bluuebunny/crossref_metadata_2025_split huggingface dataset:
CT Scanning and MATLAB Calculations for Preservation of Coptic Mural Paintings in Historic Egyptian Monasteries
Authors: Sallam Ahmed , Hemeda Sayed , Toprak Muhammet S. , Muhammed Mamoun , Hassan Moustapha , Uheida Abdusalam 
Published: March 2019

AbstractInvestigations of Coptic mural paintings in historic churches and monasteries demand a deep understanding of the micro structure of the mural painting layers. The main objective of the present study is to study the efficiency of new avenues of computed X-ray tomography (CT Scan) and MATLAB in the analysis of Coptic mural paintings, either in the form of images or videos made to collect information about the physical characteristics of the material structure of the layers of mural paintings. These advanced techniques have been used in the investigation of samples of Coptic mural paintings dating back to the V–VIII century A.D, which have been collected from several locations in the Coptic monasteries in Upper Egypt. The application of CT-scanning is a powerful non-destructive tool for imaging and investigation which can be applied to the preservation of monuments made from many different materials. The second stage of research will be to characterize the materials through analytical techniques including XRD, XRF, EDX and FTIR to confirm the findings of CT scanning and to provide additional information concerning the materials used and their deterioration processes. This paper presents the results of the first pilot study in which CT scan and MATLAB have been utilized in combination for the non-destructive evaluation and investigation of Coptic mural paintings in Upper Egypt. The examinations have been carried out on mural painting samples from three important Coptic monasteries in Upper Egypt: the Qubbat Al Hawa Monastery in Aswan, the Saint Simeon Monastery in Aswan and the Saint Matthew the Potter Monastery in Luxor. This multi-stranded investigation has provided us with important information about the physical structure of the paintings, grains dimensions, grain texture, pore media characterization which include the micro porosity, BET and TPV, surface rendering, and calculation of the points in the surface through calculations completed using MATLAB. CT scanning assisted in the investigation and analyses of image surface details, and helped to visualize hidden micro structures that would otherwise be inaccessible due to over painting.
Distinct mechanisms of temporal binding in generalized and cross-modal flash-lag effects
Authors: Hayashi Ryusuke , Murakami Ikuya 
Published: March 2019

AbstractIt remains unknown how the brain temporally binds sensory data across different modalities and attributes to create coherent perceptual experiences. To address this question, we measured what we see at the time we experience an event using a generalized version of the flash-lag effect (FLE) for combinations of visual attribute (bar orientation, face orientation, or face identity) and probe modality (visual or auditory). We asked participants to judge the content of rapidly and serially presented images seen at the same time as a briefly presented visual (flash) or auditory (click) probe and estimated the “time windows” contributing to decisions using reverse correlation analysis. We also used displays in which the visual attribute of a stimulus continuously changed and measured FLEs around abrupt flip in change direction and at the initiation and termination of a sequence. We consistently found clear latency-difference effects, which depended on visual attribute for the visual probe but did not for the auditory probe. The intra-modal FLE can be explained in terms of differential latency and temporal integration, but the cross-modal FLE is suggested to operate via a distinct mechanism; the content of a successive visual stream experienced after the awareness of a click is interpreted as simultaneous with the click.
Identification of CD4 and H-2Kd-restricted cytotoxic T lymphocyte epitopes on the human herpesvirus 6B glycoprotein Q1 protein
Authors: Nagamata Satoshi , Aoshi Taiki , Kawabata Akiko , Yamagishi Yoshiaki , Nishimura Mitsuhiro , Kuwabara Soichiro , Murakami Kouki , Yamada Hideto , Mori Yasuko 
Published: March 2019

AbstractThe identification of Human herpesvirus 6B (HHV-6B) epitopes that are recognized by T-cells could contribute to the development of potential vaccines and immunotherapies. Here, we identified CD4+and H-2Kd-restricted CD8+T-cell epitopes on the glycoprotein Q1 of HHV-6B (BgQ1), which is a unique glycoprotein and essential for HHV-6B viral entry, by usingin vivoelectroporation with a plasmid DNA encoding BgQ1, overlapping peptides spanning the BgQ1 sequence, ELISPOT assay for quantification of gamma interferon (IFN-γ), and computer-based T-cell epitope prediction programs. The CD4+and CD8+T-cell epitopes identified in BALB/c mice in this study could be a good animal model system for use in the development of T-cell responses, inducing HHV-6B vaccines or immunotherapies.
Histamine modulation of urinary bladder urothelium, lamina propria and detrusor contractile activity via H1 and H2 receptors
Authors: Stromberga Zane , Chess-Williams Russ , Moro Christian 
Published: March 2019

