bluuebunny/crossref_metadata_2025_split huggingface dataset:
Distinct surveillance pathway for immunopathology during acute infection via autophagy and SR-BI
Authors: Pfeiler Susanne , Khandagale Avinash B. , Magenau Astrid , Nichols Maryana , Heijnen Harry F. G. , Rinninger Franz , Ziegler Tilman , Seveau Stephanie , Schubert Sören , Zahler Stefan , Verschoor Admar , Latz Eicke , Massberg Steffen , Gaus Katharina , Engelmann Bernd 
Published: October 2016

AbstractThe mechanisms protecting from immunopathology during acute bacterial infections are incompletely known. We found that in response to apoptotic immune cells and live or dead Listeria monocytogenes scavenger receptor BI (SR-BI), an anti-atherogenic lipid exchange mediator, activated internalization mechanisms with characteristics of macropinocytosis and, assisted by Golgi fragmentation, initiated autophagic responses. This was supported by scavenger receptor-induced local increases in membrane cholesterol concentrations which generated lipid domains particularly in cell extensions and the Golgi. SR-BI was a key driver of beclin-1-dependent autophagy during acute bacterial infection of the liver and spleen. Autophagy regulated tissue infiltration of neutrophils, suppressed accumulation of Ly6C+ (inflammatory) macrophages and prevented hepatocyte necrosis in the core of infectious foci. Perifocal levels of Ly6C+ macrophages and Ly6C− macrophages were unaffected, indicating predominant regulation of the focus core. SR-BI-triggered autophagy promoted co-elimination of apoptotic immune cells and dead bacteria but barely influenced bacterial sequestration and survival or inflammasome activation, thus exclusively counteracting damage inflicted by immune responses. Hence, SR-BI- and autophagy promote a surveillance pathway that partially responds to products of antimicrobial defenses and selectively prevents immunity-induced damage during acute infection. Our findings suggest that control of infection-associated immunopathology can be based on a unified defense operation.
A capillary electrophoresis coupled to mass spectrometry pipeline for long term comparable assessment of the urinary metabolome
Authors: Boizard Franck , Brunchault Valérie , Moulos Panagiotis , Breuil Benjamin , Klein Julie , Lounis Nadia , Caubet Cécile , Tellier Stéphanie , Bascands Jean-Loup , Decramer Stéphane , Schanstra Joost P. , Buffin-Meyer Bénédicte 
Published: October 2016

AbstractAlthough capillary electrophoresis coupled to mass spectrometry (CE-MS) has potential application in the field of metabolite profiling, very few studies actually used CE-MS to identify clinically useful body fluid metabolites. Here we present an optimized CE-MS setup and analysis pipeline to reproducibly explore the metabolite content of urine. We show that the use of a beveled tip capillary improves the sensitivity of detection over a flat tip. We also present a novel normalization procedure based on the use of endogenous stable urinary metabolites identified in the combined metabolome of 75 different urine samples from healthy and diseased individuals. This method allows a highly reproducible comparison of the same sample analyzed nearly 130 times over a range of 4 years. To demonstrate the use of this pipeline in clinical research we compared the urinary metabolome of 34 newborns with ureteropelvic junction (UPJ) obstruction and 15 healthy newborns. We identified 32 features with differential urinary abundance. Combination of the 32 compounds in a SVM classifier predicted with 76% sensitivity and 86% specificity UPJ obstruction in a separate validation cohort of 24 individuals. Thus, this study demonstrates the feasibility to use CE-MS as a tool for the identification of clinically relevant urinary metabolites.
Glycine triggers a non-ionotropic activity of GluN2A-containing NMDA receptors to confer neuroprotection
Authors: Hu Rong , Chen Juan , Lujan Brendan , Lei Ruixue , Zhang Mi , Wang Zefen , Liao Mingxia , Li Zhiqiang , Wan Yu , Liu Fang , Feng Hua , Wan Qi 
Published: October 2016

