bluuebunny/crossref_metadata_2025_split huggingface dataset:
Monthly Streamflow Simulation for the Headwater Catchment of the Yellow River Basin With a Hybrid Statistical‐Dynamical Model
Authors: Wang Wenzhuo , Dong Zengchuan , Lall Upmanu , Dong Ningpeng , Yang Minzhi 
Published: August 2019

AbstractStreamflow simulation of the headwater catchment of the Yellow River basin (HCYRB) in China is important for water resources management of the Yellow River basin. A statistical‐dynamical model, combining regular vine copulas with an optimization method for structure estimation, is presented with an application for simulating the monthly streamflow with local climate drivers at HCYRB. Local climate drivers for streamflow in every month are analyzed using rank‐based correlation. Precipitation, evaporation, and temperature generally show strong associations with streamflow. Winter streamflows relate to total precipitation of the wet season and total evaporation of October and November, while unfrozen‐month streamflows are correlated with evaporation and precipitation of current month and previous 1 month in the wet season. Both canonical vine and D‐vine copulas are applied to develop different conditional quantile functions for streamflows in different months with their dynamical covariates. The covariates are selected from historical streamflows and climate drivers with appropriate lags using partial correlations. The optimal vine trees are selected using the sequential maximum spanning tree algorithm with the weight based on both dependence and goodness of fit. The model demonstrates higher skill than existing vine‐based models and the seasonal autoregressive integrated moving average model. The enhanced skill of the hybrid statistical‐dynamical model comes from an improved capability of capturing nonlinear correlation and tail dependence of streamflow and climate drivers with the optimization of vine structure selection. The model provides an effective advance to enhance water resources planning and management for HCYRB and the whole basin.
The synergistic effects of oxaliplatin and piperlongumine on colorectal cancer are mediated by oxidative stress
Authors: Chen WeiQian , Lian WeiShuai , Yuan YiFeng , Li MaoQuan 
Published: August 2019

AbstractOxaliplatin-based chemotherapy is recommended as the first-line therapeutic regimen for metastatic colorectal cancer. However, long-term and repeated oxaliplatin therapy leads to drug resistance and severe adverse events, which hamper its clinical application. Thus, chemosensitizers are urgently required for overcoming oxaliplatin resistance and toxicity. Here, the anticancer effects of oxaliplatin combined with piperlongumine (PL), a molecule promoting reactive oxygen species (ROS) generation, in colorectal cancer, were assessed. We demonstrated that oxaliplatin elevated cellular ROS amounts and showed synergistic anticancer effects with PL in colorectal cancer cells. These anticancer effects were mediated by mitochondrial dysfunction and endoplasmic reticulum (ER) stress apoptotic-associated networks. Meanwhile, blockage of ROS production prevented apoptosis and fully reversed mitochondrial dysfunction and ER stress associated with the oxaliplatin/PL combination. Moreover, xenograft assays in mouse models highly corroborated in vitro data. In conclusion, this study provides a novel combination therapy for colorectal cancer, and reveals that manipulating ROS production might constitute an effective tool for developing novel treatments in colorectal cancer.
Controlling intercellular flow through mechanosensitive plasmodesmata nanopores
Authors: Park Keunhwan , Knoblauch Jan , Oparka Karl , Jensen Kaare H. 
Published: August 2019

AbstractIn plants, plasmodesmata (PD) are nanopores that serve as channels for molecular cell-to-cell transport. Precise control of PD permeability is essential to regulate processes such as growth and tissue patterning, photoassimilate distribution and defense against pathogens. Callose deposition modulates PD transport but little is known of the rapid events that lead to PD closure in response to tissue damage or osmotic shock. We propose a mechanism of PD closure as a result of mechanosensing. Pressure forces acting on the dumbbell-shaped ER-desmotubule complex cause it to be displaced from its equilibrium position, thus closing the PD aperture. The filamentous protein tethers that link the plasma membrane to the ER-desmotubule complex play a key role in determining the selectivity of the PD pore. This model of PD control compares favorably with experimental data on the pressure-generated closure of PD.
Bidirectional prefrontal-hippocampal dynamics organize information transfer during sleep in humans
Authors: Helfrich Randolph F. , Lendner Janna D. , Mander Bryce A. , Guillen Heriberto , Paff Michelle , Mnatsakanyan Lilit , Vadera Sumeet , Walker Matthew P. , Lin Jack J. , Knight Robert T. 
Published: August 2019

