bluuebunny/crossref_metadata_2025_split huggingface dataset:
Secondary Impact Burial and Excavation Gardening on the Moon and the Depth to Ice in Permanent Shadow
Authors: Costello Emily S. , Ghent Rebecca R. , Lucey Paul G. 
Published: August 2021

AbstractImpact gardening is a mixture of excavation by impacts and burial under continuous proximal ejecta. An existing analytical model describes the rate at which impacts excavate material on the Moon (Gault et al., 1974; Costello et al., 2018, https://doi.org/10.1016/j.icarus.2018.05.023; Costello et al., 2020, https://doi.org/10.1029/2019je006172). We expand the model to include a treatment of burial under proximal ejecta. Using the models for excavation and burial, we explore the effects of impacts in the evolution of the lunar surface over the last few billion years. We find that excavation of material by gardening outpaces burial in all reasonable ejecta coverage test scenarios. Thus, gardening does not act as a shield for ice in permanent shadow. However, gardening fails to eradicate the surface expression of compositional contrasts, such as those associated with pyroclastic deposits and compositional rays, which are not vulnerable to removal by thermal or ionization processes. Explorers seeking ice at the lunar poles should not expect regions of permanent shadow to have pure ice within the top 1–10 m because that ice will have been disrupted by gardening.
PHF6 and JAK3 mutations cooperate to drive T-cell acute lymphoblastic leukemia progression
Authors: Yuan Shengnan , Wang Xiaomin , Hou Shuaibing , Guo Tengxiao , Lan Yanjie , Yang Shuang , Zhao Fei , Gao Juan , Wang Yuxia , Chu Yajing , Shi Jun , Cheng Tao , Yuan Weiping 
Published: August 2021

AbstractT-cell acute lymphoblastic leukemia (T-ALL) is a malignant hematologic disease caused by gene mutations in T-cell progenitors. As an important epigenetic regulator, PHF6 mutations frequently coexist with JAK3 mutations in T-ALL patients. However, the role(s) of PHF6 mutations in JAK3-driven leukemia remain unclear. Here, the cooperation between JAK3 activation and PHF6 inactivation is examined in leukemia patients and in mice models. We found that the average survival time is shorter in patients with JAK/STAT and PHF6 comutation than that in other patients, suggesting a potential role of PHF6 in leukemia progression. We subsequently found that Phf6 deficiency promotes JAK3M511I-induced T-ALL progression in mice by inhibiting the Bai1-Mdm2-P53 signaling pathway, which is independent of the JAK3/STAT5 signaling pathway. Furthermore, combination therapy with a JAK3 inhibitor (tofacitinib) and a MDM2 inhibitor (idasanutlin) reduces the Phf6 KO and JAK3M511I leukemia burden in vivo. Taken together, our study suggests that combined treatment with JAK3 and MDM2 inhibitors may potentially increase the drug benefit for T-ALL patients with PHF6 and JAK3 comutation.
Genome-driven elucidation of phage-host interplay and impact of phage resistance evolution on bacterial fitness
Authors: Markwitz Pawel , Lood Cédric , Olszak Tomasz , van Noort Vera , Lavigne Rob , Drulis-Kawa Zuzanna 
Published: August 2021

Abstract
When considering the interactions between bacteriophages and their host, the issue of phage-resistance emergence is a key element in understanding the ecological impact of phages on the bacterial population. It is also an essential parameter for the implementation of phage therapy to combat antibiotic-resistant pathogens. This study investigates the phenotypic and genetic responses of five Pseudomonas aeruginosa strains (PAO1, A5803, AA43, CHA, and PAK) to the infection by seven phages with distinct evolutionary backgrounds and recognised receptors (LPS/T4P). Emerging phage-insensitivity was generally accompanied by self and cross-resistance mechanisms. Significant differences were observed between the reference PAO1 responses compared to other clinical representatives. LPS-dependent phage infections in clinical strains selected for mutations in the “global regulatory” and “other” genes, rather than in the LPS-synthesis clusters detected in PAO1 clones. Reduced fitness, as proxied by the growth rate, was correlated with large deletion (20–500 kbp) and phage carrier state. Multi-phage resistance was significantly correlated with a reduced growth rate but only in the PAO1 population. In addition, we observed that the presence of prophages decreased the lytic phage maintenance seemingly protecting the host against carrier state and occasional lytic phage propagation, thus preventing a significant reduction in bacterial growth rate.
CO2, nitrogen deposition and a discontinuous climate response drive water use efficiency in global forests
Authors: Adams Mark A. , Buckley Thomas N. , Binkley Dan , Neumann Mathias , Turnbull Tarryn L. 
Published: August 2021