AbstractIonotropic activation of NMDA receptors (NMDARs) requires agonist glutamate and co-agonist glycine. Here we show that glycine enhances the activation of cell survival-promoting kinase Akt in cultured cortical neurons in which both the channel activity of NMDARs and the glycine receptors are pre-inhibited. The effect of glycine is reduced by shRNA-mediated knockdown of GluN2A subunit-containing NMDARs (GluN2ARs), suggesting that a non-ionotropic activity of GluN2ARs mediates glycine-induced Akt activation. In support of this finding, glycine enhances Akt activation in HEK293 cells over-expressing GluN2ARs. The effect of glycine on Akt activation is sensitive to the antagonist of glycine-GluN1 binding site. As a functional consequence, glycine protects against excitotoxicity-induced neuronal death through the non-ionotropic activity of GluN2ARs and the neuroprotective effect is attenuated by Akt inhibition. Thus, this study reveals an unexpected role of glycine in eliciting a non-ionotropic activity of GluN2ARs to confer neuroprotection via Akt activation.
Efficient long-term cryopreservation of pluripotent stem cells at −80 °C
Authors: Yuan Ye , Yang Ying , Tian Yuchen , Park Jinkyu , Dai Aihua , Roberts R. Michael , Liu Yang , Han Xu 
Published: October 2016

AbstractCurrent long term cryopreservation of cell stocks routinely requires the use of liquid nitrogen (LN2), because commonly used cryopreservation media containing cell membrane permeating cryoprotectants are thermally unstable when frozen at higher storage temperatures, e.g. −80 °C. This instability leads to ice recrystallization, causing progressive loss of cell viability over time under the storage conditions provided by most laboratory deep freezers. The dependency on LN2for cell storage significantly increases operational expense and raises issues related to impaired working efficiency and safety. Here we demonstrate that addition of Ficoll 70 to cryoprotectant solutions significantly improves system thermal stability at the working temperature (~−80 °C) of laboratory deep freezers. Moreover, a medium comprised of Ficoll 70 and dimethyl sulfoxide (DMSO) in presence or absence of fetal bovine serum (FBS) can provide reliable cryopreservation of various kinds of human and porcine pluripotent stem cells at −80 °C for periods that extend up to at least one year, with the post-thaw viability, plating efficiency, and full retention of pluripotent phenotype comparable to that achieved with LN2storage. These results illustrate the practicability of a promising long-term cryopreservation method that completely eliminates the need for LN2.
A proteinaceous organic matrix regulates carbonate mineral production in the marine teleost intestine
Authors: Schauer Kevin L. , LeMoine Christophe M. R. , Pelin Adrian , Corradi Nicolas , McDonald M. Danielle , Warren Wesley C. , Grosell Martin 
Published: October 2016

AbstractMarine teleost fish produce CaCO3in their intestine as part of their osmoregulatory strategy. This precipitation is critical for rehydration and survival of the largest vertebrate group on earth, yet the molecular mechanisms that regulate this reaction are unknown. Here, we isolate and characterize an organic matrix associated with the intestinal precipitates produced by Gulf toadfish (Opsanus beta). Toadfish precipitates were purified using two different methods, and the associated organic matrix was extracted. Greater than 150 proteins were identified in the isolated matrix by mass spectrometry and subsequent database searching using anO. betatranscriptomic sequence library produced here. Many of the identified proteins were enriched in the matrix compared to the intestinal fluid, and three showed no substantial homology to any previously characterized protein in the NCBI database. To test the functionality of the isolated matrix, a micro-modifiedin vitrocalcification assay was designed, which revealed that low concentrations of isolated matrix substantially promoted CaCO3production, where high concentrations showed an inhibitory effect. High concentrations of matrix also decreased the incorporation of magnesium into the forming mineral, potentially providing an explanation for the variability in magnesium content observed in precipitates produced by different fish species.
Analysis of microRNA and Gene Expression Profiles in Multiple Sclerosis: Integrating Interaction Data to Uncover Regulatory Mechanisms
Authors: Freiesleben Sherry , Hecker Michael , Zettl Uwe Klaus , Fuellen Georg , Taher Leila 
Published: October 2016

AbstractMicroRNAs (miRNAs) have been reported to contribute to the pathophysiology of multiple sclerosis (MS), an inflammatory disorder of the central nervous system. Here, we propose a new consensus-based strategy to analyse and integrate miRNA and gene expression data in MS as well as other publically available data to gain a deeper understanding of the role of miRNAs in MS and to overcome the challenges posed by studies with limited patient sample sizes. We processed and analysed microarray datasets and compared the expression of genes and miRNAs in the blood of MS patients and controls. We then used our consensus and integration approach to construct two molecular networks dysregulated in MS: a miRNA- and a gene-based network. We identified 18 differentially expressed (DE) miRNAs and 128 DE genes that may contribute to the regulatory alterations behind MS. The miRNAs were linked to immunological and neurological pathways and we exposed let-7b-5p and miR-345-5p as promising blood-derived disease biomarkers in MS. The results suggest that DE miRNAs are more informative than DE genes in uncovering pathways potentially involved in MS. Our findings provide novel insights into the regulatory mechanisms and networks underlying MS.
Systemic Inhibition of CREB is Well-tolerated in vivo
Authors: Li Bingbing X. , Gardner Ryan , Xue Changhui , Qian David Z. , Xie Fuchun , Thomas George , Kazmierczak Steven C. , Habecker Beth A. , Xiao Xiangshu 
Published: October 2016