AbstractHow are memories transferred from short-term to long-term storage? Systems-level memory consolidation is thought to be dependent on the coordinated interplay of cortical slow waves, thalamo-cortical sleep spindles and hippocampal ripple oscillations. However, it is currently unclear how the selective interaction of these cardinal sleep oscillations is organized to support information reactivation and transfer. Here, using human intracranial recordings, we demonstrate that the prefrontal cortex plays a key role in organizing the ripple-mediated information transfer during non-rapid eye movement (NREM) sleep. We reveal a temporally precise form of coupling between prefrontal slow-wave and spindle oscillations, which actively dictates the hippocampal-neocortical dialogue and information transfer. Our results suggest a model of the human sleeping brain in which rapid bidirectional interactions, triggered by the prefrontal cortex, mediate hippocampal activation to optimally time subsequent information transfer to the neocortex during NREM sleep.
Physiologically relevant reconstitution of iron-sulfur cluster biosynthesis uncovers persulfide-processing functions of ferredoxin-2 and frataxin
Authors: Gervason Sylvain , Larkem Djabir , Mansour Amir Ben , Botzanowski Thomas , Müller Christina S. , Pecqueur Ludovic , Le Pavec Gwenaelle , Delaunay-Moisan Agnès , Brun Omar , Agramunt Jordi , Grandas Anna , Fontecave Marc , Schünemann Volker , Cianférani Sarah , Sizun Christina , Tolédano Michel B. , D’Autréaux Benoit 
Published: August 2019

AbstractIron-sulfur (Fe-S) clusters are essential protein cofactors whose biosynthetic defects lead to severe diseases among which is Friedreich’s ataxia caused by impaired expression of frataxin (FXN). Fe-S clusters are biosynthesized on the scaffold protein ISCU, with cysteine desulfurase NFS1 providing sulfur as persulfide and ferredoxin FDX2 supplying electrons, in a process stimulated by FXN but not clearly understood. Here, we report the breakdown of this process, made possible by removing a zinc ion in ISCU that hinders iron insertion and promotes non-physiological Fe-S cluster synthesis from free sulfide in vitro. By binding zinc-free ISCU, iron drives persulfide uptake from NFS1 and allows persulfide reduction into sulfide by FDX2, thereby coordinating sulfide production with its availability to generate Fe-S clusters. FXN stimulates the whole process by accelerating persulfide transfer. We propose that this reconstitution recapitulates physiological conditions which provides a model for Fe-S cluster biosynthesis, clarifies the roles of FDX2 and FXN and may help develop Friedreich’s ataxia therapies.
Using B isotopes and B/Ca in corals from low saturation springs to constrain calcification mechanisms
Authors: Wall M. , Fietzke J. , Crook E. D. , Paytan A. 
Published: August 2019

AbstractOcean acidification is expected to negatively impact calcifying organisms, yet we lack understanding of their acclimation potential in the natural environment. Here we measured geochemical proxies (δ11B and B/Ca) in Porites astreoides corals that have been growing for their entire life under low aragonite saturation (Ωsw: 0.77–1.85). This allowed us to assess the ability of these corals to manipulate the chemical conditions at the site of calcification (Ωcf), and hence their potential to acclimate to changing Ωsw. We show that lifelong exposure to low Ωsw did not enable the corals to acclimate and reach similar Ωcf as corals grown under ambient conditions. The lower Ωcf at the site of calcification can explain a large proportion of the decreasing P. astreoides calcification rates at low Ωsw. The naturally elevated seawater dissolved inorganic carbon concentration at this study site shed light on how different carbonate chemistry parameters affect calcification conditions in corals.
Noncanonical mechanism of voltage sensor coupling to pore revealed by tandem dimers of Shaker
Authors: Carvalho-de-Souza João L. , Bezanilla Francisco 
Published: August 2019