AbstractReduced stomatal conductance is a common plant response to rising atmospheric CO2 and increases water use efficiency (W). At the leaf-scale, W depends on water and nitrogen availability in addition to atmospheric CO2. In hydroclimate models W is a key driver of rainfall, droughts, and streamflow extremes. We used global climate data to derive Aridity Indices (AI) for forests over the period 1965–2015 and synthesised those with data for nitrogen deposition and W derived from stable isotopes in tree rings. AI and atmospheric CO2 account for most of the variance in W of trees across the globe, while cumulative nitrogen deposition has a significant effect only in regions without strong legacies of atmospheric pollution. The relation of aridity and W displays a clear discontinuity. W and AI are strongly related below a threshold value of AI ≈ 1 but are not related where AI > 1. Tree ring data emphasise that effective demarcation of water-limited from non-water-limited behaviour of stomata is critical to improving hydrological models that operate at regional to global scales.
Machine learning dismantling and early-warning signals of disintegration in complex systems
Authors: Grassia Marco , De Domenico Manlio , Mangioni Giuseppe 
Published: August 2021

AbstractFrom physics to engineering, biology and social science, natural and artificial systems are characterized by interconnected topologies whose features – e.g., heterogeneous connectivity, mesoscale organization, hierarchy – affect their robustness to external perturbations, such as targeted attacks to their units. Identifying the minimal set of units to attack to disintegrate a complex network, i.e. network dismantling, is a computationally challenging (NP-hard) problem which is usually attacked with heuristics. Here, we show that a machine trained to dismantle relatively small systems is able to identify higher-order topological patterns, allowing to disintegrate large-scale social, infrastructural and technological networks more efficiently than human-based heuristics. Remarkably, the machine assesses the probability that next attacks will disintegrate the system, providing a quantitative method to quantify systemic risk and detect early-warning signals of system’s collapse. This demonstrates that machine-assisted analysis can be effectively used for policy and decision-making to better quantify the fragility of complex systems and their response to shocks.
Triplon current generation in solids
Authors: Chen Yao , Sato Masahiro , Tang Yifei , Shiomi Yuki , Oyanagi Koichi , Masuda Takatsugu , Nambu Yusuke , Fujita Masaki , Saitoh Eiji 
Published: August 2021

AbstractA triplon refers to a fictitious particle that carries angular momentum S=1 corresponding to the elementary excitation in a broad class of quantum dimerized spin systems. Such systems without magnetic order have long been studied as a testing ground for quantum properties of spins. Although triplons have been found to play a central role in thermal and magnetic properties in dimerized magnets with singlet correlation, a spin angular momentum flow carried by triplons, a triplon current, has not been detected yet. Here we report spin Seebeck effects induced by a triplon current: triplon spin Seebeck effect, using a spin-Peierls system CuGeO3. The result shows that the heating-driven triplon transport induces spin current whose sign is positive, opposite to the spin-wave cases in magnets. The triplon spin Seebeck effect persists far below the spin-Peierls transition temperature, being consistent with a theoretical calculation for triplon spin Seebeck effects.
Mechanochemical transformation of planar polyarenes to curved fused-ring systems
Authors: Yong Teoh , Báti Gábor , García Felipe , Stuparu Mihaiela C. 
Published: August 2021

AbstractThe transformation of planar aromatic molecules into π-extended non-planar structures is a challenging task and has not been realized by mechanochemistry before. Here we report that mechanochemical forces can successfully transform a planar polyarene into a curved geometry by creating new C-C bonds along the rim of the molecular structure. In doing so, mechanochemistry does not require inert conditions or organic solvents and provide better yields within shorter reaction times. This is illustrated in a 20-minute synthesis of corannulene, a fragment of fullerene C60, in 66% yield through ball milling of planar tetrabromomethylfluoranthene precursor under ambient conditions. Traditional solution and gas-phase synthetic pathways do not compete with the practicality and efficiency offered by the mechanochemical synthesis, which now opens up a new reaction space for inducing curvature at a molecular level.
P2Y12 receptor blockers are anti-inflammatory drugs inhibiting both circulating monocytes and macrophages including THP-1 cells
Authors: Siegel Patrick M. , Sander Laura , Fricke Alba , Stamm Johannes , Wang Xiaowei , Sharma Prerna , Bassler Nicole , Ying Ya-Lan , Olivier Christoph B. , Eisenhardt Steffen U. , Bode Christoph , Ahrens Ingo , Diehl Philipp , Peter Karlheinz 
Published: August 2021

