bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cigarette smoke extract profoundly suppresses TNFα-mediated proinflammatory gene expression through upregulation of ATF3 in human coronary artery endothelial cells
Authors: Teasdale Jack E. , Hazell Georgina G. J. , Peachey Alasdair M. G. , Sala-Newby Graciela B. , Hindmarch Charles C. T. , McKay Tristan R. , Bond Mark , Newby Andrew C. , White Stephen J. 
Published: January 2017

AbstractEndothelial dysfunction caused by the combined action of disturbed flow, inflammatory mediators and oxidants derived from cigarette smoke is known to promote coronary atherosclerosis and increase the likelihood of myocardial infarctions and strokes. Conversely, laminar flow protects against endothelial dysfunction, at least in the initial phases of atherogenesis. We studied the effects of TNFα and cigarette smoke extract on human coronary artery endothelial cells under oscillatory, normal laminar and elevated laminar shear stress for a period of 72 hours. We found, firstly, that laminar flow fails to overcome the inflammatory effects of TNFα under these conditions but that cigarette smoke induces an anti-oxidant response that appears to reduce endothelial inflammation. Elevated laminar flow, TNFα and cigarette smoke extract synergise to induce expression of the transcriptional regulator activating transcription factor 3 (ATF3), which we show by adenovirus driven overexpression, decreases inflammatory gene expression independently of activation of nuclear factor-κB. Our results illustrate the importance of studying endothelial dysfunction in vitro over prolonged periods. They also identify ATF3 as an important protective factor against endothelial dysfunction. Modulation of ATF3 expression may represent a novel approach to modulate proinflammatory gene expression and open new therapeutic avenues to treat proinflammatory diseases.
Structural Effects of Lanthanide Dopants on Alumina
Authors: Patel Ketan , Blair Victoria , Douglas Justin , Dai Qilin , Liu Yaohua , Ren Shenqiang , Brennan Raymond 
Published: January 2017

AbstractLanthanide (Ln3+) doping in alumina has shown great promise for stabilizing and promoting desirable phase formation to achieve optimized physical and chemical properties. However, doping alumina with Ln elements is generally accompanied by formation of new phases (i.e. LnAlO3, Ln2O3), and therefore inclusion of Ln-doping mechanisms for phase stabilization of the alumina lattice is indispensable. In this study, Ln-doping (400 ppm) of the alumina lattice crucially delays the onset of phase transformation and enables phase population control, which is achieved without the formation of new phases. The delay in phase transition (θ → α), and alteration of powder morphology, particle dimensions, and composition ratios between α- and θ-alumina phases are studied using a combination of solid state nuclear magnetic resonance, electron microscopy, digital scanning calorimetry, and high resolution X-ray diffraction with refinement fitting. Loading alumina with a sparse concentration of Ln-dopants suggests that the dopants reside in the vacant octahedral locations within the alumina lattice, where complete conversion into the thermodynamically stable α-domain is shown in dysprosium (Dy)- and lutetium (Lu)-doped alumina. This study opens up the potential to control the structure and phase composition of Ln-doped alumina for emerging applications.
Non-invasive, Focused Ultrasound-Facilitated Gene Delivery for Optogenetics
Authors: Wang Shutao , Kugelman Tara , Buch Amanda , Herman Mathieu , Han Yang , Karakatsani Maria Eleni , Hussaini S. Abid , Duff Karen , Konofagou Elisa E. 
Published: January 2017

AbstractOptogenetics, a widely used technique in neuroscience research, is often limited by its invasive nature of application. Here, we present a noninvasive, ultrasound-based technique to introduce optogenetic channels into the brain by temporarily opening the blood-brain barrier (BBB). We demonstrate the efficiency of the method developed and evaluate the bioactivity of the non-invasively introduced channelrhodopsin channels by performing stimulation in freely behaving mice.
Meprin β contributes to collagen deposition in lung fibrosis
Authors: Biasin V. , Wygrecka M. , Marsh L. M. , Becker-Pauly C. , Brcic L. , Ghanim B. , Klepetko W. , Olschewski A. , Kwapiszewska G. 
Published: January 2017

