bluuebunny/crossref_metadata_2025_split huggingface dataset:
Isopycnal Mixing Controls Deep Ocean Ventilation
Authors: Jones C. S. , Abernathey Ryan P. 
Published: October 2019

AbstractClimate models often parameterize isopycnal mixing by mesoscale eddies using a diffusion operator that acts in the isopycnal direction, multiplied by an isopycnal‐mixing coefficient. The magnitude of this coefficient is uncertain, with observational estimates ranging from 10 to 10,000 m2/s. In an idealized‐geometry ocean model, the isopycnal‐mixing coefficient is varied across a similar range without allowing the circulation to change: This leads to large changes in the ventilation of the deep ocean. Passive tracers are used to assess the impact of varying the isopycnal‐mixing coefficient on water mass distributions. Increasing the isopycnal‐mixing coefficient from 50 to 5,000 m2/s leads to a 63% reduction in the amount of North Atlantic Deep Water and a doubling in the amount of Antarctic Bottom Water in the deep Pacific ocean. This change is associated with a 700‐yr reduction in the ideal age of water in the deep Pacific ocean.
Observation of Very Short Period Atmospheric Gravity Waves in the Lower Ionosphere Using Very Low Frequency Waves
Authors: Maurya Ajeet K. , Cohen Morris B. , Niranjan Kumar Kondapalli , Phanikumar D.V. , Singh Rajesh , Vineeth P.K. , Kishore Kumar K. 
Published: October 2019

AbstractWe present observations of very short period (<5 min) wavy fluctuations (WFs) in the lower ionosphere (75–85 km) on the night of 21 January 2016, using subionospherically propagating very low frequency signals. Four out of six transmitter signals recorded by the very low frequency/low frequency receiver at the Pisgah Astronomical Research Institute showed WFs simultaneously. However, their time of occurrence and intensities were different. Power spectral analysis indicates a period of ~3–4 mins, largely associated with the two regions of strong convective and lightning activity in the lower troposphere. Background wind (at ~15 and 80 km) direction shows westward propagation, suggesting important role of the convective storm located east of Pisgah Astronomical Research Institute. The GPS total electron content analysis also divulges similar WFs at upper ionospheric altitude (~300 km) on the GPS total electron content stations around the two storms. The observational analysis suggests atmospheric gravity waves from the convective regions propagate upward up into the ionospheric altitudes. Hence, the present study reinforces the strong coupling of troposphere and ionosphere through the convectively generated very short period waves.
The natural compound gracillin exerts potent antitumor activity by targeting mitochondrial complex II
Authors: Min Hye-Young , Jang Hyun-Ji , Park Kwan Hee , Hyun Seung Yeob , Park So Jung , Kim Ji Hye , Son Jaekyoung , Kang Sam Sik , Lee Ho-Young 
Published: October 2019

AbstractMitochondria play a pivotal role in cancer bioenergetics and are considered a potential target for anticancer therapy. Considering the limited efficacy and toxicity of currently available mitochondria-targeting agents, it is necessary to develop effective mitochondria-targeting anticancer drugs. By screening a large chemical library consisting of natural products with diverse chemical entities, we identified gracillin, a steroidal saponin, as a mitochondria-targeting antitumor drug. Gracillin displayed broad-spectrum inhibitory effects on the viability of a large panel of human cancer cell lines, including those carrying acquired resistance to chemotherapy or EGFR-targeting drugs, by inducing apoptosis. We show that gracillin attenuates mitochondria-mediated cellular bioenergetics by suppressing ATP synthesis and by producing reactive oxygen species (ROS). Mechanistically, gracillin disrupts complex II (CII) function by abrogating succinate dehydrogenase (SDH) activity without affecting the succinate:ubiquinone reductase. The gracillin-induced cell death was potentiated by 3-nitropropionic acid (3-NPA) or thenoyltrifluoroacetone (TTFA), which inhibit CII by binding to the active site of SDHA or to the ubiquinone-binding site, respectively. Finally, we show that gracillin effectively suppressed the mutant-Kras-driven lung tumorigenesis and the growth of xenograft tumors derived from cell lines or patient tissues. Gracillin displayed no obvious pathophysiological features in mice. Collectively, gracillin has potential as a CII-targeting antitumor drug.
TET2-interacting long noncoding RNA promotes active DNA demethylation of the MMP-9 promoter in diabetic wound healing
Authors: Zhou Liyan , Ren Meng , Zeng Tingting , Wang Wei , Wang Xiaoyi , Hu Mengdie , Su Shicheng , Sun Kan , Wang Chuan , Liu Jing , Yang Chuan , Yan Li 
Published: October 2019