AbstractP2Y12 blockade improves patient outcomes after myocardial infarction. As well as antithrombotic effects, anti-inflammatory effects may contribute to this beneficial clinical outcome. Here we aimed to identify potential anti-inflammatory effects of P2Y12 receptor blockers on monocytes and macrophages. Using flow cytometry, migration assays, flow chambers and RNA microarrays, we investigated the effects of adenosine diphosphate (ADP) and P2Y12 receptor blockers on blood monocytes, THP-1 monocytes and THP-1 monocytes after differentiation to macrophages. P2Y12 -expressing platelets can form aggregates with monocytes in circulating blood. Mediated by platelets, ADP results in activation of the integrin receptor Mac-1 on blood monocytes, as detected by the conformation-specific single-chain antibody MAN-1. Via the same association with platelets, THP-1 monocyte adhesion to the endothelial intercellular adhesion molecule 1 (ICAM-1) is induced by ADP. P2Y12 receptor blockers prevent these ADP effects on monocytes. Interestingly, in contrast to THP-1 monocytes, THP-1 monocytes, after differentiation to macrophages, directly expressed the P2Y12 receptor and consequently ADP was found to be a potent chemoattractant. Again, P2Y12 receptor blockers antagonised this effect. Accordingly, stimulation of THP-1 macrophages with ADP caused a substantial change in gene expression pattern and upregulation of several genes associated with inflammation and atherogenesis. These data establish novel anti-inflammatory effects of P2Y12 receptor blockers on monocytes and macrophages, which are expected to contribute to cardiovascular risk reduction.
Body size dependent dispersal influences stability in heterogeneous metacommunities
Authors: Anderson Kurt E. , Fahimipour Ashkaan K. 
Published: August 2021

AbstractBody size affects key biological processes across the tree of life, with particular importance for food web dynamics and stability. Traits influencing movement capabilities depend strongly on body size, yet the effects of allometrically-structured dispersal on food web stability are less well understood than other demographic processes. Here we study the stability properties of spatially-arranged model food webs in which larger bodied species occupy higher trophic positions, while species’ body sizes also determine the rates at which they traverse spatial networks of heterogeneous habitat patches. Our analysis shows an apparent stabilizing effect of positive dispersal rate scaling with body size compared to negative scaling relationships or uniform dispersal. However, as the global coupling strength among patches increases, the benefits of positive body size-dispersal scaling disappear. A permutational analysis shows that breaking allometric dispersal hierarchies while preserving dispersal rate distributions rarely alters qualitative aspects of metacommunity stability. Taken together, these results suggest that the oft-predicted stabilizing effects of large mobile predators may, for some dimensions of ecological stability, be attributed to increased patch coupling per se, and not necessarily coupling by top trophic levels in particular.
Histogram-derived modified thresholds for coronary artery calcium scoring with lower tube voltage
Authors: Kim Sungwon , Lee Chan Joo , Han Kyunghwa , Lee Kye Ho , Lee Hye-Jeong , Park Sungha 
Published: August 2021

