence of discordances between Xpert MTB/RIF and MTBDRplus was 14.5% (95% CI 10.9%–18.9%), 5.6% (95% CI 2.2%–13.4%) between two consecutive Xpert assays and 4.2% (95% CI 2.2%–7.8%) between two consecutive MTBDRplus assays. Likely mechanisms of discordances were false rifampicin susceptibility on MTBDRplus (due to variants not included in mutant probes or heteroresistance with loss of minor variants in culture), false resistance on molecular assay in rifampicin-susceptible isolates, and human error. The healthcare worker changed the treatment regimen in 33% of patients with discordant results and requested 232 additional molecular tests after a first confirmatory test was performed in 460 patients. A follow-up Xpert assay would give the healthcare worker the ‘true’ rifampicin-resistant TB diagnosis in at least 73% of discordant cases.

Conclusions
The high rate of discordant results between Xpert and MTBDRplus has important implications for the laboratory, clinician and patient. While root causes for discordant result are multiple, a follow-up Xpert assay could guide healthcare workers to the correct treatment in most patients.
Polymorphism in the ovine keratin-associated protein gene KRTAP7-1 and its association with wool characteristics
Authors: Ullah Farman , Jamal Syed M , Ekegbu Ugonna J , Haruna Ishaku L , Zhou Huitong , Hickford Jon G H 
Published: December 2019

Abstract
The keratin-associated proteins (KAPs) are structural components of wool fibers and variation in the genes encoding the KAPs can affect wool traits. In this study, sequence variation in the ovine KAP7-1 gene (KRTAP7-1) was investigated in 222 sheep across 5 different Pakistani breeds and breed crosses. Two previously identified variants (A and B) of the KRTAP7-1 coding sequence were identified. The frequency of the genotypes AA and AB was 76% and 23%, respectively, and that of BB was 1%. The association of sequence variation with various wool traits and measurements included yield (the proportion of greasy fleece weight that is clean fleece), mean staple length (MSL), wool bulk, mean fiber diameter, fiber diameter SD, the coefficient of variation of fiber diameter, medullation, the SD of medullation, the coefficient of variation of medullation, fiber opacity, the SD of opacity, and the coefficient of variation of opacity. Variation in KRTAP7-1 was found to be associated with yield (P = 0.017). The adjusted mean yield of sheep of genotype AA (n = 169) was 79.9 ± 2.72%, while that of genotype AB (n = 51) was 81.9 ± 3.37%. There was also an association between variation in KRTAP7-1 and MSL (P = 0.024), with sheep of genotype AA (n = 169) having an adjusted mean MSL of 47.3 ± 0.57 mm compared with sheep of genotype AB (n = 51, 50.9 ± 0.65 mm). Yield and MSL are both important wool production traits, hence variation in KRTAP7-1 needs to be further investigated in more sheep of differing breed.
Involvement of the chloroplast gene ferredoxin 1 in multiple responses of Nicotiana benthamiana to Potato virus X infection
Authors: Yang Xue , Lu Yuwen , Wang Fang , Chen Ying , Tian Yanzhen , Jiang Liangliang , Peng Jiejun , Zheng Hongying , Lin Lin , Yan Chengqi , Taliansky Michael , MacFarlane Stuart , Wu Yuanhua , Chen Jianping , Yan Fei 
Published: December 2019

AbstractThe chloroplast protein ferredoxin 1 (FD1), with roles in the chloroplast electron transport chain, is known to interact with the coat proteins (CPs) of Tomato mosaic virus and Cucumber mosaic virus. However, our understanding of the roles of FD1 in virus infection remains limited. Here, we report that the Potato virus X (PVX) p25 protein interacts with FD1, whose mRNA and protein levels are reduced by PVX infection or by transient expression of p25. Silencing of FD1 by Tobacco rattle virus-based virus-induced gene silencing (VIGS) promoted the local and systemic infection of plants by PVX. Use of a drop-and-see (DANS) assay and callose staining revealed that the permeability of plasmodesmata (PDs) was increased in FD1-silenced plants together with a consistently reduced level of PD callose deposition. After FD1 silencing, quantitative reverse transcription–real-time PCR (qRT–PCR) analysis and LC-MS revealed these plants to have a low accumulation of the phytohormones abscisic acid (ABA) and salicylic acid (SA), which contributed to the decreased callose deposition at PDs. Overexpression of FD1 in transgenic plants manifested resistance to PVX infection, but the contents of ABA and SA, and the PD callose deposition were not increased in transgenic plants. Overexpression of FD1 interfered with the RNA silencing suppressor function of p25. These results demonstrate that interfering with FD1 function causes abnormal plant hormone-mediated antiviral processes and thus enhances PVX infection.
Pyrifenox, an ergosterol inhibitor, differentially affects Cryptococcus neoformans and Cryptococcus gattii
Authors: Silva Vanessa K A , May Robin C , Rodrigues Marcio L 
Published: December 2019