AbstractIn voltage-gated potassium channels (VGKC), voltage sensors (VSD) endow voltage-sensitivity to pore domains (PDs) through a not fully understood mechanism. Shaker-like VGKC show domain-swapped configuration: VSD of one subunit is covalently connected to its PD by the protein backbone (far connection) and non-covalently to the PD of the next subunit (near connection). VSD-to-PD coupling is not fully explained by far connection only, therefore an additional mechanistic component may be based on near connection. Using tandem dimers of Shaker channels we show functional data distinguishing VSD-to-PD far from near connections. Near connections influence both voltage-dependence of C-type inactivation at the selectivity filter and overall PD open probability. We speculate a conserved residue in S5 (S412 in Shaker), within van der Waals distance from next subunit S4 residues is key for the noncanonical VSD-to-PD coupling. Natural mutations of S412-homologous residues in brain and heart VGKC are related to neurological and cardiac diseases.
Hsp70 and Hsp40 inhibit an inter-domain interaction necessary for transcriptional activity in the androgen receptor
Authors: Eftekharzadeh Bahareh , Banduseela Varuna C. , Chiesa Giulio , Martínez-Cristóbal Paula , Rauch Jennifer N. , Nath Samir R. , Schwarz Daniel M. C. , Shao Hao , Marin-Argany Marta , Di Sanza Claudio , Giorgetti Elisa , Yu Zhigang , Pierattelli Roberta , Felli Isabella C. , Brun-Heath Isabelle , García Jesús , Nebreda Ángel R. , Gestwicki Jason E. , Lieberman Andrew P. , Salvatella Xavier 
Published: August 2019

AbstractMolecular chaperones such as Hsp40 and Hsp70 hold the androgen receptor (AR) in an inactive conformation. They are released in the presence of androgens, enabling transactivation and causing the receptor to become aggregation-prone. Here we show that these molecular chaperones recognize a region of the AR N-terminal domain (NTD), including a FQNLF motif, that interacts with the AR ligand-binding domain (LBD) upon activation. This suggests that competition between molecular chaperones and the LBD for the FQNLF motif regulates AR activation. We also show that, while the free NTD oligomerizes, binding to Hsp70 increases its solubility. Stabilizing the NTD-Hsp70 interaction with small molecules reduces AR aggregation and promotes its degradation in cellular and mouse models of the neuromuscular disorder spinal bulbar muscular atrophy. These results help resolve the mechanisms by which molecular chaperones regulate the balance between AR aggregation, activation and quality control.
Atom table convolutional neural networks for an accurate prediction of compounds properties
Authors: Zeng Shuming , Zhao Yinchang , Li Geng , Wang Ruirui , Wang Xinming , Ni Jun 
Published: August 2019

AbstractMachine learning techniques are widely used in materials science. However, most of the machine learning models require a lot of prior knowledge to manually construct feature vectors. Here, we develop an atom table convolutional neural networks that only requires the component information to directly learn the experimental properties from the features constructed by itself. For band gap and formation energy prediction, the accuracy of our model exceeds the standard DFT calculations. Besides, through data-enhanced technology, our model not only accurately predicts superconducting transition temperatures, but also distinguishes superconductors and non-superconductors. Utilizing the trained model, we have screened 20 compounds that are potential superconductors with high superconducting transition temperature from the existing database. In addition, from the learned features, we extract the properties of the elements and reproduce the chemical trends. This framework is valuable for high throughput screening and helpful to understand the underlying physics.
Environmentally Optimal, Nutritionally Sound, Protein and Energy Conserving Plant Based Alternatives to U.S. Meat
Authors: Eshel Gidon , Stainier Paul , Shepon Alon , Swaminathan Akshay 
Published: August 2019

AbstractBecause meat is more resource intensive than vegetal protein sources, replacing it with efficient plant alternatives is potentially desirable, provided these alternatives prove nutritionally sound. We show that protein conserving plant alternatives to meat that rigorously satisfy key nutritional constraints while minimizing cropland, nitrogen fertilizer (Nr) and water use and greenhouse gas (GHG) emissions exist, and could improve public health. We develop a new methodology for identifying nutritional constraints whose satisfaction by plant eaters is challenging, disproportionately shaping the optimal diets, singling out energy, mass, monounsaturated fatty acids, vitamins B3,6,12 and D, choline, zinc, and selenium. By replacing meat with the devised plant alternatives—dominated by tofu, soybeans, peanuts, and lentils—Americans can collectively eliminate pastureland use while saving 35–50% of their diet related needs for cropland, Nr, and GHG emission, but increase their diet related irrigation needs by 15%. While widely replacing meat with plants is logistically and culturally challenging, few competing options offer comparable multidimensional resource use reduction.
Protein Complex Identification and quantitative complexome by CN-PAGE
Authors: Gorka Michal , Swart Corné , Siemiatkowska Beata , Martínez-Jaime Silvia , Skirycz Aleksandra , Streb Sebastian , Graf Alexander 
Published: August 2019