AbstractLung fibrosis is a severe disease characterized by epithelial cell injury, inflammation and collagen deposition. The metalloproteases meprinα and meprinβ have been shown to enhance collagen maturation and inflammatory cell infiltration via cleavage of cell-cell contact molecules; therefore we hypothesized that meprins could play a role in lung fibrosis. An exhaustive characterization of bleomycin-treated meprinα, meprinβ and the double meprinsαβ knock-out (KO) with respective wt-littermates was performed by using several different methods. We observed no difference in lung function parameters and no change in inflammatory cells infiltrating the lung between wt and all meprins KO mice after 14 days bleomycin. No difference in epithelial integrity as assessed by e-cadherin protein level was detected in bleomycin-treated lungs. However, morphological analysis in the bleomycin-treated mice revealed decrease collagen deposition and tissue density in meprinβ KO, but not in meprinα and meprinαβ KO mice. This finding was accompanied by localization of meprinβ to epithelial cells in regions with immature collagen in mice. Similarly, in human IPF lungs meprinβ was mostly localized in epithelium. These findings suggest that local environment triggers meprinβ expression to support collagen maturation. In conclusion, our data demonstrate the in vivo relevance of meprinβ in collagen deposition in lung fibrosis.
Neuronal apoptosis inhibitory protein (NAIP) localizes to the cytokinetic machinery during cell division
Authors: Abadía-Molina Francisco , Morón-Calvente Virginia , Baird Stephen D. , Shamim Fahad , Martín Francisco , MacKenzie Alex 
Published: January 2017

AbstractThe neuronal apoptosis inhibitory protein (NAIP) is a constituent of the inflammasome and a key component of the innate immune system. Here we use immunofluorescence to position NAIP within the cytokinetic apparatus, contiguous to chromosomal passenger complex (CPC), Centralspindlin, PRC1 and KIF4A. During metaphase, NAIP accumulates in the mitotic spindle poles and is shown in spindle microtubules; in anaphase NAIP is detected in the middle of the central spindle. At the end of cytokinesis, NAIP is localized in the outlying region of the stem body, the center of the intercellular bridge formed between daughter cells prior to cellular abscission. We also describe the sustained presence of NAIP mRNA and protein throughout the cell cycle with a significant increase observed in the G2/M phase. Consistent with a role for NAIP in cytokinesis, NAIP overexpression in HeLa cells promotes the acquisition of a multinuclear phenotype. Conversely, NAIP siRNA gene silencing results in an apoptotic lethal phenotype. Our confocal and super resolution stimulated-emission-depletion (STED) examination of mammalian cell cytokinesis demonstrate a potential new role for NAIP in addition to anti-apoptotic and innate immunology functions.
Dynamics of ferrofluidic flow in the Taylor-Couette system with a small aspect ratio
Authors: Altmeyer Sebastian , Do Younghae , Lai Ying-Cheng 
Published: January 2017

AbstractWe investigate fundamental nonlinear dynamics of ferrofluidic Taylor-Couette flow - flow confined be-tween two concentric independently rotating cylinders - consider small aspect ratio by solving the ferro-hydrodynamical equations, carrying out systematic bifurcation analysis. Without magnetic field, we find steady flow patterns, previously observed with a simple fluid, such as those containing normal one- or two vortex cells, as well as anomalous one-cell and twin-cell flow states. However, when a symmetry-breaking transverse magnetic field is present, all flow states exhibit stimulated, finite two-fold mode. Various bifurcations between steady and unsteady states can occur, corresponding to the transitions between the two-cell and one-cell states. While unsteady, axially oscillating flow states can arise, we also detect the emergence of new unsteady flow states. In particular, we uncover two new states: one contains only the azimuthally oscillating solution in the configuration of the twin-cell flow state, and an-other a rotating flow state. Topologically, these flow states are a limit cycle and a quasiperiodic solution on a two-torus, respectively. Emergence of new flow states in addition to observed ones with classical fluid, indicates that richer but potentially more controllable dynamics in ferrofluidic flows, as such flow states depend on the external magnetic field.
Online games: a novel approach to explore how partial information influences human random searches
Authors: Martínez-García Ricardo , Calabrese Justin M. , López Cristóbal 
Published: January 2017