AbstractCryptococcosis is a life-threatening fungal infection. New therapeutic approaches are necessary to combat cryptococcosis, as the currently available therapeutic protocols are expensive and generally result in deleterious side effects. Pyrifenox is an antifungal compound that affects phytopathogens by inhibiting the biosynthesis of ergosterol. In this study, we investigated the effects of pyrifenox on Cryptococcus neoformans and Cryptococcus gattii growth, capsule architecture and export of the major capsule component, glucuroxylomannan (GXM). Pyrifenox inhibited the growth of C. neoformans, but was significantly less effective against C. gattii. The resistance of C. gattii to pyrifenox was associated with the expression of efflux pump genes, particularly AFR1 and AFR2, since mutant cells lacking expression of these genes became sensitive to pyrifenox. Analysis of the cryptococcal capsule by India ink counterstaining, immunofluorescence, and scanning electron microscopy showed that pyrifenox affected capsular dimensions in both species. However, GXM fibers were shorter and uniformly distributed in C. neoformans, whereas in C. gattii the number of fibers was reduced. Pyrifenox-treated C. gattii developed unusually long chains of undivided cells. The secretion of GXM was markedly reduced in both species after treatment with pyrifenox. Altogether, the results indicated that pyrifenox differently affects C. neoformans and C. gattii. In addition, it highlights a potential role for pyrifenox as an inhibitor of GXM export in experimental models involving pathogenic cryptococci.
The disc-like host galaxies of radio-loud narrow-line Seyfert 1s
Authors: Olguín-Iglesias Alejandro , Kotilainen Jari , Chavushyan Vahram 
Published: December 2019

ABSTRACT
Until recently, relativistic jets were ubiquitously found to be launched from giant elliptical galaxies. However, the detection by the Fermi-LAT of γ-ray emission from radio-loud narrow-line Seyfert 1 (RL-NLSy1) galaxies raised doubts on this relation. Here, we morphologically characterize a sample of 29 RL-NLSy1s (including 12 γ-emitters, γ-NLSy1s) in order to find clues on the conditions needed by active galactic nuclei (AGNs) to produce relativistic jets. We use deep near-infrared images from the Nordic Optical Telescope and the ESO VLT to analyse the surface brightness distribution of the galaxies in the sample. We detected 72 per cent of the hosts (24 per cent classified as γ-NLSy1s). Although we cannot rule out that some RL-NLSy1s are hosted by dispersion-supported systems, our findings strongly indicate that RL-NLSy1 hosts are preferentially disc galaxies. 52 per cent of the resolved hosts (77 per cent non-γ-emitters and 20 per cent γ-emitters) show bars with morphological properties (long and weak) consistent with models that promote gas inflows, which might trigger nuclear activity. The extremely red bulges of the γ-NLSy1s, and features that suggest minor mergers in 75 per cent of their hosts, might hint to the necessary conditions for γ-rays to be produced. Among the features that suggest mergers in our sample, we find six galaxies that show offset stellar bulges with respect to their AGNs. When we plot the nuclear versus the bulge magnitude, RL-NLSy1s locate in the low-luminosity end of flat spectrum radio quasars, suggesting a similar accretion mode between these two AGN types.
Monte Carlo simulations of relativistic radiation-mediated shocks: II. photon-starved regime
Authors: Ito Hirotaka , Levinson Amir , Nagataki Shigehiro 
Published: December 2019

ABSTRACT
Radiation-mediated shocks (RMS) play a key role in shaping the early emission observed in many transients. In most cases, e.g. shock breakout in supernovae, llGRBs, and neutron star mergers, the upstream plasma is devoid of radiation, and the photons that ultimately reach the observer are generated predominantly inside and downstream of the shock. Predicting the observed spectrum requires detailed calculations of the shock structure and thermodynamic state that account properly for the shock microphysics. We present results of self-consistent Monte Carlo simulations of photon-starved RMS, which yield the shock structure and emission for a broad range of shock velocities, from subrelativistic (βsh = 0.1) to highly relativistic (Γsh = 20). Our simulations confirm that in relativistic RMS the immediate downstream temperature is regulated by exponential pair creation, ranging from 50 keV at βsh = 0.5–200 keV at Γsh = 20. At lower velocities, the temperature becomes sensitive to the shock velocity, with kT ∼ 0.5 keV at βsh = 0.1. We also confirm that in relativistic shocks the opacity is completely dominated by newly created pairs, which has important implications for the breakout physics. We find the transition to pair dominance to occur at βsh = 0.5 roughly. In all cases examined, the spectrum below the νFν peak has been found to be substantially softer than the Planck distribution. This has important implications for the optical emission in fast and relativistic breakouts, and their detection. The applications to GRB 060218 and GRB 170817A are discussed.
Initial Experience in a Pig Model of Robotic-Assisted Intracranial Arteriovenous Malformation (AVM) Embolization
Authors: Desai Virendra R , Lee Jonathan J , Tomas Johnny , Lumsden Alan , Britz Gavin W 
Published: December 2019

Abstract

BACKGROUND
Robotic assistance for coronary and peripheral vascular pathologies is steadily gaining popularity. However, it has yet to be applied to neurovascular intervention.

