bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Impact of Oxygen on the Reconnection Rate
Authors: Tenfjord P. , Hesse M. , Norgren C. , Spinnangr S. F. , Kolstø H. 
Published: May 2019

AbstractWe investigate the role of a background oxygen population in magnetic reconnection, using particle‐in‐cell simulations. We run several simulations, with different initial oxygen temperatures and densities, to understand how the reconnection rate is influenced, as oxygen is captured by the reconnection process. The oxygen remains approximately demagnetized on the relevant time and spatial scales and therefore has little direct (i.e., immediate mass loading) effect on the reconnection process itself. The reconnection rate is independent of the initial oxygen temperature but clearly dependent on the density. The reduced reconnection rate is twice as fast as predicted by mass loading. We describe a mechanism where the oxygen population (and the associated electrons) acts as an energy sink on the system, altering the energy partitioning. Based on a scaling analysis, we derive an estimate of the reconnection electric field that scales as (1+no/np)−1, where no and np is the oxygen and proton densities, respectively.
A Model for the Formation of Eskers
Authors: Hewitt Ian J. , Creyts Timothy T. 
Published: May 2019

AbstractWe develop a mathematical model for esker formation by the continuous deposition of sediments near the mouth of water‐filled subglacial tunnels. We assume a retreating ice sheet margin and prescribe meltwater and sediment supply to a channelized subglacial drainage system. The hydrodynamic model for the subglacial channel has its cross section governed by wall melting, creep closure, and sediment deposition. Sediment‐carrying capacity typically increases downstream, before decreasing rapidly near the margin, suggesting that most deposition occurs there. This can lead to “choking” near the margin, which is offset by enhanced melting to keep the channel open. The model shows that the deposition rate varies roughly quadratically with sediment supply and inversely with water flux. For given sediment supply, the model suggests esker formation is most prevalent in smaller channels. Larger ice sheet melt rates likely produce more closely spaced eskers, but with smaller cross sections.
81Kr Dating at the Guliya Ice Cap, Tibetan Plateau
Authors: Tian Lide , Ritterbusch Florian , Gu Ji‐Qiang , Hu Shui‐Ming , Jiang Wei , Lu Zheng‐Tian , Wang Di , Yang Guo‐Min 
Published: May 2019

AbstractWe present radiometric 81Kr dating results for ice samples collected at the outlets of the Guliya ice cap in the western Kunlun Mountains of the Tibetan Plateau. This first application of 81Kr dating on midlatitude glacier ice was made possible by recent advances in Atom Trap Trace Analysis, particularly a reduction in the required sample size down to 1 μL STP of krypton. Eight ice blocks were sampled from the bottom of the glacier at three different sites along the southern edges. The 81Kr data yield upper age limits in the range of 15–74 ka (90% confidence level). This is an order of magnitude lower than the ages exceeding 500 ka which the previous 36Cl data suggest for the bottom of the Guliya ice core. It is also significantly lower than the widely used chronology up to 110 ka established for the upper part of the core based on ice δ18O.
Urban Impacts on Extreme Monsoon Rainfall and Flooding in Complex Terrain
Authors: Yang Long , Smith James , Niyogi Dev 
Published: May 2019

AbstractHydrometeorological impacts due to urbanization for cities close to complex terrain are poorly understood due to the complexities of terrain‐related circulation and urban perturbations of atmospheric flow. In this study, we examine urban impacts on extreme monsoon rainfall and the resultant flooding over central Arizona based on high‐resolution atmospheric and hydrological model simulations. Strong positive rainfall anomalies at the urban‐rural interface downwind of the city are mainly related to dynamic effects (increased surface roughness) on convective outflow boundaries. Urban‐related thermodynamic disturbances slightly increase rain rates over the downtown core of Phoenix. Contrasting rainfall anomalies for two consecutive storm episodes highlight the importance of flow regime analysis in understanding urban impacts on extreme rainfall in complex terrain. Urban‐induced rainfall anomalies result in amplification of flood peak magnitudes by as much as a factor of 2 for Phoenix watersheds. Our results highlight the urban impacts on regional flood hydrology through land‐atmosphere interactions.
Characterization and Evolution of Radiation Belt Electron Energy Spectra Based on the Van Allen Probes Measurements
Authors: Zhao H. , Johnston W. R. , Baker D. N. , Li X. , Ni B. , Jaynes A. N. , Kanekal S. G. , Blake J. B. , Claudepierre S. G. , Reeves G. D. , Boyd A. J. 
Published: May 2019