AbstractThe majority of cellular processes are carried out by protein complexes. Various size fractionation methods have previously been combined with mass spectrometry to identify protein complexes. However, most of these approaches lack the quantitative information which is required to understand how changes of protein complex abundance and composition affect metabolic fluxes. In this paper we present a proof of concept approach to quantitatively study the complexome in the model plant Arabidopsis thaliana at the end of the day (ED) and the end of the night (EN). We show that size-fractionation of native protein complexes by Clear-Native-PAGE (CN-PAGE), coupled with mass spectrometry can be used to establish abundance profiles along the molecular weight gradient. Furthermore, by deconvoluting complex protein abundance profiles, we were able to drastically improve the clustering of protein profiles. To identify putative interaction partners, and ultimately protein complexes, our approach calculates the Euclidian distance between protein profile pairs. Acceptable threshold values are based on a cut-off that is optimized by a receiver-operator characteristic (ROC) curve analysis. Our approach shows low technical variation and can easily be adapted to study in the complexome in any biological system.
The Influence of Occupational Noise Exposure on Cardiovascular and Hearing Conditions among Industrial Workers
Authors: Li Xiuting , Dong Qiu , Wang Boshen , Song Haiyan , Wang Shizhi , Zhu Baoli 
Published: August 2019

AbstractThis study was conducted to estimate the current prevalence of hypertension, cardiovascular condition and hearing difficulty of workers exposure to occupational noise, and to analyze any associations between these abnormal signs and occupational noise exposure. The subjects included 5205 noise-exposed workers. Workers with high noise exposure were more likely to have a higher threshold value than low exposure ones (P < 0.05). Subjects in the high exposure group had a significantly higher risk of hypertension and hearing loss than the ones in low exposure group. Between the ages of 30 and 45, high-level occupational noise exposure led to a significantly raising risk of both hypertension (Adjusted OR = 1.59, 95% CI, 1.19–2.11) and hearing loss (Adjusted OR = 1.28, 95% CI, 1.03–1.60) when comparing to low-level noise exposure. In male workers, the prevalence of hearing difficulty in high exposure group was approximately 1.2 times worse than in low group (P = 0.006). In addition, exposure to high noise level demonstrated a significant association with hypertension and hearing loss when the duration time to occupational noise was longer than 10 years. Hypertension and hearing difficulty is more prevalent in the noise-exposed group (higher than 85 dB[A]). Steps to reduce workplace noise levels and to improve workplace-based health are thus urgently needed.
Biogeochemical Changes During Bio-cementation Mediated by Stimulated and Augmented Ureolytic Microorganisms
Authors: Gomez Michael G. , Graddy Charles M. R. , DeJong Jason T. , Nelson Douglas C. 
Published: August 2019

AbstractMicrobially Induced Calcite Precipitation (MICP) is a bio-mediated cementation process that can improve the engineering properties of granular soils through the precipitation of calcite. The process is made possible by soil microorganisms containing urease enzymes, which hydrolyze urea and enable carbonate ions to become available for precipitation. While most researchers have injected non-native ureolytic bacteria to complete bio-cementation, enrichment of native ureolytic microorganisms may enable reductions in process treatment costs and environmental impacts. In this study, a large-scale bio-cementation experiment involving two 1.7-meter diameter tanks and a complementary soil column experiment were performed to investigate biogeochemical differences between bio-cementation mediated by either native or augmented (Sporosarcina pasteurii) ureolytic microorganisms. Although post-treatment distributions of calcite and engineering properties were similar between approaches, the results of this study suggest that significant differences in ureolysis rates and related precipitation rates between native and augmented microbial communities may influence the temporal progression and spatial distribution of bio-cementation, solution biogeochemical changes, and precipitate microstructure. The role of urea hydrolysis in enabling calcite precipitation through sustained super-saturation following treatment injections is explored.
Field cancerization therapy with ingenol mebutate contributes to restoring skin-metabolism to normal-state in patients with actinic keratosis: a metabolomic analysis
Authors: Righi Valeria , Tarentini Elisabetta , Mucci Adele , Reggiani Camilla , Rossi Maria Cecilia , Ferrari Federica , Casari Alice , Magnoni Cristina 
Published: August 2019