AbstractMany natural processes rely on optimizing the success ratio of a search process. We use an experimental setup consisting of a simple online game in which players have to find a target hidden on a board, to investigate how the rounds are influenced by the detection of cues. We focus on the search duration and the statistics of the trajectories traced on the board. The experimental data are explained by a family of random-walk-based models and probabilistic analytical approximations. If no initial information is given to the players, the search is optimized for cues that cover an intermediate spatial scale. In addition, initial information about the extension of the cues results, in general, in faster searches. Finally, strategies used by informed players turn into non-stationary processes in which the length of e ach displacement evolves to show a well-defined characteristic scale that is not found in non-informed searches.
An exploratory study of predisposing genetic factors for DiGeorge/velocardiofacial syndrome
Authors: Vergés Laia , Vidal Francesca , Geán Esther , Alemany-Schmidt Alexandra , Oliver-Bonet Maria , Blanco Joan 
Published: January 2017

AbstractDiGeorge/velocardiofacial syndrome (DGS/VCFS) is a disorder caused by a 22q11.2 deletion mediated by non-allelic homologous recombination (NAHR) between low-copy repeats (LCRs). We have evaluated the role of LCR22 genomic architecture and PRDM9 variants as DGS/VCFS predisposing factors. We applied FISH using fosmid probes on chromatin fibers to analyze the number of tandem repeat blocks in LCR22 in two DGS/VCFS fathers-of-origin with proven 22q11.2 NAHR susceptibility. Results revealed copy number variations (CNVs) of L9 and K3 fosmids in these individuals compared to controls. The total number of L9 and K3 copies was also characterized using droplet digital PCR (ddPCR). Although we were unable to confirm variations, we detected an additional L9 amplicon corresponding to a pseudogene. Moreover, none of the eight DGS/VCFS parents-of-origin was heterozygote for the inv(22)(q11.2) haplotype. PRDM9 sequencing showed equivalent allelic distributions between DGS/VCFS parents-of-origin and controls, although a new PRDM9 allele (L50) was identified in one case. Our results support the hypothesis that LCR22s variations influences 22q11.2 NAHR events, however further studies are needed to confirm this association and clarify the contribution of pseudogenes and rare PDRM9 alleles to NAHR susceptibility.
Conserved role of Ovo in germline development in mouse and Drosophila
Authors: Hayashi Makoto , Shinozuka Yuko , Shigenobu Shuji , Sato Masanao , Sugimoto Michihiko , Ito Seiji , Abe Kuniya , Kobayashi Satoru 
Published: January 2017

AbstractOvo, which encodes a transcription factor with Zn-finger domains, is evolutionarily conserved among animals. InDrosophila, in addition to its zygotic function for egg production, maternalovoactivity is required in primordial germ cells (PGCs) for expression of germline genes such asvasaandnanos. In this study, we found that maternal Ovo accumulates in PGC nuclei during embryogenesis. In these cells,ovoserves a dual function: activation of genes expressed predominantly in PGCs, and conversely suppression of somatic genes. Reduction ofovoactivity in PGCs makes them unable to develop normally into germ cells of both sexes. In mice, knockout of theovoortholog,Ovol2, which is expressed in PGCs, decreases the number of PGCs during early embryogenesis. These data strongly suggest thatovoacts as part of an evolutionarily conserved mechanism that regulates germline development in animals.
ABCG2-overexpressing H460/MX20 cell xenografts in athymic nude mice maintained original biochemical and cytological characteristics
Authors: Zhang Wei , Chen Zhen , Chen Likun , Wang Fang , Li Furong , Wang Xiaokun , Fu Liwu 
Published: January 2017

AbstractH460/MX20 are derived from large cell lung cancer H460 cell line and then transformed into ABCG2-overexpressing cells by mitoxantrone’s induction, which are widely used in study of multidrug resistance (MDR) in vitro. To establish and spread the model of H460/MX20 cell xenografts, we investigated whether cell biological characteristics and the MDR phenotype were maintained in vivo model. Our results demonstrated that the cell proliferation, cell cycle, and ABCG2 expression level in xH460/MX20 cells isolated from H460/MX20 cell xenografts were similar to H460/MX20 cells in vitro. Importantly, xH460/MX20 cells exhibited high levels of resistance to ABCG2 substrates such as mitoxantrone and topotecan as H460/MX20 cells did. Furthermore, lapatinib, the inhibitor of ABCG2, potently reversed mitoxantrone- and topotecan-resistance of xH460/MX20 cells. Taken together, these results suggest that H460/MX20 cell xenografts in athymic nude mice still retain their original cytological characteristics and MDR phenotype. Thus, the H460/MX20 cell xenografts model could serve as a sound model in vivo for study on reversal MDR.
A Markov State-based Quantitative Kinetic Model of Sodium Release from the Dopamine Transporter
Authors: Razavi Asghar M. , Khelashvili George , Weinstein Harel 
Published: January 2017

