bluuebunny/crossref_metadata_2025_split huggingface dataset:
Soil Carbon and CO2 Efflux as Influenced by the Thinning of Loblolly Pine (Pinus taeda L.) Plantations on the Piedmont of Virginia
Authors: Selig Marcus F. , Seiler John R. , Tyree Michael C. 
Published: February 2021

Abstract
The thinning of loblolly pine plantations has a great potential to influence the fluxes and storage of carbon within managed stands. In this study we investigated the effects of thinning on mineral soil carbon distribution and storage 14 years after the thinning of an 8-year-old loblolly pine plantation on the Piedmont of Virginia. Additionally, we examined patterns of soil CO2 efflux (Es) for 1 year after the second thinning of the same stands at age 22. The study was conducted using three replicate 0.22-ha stands planted using 3.05 × 3.05 m spacing in 1980. Soil carbon in the fine soil fraction (&lt;2 mm) was evenly dispersed throughout thinned plots, and random sampling techniques were adequate for capturing spatial variability. Soil carbon decreased with depth, was higher at all depths in thinned stands, and was significantly higher (P = 0.06) at the 10- to 20-cm depth in the thinned stands (1.04%) compared with unthinned stands (0.76%). Soil temperature was approximately 1–2°C warmer in the growing season and 1°C cooler in the dormant season in thinned stands. Soil moisture was consistently higher in thinned stands by approximately 5%. Temperature was positively and significantly correlated with Es in thinned and unthinned stands. When modeled using regression, thinning was a significant variable for predicting Es (P &lt; 0.0009) but explained less than 1% of the variation. Whereas thinning decreased Es when standardized to a constant temperature, actual Es was elevated in thinned stands because of higher soil temperature.
Leveraging the cell lineage to predict cell-type specificity of regulatory variation from bulk genomics
Authors: Yankovitz Gal , Cohn Ofir , Bacharach Eran , Peshes-Yaloz Naama , Steuerman Yael , Iraqi Fuad A , Gat-Viks Irit 
Published: February 2021

Abstract
Recent computational methods have enabled the inference of the cell-type-specificity of eQTLs based on bulk transcriptomes from highly heterogeneous tissues. However, these methods are limited in their scalability to highly heterogeneous tissues and limited in their broad applicability to any cell-type specificity of eQTLs. Here we present and demonstrate Cell Lineage Genetics (CeL-Gen), a novel computational approach that allows inference of eQTLs together with the subsets of cell types in which they have an effect, from bulk transcriptome data. To obtain improved scalability and broader applicability, CeL-Gen takes as input the known cell lineage tree and relies on the observation that dynamic changes in genetic effects occur relatively infrequently during cell differentiation. CeL-Gen can therefore be used not only to tease apart genetic effects derived from different cell types but also to infer the particular differentiation steps in which genetic effects are altered.
N- and C-terminal Gln3–Tor1 interaction sites: one acting negatively and the other positively to regulate nuclear Gln3 localization
Authors: Tate Jennifer J , Rai Rajendra , De Virgilio Claudio , Cooper Terrance G 
Published: February 2021

Abstract
Gln3 activates Nitrogen Catabolite Repression, NCR-sensitive expression of the genes required for Saccharomyces cerevisiae to scavenge poor nitrogen sources from its environment. The global TorC1 kinase complex negatively regulates nuclear Gln3 localization, interacting with an α-helix in the C-terminal region of Gln3, Gln3656–666. In nitrogen replete conditions, Gln3 is sequestered in the cytoplasm, whereas when TorC1 is down-regulated, in nitrogen restrictive conditions, Gln3 migrates into the nucleus. In this work, we show that the C-terminal Gln3–Tor1 interaction site is required for wild type, rapamycin-elicited, Sit4-dependent nuclear Gln3 localization, but not for its dephosphorylation. In fact, truncated Gln31-384 can enter the nucleus in the absence of Sit4 in both repressive and derepressive growth conditions. However, Gln31-384 can only enter the nucleus if a newly discovered second positively-acting Gln3–Tor1 interaction site remains intact. Importantly, the N- and C-terminal Gln3–Tor1 interaction sites function both autonomously and collaboratively. The N-terminal Gln3–Tor1 interaction site, previously designated Gln3URS contains a predicted α-helix situated within an unstructured coiled-coil region. Eight of the thirteen serine/threonine residues in the Gln3URS are dephosphorylated 3–15-fold with three of them by 10–15-fold. Substituting phosphomimetic aspartate for serine/threonine residues in the Gln3 URS abolishes the N-terminal Gln3–Tor1 interaction, rapamycin-elicited nuclear Gln3 localization, and ½ of the derepressed levels of nuclear Gln3 localization. Cytoplasmic Gln3 sequestration in repressive conditions, however, remains intact. These findings further deconvolve the mechanisms that achieve nitrogen-responsive transcription factor regulation downstream of TorC1.
A Systematic Review of Interventions to Increase Physical Activity Among American Indian and Alaska Native Older Adults
Authors: Pedersen Maja , Harris Kari Jo , Brown Blakely , Anderson Keith , Lewis Jordan P 
Published: February 2021