AbstractThe mechanisms underlying bladder contractile disorders such as overactive bladder are not fully understood, and there is limited understanding of the receptor systems modulating spontaneous bladder contractions. We investigated the potential for histamine to have a role in mediating contractility of the urothelium with lamina propria (U&LP) or detrusor via the H1-H4 histamine receptor subtypes. Isolated strips of porcine U&LP or detrusor smooth muscle were mounted in gassed Krebs-bicarbonate solution and responses to histamine obtained in the absence and presence of selective receptor antagonists. The presence of histamine increases the frequency of U&LP spontaneous phasic contractions and baseline tensions. In response to histamine, H1-antagonists pyrilamine, fexofenadine and cyproheptadine were effective at inhibiting contractile responses. Cimetidine (H2-antagonist) enhanced increases in baseline tension in response histamine, whereas amthamine (H2-agonist) induced relaxation. Although thioperamide (H3/H4-antagonist) increased baseline tension responses to histamine, selective H1/H2-receptor antagonism revealed no influence of these receptors. In detrusor preparations, pyrilamine, fexofenadine and cyproheptadine were effective at inhibiting baseline tension increases in response to histamine. Our findings provide evidence that histamine produces contractile responses both in the U&LP and detrusor via the H1-receptor, and this response is significantly inhibited by activation of the H2-receptor in the U&LP but not the detrusor.
Modular structure, sequence diversification and appropriate nomenclature of seroins produced in the silk glands of Lepidoptera
Authors: Kucerova Lucie , Zurovec Michal , Kludkiewicz Barbara , Hradilova Miluse , Strnad Hynek , Sehnal Frantisek 
Published: March 2019

AbstractSeroins are small lepidopteran silk proteins known to possess antimicrobial activities. Several seroin paralogs and isoforms were identified in studied lepidopteran species and their classification required detailed phylogenetic analysis based on complete and verified cDNA sequences. We sequenced silk gland-specific cDNA libraries from ten species and identified 52 novel seroin cDNAs. The results of this targeted research, combined with data retrieved from available databases, form a dataset representing the major clades of Lepidoptera. The analysis of deduced seroin proteins distinguished three seroin classes (sn1-sn3), which are composed of modules: A (includes the signal peptide), B (rich in charged amino acids) and C (highly variable linker containing proline). The similarities within and between the classes were 31–50% and 22.5–25%, respectively. All species express one, and in exceptional cases two, genes per class, and alternative splicing further enhances seroin diversity. Seroins occur in long versions with the full set of modules (AB1C1B2C2B3) and/or in short versions that lack parts or the entire B and C modules. The classes and the modular structure of seroins probably evolved prior to the split between Trichoptera and Lepidoptera. The diversity of seroins is reflected in proposed nomenclature.
Functional characterization of iPSC-derived arterial- and venous-like endothelial cells
Authors: Rosa S. , Praça C. , Pitrez P. R. , Gouveia P. José , Aranguren X. L. , Ricotti L. , Ferreira L. Silva 
Published: March 2019