AbstractBased on the measurements of ~100‐keV to 10‐MeV electrons from the Magnetic Electron Ion Spectrometer (MagEIS) and Relativistic Electron and Proton Telescope (REPT) on the Van Allen Probes, the radiation belt electron energy spectra characterization and evolution have been investigated systematically. The results show that the majority of radiation belt electron energy spectra can be represented by one of three types of distributions: exponential, power law, and bump‐on‐tail (BOT). The exponential spectra are generally dominant in the outer radiation belt outside the plasmasphere, power law spectra usually appear at high L‐shells during injections of lower‐energy electrons, and BOT spectra commonly dominate inside the plasmasphere at L>2.5 during relatively quiet times. The main features of three types of energy spectra have also been revealed. Specifically, for the BOT energy spectrum, the energy of local flux maximum usually ranges from approximately hundreds of keV to several MeV and the energy of local flux minimum varies from ~100 keV to ~MeV, both increasing as L‐shell decreases, confirming the plasmaspheric hiss wave scattering to be the main mechanism forming the BOT energy spectra. Statistical results using 4‐year observations from the Van Allen Probes on the relation between energy spectra and plasmapause location also show that the plasmasphere plays a critical role in shaping radiation belt electron energy spectrum: the peak location of BOT energy spectra is ~1 L‐shell inside the minimum plasmapause, where BOT energy spectra mostly form in ~1–2 days as a result of hiss wave scattering.
Dysregulation of a specific immune-related network of genes biologically defines a subset of schizophrenia
Authors: Trossbach Svenja V. , Hecher Laura , Schafflick David , Deenen René , Popa Ovidiu , Lautwein Tobias , Tschirner Sarah , Köhrer Karl , Fehsel Karin , Papazova Irina , Malchow Berend , Hasan Alkomiet , Winterer Georg , Schmitt Andrea , Meyer zu Hörste Gerd , Falkai Peter , Korth Carsten 
Published: May 2019

AbstractCurrently, the clinical diagnosis of schizophrenia relies solely on self-reporting and clinical interview, and likely comprises heterogeneous biological subsets. Such subsets may be defined by an underlying biology leading to solid biomarkers. A transgenic rat model modestly overexpressing the full-length, non-mutant Disrupted-in-Schizophrenia 1 (DISC1) protein (tgDISC1 rat) was generated that defines such a subset, inspired by our previous identification of insoluble DISC1 protein in post mortem brains from patients with chronic mental illness. Besides specific phenotypes such as DISC1 protein pathology, abnormal dopamine homeostasis, and changes in neuroanatomy and behavior, this animal model also shows subtle disturbances in overarching signaling pathways relevant for schizophrenia. In a reverse-translational approach, assuming that both the animal model and a patient subset share common disturbed signaling pathways, we identified differentially expressed transcripts from peripheral blood mononuclear cells of tgDISC1 rats that revealed an interconnected set of dysregulated genes, led by decreased expression of regulator of G-protein signaling 1 (RGS1), chemokine (C–C) ligand 4 (CCL4), and other immune-related transcripts enriched in T-cell and macrophage signaling and converging in one module after weighted gene correlation network analysis. Testing expression of this gene network in two independent cohorts of patients with schizophrenia versus healthy controls (n = 16/50 and n = 54/45) demonstrated similar expression changes. The two top markers RGS1 and CCL4 defined a subset of 27% of patients with 97% specificity. Thus, analogous aberrant signaling pathways can be identified by a blood test in an animal model and a corresponding schizophrenia patient subset, suggesting that in this animal model tailored pharmacotherapies for this patient subset could be achieved.
Topological characterizations of an extended Su–Schrieffer–Heeger model
Authors: Xie Dizhou , Gou Wei , Xiao Teng , Gadway Bryce , Yan Bo 
Published: May 2019

AbstractThe Su–Schrieffer–Heeger (SSH) model perhaps is the easiest and the most basic model for topological excitations. Many variations and extensions of the SSH model have been proposed and explored to better understand both fundamental and novel aspects of topological physics. The SSH4 model has been proposed theoretically as an extended SSH model with higher dimension (the internal dimension changes from two to four). It has been proposed that the winding number in this system can be determined through a higher-dimensional extension of the mean chiral displacement measurement, however, this has not yet been verified in experiment. Here, we report the realization of this model with ultracold atoms in a momentum lattice. We verify the winding number through measurement of the mean chiral displacement in a system with higher internal dimension, we map out the topological phase transition in this system, and we confirm the topological edge state by observation of the quench dynamics when atoms are initially prepared at the system boundary.
Beaver-generated disturbance extends beyond active dam sites to enhance stream morphodynamics and riparian plant recruitment
Authors: Levine Rebekah , Meyer Grant A. 
Published: May 2019