AbstractThe dopamine transporter (DAT) belongs to the neurotransmitter:sodium symporter (NSS) family of membrane proteins that are responsible for reuptake of neurotransmitters from the synaptic cleft to terminate a neuronal signal and enable subsequent neurotransmitter release from the presynaptic neuron. The release of one sodium ion from the crystallographically determined sodium binding site Na2 had been identified as an initial step in the transport cycle which prepares the transporter for substrate translocation by stabilizing an inward-open conformation. We have constructed Markov State Models (MSMs) from extensive molecular dynamics simulations of human DAT (hDAT) to explore the mechanism of this sodium release. Our results quantify the release process triggered by hydration of the Na2 site that occurs concomitantly with a conformational transition from an outward-facing to an inward-facing state of the transporter. The kinetics of the release process are computed from the MSM, and transition path theory is used to identify the most probable sodium release pathways. An intermediate state is discovered on the sodium release pathway, and the results reveal the importance of various modes of interaction of the N-terminus of hDAT in controlling the pathways of release.
Panoramic lens designed with transformation optics
Authors: Wang Huaping , Deng Yangyang , Zheng Bin , Li Rujiang , Jiang Yuyu , Dehdashti Shahram , Xu Zhiwei , Chen Hongsheng 
Published: January 2017

AbstractThe panoramic lens is a special kind of lens, which is applied to observe full view. In this letter, we theoretically present a panoramic lens (PL) using transformation optics method. The lens is designed with inhomogeneous and anisotropic constitutive parameters, which has the ability to gather light from all directions and confine light within the visual angle of observer. Simulation results validate our theoretical design.
Comparison of sputum microbiome of legionellosis-associated patients and other pneumonia patients: indications for polybacterial infections
Authors: Mizrahi Hila , Peretz Avi , Lesnik René , Aizenberg-Gershtein Yana , Rodríguez-Martínez Sara , Sharaby Yehonatan , Pastukh Nina , Brettar Ingrid , Höfle Manfred G. , Halpern Malka 
Published: January 2017

AbstractBacteria of the genus Legionella cause water-based infections resulting in severe pneumonia. Here we analyze and compare the bacterial microbiome of sputum samples from pneumonia patients in relation to the presence and abundance of the genus Legionella. The prevalence of Legionella species was determined by culture, PCR, and Next Generation Sequencing (NGS). Nine sputum samples out of the 133 analyzed were PCR-positive using Legionella genus-specific primers. Only one sample was positive by culture. Illumina MiSeq 16S rRNA gene sequencing analyses of Legionella-positive and Legionella-negative sputum samples, confirmed that indeed, Legionella was present in the PCR-positive sputum samples. This approach allowed the identification of the sputum microbiome at the genus level, and for Legionella genus at the species and sub-species level. 42% of the sputum samples were dominated by Streptococcus. Legionella was never the dominating genus and was always accompanied by other respiratory pathogens. Interestingly, sputum samples that were Legionella positive were inhabited by aquatic bacteria that have been observed in an association with amoeba, indicating that amoeba might have transferred Legionella from the drinking water together with its microbiome. This is the first study that demonstrates the sputum major bacterial commensals and pathogens profiles with regard to Legionella presence.
Identification of a novel missense mutation of MIP in a Chinese family with congenital cataracts by target region capture sequencing
Authors: Jiang Bo , chen Yanhua , Xu Baisheng , Hong Nan , Liu Rongrong , Qi Ming , Shen Liping 
Published: January 2017

AbstractCongenital cataract is both clinically diverse and genetically heterogeneous. To investigate the underlying genetic defect in three-generations of a Chinese family with autosomal dominant congenital cataracts, we recruited family members who underwent comprehensive ophthalmic examinations. A heterozygous missense mutation c.634G > C (p.G212R) substitution was identified in the MIP gene through target region capture sequencing. The prediction results of PolyPhen-2 and SIFT indicated that this mutation was likely to damage the structure and function of MIP. Confocal microscopy images showed that the intensity of the green fluorescent signal revealed much weaker signal from the mutant compared to the wild-type MIP. The expressed G212R-MIP was diminished and almost exclusively cytoplasmic in the HeLa cells; whereas the WT-MIP was stable dispersed throughout the cytoplasm, and it appeared to be in the membrane structure. Western blot analysis indicated that the protein expression level of the mutant form of MIP was remarkably reduced compared with that of the wild type, however, the mRNA levels of the wild-type and mutant cells were comparable. In conclusion, our study presented genetic and functional evidence for a novel MIP mutation of G212R, which leads to congenital progressive cortical punctate with or without Y suture.
Preparation and electrochemical performances of carbon sphere@ZnO core-shell nanocomposites for supercapacitor applications
Authors: Xiao Xuechun , Han Bingqian , Chen Gang , Wang Lihong , Wang Yude 
Published: January 2017