AbstractThe current work reports the functional characterization of human induced pluripotent stem cells (iPSCs)- arterial and venous-like endothelial cells (ECs), derived in chemically defined conditions, either in monoculture or seeded in a scaffold with mechanical properties similar to blood vessels. iPSC-derived arterial- and venous-like endothelial cells were obtained in two steps: differentiation of iPSCs into endothelial precursor cells (CD31pos/KDRpos/VE-Cadmed/EphB2neg/COUP-TFneg) followed by their differentiation into arterial and venous-like ECs using a high and low vascular endothelial growth factor (VEGF) concentration. Cells were characterized at gene, protein and functional levels. Functionally, both arterial and venous-like iPSC-derived ECs responded to vasoactive agonists such as thrombin and prostaglandin E2 (PGE2), similar to somatic ECs; however, arterial-like iPSC-derived ECs produced higher nitric oxide (NO) and elongation to shear stress than venous-like iPSC-derived ECs. Both cells adhered, proliferated and prevented platelet activation when seeded in poly(caprolactone) scaffolds. Interestingly, both iPSC-derived ECs cultured in monoculture or in a scaffold showed a different inflammatory profile than somatic ECs. Although both somatic and iPSC-derived ECs responded to tumor necrosis factor-α (TNF-α) by an increase in the expression of intercellular adhesion molecule 1 (ICAM-1), only somatic ECs showed an upregulation in the expression of E-selectin or vascular cell adhesion molecule 1 (VCAM-1).
Biogeography of Soil Bacterial Networks along a Gradient of Cropping Intensity
Authors: Karimi Battle , Dequiedt Samuel , Terrat Sébastien , Jolivet Claudy , Arrouays Dominique , Wincker Patrick , Cruaud Corinne , Bispo Antonio , Chemidlin Prévost-Bouré Nicolas , Ranjard Lionel 
Published: March 2019

AbstractAlthough land use drives soil bacterial diversity and community structure, little information about the bacterial interaction networks is available. Here, we investigated bacterial co-occurrence networks in soils under different types of land use (forests, grasslands, crops and vineyards) by sampling 1798 sites in the French Soil Quality Monitoring Network covering all of France. An increase in bacterial richness was observed from forests to vineyards, whereas network complexity respectively decreased from 16,430 links to 2,046. However, the ratio of positive to negative links within the bacterial networks ranged from 2.9 in forests to 5.5 in vineyards. Networks structure was centered on the most connected genera (called hub), which belonged toBacteroidetesin forest and grassland soils, but toActinobacteriain vineyard soils. Overall, our study revealed that soil perturbation due to intensive cropping reduces strongly the complexity of bacterial network although the richness is increased. Moreover, the hub genera within the bacterial community shifted from copiotrophic taxa in forest soils to more oligotrophic taxa in agricultural soils.
Secondary structure of the segment 5 genomic RNA of influenza A virus and its application for designing antisense oligonucleotides
Authors: Michalak Paula , Soszynska-Jozwiak Marta , Biala Ewa , Moss Walter N. , Kesy Julita , Szutkowska Barbara , Lenartowicz Elzbieta , Kierzek Ryszard , Kierzek Elzbieta 
Published: March 2019

AbstractInfluenza virus causes seasonal epidemics and dangerous pandemic outbreaks. It is a single stranded (−)RNA virus with a segmented genome. Eight segments of genomic viral RNA (vRNA) form the virion, which are then transcribed and replicated in host cells. The secondary structure of vRNA is an important regulator of virus biology and can be a target for finding new therapeutics. In this paper, the secondary structure of segment 5 vRNA is determined based on chemical mapping data, free energy minimization and structure-sequence conservation analysis for type A influenza. The revealed secondary structure has circular folding with a previously reported panhandle motif and distinct novel domains. Conservations of base pairs is 87% on average with many structural motifs that are highly conserved. Isoenergetic microarray mapping was used to additionally validate secondary structure and to discover regions that easy bind short oligonucleotides. Antisense oligonucleotides, which were designed based on modeled secondary structure and microarray mapping, inhibit influenza A virus proliferation in MDCK cells. The most potent oligonucleotides lowered virus titer by ~90%. These results define universal for type A structured regions that could be important for virus function, as well as new targets for antisense therapeutics.
Ensemble-based analysis of the pollutant spreading intensity induced by climate change
Authors: Haszpra Tímea , Herein Mátyás 
Published: March 2019