AbstractGiven the direct effects of their dams on hydrology, sediment storage, and vegetation, beaver are widely acknowledged as ecosystem engineers. Here we explore the effects of beaver activity on channel processes and riparian plant recruitment beyond those dams and after dam abandonment in southwestern Montana, USA. Willow cuttings from beaver herbivory are commonly deposited along point bars, adding roughness and promoting sediment accumulation. Most cuttings are found <1 km downstream of an active dam. These cuttings often sprout, aiding in willow colonization and bar stabilization. Thirty-four radiocarbon ages show that beaver cuttings have accumulated by similar processes over thousands of years, adding to floodplain carbon storage. Breached dams can initiate meanders, increasing channel and riparian habitat diversity. Beaver activity thus generates a cycle of frequent disturbance, from dam building and riparian plant browsing through dam failure and abandonment, with each phase influencing channel and floodplain evolution and riparian plant recruitment.
Spurious violation of the Stokes–Einstein–Debye relation in supercooled water
Authors: Kawasaki Takeshi , Kim Kang 
Published: May 2019

AbstractThe theories of Brownian motion, the Debye rotational diffusion model, and hydrodynamics together provide us with the Stokes–Einstein–Debye (SED) relation between the rotational relaxation time of the $${\boldsymbol{\ell }}$$
ℓ
-th degree Legendre polynomials $${{\boldsymbol{\tau }}}_{{\boldsymbol{\ell }}}$$

τ

ℓ

, and viscosity divided by temperature, η/T. Experiments on supercooled liquids are frequently performed to measure the SED relations, $${{\boldsymbol{\tau }}}_{{\boldsymbol{\ell }}}$$

τ

ℓ

kBT/η and Dt$${{\boldsymbol{\tau }}}_{{\boldsymbol{\ell }}}$$

τ

ℓ

, where Dt is the translational diffusion constant. However, the SED relations break down, and its molecular origin remains elusive. Here, we assess the validity of the SED relations in TIP4P/2005 supercooled water using molecular dynamics simulations. Specifically, we demonstrate that the higher-order $${{\boldsymbol{\tau }}}_{{\boldsymbol{\ell }}}$$

τ

ℓ

values exhibit a temperature dependence similar to that of η/T, whereas the lowest-order $${{\boldsymbol{\tau }}}_{{\boldsymbol{\ell }}}$$

τ

ℓ

values are decoupled with η/T, but are coupled with the translational diffusion constant Dt. We reveal that the SED relations are so spurious that they significantly depend on the degree of Legendre polynomials.
Learning from droplet flows in microfluidic channels using deep neural networks
Authors: Hadikhani Pooria , Borhani Navid , H. Hashemi S. Mohammad , Psaltis Demetri 
Published: May 2019

AbstractA non-intrusive method is presented for measuring different fluidic properties in a microfluidic chip by optically monitoring the flow of droplets. A neural network is used to extract the desired information from the images of the droplets. We demonstrate the method in two applications: measurement of the concentration of each component of a water/alcohol mixture, and measurement of the flow rate of the same mixture. A large number of droplet images are recorded and used to train deep neural networks (DNN) to predict the flow rate or the concentration. It is shown that this method can be used to quantify the concentrations of each component with a 0.5% accuracy and the flow rate with a resolution of 0.05 ml/h. The proposed method can in principle be used to measure other properties of the fluid such as surface tension and viscosity.
Molecular basis of natural tolerance to glyphosate in Convolvulus arvensis
Authors: Huang Zhaofeng , Liu Yan , Zhang Chaoxian , Jiang Cuilan , Huang Hongjuan , Wei Shouhui 
Published: May 2019