AbstractcAMP-response element binding protein (CREB) is a nuclear transcription factor activated by multiple extracellular signals including growth factors and hormones. These extracellular cues activate CREB through phosphorylation at Ser133 by various protein serine/threonine kinases. Once phosphorylated, it promotes its association with transcription coactivators CREB-binding protein (CBP) and its paralog p300 to activate CREB-dependent gene transcription. Tumor tissues of different origins have been shown to present overexpression and/or overactivation of CREB, indicating CREB as a potential cancer drug target. We previously identified 666-15 as a potent inhibitor of CREB with efficacious anti-cancer activity both in vitro and in vivo. Herein, we investigated the specificity of 666-15 and evaluated its potential in vivo toxicity. We found that 666-15 was fairly selective in inhibiting CREB. 666-15 was also found to be readily bioavailable to achieve pharmacologically relevant concentrations for CREB inhibition. Furthermore, the mice treated with 666-15 showed no evidence of changes in body weight, complete blood count, blood chemistry profile, cardiac contractility and tissue histologies from liver, kidney and heart. For the first time, these results demonstrate that pharmacological inhibition of CREB is well-tolerated in vivo and indicate that such inhibitors should be promising cancer therapeutics.
A novel method for preparing microplastic fibers
Authors: Cole Matthew 
Published: October 2016

AbstractMicroscopic plastic (microplastic, 0.1 µm–5 mm) is a widespread pollutant impacting upon aquatic ecosystems across the globe. Environmental sampling has revealed synthetic fibers are prevalent in seawater, sediments and biota. However, microplastic fibers are rarely used in laboratory studies as they are unavailable for purchase and existing preparation techniques have limited application. To facilitate the incorporation of environmentally relevant microplastic fibers into future studies, new methods are required. Here, a novel cryotome protocol has been developed. Nylon, polyethylene terephthalate and polypropylene fibers (10–28 μm diameter) were aligned, embedded in water-soluble freezing agent and sectioned (40–100 μm length) using a cryogenic microtome. Microplastic fibers were prepared to specified lengths (P < 0.05, ANOVA) and proved consistent in size. Fluorescent labelling of Nylon microfibers with Nile Red facilitated imaging. A 24 h feeding experiment confirmed bioavailability of 10 × 40 μm Nylon fibers to brine shrimp (Artemia sp). This protocol provides a consistent method for preparing standardised fibrous microplastics, with widths similar to those observed in the natural environment, which could ultimately lead to a better understanding of the biological and ecological effects of microplastic debris in the environment.
Biomimetic Nanofibrillation in Two-Component Biopolymer Blends with Structural Analogs to Spider Silk
Authors: Xie Lan , Xu Huan , Li Liang-Bin , Hsiao Benjamin S. , Zhong Gan-Ji , Li Zhong-Ming 
Published: October 2016

AbstractDespite the enormous potential in bioinspired fabrication of high-strength structure by mimicking the spinning process of spider silk, currently accessible routes (e.g., microfluidic and electrospinning approaches) still have substantial function gaps in providing precision control over the nanofibrillar superstructure, crystalline morphology or molecular orientation. Here the concept of biomimetic nanofibrillation, by copying the spiders’ spinning principles, was conceived to build silk-mimicking hierarchies in two-phase biodegradable blends, strategically involving the stepwise integration of elongational shear and high-pressure shear. Phase separation confined on nanoscale, together with deformation of discrete phases and pre-alignment of polymer chains, was triggered in the elongational shear, conferring the readiness for direct nanofibrillation in the latter shearing stage. The orderly aligned nanofibrils, featuring an ultralow diameter of around 100 nm and the “rigid−soft” system crosslinked by nanocrystal domains like silk protein dopes, were secreted by fine nanochannels. The incorporation of multiscale silk-mimicking structures afforded exceptional combination of strength, ductility and toughness for the nanofibrillar polymer composites. The proposed spider spinning-mimicking strategy, offering the biomimetic function integration unattainable with current approaches, may prompt materials scientists to pursue biopolymer mimics of silk with high performance yet light weight.
A sensitive electrochemical sensor for in vitro detection of parathyroid hormone based on a MoS2-graphene composite
Authors: Kim Hyeong-U , Kim Hye Youn , Kulkarni Atul , Ahn Chisung , Jin Yinhua , Kim Yeongseok , Lee Kook-Nyung , Lee Min-Ho , Kim Taesung 
Published: October 2016

