bluuebunny/crossref_metadata_2025_split huggingface dataset:
Functional insights into the interplay between DNA interaction and metal coordination in ferric uptake regulators
Authors: Sarvan Sabina , Charih François , Askoura Momen , Butcher James , Brunzelle Joseph S. , Stintzi Alain , Couture Jean-François 
Published: May 2018

AbstractFerric uptake regulators (Fur) are a family of transcription factors coupling gene regulatory events to metal concentration. Recent evidence has expanded the mechanistic repertoires employed by Fur to activate or repress gene expression in the presence or absence of regulatory metals. However, the mechanistic basis underlying this extended repertoire has remained largely unexplored. In this study, we used an extensive set of mutations to demonstrate that Campylobacter jejuni Fur (CjFur) employs the same surface to positively and negatively control gene expression regardless of the presence or absence of metals. Moreover, the crystal structure determination of a CjFur devoid of any regulatory metals shows that subtle reorientation of the transcription factor DNA binding domain negatively impacts DNA binding, gene expression and gut colonization in chickens. Overall, these results highlight the versatility of the CjFur DNA binding domain in mediating all gene regulatory events controlled by the metalloregulator and that the full metalation of CjFur is critical to the Campylobacter jejuni life cycle in vivo.
Energy and time optimal trajectories in exploratory jumps of the spider Phidippus regius
Authors: Nabawy Mostafa R. A. , Sivalingam Girupakaran , Garwood Russell J. , Crowther William J. , Sellers William I. 
Published: May 2018

AbstractJumping spiders are proficient jumpers that use jumps in a variety of behavioural contexts. We use high speed, high resolution video to measure the kinematics of a single regal jumping spider for a total of 15 different tasks based on a horizontal gap of 2–5 body lengths and vertical gap of +/−2 body lengths. For short range jumps, we show that low angled trajectories are used that minimise flight time. For longer jumps, take-off angles are steeper and closer to the optimum for minimum energy cost of transport. Comparison of jump performance against other arthropods shows that Phidippus regius is firmly in the group of animals that use dynamic muscle contraction for actuation as opposed to a stored energy catapult system. We find that the jump power requirements can be met from the estimated mass of leg muscle; hydraulic augmentation may be present but appears not to be energetically essential.
Systemic hypertension is not protective against chronic intraocular pressure elevation in a rodent model
Authors: van Koeverden Anna K. , He Zheng , Nguyen Christine T. O. , Vingrys Algis J. , Bui Bang V. 
Published: May 2018

AbstractHigh intraocular pressure is the most well documented glaucoma risk factor; however many patients develop and/or show progression of glaucoma in its absence. It is now thought that in some instances, ocular perfusion pressure (blood pressure – intraocular pressure) may be as important as intraocular pressure alone. Thus, systemic hypertension would be protective against glaucoma. Epidemiological studies, however, are inconclusive. One theory of why hypertension may not protect against elevated intraocular pressure in spite of increasing ocular perfusion pressure is that with time, morphological changes to the vasculature and autoregulatory failure outweigh the benefits of improved perfusion pressure, ultimately leading to poor retinal and optic nerve head blood supply. In this study we showed the presence of increased wall:lumen ratio and wall area of the ophthalmic artery in rats with chronic hypertension in addition to failure of retinal autoregulation in response to acute modification of ocular perfusion pressure. Subsequently we found that in spite of dramatically increasing ocular perfusion pressure, chronic systemic hypertension failed to protect retinal structure and function from a rodent model of glaucoma.
Conduction in the Heart Wall: Helicoidal Fibers Minimize Diffusion Bias
Authors: Aumentado-Armstrong Tristan , Kadivar Amir , Savadjiev Peter , Zucker Steven W. , Siddiqi Kaleem 
Published: May 2018