AbstractConvolvulus arvensis is a troublesome weed that is naturally tolerant to glyphosate. This weed tolerates glyphosate at a rate 5.1 times higher than that of glyphosate-susceptible Calystegia hederacea. Glyphosate-treated C. arvensis plants accumulated less shikimic acid than C. hederacea plants. The overexpression of EPSPS genes from the two species in transgenic Arabidopsis thaliana resulted in similar glyphosate tolerance levels. qPCR of genomic DNA revealed that the EPSPS copy number in C. arvensis was approximately 2 times higher than that in C. hederacea. Moreover, glyphosate treatment caused a marked increase in EPSPS mRNA in C. arvensis compared to C. hederacea. GUS activity analysis showed that the promoter of CaEPSPS (CaEPSPS-P) highly improved GUS expression after glyphosate treatment, while no obvious differential GUS expression was observed in ChEPSPS-P transgenic A. thaliana in the presence or absence of glyphosate. Based on the obtained results, two coexisting mechanisms may explain the natural glyphosate tolerance in C. arvensis: (i) high EPSPS copy number and (ii) specific promoter-mediated overexpression of EPSPS after glyphosate treatment.
NOMePlot: analysis of DNA methylation and nucleosome occupancy at the single molecule
Authors: Requena Francisco , Asenjo Helena G. , Barturen Guillermo , Martorell-Marugán Jordi , Carmona-Sáez Pedro , Landeira David 
Published: May 2019

AbstractRecent technical advances highlight that to understand mammalian development and human disease we need to consider transcriptional and epigenetic cell-to-cell differences within cell populations. This is particularly important in key areas of biomedicine like stem cell differentiation and intratumor heterogeneity. The recently developed nucleosome occupancy and methylome (NOMe) assay facilitates the simultaneous study of DNA methylation and nucleosome positioning on the same DNA strand. NOMe-treated DNA can be sequenced by sanger (NOMe-PCR) or high throughput approaches (NOMe-seq). NOMe-PCR provides information for a single locus at the single molecule while NOMe-seq delivers genome-wide data that is usually interrogated to obtain population-averaged measures. Here, we have developed a bioinformatic tool that allow us to easily obtain locus-specific information at the single molecule using genome-wide NOMe-seq datasets obtained from bulk populations. We have used NOMePlot to study mouse embryonic stem cells and found that polycomb-repressed bivalent gene promoters coexist in two different epigenetic states, as defined by the nucleosome binding pattern detected around their transcriptional start site.
The diagnostic quality of needle brain biopsy specimens obtained with different sampling methods – Experimental study
Authors: Trojanowski Piotr , Jarosz Bożena , Szczepanek Dariusz 
Published: May 2019

AbstractThe aim is to examine whether brain tissue samples obtained through needle biopsy are better for histopathological evaluation when obtained with defined vacuum pressure, a novel needle rotation method, and using different needle type - Laitinen or Nashold. Moreover the paper aims to answer the question: Does vacuum and mechanical injury resulting from different sampling methods damage the tissue specimen challenging the diagnosis?. Eight hundred biopsy specimens from fresh swine brains were obtained using Nashold and Laitinen brain biopsy needles through inner cannula cutting or needle rotation sampling at vacuum pressure, from 0 to 0.06 MPa. The specimen weight and tissue quality for microscopic assessment were evaluated using the Mair score. Rising aspiration pressure increased the biopsy sample weight. Needle rotation delivered larger biopsy samples than the standard method. Laitinen provided larger samples than the Nashold needle, with the same sampling method or vacuum pressure. A higher histopathological diagnostic quality of tissue was obtained with the Laitinen needle than with Nashold, with higher vacuum pressure than lower pressure and finally with needle rotation than the standard method. No tissue damage caused by higher suction pressure or method of tissue separation was documented. Brain tissue samples obtained through needle biopsy are better for histopathological evaluation when obtained with higher vacuum pressure, a novel needle rotation method and with Laitinen needle. Higher suction pressure and sampling methods did not cause tissue damage.
N-acetylcysteine prevents bladder tissue fibrosis in a lipopolysaccharide-induced cystitis rat model
Authors: Ryu Chae-Min , Shin Jung Hyun , Yu Hwan Yeul , Ju Hyein , Kim Sujin , Lim Jisun , Heo Jinbeom , Lee Seungun , Shin Dong-Myung , Choo Myung-Soo 
Published: May 2019