AbstractThis paper reports a biosensor based on a MoS2-graphene (MG) composite that can measure the parathyroid hormone (PTH) concentration in serum samples from patients. The interaction between PTH and MG was analysed via an electrochemical sensing technique. The MG was functionalized using l-cysteine. Following this, PTH could be covalently immobilized on the MG sensing electrode. The properties of MG were evaluated using scanning electron microscopy, high-resolution transmission electron microscopy, X-ray diffraction, Raman spectroscopy, X-ray photoelectron spectroscopy, and Fourier transform infrared spectrometry. Following optimization of immobilized materials—such as MG, PTH, and alkaline phosphatase (ALP)—the performance of the MG sensor was investigated via cyclic voltammetry, to assess its linearity, repeatability, and reproducibility. Electrochemical impedance spectroscopy was performed on graphene oxide (GO) and MG-modified electrodes to confirm the capture of a monoclonal antibody (MAb) targeting PTH. Furthermore, the ALP-PTH-MG sensor exhibits a linear response towards PTH from artificial serum over a range of 1–50 pg mL−1. Moreover, patient sera (n = 30) were evaluated using the ALP-PTH-MG sensor and compared using standard equipment (Roche E 170). The P-value is less than 0.01 when evaluated with a t-test using Welch’s correction. This implies that the fabricated sensor can be deployed for medical diagnosis.
In Situ Growth of Highly Adhesive Surface Layer on Titanium Foil as Durable Counter Electrodes for Efficient Dye-sensitized Solar Cells
Authors: Liu Wantao , Xu Peng , Guo Yanjun , Lin Yuan , Yin Xiong , Tang Guangshi , He Meng 
Published: October 2016

AbstractCounter electrodes (CEs) of dye-sensitized solar cells (DSCs) are usually fabricated by depositing catalytic materials on substrates. The poor adhesion of the catalytic material to the substrate often results in the exfoliation of catalytic materials, and then the deterioration of cell performance or even the failure of DSCs. In this study, a highly adhesive surface layer is in situ grown on the titanium foil via a facile process and applied as CEs for DSCs. The DSCs applying such CEs demonstrate decent power conversion efficiencies, 6.26% and 4.37% for rigid and flexible devices, respectively. The adhesion of the surface layer to the metal substrate is so strong that the photovoltaic performance of the devices is well retained even after the CEs are bended for 20 cycles and torn twice with adhesive tape. The results reported here indicate that the in situ growth of highly adhesive surface layers on metal substrate is a promising way to prepare durable CEs for efficient DSCs.
Modification of plant cell wall structure accompanied by enhancement of saccharification efficiency using a chemical, lasalocid sodium
Authors: Okubo-Kurihara Emiko , Ohtani Misato , Kurihara Yukio , Kakegawa Koichi , Kobayashi Megumi , Nagata Noriko , Komatsu Takanori , Kikuchi Jun , Cutler Sean , Demura Taku , Matsui Minami 
Published: October 2016

AbstractThe cell wall is one major determinant of plant cell morphology, and is an attractive bioresource. Here, we report a novel strategy to modify plant cell wall property by small molecules. Lasalocid sodium (LS) was isolated by chemical screening to identify molecules that affect the cell morphology of tobacco BY-2 cells. LS treatment led to an increase in cell wall thickness, whilst the quantity and sugar composition of the cell wall remained unchanged in BY-2 cells. The chemical also disordered the cellular arrangement of hypocotyls of Arabidopsis plants, resulting in a decrease in hypocotyl length. LS treatment enhanced enzymatic saccharification efficiency in both BY-2 cells and Arabidopsis plants. Microarray analysis on Arabidopsis showed that exposure to LS upregulated type III peroxidase genes, of which some are involved in lignin biogenesis, and jasmonic acid response genes, and phloroglucinol staining supported the activation of lignification by the LS treatment. As jasmonic acid-mediated lignification is a typical reaction to cell wall damage, it is possible that LS induces cell wall loosening, which can trigger cell wall damage response. Thus, LS is a unique chemical for modification of cell wall and morphology through changes in cell wall architecture.
Potassium Management for Improving Growth and Grain Yield of Maize (Zea mays L.) under Moisture Stress Condition
Authors: Amanullah  , Iqbal Asif , Irfanullah  , Hidayat Zeeshan 
Published: October 2016