Abstract

Background and Objectives
Physical activity (PA) is a powerful protective factor known to reduce risk for chronic conditions across the life span. PA levels are lower among American Indians and Alaska Natives (AIANs) when compared with other racial/ethnic groups and decrease with age. This evidence justifies a synthesis of current intervention research to increase PA levels among AIANs. This systematic review examines completed interventions to increase PA among AIAN older adults and considers recommended practices for research with Indigenous communities.

Research Design and Methods
The systematic review was designed in accordance with the Preferred Reporting Items for Systematic Reviews and Meta-Analyses statement for systematic review protocols and reporting guidelines. Three electronic databases, PubMed, Web of Science, and PsycINFO, were searched for academic literature. Trials investigating interventions to increase PA among AIAN adults older than 50 years were eligible. The Quality Assessment Tool for Quantitative Studies was used to evaluate the quality of evidence.

Results
Three published trials were identified, including one group-level, clinic-based and two individual-level, home-based interventions. All were 6 weeks in duration, took place in urban areas, and used self-report PA measures. Findings indicated an overall increase in PA levels, improved PA-related outcomes, and improved psychosocial health among participants. None described community-engaged or culture-centered research strategies.

Discussion and Implications
The narrow yet promising evidence represents a need for expanded research and a call to action for using culture-centered strategies. An advanced understanding of cultural and contextual aspects of PA may produce more impactful interventions, supporting health and mobility across the life span.
Controls on the present-day dynamic topography predicted from mantle flow models since 410 Ma
Authors: Yang An , Yang Ting 
Published: February 2021

SUMMARYMantle convection induces dynamic topography, the lithosphere's surface deflections driven by the vertical stresses from sublithospheric mantle convection. Dynamic topography has important influences on a range of geophysical and geological observations. Here, we studied controls on the Earth's dynamic topography through 3-D spherical models of mantle convection, which use reconstructed past 410 Myr global plate motion history as time-dependent surface mechanical boundary condition. The numerical model assumes the extended-Boussinesq approximation and includes strongly depth- and temperature-dependent viscosity and phase changes in the mantle. Our results show that removing the chemical layer above the core–mantle boundary (CMB) and including depth-dependent thermal expansivity have both a limited influence on the predicted present-day dynamic topography. Considering phase transitions in our models increases the predicted amplitude of dynamic topography, which is mainly influenced by the 410 km exothermic phase transition. The predicted dynamic topography is very sensitive to shallow temperature-induced lateral viscosity variations (LVVs) and Rayleigh number. The preservation of LVVs significantly increases the negative dynamic topography at subduction zones. A decrease (or increase) of Rayleigh number increases (or decreases) the predicted present-day dynamic topography considerably. The dynamic topography predicted from the model considering LVVs and with a Rayleigh number of 6 × 108 is most compatible with residual topography models. This Rayleigh number is consistent with the convective vigor of the Earth as supported by generating more realistic lower mantle structure, slab sinking rate and surface and CMB heat fluxes. The evolution of the surface heat flux pattern is similar to the long-term eustatic sea level change. Before the formation of Pangea, large negative dynamic topography formed between the plate convergence region of Gondwana and Laurussia. The predicted dynamic topography similar to that of present-day has already emerged by about 262 Ma. Powers for degrees 1–3 dynamic topography at 337 and 104 Ma which correspond to times of higher plate velocities and higher surface heat fluxes are larger.
Tissue Proteomic Approaches to Understand the Pathogenesis of Inflammatory Bowel Disease
Authors: Baldan-Martin Montserrat , Chaparro María , Gisbert Javier P 
Published: February 2021