AbstractActinic keratosis (AK) is a skin premalignant lesion, which progresses into squamous cell carcinoma (SCC) if left untreated. Ingenol mebutate gel is approved for local treatment of non-hyperkeratotic, non-hypertrophic AK; it also has the potential to act as a field cancerization therapy to prevent the progression of AK to SCC. To gain better insights into the mechanisms of ingenol mebutate beyond the mere clinical assessment, we investigated, for the first time, the metabolome of skin tissues from patients with AK, before and after ingenol mebutate treatment, with high-resolution magic angle spinning nuclear magnetic resonance spectroscopy. The metabolomic profiles were compared with those of tissues from healthy volunteers. Overall, we identified a number of metabolites, the homeostasis of which became altered during the process of tumorigenesis from healthy skin to AK, and was restored, at least partially, by ingenol mebutate therapy. These metabolites may help to attain a better understanding of keratinocyte metabolism and to unmask the metabolic pathways related to cell proliferation. These results provide helpful information to identify biomarkers with prognostic and therapeutic significance in AK, and suggest that field cancerization therapy with ingenol mebutate may contribute to restore skin metabolism to a normal state in patients with AK.
Steroid receptors and their regulation in avian extraembryonic membranes provide a novel substrate for hormone mediated maternal effects
Authors: Kumar Neeraj , Lohrentz Anja , Gahr Manfred , Groothuis Ton G. G. 
Published: August 2019

AbstractExposure of the vertebrate embryo to maternal hormones can have long-lasting effects on its phenotype, which has been studied extensively by experimentally manipulating maternal steroids, mostly androgens, in bird eggs. Yet, there is a severe lack of understanding of how and when these effects are actually mediated, hampering both underlying proximate and ultimate explanations. Here we report a novel finding that the embryo expresses androgen receptor (AR) and estrogen receptor (ERα) mRNA in its extraembryonic membranes (EMs) as early as before its own hormone production starts, suggesting a novel substrate for action of maternal hormones on the offspring. We also report the first experimental evidence for steroid receptor regulation in the avian embryo in response to yolk steroid levels: the level of AR is dependent on yolk androgen levels only in the EMs but not in body tissues, suggesting embryonic adaptation to maternal hormones. The results also solve the problem of uptake of lipophilic steroids from the yolk, why they affect multiple traits, and how they could mediate maternal effects without affecting embryonic sexual differentiation.
Wood volatiles as attractants of the confused flour beetle, Tribolium confusum (Coleoptera: Tenebrionidae)
Authors: Hori Masatoshi , Aoki Yoshimi , Shinoda Kazutaka , Chiba Mitsuo , Sasaki Rikiya 
Published: August 2019

AbstractConfused flour beetles are serious pests of stored grain products, and therefore, it is important to efficiently monitor and control their populations. Aggregation pheromones are commercially used for monitoring this beetle but their efficacy has been questioned and they may be inadequate for practical use. Food attractants as well as pheromones are commonly used for monitoring stored-product insects. However, food attractants may not be effective in the case of food handling facilities, which are already filled with food odours. The ancestors of flour beetles may have been associated with dead or decomposing woody vegetation, so we investigated the attractiveness of several wood odours to beetles using a pitfall olfactometer. The beetles were strongly attracted to all wood odours tested: Castanea crenata, Magnolia obovata, Paulownia tomentosa, Prunus jamasakura, and Zelkova serrata. The attractiveness of these wood odours was also stronger than that of the odours of the usual food of these beetles. Supercritical CO2 extracts of these species of wood were also attractive to the beetles. The Z. serrata extract was the most attractive among these extracts, and was further analysed by gas chromatography mass spectrometry. One major compound, (−)-mellein, was detected in the extract. Synthetic (±)-mellein attracted the beetles.