AbstractWound healing in diabetic skin is impaired by excessive activation of matrix metalloproteinase-9 (MMP-9). MMP-9 transcription is activated by Ten-eleven translocation 2 (TET2), a well-known DNA demethylation protein that induces MMP-9 promoter demethylation in diabetic skin tissues. However, how TET2 is targeted to specific loci in the MMP-9 promoter is unknown. Here, we identified a TET2-interacting long noncoding RNA (TETILA) that is upregulated in human diabetic skin tissues. TETILA regulates TET2 subcellular localization and enzymatic activity, indirectly activating MMP-9 promoter demethylation. TETILA also recruits thymine-DNA glycosylase (TDG), which simultaneously interacts with TET2, for base excision repair-mediated MMP-9 promoter demethylation. Together, our results suggest that the TETILA serves as a genomic homing signal for TET2-mediated demethylation specific loci in MMP-9 promoter, thereby disrupting the process of diabetic skin wound healing.
TGF-β1 facilitates cell–cell communication in osteocytes via connexin43- and pannexin1-dependent gap junctions
Authors: Liu Wenjing , Zhang Demao , Li Xin , Zheng Liwei , Cui Chen , Cui Yujia , Sun Jianxun , Xie Jing , Zhou Xuedong 
Published: October 2019

AbstractConnexins and pannexins are two families of channel forming proteins that are able to pass small molecules to achieve communication between cells. While connexins have been recognized to mediate gap junctional intercellular communication (GJIC), pannexins are far less known. Our previous study reported the potential role of TGF-β1 in mediating of connexins in osteocytes in vitro. Herein, we aimed to elucidate the influence of TGF-β1 on cell–cell communication based on gap junctions assembled by connexins and pannexins in vitro and ex vivo. We first showed that TGF-β1 positively affected the elongation of dendritic processes of osteocytes. Our data indicated that TGF-β1 increased expressions of connexin43 (Cx43) and pannexin1 (panx1), which are indispensable for hemichannel formation in gap junctions, in osteocytes in vitro and ex vivo. TGF-β1 enhanced gap junction formation and impacted cell–cell communication in living osteocytes, as indicated by the scrape loading and Lucifer yellow transfer assays. TGF-β1 enhanced the expressions of Cx43 and panx1 via activation of ERK1/2 and Smad3/4 signalling. The TGF-β1-restored expressions of Cx43 and panx1 in osteocytes in the presence of an ERK inhibitor, U0126, further demonstrated the direct participation of Smad3/4 signalling. TGF-β1 increased the accumulation of Smad3 in the nuclear region (immunofluorescence assay) and promoted the enrichment of Smad3 at the binding sites of the promoters of Gja1 (Cx43) and Panx1 (ChIP assay), thereby initiating the enhanced gene expression. These results provide a deep understanding of the molecular mechanisms involved in the modulation of cell–cell communication in osteocytes induced by TGF-β1.
Complementary hybrid electrodes for high contrast electrochromic devices with fast response
Authors: Kortz Carsten , Hein Alexander , Ciobanu Marius , Walder Lorenz , Oesterschulze Egbert 
Published: October 2019

AbstractFast switching ‘transparent-to-black’ electrochromic devices are currently under investigation as potential candidates in modern applications like e-papers or with additional functionality as ultracompact iris or switchable neutral filter in camera systems. However, recent electrochromic devices show either a lack of contrast or slow response times. To overcome these deficiencies we focus on a careful material composition of the colouring hybrid electrodes in our device. We have established a nanoporous Sb-doped SnO$${}_{2}$$2electrode as supporting electrode for chemisorbed electrochromic tetraphenylbenzidine molecules due to its good conductivity in the redox potential range of the molecule. This hybrid electrode was combined with a modified nanoporous TiO$${}_{2}$$2/ viologen electrode to realize a high performance, complementary electrochromic device. Fast switching time constants of 0.5 s and concurrently high change in optical density$$\Delta$$ΔOD = 2.04 at 605 nm confirm our successful concept. The achieved colouration efficiency of 440 cm$${}^{2}$$2C$${}^{-1}$$−1exceeds every high contrast device presented so far.
Identification of stable adsorption sites and diffusion paths on nanocluster surfaces: an automated scanning algorithm
Authors: Szilvási Tibor , Chen Benjamin W. J. , Mavrikakis Manos 
Published: October 2019