AbstractThe mammalian heart must function as an efficient pump while simultaneously conducting electrical signals to drive the contraction process. In the ventricles, electrical activation begins at the insertion points of the Purkinje network in the endocardium. How does the diffusion component of the subsequent excitation wave propagate from the endocardium in a healthy heart wall without creating directional biases? We show that this is a consequence of the particular geometric organization of myocytes in the heart wall. Using a generalized helicoid to model fiber orientation, we treat the myocardium as a curved space via Riemannian geometry, and then use stochastic calculus to model local signal diffusion. Our analysis shows that the helicoidal arrangement of myocytes minimizes the directional biases that could lead to aberrant propagation, thereby explaining how electrophysiological principles are consistent with local measurements of cardiac fiber geometry. We discuss our results in the context of the need to balance electrical and mechanical requirements for heart function.
Analysis of β-tubulin-carbendazim interaction reveals that binding site for MBC fungicides does not include residues involved in fungicide resistance
Authors: Vela-Corcía David , Romero Diego , de Vicente Antonio , Pérez-García Alejandro 
Published: May 2018

AbstractMethyl benzimidazole carbamate (MBC) fungicides are fungicidal compounds that exert their biological activities by preventing cell division through the inhibition of tubulin polymerization, which is the major component of microtubules. Several mutations in the β-tubulin gene contribute to MBC resistance, the most common and significant of which occur at residues 198 and 200. Despite nearly 50 years of agricultural use, the binding site of MBCs and the precise mechanism by which those mutations affect fungicide efficacy have not been determined. The aim of this work was to clarify the mode of action and the mechanism of resistance to MBC fungicides in Podosphaera xanthii, the primary causal agent of cucurbit powdery mildew, using a combination of biochemical, biophysical and computational approaches. The results allow us to propose an MBC binding site in β-tubulin that lies close to the GTP binding site and does not include residue 198 involved in MBC resistance.
Dual actions of Psalmotoxin at ASIC1a and ASIC2a heteromeric channels (ASIC1a/2a)
Authors: Liu Yi , Hagan Rebecca , Schoellerman Jeffrey 
Published: May 2018

AbstractAcid-Sensing Ion Channels (ASICs) are gated by extracellular protons and play important roles in physiological and pathological states, such as pain and stroke. ASIC1a and ASIC2a, two of the most highly expressed subunits in the brain, form functional homo- and hetero-meric (ASIC1a/2a) channels. The function of ASIC1a has been widely studied using psalmotoxin (PcTx1), a venom-derived peptide, as an ASIC1a-selective antagonist. Here, using whole-cell patch clamp, we show that PcTx1 has dual actions at ASIC1a/2a. It can either inhibit or potentiate the heteromeric channel, depending on the conditioning and stimulating pHs. Potent inhibition occurs only at conditioning pHs that begin to desensitize the channel (IC50 = 2.9 nM at pH7.0, a threshold pH for desensitization of ASIC1a/2a). By contrast, potent potentiation can occur at the physiological pH in both CHO cells (EC50 = 56.1 nM) and cortical neurons (threshold concentration < 10 nM). PcTx1 potentiates ASIC1a/2a by increasing the apparent affinity of channel activation for protons. As such, potentiation is the strongest at moderate pHs, diminishing with increasing proton concentrations. Our findings identify PcTx1 as a valuable tool for studying ASIC1a/2a function and contribute significantly to the understanding of the diverse and complex pharmacology of PcTx1.
Spatial representations of the viewer’s surroundings
Authors: Shioiri Satoshi , Kobayashi Masayuki , Matsumiya Kazumichi , Kuriki Ichiro 
Published: May 2018

AbstractSpatial representation surrounding a viewer including outside the visual field is crucial for moving around the three-dimensional world. To obtain such spatial representations, we predict that there is a learning process that integrates visual inputs from different viewpoints covering all the 360° visual angles. We report here the learning effect of the spatial layouts on six displays arranged to surround the viewer, showing shortening of visual search time on surrounding layouts that are repeatedly used (contextual cueing effect). The learning effect is found even in the time to reach the display with the target as well as the time to reach the target within the target display, which indicates that there is an implicit learning effect on spatial configurations of stimulus elements across displays. Since, furthermore, the learning effect is found between layouts and the target presented on displays located even 120° apart, this effect should be based on the representation that covers visual information far outside the visual field.
Species distribution model transferability and model grain size – finer may not always be better
Authors: Manzoor Syed Amir , Griffiths Geoffrey , Lukac Martin 
Published: May 2018