Abstract
Inflammatory bowel disease (IBD) has become a global disease encompassing a group of progressive disorders characterized by recurrent chronic inflammation of the gut with variable disease courses and complications. Despite recent advances in the knowledge of IBD pathophysiology, the elucidation of its etiopathology and progression is far from fully understood, requiring complex and multiple approaches. Therefore, limited clinical progress in diagnosis, assessment of disease activity, and optimal therapeutic regimens have been made over the past few decades. This review explores recent advances and challenges in tissue proteomics with an emphasis on biomarker discovery and better understanding of the molecular mechanisms underlying IBD pathogenesis. Future multi-omic studies are required for the comprehensive molecular characterization of disease biology in real time with a future impact on early detection, disease monitoring, and prediction of the clinical outcome.
Improved creatinine-based early detection of acute kidney injury after cardiac surgery
Authors: Vogt Ferdinand , Zibert Janez , Bahovec Alenka , Pollari Francesco , Sirch Joachim , Fittkau Matthias , Bertsch Thomas , Czerny Martin , Santarpino Giuseppe , Fischlein Theodor , Kalisnik Jurij M 
Published: February 2021

Abstract

OBJECTIVES
This study aims to improve early detection of cardiac surgery-associated acute kidney injury (CSA-AKI) compared to classical clinical scores.

METHODS
Data from 7633 patients who underwent cardiac surgery between 2008 and 2018 in our institution were analysed. CSA-AKI was defined according to the Kidney Disease Improving Global Outcomes (KDIGO) criteria. Cleveland Clinical Score served as the reference with an area under the curve (AUC) 0.65 in our cohort. Based on that, stepwise logistic regression modelling was performed on the training data set including creatinine (Cr), estimated glomerular filtration rate (eGFR) levels and deltas (ΔCr, ΔeGFR) at different time points and clinical parameters as preoperative haemoglobin, intraoperative packed red blood cells (units) and cardiopulmonary bypass time (min) to predict CSA-AKI in the early postoperative course. The AUC was determined on the validation data set for each model respectively.

RESULTS
Incidence of CSA-AKI in the early postoperative course was 22.4% (n = 1712). The 30-day mortality was 12.5% in the CSA-AKI group (n = 214) and in the no-CSA-AKI group 0.9% (n = 53) (P &lt; 0.001). Logistic regression models based on Cr and its delta gained an AUC of 0.69; ‘Model eGFRCKD-EPI’ an AUC of 0.73. Finally, ‘Model DynaLab’ including dynamic laboratory parameters and clinical parameters as haemoglobin, packed red blood cells and cardiopulmonary bypass time improved AUC to 0.84.

CONCLUSIONS
Model DynaLab’ improves early detection of CSA-AKI within 12 h after surgery. This simple Cr-based framework poses a fundament for further endeavours towards reduction of CSA-AKI incidence and severity.
Reconstruction of an impenetrable obstacle in anisotropic inhomogeneous background
Authors: Kow Pu-Zhao , Wang Jenn-Nan 
Published: February 2021

Abstract
In this paper, we are interested in the problem of determining the shape of sound-soft or impedance obstacles in the acoustic wave scattering with an anisotropic inhomogeneous medium. The main theme is to extend the factorization method to this setting. Precisely, we can reconstruct the obstacle by the eigenvalues and eigenfunctions of the far-field operator. We also provide some numerical simulations in the paper.
A spectral-in-time Newton–Krylov method for nonlinear PDE-constrained optimization
Authors: Güttel Stefan , Pearson John W 
Published: February 2021

Abstract
We devise a method for nonlinear time-dependent partial-differential-equation-constrained optimization problems that uses a spectral-in-time representation of the residual, combined with a Newton–Krylov method to drive the residual to zero. We also propose a preconditioner to accelerate this scheme. Numerical results indicate that this method can achieve fast and accurate solution of nonlinear problems for a range of mesh sizes and problem parameters. The numbers of outer Newton and inner Krylov iterations required to reach the attainable accuracy of a spatial discretization are robust with respect to the number of collocation points in time and also do not change substantially when other problem parameters are varied.
Estimating TB diagnostic costs incurred under the National Tuberculosis Elimination Programme: a costing study from Tamil Nadu, South India
Authors: Muniyandi Malaisamy , Lavanya Jayabal , Karikalan Nagarajan , Saravanan Balakrishnan , Senthil Sellappan , Selvaraju Sriram , Mondal Rajesh 
Published: February 2021