AbstractWe aimed to determine the proper modified thresholds for detecting and weighting CAC scores at 100 kV through histogram matching in comparison with 120 kV as a standard reference. From the training set (680 participants), modified thresholds at 100 kV were obtained through histogram matching of calcium pixels to 120 kV. From the validation set (213 participants), a standard CAC score at 120 kV, and modified CAC score at 100 kV using modified thresholds were compare through the paired t test and the Bland–Altman plot. Agreement for risk categories (no, minimal, mild, moderate, and severe) was evaluated using kappa statistics. Radiation doses were also compared. For the validation set, there was no significant difference between standard (median, 18.7; IQR, 0.0–207.0) and modified (median, 17.3; IQR, 0.0–220.9) CAC scores (P = 0.689). A small bias was achieved (0.74) with 95% limits of agreement from − 52.35 to 53.83. Agreements for risk categories were excellent (κ = 0.994). The mean dose-length-product of 100-kV scanning (30.1 ± 0.8 mGy * cm) was significantly decreased compared to 120-kV scanning (42.9 ± 0.6 mGy * cm) (P < 0.001). Histogram-derived modified thresholds at 100 kV can enable accurate CAC scoring while reducing radiation exposure.
Biochar and urease inhibitor mitigate NH3 and N2O emissions and improve wheat yield in a urea fertilized alkaline soil
Authors: Dawar Khadim , Fahad Shah , Jahangir M. M. R. , Munir Iqbal , Alam Syed Sartaj , Khan Shah Alam , Mian Ishaq Ahmad , Datta Rahul , Saud Shah , Banout Jan , Adnan Muhammad , Ahmad Muhammad Nauman , Khan Aamir , Dewil Raf , Habib-ur-Rahman Muhammad , Ansari Mohammad Javed , Danish Subhan 
Published: August 2021

AbstractIn this study, we explored the role of biochar (BC) and/or urease inhibitor (UI) in mitigating ammonia (NH3) and nitrous oxide (N2O) discharge from urea fertilized wheat cultivated fields in Pakistan (34.01°N, 71.71°E). The experiment included five treatments [control, urea (150 kg N ha−1), BC (10 Mg ha−1), urea + BC and urea + BC + UI (1 L ton−1)], which were all repeated four times and were carried out in a randomized complete block design. Urea supplementation along with BC and BC + UI reduced soil NH3 emissions by 27% and 69%, respectively, compared to sole urea application. Nitrous oxide emissions from urea fertilized plots were also reduced by 24% and 53% applying BC and BC + UI, respectively, compared to urea alone. Application of BC with urea improved the grain yield, shoot biomass, and total N uptake of wheat by 13%, 24%, and 12%, respectively, compared to urea alone. Moreover, UI further promoted biomass and grain yield, and N assimilation in wheat by 38%, 22% and 27%, respectively, over sole urea application. In conclusion, application of BC and/or UI can mitigate NH3 and N2O emissions from urea fertilized soil, improve N use efficiency (NUE) and overall crop productivity.
A structural property for reduction of biochemical networks
Authors: Küken Anika , Wendering Philipp , Langary Damoun , Nikoloski Zoran 
Published: August 2021

AbstractLarge-scale biochemical models are of increasing sizes due to the consideration of interacting organisms and tissues. Model reduction approaches that preserve the flux phenotypes can simplify the analysis and predictions of steady-state metabolic phenotypes. However, existing approaches either restrict functionality of reduced models or do not lead to significant decreases in the number of modelled metabolites. Here, we introduce an approach for model reduction based on the structural property of balancing of complexes that preserves the steady-state fluxes supported by the network and can be efficiently determined at genome scale. Using two large-scale mass-action kinetic models of Escherichia coli, we show that our approach results in a substantial reduction of 99% of metabolites. Applications to genome-scale metabolic models across kingdoms of life result in up to 55% and 85% reduction in the number of metabolites when arbitrary and mass-action kinetics is assumed, respectively. We also show that predictions of the specific growth rate from the reduced models match those based on the original models. Since steady-state flux phenotypes from the original model are preserved in the reduced, the approach paves the way for analysing other metabolic phenotypes in large-scale biochemical networks.
Serum soluble (pro)renin receptor level as a prognostic factor in patients undergoing maintenance hemodialysis
Authors: Amari Yoshifumi , Morimoto Satoshi , Suda Chikahito , Iida Takeshi , Okuda Hidenobu , Yurugi Takatomi , Oyama Yasuo , Aoyama Naoki , Nakajima Fumitaka , Ichihara Atsuhiro 
Published: August 2021