OBJECTIVE
To establish the feasibility of the CorPath® GRX robotic-assisted platform (Corindus Inc, Waltham, Massachusetts) for intracranial arteriovenous malformation (AVM) embolization.

METHODS
This robotic system was used to embolize intracranial AVMs (n = 4) in 2 anesthetized pigs, under controlled conditions appropriate for clinical intervention. Initially, a catheter was manually introduced into the common carotid artery (CCA). Then, the robotic system was used to advance the catheter into the ascending pharyngeal artery (APA) towards the rete mirabilis, which was used as a model for an AVM, using 0.014 in guidewires and 2.4F/1.7F microcatheters. After doing a pre-embolization APA run, which demonstrated good visualization of the rete, dimethyl sulfoxide (DMSO) was instilled into the microcatheter. A negative roadmap was then done, and Onyx was used to embolize the rete.

RESULTS
All 4 AVMs were completely obliterated with no complications, including no contrast extravasation, dissection, thrombosis, or other vascular injury.

CONCLUSION
This study is the first to demonstrate the feasibility of a robotic-assisted platform for intracranial AVM embolization.
Altered T cell plasticity favours Th17 cells in early arthritis
Authors: Leipe Jan , Pirronello Fausto , Schulze-Koops Hendrik , Skapenko Alla 
Published: December 2019

AbstractObjectivesThe predominance of differentiated Th17 cells has been implied as a key driver of autoimmune arthritis, including early RA. Because accumulating evidence suggests that Th cell differentiation is a plastic process, we investigated plasticity and underlying molecular mechanisms to address the shift towards the Th17 phenotype in early RA.MethodsA cohort of 61 patients with early, active, untreated RA and 45 age- and sex-matched healthy controls were studied. Viable in vitro- and in vivo-generated Th1, Th2 and Th17 cells were FACS-sorted and transdifferentiated under Th1-, Th2- or Th17-inducing conditions. The cytokine Th profile of the transdifferentiated cells was assessed by flow cytometry. Th cell-associated cytokine and transcription factor gene loci were analysed by chromatin immunoprecipitation assay and their expression by quantitative real-time PCR.ResultsIn vitro-generated Th cells showed substantial plasticity, which was similar between RA and healthy controls, whereas in vivo-derived Th1 and Th2 cells from RA patients demonstrated an enhanced plasticity towards IL-17-expressing phenotypes compared with healthy controls. Further, in vivo-generated Th17 cells from RA patients showed a resistance to transdifferentiate into Th1 or Th2 cells. The serum/glucocorticoid-regulated kinase 1–forkhead box protein O1–IL-23 receptor (SGK1–FOXO1–IL-23R) axis together with increased RORC expression was associated with the predominant Th17 phenotype in early RA.ConclusionsOur data indicate that in vivo-originated Th subsets are prone to Th17 cell transdifferentiation in early RA, while Th17 cells are resistant to changes in their phenotype. Together, the data imply that an altered plasticity contributes to the Th17 shift in early RA.
ASSESSMENT OF NATURAL RADIOACTIVITY LEVELS AND RADIOLOGICAL HAZARDS IN BUILDING MATERIALS
Authors: Tuo Fei , Peng Xuan , Zhou Qiang , Zhang Jing 
Published: December 2019

Abstract
Radioactivity of 226Ra, 232Th, and 40K were measured in a total of 92 samples, including eight commonly used types of building materials that were obtained from local manufacturers and suppliers in Beijing. Concentrations were determined using high-purity germanium gamma-ray spectrometry. The 226Ra, 232Th, and 40K activity concentrations in all samples varied from 10.1 to 661, 3.3 to 555 and 3.2 to 2945 Bq per kg with an average of 127.8, 114.8, and 701.5 Bq per kg, respectively. The potential radiological hazards were estimated by calculating the absorbed dose rate (D), radium equivalent activity (Raeq), external hazard (Hex), and internal hazard (Hin) indices. The investigated building materials were classified into different types according to the radioactivity levels. Results from this research will provide a reference for the acquisition, sales, and use of building materials. Attention should be paid to the use of coal cinder brick, ceramic, and granite in the construction of dwellings.