Abstract

Background
The National Tuberculosis Elimination Programme (NTEP) of India is aiming to eliminate TB by 2025. The programme has increased its services and resources to strengthen the accurate and early detection of TB. It is important to estimate the cost of TB diagnosis in India considering the advancement and implementation of new diagnostic tools under the NTEP. The objective of this study was to estimate the unit costs of providing TB diagnostic services at different levels of public health facilities with different algorithms implemented under the NTEP in Chennai, Tamil Nadu, South India.

Methods
This costing study was conducted from the perspective of the health system. This study used only secondary data and information that were available in the public domain. Data were collected with the approval of health authorities. The patient's diagnostic path from the point of registration until the final diagnosis was considered in the costing exercise. The unit costs of different diagnostic tools used in the NTEP implemented by Chennai Corporation were calculated.

Results
We estimated the unit cost of the eight laboratory tests (Ziehl–Neelsen [ZN], fluorescence microscopy [FM], x-ray, digital x-ray, gene Xpert MTB/RIF (cartridge-based nucleic acid amplification test [NAAT] that identifies rifampicin resistant Mycobacterium Tuberculosis) Mycobacterium Tuberculosis/Rifampicin [MTB/RIF], mycobacteria growth indicator tube [MGIT], line probe assay [LPA] and Lowenstein Jensen [LJ] culture) for diagnosis of drug-sensitive and drug-resistant TB. The unit costs included fixed and variable costs for smear examination by ZN microscopy (₹ [Indian Rupee] 326 [US${\$}$4.72], FM (₹104 [US${\$}$1.5]), x-ray (₹218 [US${\$}$3.15]), digital X-ray (₹281 [US${\$}$4.07]), gene Xpert MTB/RIF (₹1137 [US${\$}$16.47]), MGIT (₹7038 [US${\$}$102]), LPA (₹6448 [US${\$}$93.44]) and LJ culture (₹4850 [US${\$}$70.28]). Out of 10 diagnostic algorithms used for TB diagnosis, algorithms using only smear microscopy had the lowest cost, followed by smear microscopy with x-ray for drug-sensitive TB (₹104 [US${\$}$1.5] to ₹544 [US${\$}$7.88]). Diagnostic algorithms for drug-resistant TB involving LPA and gene Xpert MTB/RIF were the most expensive.

Conclusions
Understanding the various costs contributing to TB diagnosis in India provides crucial evidence for policymakers, programme managers and researchers to optimise programme spending and efficiently use resources.
Keeping Your Enemies Close? The Variety of Social Movements’ Reactions to International Organizations’ Opening Up
Authors: Anderl Felix , Daphi Priska , Deitelhoff Nicole 
Published: February 2021

AbstractStarting in the 1990s, international organizations (IOs) have created various opportunities of access for civil society to voice criticism. While international relations (IR) scholarship has increasingly addressed the resulting interaction between IOs and civil society with a focus on NGOs, we know little about the particular reactions to IOs’ opening up by social movements. This paper analyzes reactions to opening up by a transnational social movement centrally addressing IOs: the Global Justice Movement (GJM). Examining reactions by different groups of the GJM in Europe and Southeast Asia to IOs’ opening up, we demonstrate that reactions differ considerably depending on activists’ assessments of the nature of opening up. In particular, we identify four pathways of reactions on a continuum from (1) strong cooperation with IOs as a reaction to opening up, (2) temporally limited cooperation with different IOs, (3) a hybrid reaction that combines cooperation with specific IOs with a strong opposition to other IOs in reaction to their opening up, to (4) a continuous rejection of all cooperation with IOs. We show how these different reactions are shaped by activists’ perceptions of the quality of the international opening up in conjunction with national and local context factors. Furthermore, our analysis demonstrates that such perceptions can significantly change over time depending on experiences of interactions. Reactions to opening up are therefore not predictable on the basis of a movement's shape and resources only, but rather depend on a variety of factors such as the movement's perception of the IO's sincerity in a strategic and consequential interaction, as well as the movement's ideological framework and its history of interaction with institutions at other levels, especially in the domestic realm.
Dual-Mode Gradient HPLC and TLC Densitometry Methods for the Simultaneous Determination of Paracetamol and Methionine in the Presence of Paracetamol Impurities
Authors: Ibrahim Hany , Hamdy Abdallah M , Merey Hanan A , Saad Ahmed S 
Published: February 2021