AbstractThe (pro)renin receptor [(P)RR)] is a multifunctional protein that is cleaved to generate the soluble (P)RR [s(P)RR], reflecting the status of the tissue renin-angiotensin system and/or activity of the (P)RR. The serum s(P)RR level is associated with arteriosclerosis, independent of other risk factors, in patients undergoing hemodialysis (HD). This study was conducted to investigate whether the s(P)RR level was associated with new-onset cardiovascular events or malignant diseases and poor prognosis in patients undergoing HD. Overall, 258 patients [70 (61–76) years, 146 males] undergoing maintenance HD were prospectively followed up for 60 months. We investigated the relationships between s(P)RR levels and new-onset cardiovascular events/ malignant diseases and mortality during the follow-up period using Cox proportional hazard analyses. The cumulative incidence of new-onset cardiovascular events (P = 0.009) and deaths (P < 0.001), but not of malignant diseases, was significantly greater in patients with higher serum s(P)RR level (≥ 29.8 ng/ml) than in those with lower s(P)RR level (< 29.8 ng/ml). A high serum s(P)RR level was independently correlated with cardiovascular mortality (95% CI 1.001–1.083, P = 0.046). The serum s(P)RR level was associated with cardiovascular events and mortality, thus qualifying as a biomarker for identifying patients requiring intensive care.
Predicting hosts based on early SARS-CoV-2 samples and analyzing the 2020 pandemic
Authors: Guo Qian , Li Mo , Wang Chunhui , Guo Jinyuan , Jiang Xiaoqing , Tan Jie , Wu Shufang , Wang Peihong , Xiao Tingting , Zhou Man , Fang Zhencheng , Xiao Yonghong , Zhu Huaiqiu 
Published: August 2021

AbstractThe SARS-CoV-2 pandemic has raised concerns in the identification of the hosts of the virus since the early stages of the outbreak. To address this problem, we proposed a deep learning method, DeepHoF, based on extracting viral genomic features automatically, to predict the host likelihood scores on five host types, including plant, germ, invertebrate, non-human vertebrate and human, for novel viruses. DeepHoF made up for the lack of an accurate tool, reaching a satisfactory AUC of 0.975 in the five-classification, and could make a reliable prediction for the novel viruses without close neighbors in phylogeny. Additionally, to fill the gap in the efficient inference of host species for SARS-CoV-2 using existing tools, we conducted a deep analysis on the host likelihood profile calculated by DeepHoF. Using the isolates sequenced in the earliest stage of the COVID-19 pandemic, we inferred that minks, bats, dogs and cats were potential hosts of SARS-CoV-2, while minks might be one of the most noteworthy hosts. Several genes of SARS-CoV-2 demonstrated their significance in determining the host range. Furthermore, a large-scale genome analysis, based on DeepHoF’s computation for the later pandemic in 2020, disclosed the uniformity of host range among SARS-CoV-2 samples and the strong association of SARS-CoV-2 between humans and minks.
Improvement of structural efficiency in metals by the control of topological arrangements in ultrafine and coarse grains
Authors: Shokry Abdallah , Ahadi Aylin , Ståhle Per , Orlov Dmytro 
Published: August 2021

AbstractImprovement of structural efficiency in various materials is critically important for sustainable society development and the efficient use of natural resources. Recently, a lot of attention in science and engineering has been attracted to heterogeneous-structure materials because of high structural efficiency. However, strategies for the efficient design of heterogenous structures are still in their infancy therefore demanding extensive exploration. In this work, two-dimensional finite-element models for pure nickel with bimodal distributions of grain sizes having ‘harmonic’ and ‘random’ spatial topological arrangements of coarse and ultrafine-grain areas are developed. The bimodal random-structure material shows heterogeneities in stress–strain distributions at all scale levels developing immediately upon loading, which leads to developing concentrations of strain and premature global plastic instability. The bimodal harmonic-structure material demonstrates strength and ductility significantly exceeding those in the bimodal random-structure as well as expectations from a rule of mixtures. The strain hardening rates also significantly exceed those in homogeneous materials while being primarily controlled by coarse-grain phase at the early, by ultrafine-grain at the later and by their compatible straining at the intermediate stages of loading. The study emphasises the importance of topological ultrafine-/coarse-grain distributions, and the continuity of the ultrafine-grain skeleton in particular.
Synthesis of a novel hedgehog-shaped Bi2S3 nanostructure for a sensitive electrochemical glucose biosensor
Authors: Shi Feng , Xue Yadong , Hong Letian , Cao Jiawen , Li Juan , Jiang Min , Hu Xiaoya , Yang Zhanjun , Shen Ming 
Published: August 2021

A novel hedgehog-shaped Bi2S3 nanostructure was synthesized using a simple hydrothermal route with a composite soft template and further used to construct a sensitive glucose biosensor.