AbstractThe diverse coordination environments on the surfaces of discrete, three-dimensional (3D) nanoclusters contribute significantly to their unique catalytic properties. Identifying the numerous adsorption sites and diffusion paths on these clusters is however tedious and time-consuming, especially for large, asymmetric nanoclusters. Here, we present a simple, automated method for constructing approximate 2D potential energy surfaces for the adsorption of atomic species on the surfaces of 3D nanoclusters with minimal human intervention. These potential energy surfaces fully characterize the important adsorption sites and diffusion paths on the nanocluster surfaces with accuracies similar to current approaches and at comparable computational cost. Our method can treat complex nanoclusters, such as alloy nanoclusters, and accounts for cluster relaxation and adsorbate-induced reconstruction, important for obtaining accurate energetics. Moreover, its highly parallelizable nature is ideal for modern supercomputer architectures. We showcase our method using two clusters: Au18 and Pt55. For Au18, diffusion of atomic hydrogen between the most stable sites occurs via non-intuitive paths, underlining the necessity of exploring the complete potential energy surface. By enabling the rapid and unbiased assessment of adsorption and diffusion on large, complex nanoclusters, which are particularly difficult to handle manually, our method will help advance materials discovery and the rational design of catalysts.
A nonlocal game for witnessing quantum networks
Authors: Luo Ming-Xing 
Published: October 2019

AbstractNonlocal game as a witness of the nonlocality of entanglement is of fundamental importance in various fields. The well-known nonlocal games or equivalent linear Bell inequalities are only useful for Bell networks consisting of single entanglement. Our goal in this paper is to propose a unified method for constructing cooperating games in network scenarios. We propose an efficient method to construct multipartite nonlocal games from any graphs. The main idea is the graph representation of entanglement-based quantum networks. We further specify these graphic games with quantum advantages by providing a simple sufficient and necessary condition. The graphic games imply a linear Bell testing of the nonlocality of general quantum networks consisting of EPR states. It also allows generating new instances going beyond CHSH game. These results have interesting applications in quantum networks, Bell theory, computational complexity, and theoretical computer science.
Generation of a frequency-degenerate four-photon entangled state using a silicon nanowire
Authors: Feng Lan-Tian , Zhang Ming , Zhou Zhi-Yuan , Chen Yang , Li Ming , Dai Dao-Xin , Ren Hong-Liang , Guo Guo-Ping , Guo Guang-Can , Tame Mark , Ren Xi-Feng 
Published: October 2019

AbstractIntegrated photonics is becoming an ideal platform for generating two-photon entangled states with high brightness, high stability, and scalability. This high brightness and high quality of photon pair sources encourages researchers further to study and manipulate multiphoton entangled states. Here, we experimentally demonstrate frequency-degenerate four-photon entangled state generation based on a single silicon nanowire 1 cm in length. The polarization encoded entangled states are generated with the help of a Sagnac loop using additional optical elements. The states are analyzed using quantum interference and state tomography techniques. As an example, we show that the generated quantum states can be used to achieve phase super-resolution. Our work provides a method for preparing indistinguishable multi-photon entangled states and realizing quantum algorithms in a compact on-chip setting.
A data driven approach reveals disease similarity on a molecular level
Authors: Lakiotaki Kleanthi , Georgakopoulos George , Castanas Elias , Røe Oluf Dimitri , Borboudakis Giorgos , Tsamardinos Ioannis 
Published: October 2019