AbstractThe intensity of the atmospheric large-scale spreading can be characterized by a measure of chaotic systems, called topological entropy. A pollutant cloud stretches in an exponential manner in time, and in the atmospheric context the topological entropy corresponds to the stretching rate of its length. To explore the plethora of possible climate evolutions, we investigate here pollutant spreading in climate realizations of two climate models to learn what the typical spreading behavior is over a climate change. An overall decrease in the areal mean of the stretching rate is found to be typical in the ensembles of both climate models. This results in larger pollutant concentrations for several geographical regions implying higher environmental risk. A strong correlation is found between the time series of the ensemble mean values of the stretching rate and of the absolute value of the relative vorticity. Here we show that, based on the obtained relationship, the typical intensity of the spreading in an arbitrary climate realization can be estimated by using only the ensemble means of the relative vorticity data of a climate model.
Shape fidelity and structure of 3D printed high consistency nanocellulose
Authors: Klar Ville , Pere Jaakko , Turpeinen Tuomas , Kärki Pyry , Orelma Hannes , Kuosmanen Petri 
Published: March 2019

AbstractThe aim of the present study was to investigate the additive manufacturing process for high consistency nanocellulose. Unlike thermoformable plastics, wood derived nanocelluloses are typically processed as aqueous dispersions because they are not melt-processable on their own. The ability to use nanocellulose directly in additive manufacturing broadens the possibilities regarding usable raw materials and achievable properties thereof. Modern additive manufacturing systems are capable of depositing nanocellulose with micrometer precision, which enables the printing of accurate three-dimensional wet structures. Typically, these wet structures are produced from dilute aqueous fibrillar dispersions. As a consequence of the high water content, the structures deform and shrink during drying unless the constructs are freeze-dried. While freeze-drying preserves the geometry, it results in high porosity which manifests as poor mechanical and barrier properties. Herein, we study an additive manufacturing process for high consistency enzymatically fibrillated cellulose nanofibers in terms of printability, shape retention, structure, and mechanical properties. Particular emphasis is placed on quantitative shape analysis based on 3D scanning, point cloud analysis, and x-ray microtomography. Despite substantial volumetric as well as anisotropic deformation, we demonstrate repeatability of the printed construct and its properties.
Stochastic oscillations and dragon king avalanches in self-organized quasi-critical systems
Authors: Kinouchi Osame , Brochini Ludmila , Costa Ariadne A. , Campos João Guilherme Ferreira , Copelli Mauro 
Published: March 2019

AbstractIn the last decade, several models with network adaptive mechanisms (link deletion-creation, dynamic synapses, dynamic gains) have been proposed as examples of self-organized criticality (SOC) to explain neuronal avalanches. However, all these systems present stochastic oscillations hovering around the critical region that are incompatible with standard SOC. Here we make a linear stability analysis of the mean field fixed points of two self-organized quasi-critical systems: a fully connected network of discrete time stochastic spiking neurons with firing rate adaptation produced by dynamic neuronal gains and an excitable cellular automata with depressing synapses. We find that the fixed point corresponds to a stable focus that loses stability at criticality. We argue that when this focus is close to become indifferent, demographic noise can elicit stochastic oscillations that frequently fall into the absorbing state. This mechanism interrupts the oscillations, producing both power law avalanches and dragon king events, which appear as bands of synchronized firings in raster plots. Our approach differs from standard SOC models in that it predicts the coexistence of these different types of neuronal activity.
Increasing the frequency of peripheral component in paired associative stimulation strengthens its efficacy
Authors: Tolmacheva Aleksandra , Mäkelä Jyrki P. , Shulga Anastasia 
Published: March 2019

AbstractPaired associative stimulation (PAS), a combination of transcranial magnetic stimulation (TMS) with peripheral nerve stimulation (PNS), is emerging as a promising tool for alleviation of motor deficits in neurological disorders. The effectiveness and feasibility of PAS protocols are essential for their use in clinical practice. Plasticity induction by conventional PAS can be variable and unstable. Protocols effective in challenging clinical conditions are needed. We have shown previously that PAS employing 50 Hz PNS enhances motor performance in chronic spinal cord injury patients and induces robust motor-evoked potential (MEP) potentiation in healthy subjects. Here we investigated whether the effectiveness of PAS can be further enhanced. Potentiation of MEPs up to 60 minutes after PAS with PNS frequencies of 25, 50, and 100 Hz was tested in healthy subjects. PAS with 100 Hz PNS was more effective than 50 (P = 0.009) and 25 Hz (P = 0.016) protocols. Moreover, when administered for 3 days, PAS with 100 Hz led to significant MEP potentiation on the 3rd day (P = 0.043) even when the TMS target was selected suboptimally (modelling cases where finding an optimal site for TMS is problematic due to a neurological disease). PAS with 100 Hz PNS is thus effective and feasible for clinical applications.
Phenology, mobility and behaviour of the arcto-alpine species Boloria napaea in its arctic habitat
Authors: Ehl Stefan , Holzhauer Stephanie I. J. , Ryrholm Nils , Schmitt Thomas 
Published: March 2019