AbstractTherapeutic options for non-Hunner type interstitial cystitis (IC), which is histologically characterized by fibrosis and mast cell infiltration, are limited. We developed a rat model that replicates chronic inflammation and fibrosis and evaluated the therapeutic effect of N-acetylcysteine (NAC), a well-known anti-fibrotic agent, on the model. Intravesical instillation of lipopolysaccharide (LPS, 750 μg) after protamine sulfate (10 mg) was conducted twice per week for five consecutive weeks. One week after final instillation, 200 mg/kg NAC (n = 10, IC + NAC group) or phosphate-buffered saline (n = 10, IC group) was daily injected intraperitoneally once daily for 5 days. LPS instillation induced bladder fibrosis, mast cell infiltration, and apoptotic tissue damage. Functionally, LPS insult led to irregular micturition, decreased inter-contraction intervals, and decreased micturition volume. NAC significantly improved most of the voiding parameters and reversed histological damages including fibrosis. NAC inhibited the induction and nuclear localization of phospho-Smad2 protein in bladder tissues and the upregulation of genes related to fibrosis, such as Tgfb2, Tgfb3, Smad2, Smad3, Cxcl10, and Card10. This is the first study to demonstrate the beneficial effects on NAC in restoring voiding function, relieving tissue fibrosis and related bladder injuries, in the LPS-induced cystitis rat model.
Gait alterations during walking with partial body weight supported on a treadmill and over the ground
Authors: Barela Ana Maria F. , Gama Gabriela L. , Russo-Junior Douglas V. , Celestino Melissa L. , Barela José A. 
Published: May 2019

AbstractUnderstanding the changes induced by body weight support (BWS) systems when non-disabled adults walk can help develop appropriate rehabilitation protocols. The purpose of this study was to investigate spatial-temporal gait alterations during walking with BWS on a treadmill and over the ground. Fourteen non-disabled young adults (including seven women) walked over the ground and on a treadmill with 0%, 10%, and 20% of BWS at 80% of their self-selected comfortable walking speed (baseline). The stride length and speed, step length, and stance and double-limb support durations were calculated and compared among the different conditions. The non-disabled adults modulated their spatial-temporal gait parameters according to the surface and percentage of BWS. They walked with shorter and slower strides and shorter steps and spent more time in contact with the support surface as they walked on the treadmill than as they did over the ground. Walking on the treadmill promoted less variability and a higher rate of change than did walking over the ground. Both the surface and amount of BWS should be taken into consideration when using BWS systems for (re)learning and/or reestablishing gait.
The ability of Anopheles gambiae mosquitoes to bite through a permethrin-treated net and the consequences for their fitness
Authors: Hauser Gaël , Thiévent Kevin , Koella Jacob C. 
Published: May 2019

AbstractInsecticide-treated bed-nets (ITNs) control malaria by keeping mosquitoes from reaching people sleeping under a net and by killing mosquitoes. Most tests of ITNs consider their overall epidemiological outcome without considering the different behaviors underlying their effects. Here we consider one of these behaviors: that mosquitoes can bite through the net if its user is touching it. We assayed the ability of an insecticide-sensitive strain of the mosquito Anopheles gambiae to bite through a permethrin-treated or an untreated net, and their subsequent survival and fecundity. Despite the irritancy of permethrin, 71% of the mosquitoes took blood through the ITN (vs. 99% through the untreated net). The ITN reduced the time spent biting, the blood-meal size and the fecundity, and it killed about 15% of the mosquitoes within 24 hours of feeding (vs. 5% on the untreated net). However, the mosquito’s survival was much higher than what we found in WHO cone assays, suggesting that the bloodmeal increased the mosquito’s resistance to the insecticide. Thus, our results suggest that the irritancy and the toxicity of ITNs are reduced when mosquitoes contact and feed on their host, which will affect our understanding of the personal and community protection offered by the ITNs.
Long noncoding RNA FAM3D-AS1 inhibits development of colorectal cancer through NF-κB signaling pathway
Authors: Meng Ying , Yu Feng 
Published: May 2019

Abstract
Although numerous differential long noncoding RNAs (IncRNAs) have been identified, the relationship between lncRNA and colorectal cancer (CRC) still remains largely unclear. In the present study, we investigated the function and provided a possible mechanism of lncRNA FAM3D-AS1 in CRC. CCK8, transwell, and trypan blue staining were used to evaluate the proliferation, invasion, and cell death rates. Real-time PCR was used to elucidate the expression level of FAM3D-AS1. We found that lncRNA FAM3D-AS1 located in cytoplasm. Overexpression of FAM3D-AS1 significantly inhibited the cell proliferation, cell survival rates, and invaded cells. We also provided evidence that FAM3D-AS1 reversed the EMT process. Moreover, we proved that FAM3D-AS1 inhibits CRC development through NF-κB signaling pathway. Taken together, we performed functional analysis of FAM3D-AS1 and provided a possible mechanism in the development of CRC. Our study provided new targets for clinical treatment.