Abstract

Background
Paracetamol (PC) is one of the most widely used analgesic and antipyretic drugs and has recently been integrated into the supportive therapy of COVID-19. Pharmaceuticals containing methionine (MT) with PC may contribute to avoid hepatotoxicity and eventual PC overdose-dependent death.

Objective
The current work purposes to develop and validate two chromatographic methods for the simultaneous determination of MT and PC in the presence of two PC impurities (4-nitrophenol [NP] and 4-aminophenol [AP]).

Method
Two chromatographic methods were established and validated according to the International Conference on Harmonization guidelines. The first one was an RP-HPLC/UV method based on applying a “dual-mode” gradient elution. The separation was realized via varying both the composition of the ternary mobile phase (acetonitrile–methanol–water) and its flow rate. This strategy enabled a relatively rapid analysis with a satisfactory resolution, although the investigated compounds exhibit a significant difference in lipophilicity. The second one relied on TLC-densitometry, where the optimum separation was realized using a quaternary mobile phase system composed of butanol–dioxane–toluene–methanol (8:2.5:3.5:0.3, by volume). Both methods were monitored at 220 nm.

Results
The developed methods were proven to be robust, accurate, specific, and appropriate for the routine analysis of PC in its pure form or in pharmaceutical formulations with MT in quality control laboratories.

Conclusions
The corresponding methods are suitable to determine MT and PC in the presence of PC impurities.

Highlights
The study achieves the analysis of MT and PC in the presence of PC impurities via the application of HPLC and TLC-densitometry methods.
Gill morphology and formulae of crayfishes (Decapoda: Astacidea: Parastacidae) from New Guinea and New Zealand and a comparison with other selected species of crayfishes
Authors: Kawai Tadashi , Patoka Jiří 
Published: February 2021

AbstractThe Infraorder Astacidea comprises four superfamilies of decapod crustaceans: the freshwater Astacoidea and Parastacoidea and the marine Enoplometopoidea and Nephropoidea. The gill morphology of four species of crayfishes belonging to Astacoidea and Parastacoidea, two coral reef species of Enoplometopoidea, and 2 deep-water species of Nephropoidea are described and illustrated for comparisons and to determine characters characteristic to members of the family Parastacidae (Parastacoidea) from New Guinea. Morphology of the arthrobranchs and pleurobranchs were similar among all species, having a single stem with filament, but podobranchs of the parastacoideans differed from those of Astacoidea, being corrugated and tubular and having filaments. The astacoidean P. virginalis had a plate-like lamella with filament. The two nephropoid and two enoplometopoid species were similar to each other; their podobranch had a flat blade-like lamella without a filament and a shaft with a filament. The gill formulae of the New Guinea species of Cherax were the same as those of the Australian congeners, but the formula of the New Zealand Paranephrops planifronsWhite, 1842 was the same as those of the South American parastacids.
Beauty Contests and the Term Structure
Authors: Ellison Martin , Tischbirek Andreas 
Published: February 2021

Abstract
A novel decomposition highlights the scope for information to influence the term structure of interest rates. Based on the law of total covariance, we show that real term premia in macroeconomic models contain a component that depends on covariances of realised stochastic discount factors and a component that depends on covariances of expectations of those stochastic discount factors. The covariance of expectations is typically low in macrofinance models, which contributes to the real term premia implied by the models being at least an order of magnitude too small, a result that is unchanged even if we introduce aggregate demand externalities combined with shocks to higher-order beliefs. We argue that generating realistic term premia requires there to be strategic complementarities in the formation of expectations. A quantitative model, in which beliefs are formed in a beauty contest, can explain a significant proportion of observed term premia, when estimated using data on expectations of productivity growth from the Survey of Professional Forecasters.