AbstractCarbon sphere (CS)@ZnO core-shell nanocomposites were successfully prepared through facile low-temperature water-bath method without annealing treatment. The morphology and the microstructure of samples were characterized by transition electron microscopy (TEM), X-ray diffraction (XRD) and X-ray photoelectron spectroscopy (XPS), respectively. ZnO nanoparticles with several nanometers in size decorated on the surface of the carbon sphere and formed a core-shell structure. Electrochemical performances of the CS@ZnO core-shell nanocomposites electrodes were investigated by cyclic voltammetry (CV) and galvanostatic charge/discharge (GDC). The CS@ZnO core-shell nanocomposite electrodes exhibit much larger specific capacitance and cycling stability is improved significantly compared with pure ZnO electrode. The CS@ZnO core-shell nanocomposite with mole ratio of 1:1 achieves a specific capacitance of 630 F g−1 at the current density of 2 A g−1. Present work might provide a new route for fabricating carbon sphere and transition metal oxides composite materials as electrodes for the application in supercapacitors.
Splicing imbalances in basal-like breast cancer underpin perturbation of cell surface and oncogenic pathways and are associated with patients’ survival
Authors: Gracio Filipe , Burford Brian , Gazinska Patrycja , Mera Anca , Mohd Noor Aisyah , Marra Pierfrancesco , Gillett Cheryl , Grigoriadis Anita , Pinder Sarah , Tutt Andrew , de Rinaldis Emanuele 
Published: January 2017

AbstractDespite advancements in the use of transcriptional information to understand and classify breast cancers, the contribution of splicing to the establishment and progression of these tumours has only recently starting to emerge. Our work explores this lesser known landscape, with special focus on the basal-like breast cancer subtype where limited therapeutic opportunities and no prognostic biomarkers are currently available. Using ExonArray analysis of 176 breast cancers and 9 normal breast tissues we demonstrate that splicing levels significantly contribute to the diversity of breast cancer molecular subtypes and explain much of the differences compared with normal tissues. We identified pathways specifically affected by splicing imbalances whose perturbation would be hidden from a conventional gene-centric analysis of gene expression. We found that a large fraction of them involve cell-to-cell communication, extracellular matrix and transport, as well as oncogenic and immune-related pathways transduced by plasma membrane receptors. We identified 247 genes in which splicing imbalances are associated with clinical patients’ outcome, whilst no association was detectable at the gene expression level. These include the signaling gene TGFBR1, the proto-oncogene MYB as well as many immune-related genes such as CCR7 and FCRL3, reinforcing evidence for a role of immune components in influencing breast cancer patients’ prognosis.
Enhanced thermoelectric performance of a chalcopyrite compound CuIn3Se5−xTex (x = 0~0.5) through crystal structure engineering
Authors: Lu Yufu , Chen Shaoping , Wu Wenchang , Du Zhengliang , Chao Yimin , Cui Jiaolin 
Published: January 2017

AbstractIn this work the chalcopyrite CuIn3Se5−xTex (x = 0~0.5) with space group "Equation missing" through isoelectronic substitution of Te for Se have been prepared, and the crystal structure dilation has been observed with increasing Te content. This substitution allows the anion position displacement ∆u = 0.25-u to be zero at x ≈ 0.15. However, the material at x = 0.1 (∆u = 0.15 × 10−3), which is the critical Te content, presents the best thermoelectric (TE) performance with dimensionless figure of merit ZT = 0.4 at 930 K. As x value increases from 0.1, the quality factor B, which informs about how large a ZT can be expected for any given material, decreases, and the TE performance degrades gradually due to the reduction in nH and enhancement in κL. Combining with the ZTs from several chalcopyrite compounds, it is believable that the best thermoelectric performance can be achieved at a certain ∆u value (∆u ≠ 0) for a specific space group if their crystal structures can be engineered.