AbstractSpecies distribution models have been used to predict the distribution of invasive species for conservation planning. Understanding spatial transferability of niche predictions is critical to promote species-habitat conservation and forecasting areas vulnerable to invasion. Grain size of predictor variables is an important factor affecting the accuracy and transferability of species distribution models. Choice of grain size is often dependent on the type of predictor variables used and the selection of predictors sometimes rely on data availability. This study employed the MAXENT species distribution model to investigate the effect of the grain size on model transferability for an invasive plant species. We modelled the distribution ofRhododendron ponticumin Wales, U.K. and tested model performance and transferability by varying grain size (50 m, 300 m, and 1 km). MAXENT-based models are sensitive to grain size and selection of variables. We found that over-reliance on the commonly used bioclimatic variables may lead to less accurate models as it often compromises the finer grain size of biophysical variables which may be more important determinants of species distribution at small spatial scales. Model accuracy is likely to increase with decreasing grain size. However, successful model transferability may require optimization of model grain size.
Abstract images and words can convey the same meaning
Authors: Kuipers Jan Rouke , Jones Manon Wyn , Thierry Guillaume 
Published: May 2018

AbstractIntuitively, deriving meaning from an abstract image is a uniquely human, idiosyncratic experience. Here we show that, despite having no universally recognised lexical association, abstract images spontaneously elicit specific concepts conveyed by words, with a consistency akin to that of concrete images. We presented a group of naïve participants with abstract picture–word pairs construed as ‘related’ or ‘unrelated’ according to a preliminary norming procedure conducted with different participants. Surprisingly, the naïve participants with no prior exposure to the abstract images or any hints regarding their possible meaning, displayed a reaction time priming effect for ‘related’ versus ‘unrelated’ picture-word pairs. Critically, this behavioural priming effect, and an associated decrease in N400 mean amplitude indexing semantic priming, both correlated significantly with the degree of relatedness established in the preliminary norming procedure. Given that ratings and electrophysiological measures were obtained in different groups of individuals, our results show that abstract images evoke consistent meaning across observers, as has been shown in the case of music.
Superelastic and pH-Responsive Degradable Dendrimer Cryogels Prepared by Cryo-aza-Michael Addition Reaction
Authors: Wang Juan , Yang Hu 
Published: May 2018

AbstractDendrimers exhibit super atomistic features by virtue of their well-defined discrete quantized nanoscale structures. Here, we show that hyperbranched amine-terminated polyamidoamine (PAMAM) dendrimer G4.0 reacts with linear polyethylene glycol (PEG) diacrylate (575 g/mol) via the aza-Michael addition reaction at a subzero temperature (−20 °C), namely cryo-aza-Michael addition, to form a macroporous superelastic network, i.e., dendrimer cryogel. Dendrimer cryogels exhibit biologically relevant Young’s modulus, high compression elasticity and super resilience at ambient temperature. Furthermore, the dendrimer cryogels exhibit excellent rebound performance and do not show significant stress relaxation under cyclic deformation over a wide temperature range (−80 to 100 °C). The obtained dendrimer cryogels are stable at acidic pH but degrade quickly at physiological pH through self-triggered degradation. Taken together, dendrimer cryogels represent a new class of scaffolds with properties suitable for biomedical applications.
Microbial community analysis and biodeterioration of waterlogged archaeological wood from the Nanhai No. 1 shipwreck during storage
Authors: Liu Zijun , Fu Tongtong , Hu Cuiting , Shen Dawa , Macchioni Nicola , Sozzi Lorena , Chen Yue , Liu Jie , Tian Xingling , Ge Qinya , Feng Zhengteng , Liu Huiru , Zhang Zhiguo , Pan Jiao 
Published: May 2018