AbstractPotassium (K) fertilizer management is beneficial for improving growth, yield and yield components of field crops under moisture stress condition in semiarid climates. Field experiments were conducted to study the response of maize (Zea maysL., cv. Azam) to foliar and soil applied K during summer 2013 and 2014. The experiments were carried out at the Agronomy Research Farm of The University of Agriculture Peshawar, Northwest Pakistan under limited irrigation (moisture stress) condition. It was concluded from the results that application of foliar K at the rate of 1–3% and foliar Zn at the rate of 0.1–0.2% was more beneficial in terms of better growth, higher yield and yield components of maize under moisture stress condition. Early spray (vegetative stage) resulted in better growth and higher yield than late spray (reproductive stage). Soil K treated plots (rest) plots performed better than control (K not applied) in terms of improved growth, higher yield and yield components of maize crop. The results further demonstrated that increasing the rate of soil applied K up to 90 kg P ha−1in two equal splits (50% each at sowing and knee height) improve growth and maize productivity under semiarid climates.
Revisit to three-dimensional percolation theory: Accurate analysis for highly stretchable conductive composite materials
Authors: Kim Sangwoo , Choi Seongdae , Oh Eunho , Byun Junghwan , Kim Hyunjong , Lee Byeongmoon , Lee Seunghwan , Hong Yongtaek 
Published: October 2016

AbstractA percolation theory based on variation of conductive filler fraction has been widely used to explain the behavior of conductive composite materials under both small and large deformation conditions. However, it typically fails in properly analyzing the materials under the large deformation since the assumption may not be valid in such a case. Therefore, we proposed a new three-dimensional percolation theory by considering three key factors: nonlinear elasticity, precisely measured strain-dependent Poisson’s ratio, and strain-dependent percolation threshold. Digital image correlation (DIC) method was used to determine actual Poisson’s ratios at various strain levels, which were used to accurately estimate variation of conductive filler volume fraction under deformation. We also adopted strain-dependent percolation threshold caused by the filler re-location with deformation. When three key factors were considered, electrical performance change was accurately analyzed for composite materials with both isotropic and anisotropic mechanical properties.
Low Concentration of Sodium Butyrate from Ultrabraid+NaBu suture, Promotes Angiogenesis and Tissue Remodelling in Tendon-bones Injury
Authors: Liu Donghui , Andrade Silvia Passos , Castro Pollyana Ribeiro , Treacy John , Ashworth Jason , Slevin Mark 
Published: October 2016

AbstractSodium butyrate (NaBu), a form of short-chain fatty acid (SCFA), acts classically as a potent anti-angiogenic agent in tumour angiogenesis models, some authors demonstrated that low concentrations of NaBu may contribute to healing of tendon-bone injury in part at least through promotion of tissue remodelling. Here, we investigated the effects of low-range concentrations of NaBu using in vitro and in vivo assays using angiogenesis as the primary outcome measure and the mechanisms through which it acts. We demonstrated that NaBu, alone or perfused from the UltraBraid+NaBu suture was pro-angiogenic at very low-range doses promoting migration, tube formation and cell invasion in bovine aortic endothelial cells (BAECs). Furthermore, cell exposure to low NaBu concentrations increased expression of proteins involved in angiogenic cell signalling, including p-PKCβ1, p-FAK, p-ERK1/2, p-NFκβ, p-PLCγ1 and p-VEGFR2. In addition, inhibitors of both VEGFR2 and PKCβ1 blocked the angiogenic response. In in vivo assays, low concentrations of NaBu induced neovascularization in sponge implants in mice, evidenced by increased numbers of vessels and haemoglobin content in these implants. The findings in this study indicate that low concentrations of NaBu could be an important compound to stimulate angiogenesis at a site where vasculature is deficient and healing is compromised.