AbstractArctic and alpine environments present extreme, but different, challenges to survival. We therefore studied the ecological adaptation of the arctic-alpine fritillary Boloria napaea in northern Sweden and compared these results with the eastern Alps. Using mark-release-recapture, we analysed phenology, mobility, activity patterns, change in wing condition and nectar sources. The phenology showed no protandry, but a longer flight period of the females. Wing conditions revealed a linear decay being quicker in males than females. The mean flight distances were higher for males than females (143 vs 92 m). In general, males were more flight active, while females invested more time in feeding and resting. The shortness of the flight period in the Arctic is apparently a particular adaptation to these harsh conditions, not even allowing protandry, and constraining all individuals to hatch during a short period. These conditions also forced the individuals to concentrate on flight and alimentation. In general, Arctic and Alpine populations of B. napaea show few differences, but the species seems to be even better adapted to the northern environments. Thus, the short temporal separation of these populations seems not to have been sufficient for a divergent adaptation in the southern mountains.
Rotatable precipitates change the scale-free to scale dependent statistics in compressed Ti nano-pillars
Authors: Pan Yan , Wu Haijun , Wang Xiaofei , Sun Qiaoyan , Xiao Lin , Ding Xiangdong , Sun Jun , Salje Ekhard K. H. 
Published: March 2019

AbstractCompressed nano-pillars crackle from moving dislocations, which reduces plastic stability. Crackling noise is characterized by stress drops or strain bursts, which scale over a large region of sizes leading to power law statistics. Here we report that this “classic” behaviour is not valid in Ti-based nanopillars for a counterintuitive reason: we tailor precipitates inside the nano-pillar, which “regulate” the flux of dislocations. It is not because the nano-pillars become too small to sustain large dislocation movements, the effect is hence independent of size. Our precipitates act as “rotors”: local stress initiates the rotation of inclusions, which reduces the stress amplitudes dramatically. The size distribution of stress drops simultaneously changes from power law to exponential. Rotors act like revolving doors limiting the number of passing dislocations. Hence each collapse becomes weak. We present experimental evidence for Ti-based nano-pillars (diameters between 300 nm and 2 μm) with power law distributions of crackling noise P(s) ∼ s−τ with τ ∼ 2 in the defect free or non-rotatable precipitate states. Rotors change the size distribution to P(s) ∼ exp(−s/s0). Rotors are inclusions of ω-phase that aligns under stress along slip planes and limit dislocation glide to small distances with high nucleation rates. This opens new ways to make nano-pillars more stable.
A novel graphene barrier against moisture by multiple stacking large-grain graphene
Authors: Gomasang Ploybussara , Kawahara Kenji , Yasuraoka Kenta , Maruyama Mina , Ago Hiroki , Okada Susumu , Ueno Kazuyoshi 
Published: March 2019

AbstractThe moisture barrier properties of stacked graphene layers on Cu surfaces were investigated with the goal of improving the moisture barrier efficiency of single-layer graphene (SLG) for Cu metallization. SLG with large grain size were stacked on Cu surfaces coated with CVD-SLG to cover the grain-boundaries and defective areas of the underneath SLG film, which was confirmed to be oxidized by Raman spectroscopy measurements. To evaluate the humidity resistance of the graphene-coated Cu surfaces, temperature humidity storage (THS) testing was conducted under accelerated oxidation conditions (85 °C and 85% relative humidity) for 100 h. The color changes of the Cu surfaces during THS testing were observed by optical microscopy, while the oxidized Cu into Cu2O and CuO was detected by X-ray photoelectron spectroscopy (XPS). The experimental results were accord with the results of first-principle simulation for the energetic barrier against water diffusion through the stacked graphene layers with different overlap. The results demonstrate the efficiency of SLG stacking approach against moisture for Cu metallization.