AbstractCould there be unexpected similarities between different studies, diseases, or treatments, on a molecular level due to common biological mechanisms involved? To answer this question, we develop a method for computing similarities between empirical, statistical distributions of high-dimensional, low-sample datasets, and apply it on hundreds of -omics studies. The similarities lead to dataset-to-dataset networks visualizing the landscape of a large portion of biological data. Potentially interesting similarities connecting studies of different diseases are assembled in a disease-to-disease network. Exploring it, we discover numerous non-trivial connections between Alzheimer’s disease and schizophrenia, asthma and psoriasis, or liver cancer and obesity, to name a few. We then present a method that identifies the molecular quantities and pathways that contribute the most to the identified similarities and could point to novel drug targets or provide biological insights. The proposed method acts as a “statistical telescope” providing a global view of the constellation of biological data; readers can peek through it at:http://datascope.csd.uoc.gr:25000/.
A multigene and morphological analysis expands the diversity of the seabod shrimp Xiphopenaeus Smith, 1869 (Decapoda: Penaeidae), with descriptions of two new species
Authors: Carvalho-Batista Abner , Terossi Mariana , Zara Fernando J. , Mantelatto Fernando L. , Costa Rogerio C. 
Published: October 2019

AbstractAfter being stable for nearly a century, the taxonomic history of the genus Xiphopenaeus has been marked by many changes in the last three decades. The taxonomic status of the Atlantic species has a low resolution, and many species are still undefined and grouped as cryptic species. Here we employed an integrative approach to define the species of Xiphopenaeus and the morphological characters needed to differentiate them. We combined the analyses of two molecular markers (COI and 16 S rDNA), scanning electron microscopy and light microscopy. Based on specimens from 17 localities from the Atlantic and Pacific oceans, we detected five divergent genetic groups, three in the Atlantic (A1, A2, A3) and two in the Pacific (P1, P2). Male secondary sexual characters were able to differentiate four out of the five genetic groups. Group A1 corresponds to X. kroyeri, and A2 and A3 correspond to new species. We redescribed the genus and two new species are described and illustrated: Xiphopenaeus dincao nov. sp. (A2) and Xiphopenaeus baueri nov. sp. (A3). Since the holotype of X. riveti was missing and the specimen analysed from group P2 was a female, the status of the species of Xiphopenaeus from the Pacific remains unresolved.
Spring peaks and autumn troughs identified in peripheral inflammatory markers during the peripartum period
Authors: Henriksson Hanna E. , White Richard A. , Iliadis Stavros I. , Fransson Emma , Papadopoulos Fotios C. , Sundström-Poromaa Inger , Skalkidou Alkistis 
Published: October 2019

AbstractSeasonal variations have recently been described in biomarkers, cell types, and gene expression associated with the immune system, but so far no studies have been conducted among women in the peripartum period. It is of note that pregnancy complications and outcomes, as well as autoimmune diseases, have also been reported to exhibit seasonal fluctuations. We report here a clear-cut seasonal pattern of 23 inflammatory markers, analysed using proximity-extension assay technology, in pregnant women. The inflammatory markers generally peaked in the spring and had a trough in the autumn. During the postpartum period we found seasonality in one inflammatory marker, namely monocyte chemotactic protein 4 (MCP-4). Our findings suggest that seasonal variations in peripheral inflammatory markers are only observed during pregnancy. The results of this study could be valuable to professionals working within the field of immunology-related areas, and provide insight for the understanding of obstetric complications.
Modeling lamellar disruption within the aortic wall using a particle-based approach
Authors: Ahmadzadeh H. , Rausch M. K. , Humphrey J. D. 
Published: October 2019

AbstractAortic dissections associate with medial degeneration, thus suggesting a need to understand better the biophysical interactions between the cells and matrix that constitute the middle layer of the aortic wall. Here, we use a recently extended “Smoothed Particle Hydrodynamics” formulation to examine potential mechanisms of aortic delamination arising from smooth muscle cell (SMC) dysfunction or apoptosis, degradation of or damage to elastic fibers, and pooling of glycosaminoglycans (GAGs), with associated losses of medial collagen in the region of the GAGs. First, we develop a baseline multi-layered model for the healthy aorta that delineates medial elastic lamellae and intra-lamellar constituents. Next, we examine stress fields resulting from the disruption of individual elastic lamellae, lost SMC contractility, and GAG production within an intra-lamellar space, focusing on the radial transferal of loading rather than on stresses at the tip of the delaminated tissue. Results suggest that local disruptions of elastic lamellae transfer excessive loads to nearby intra-lamellar constituents, which increases cellular vulnerability to dysfunction or death. Similarly, lost SMC function and accumulations of GAGs increase mechanical stress on nearby elastic lamellae, thereby increasing the chance of disruption. Overall these results suggest a positive feedback loop between lamellar disruption and cellular dropout with GAG production and lost medial collagen that is more pronounced at higher distending pressures. Independent of the initiating event, this feedback loop can catastrophically propagate intramural delamination.
Distinct downstream signaling and the roles of VEGF and PlGF in high glucose-mediated injuries of human retinal endothelial cells in culture
Authors: Jiao Wanzhen , Ji Jia-Fu , Xu Wenwen , Bu Wenjuan , Zheng Yuanjie , Ma Aihua , Zhao Bojun , Fan Qingfeng 
Published: October 2019

AbstractVascular endothelial growth factor (VEGF) and placental growth factor (PlGF) plays a crucial role in breakdown of the blood-retinal barrier due to hyperpermeability in diabetic retinopathy (DR). However, the distinct signaling driven by VEGF and PlGF in the pathogenesis of DR remains unclear. In this study, we investigated VEGF- and PlGF- related signaling pathways and their roles in cultured human microvascular retinal endothelial cells (hRECs) under high glucose conditions (HG; 25 mM). Apoptotic cell death was evaluated, and FITC conjugated bovine serum albumin across monolayer hRECs served as an index of permeability. Western blots were used to assess the protein levels of VEGF and PlGF, as well as the phosphorylation of p38MAPK, STAT1 and Erk1/2. Knockdown of VEGF and PlGF was performed by using siRNA. Following HG treatment, increases of VEGF and PlGF as well as PKC activity were detected in hRECs. Increased phosphorylations of p38MAPKThr180/Thr182, STAT1Ser727, and Erk1/2Tyr202/Tyr185 as well as VEGFR1Tyr1213 and VEGFR2Tyr1175 were also detected in HG-treated hRECs. Inhibition of PKC activity by Go 6976 prevented HG-induced increases of phosphor-Erk1/2 and nitric oxide synthase (NOS1) expressions as well as hyperpermeability, whereas inhibition of p38MAPK pathway by SB203580 selectively suppressed activation of STAT1 and decreased apoptotic cell death under HG conditions. Moreover, VEGF knockdown predominantly inhibited activation of VEGFR2, and phosphorylation of p38MAPK and STAT1, as well as apoptotic cell death in HG-treated hRECs. Nevertheless, PlGF knockdown mainly suppressed phosphorylation of VEGFR1, PKC, and Erk1/2, as well as NOS1 expressions and hyperpermeability. Taken together, we provide evidence demonstrating that HG-induced elevation of PlGF is responsible for hyperpermeability mainly through increasing activation of PKC-Erk1/2-NOS axis via VEGFR1, while HG-induced elevation of VEGF is associated with induction of apoptotic cell death mainly through increasing activation of p38MAPK/STAT1 signaling via VEGFR2.
Tracing the sources of nutrients fueling dinoflagellate red tides occurring along the coast of Korea using radium isotopes
Authors: Kwon Hyeong Kyu , Kim Guebuem , Han Yongjin , Seo Junhyeong , Lim Weol Ae , Park Jong Woo , Park Tae Gyu , Han In-Seong 
Published: October 2019

AbstractIt is a well held concept that the magnitude of red-tide occurrence is dependent on the amount of nutrient supply if the conditions are same for temperature, salinity, light, interspecific competition, etc. However, nutrient sources fueling dinoflagellate red-tides are difficult to identify since red tides usually occur under very low inorganic-nutrient conditions. In this study, we used short-lived Ra isotopes (223Ra and 224Ra) to trace the nutrient sources fueling initiation and spread of Cochlodinium polykrikoides blooms along the coast of Korea during the summers of 2014, 2016, and 2017. Horizontal and vertical distributions of nutrient concentrations correlated well with 224Ra activities in nutrient-source waters. The offshore red-tide areas showed high 224Ra activities and low-inorganic and high-organic nutrient concentrations, which are favorable for blooming C. polykrikoides in competition with diatoms. Based on Ra isotopes, the nutrients fueling red-tide initiation (southern coast of Korea) are found to be transported horizontally from inner-shore waters. However, the nutrients in the spread region (eastern coast of Korea), approximately 200 km from the initiation region, are supplied continuously from the subsurface layer by vertical mixing or upwelling. Our study highlights that short-lived Ra isotopes are excellent tracers of nutrients fueling harmful algal blooms in coastal waters.