AbstractWooden shipwrecks are a significant part of the underwater cultural heritage. In 2007, the Nanhai No. 1 shipwreck was salvaged from the seabed and moved into the Marine Silk Road Museum, where it is still stored in a water tank. We analysed the microbial communities colonizing the hull surface of the Nanhai No. 1 shipwreck during storage. Six samples exposed to air were collected from different spots of the ship that exhibited obvious microbial plaques. High-throughput sequencing revealed the bacterial community includes both aquatic and terrestrial species, while in the fungal community, Fusarium was the most abundant genus across all samples and accounted for 84.91% to 98.40% of the total community composition. Two Fusarium species were isolated from the samples and were identified as F. solani and F. oxysporum. Both of the isolates were able to degrade cellulose, but only F. solani had the ability to degrade lignin. Antimicrobial efficacy in inhibiting the growth of Fusarium was assessed with five kinds of biocides, and isothiazolinones exhibited specific inhibition of Fusarium growth. These results provide critical background information to protect and reduce the biodegradation and destruction of this important historical shipwreck, and inform efforts to protect other similar artifacts.
Boltzmann sampling from the Ising model using quantum heating of coupled nonlinear oscillators
Authors: Goto Hayato , Lin Zhirong , Nakamura Yasunobu 
Published: May 2018

AbstractA network of Kerr-nonlinear parametric oscillators without dissipation has recently been proposed for solving combinatorial optimization problems via quantum adiabatic evolution through its bifurcation point. Here we investigate the behavior of the quantum bifurcation machine (QbM) in the presence of dissipation. Our numerical study suggests that the output probability distribution of the dissipative QbM is Boltzmann-like, where the energy in the Boltzmann distribution corresponds to the cost function of the optimization problem. We explain the Boltzmann distribution by generalizing the concept of quantum heating in a single nonlinear oscillator to the case of multiple coupled nonlinear oscillators. The present result also suggests that such driven dissipative nonlinear oscillator networks can be applied to Boltzmann sampling, which is used, e.g., for Boltzmann machine learning in the field of artificial intelligence.
Transition from Spin Dewetting to continuous film in spin coating of Liquid Crystal 5CB
Authors: Dhara Palash , Bhandaru Nandini , Das Anuja , Mukherjee Rabibrata 
Published: May 2018

AbstractSpin dewetting refers to spontaneous rupture of the dispensed solution layer during spin coating, resulting in isolated but periodic, regular sized domains of the solute and is pre-dominant when the solute concentration (C
n
) is very low. In this article we report how the morphology of liquid crystal (LC) 5CB thin films coated on flat and patterned PMMA substrate transform from spin dewetted droplets to continuous films with increase in C
n
. We further show that within the spin dewetted regime, with gradual increase in the solute concentration, periodicity of the isotropic droplets (λ
D
) as well as their mean diameter (d
D
), gradually decreases, till the film becomes continuous at a critical concentration (C
n
*). Interestingly, the trend that λ
D
reduces with increase in C
n
is exact opposite to what is observed in thermal/solvent vapor induced dewetting of a thin film. The spin dewetted droplets exhibit transient Radial texture, in contrast to Schlieren texture observed in elongated threads and continuous films of 5CB, which remains in the Nematic phase at room temperature. Finally we show that by casting the film on a grating patterned substrate it becomes possible to align the spin dewetted droplets along the contours substrate patterns.
Differences in pre-sleep activity and sleep location are associated with variability in daytime/nighttime sleep electrophysiology in the domestic dog
Authors: Bunford Nóra , Reicher Vivien , Kis Anna , Pogány Ákos , Gombos Ferenc , Bódizs Róbert , Gácsi Márta 
Published: May 2018

AbstractThe domestic dog (Canis familiaris) is a promising animal model. Yet, the canine neuroscience literature is predominantly comprised of studies wherein (semi-)invasive methods and intensive training are used to study awake dog behavior. Given prior findings with humans and/or dogs, our goal was to assess, in 16 family dogs (1.5–7 years old; 10 males; 10 different breeds) the effects of pre-sleep activity and timing and location of sleep on sleep electrophysiology. All three factors had a main and/or interactive effect on sleep macrostructure. Following an active day, dogs slept more, were more likely to have an earlier drowsiness and NREM, and spent less time in drowsiness and more time in NREM and REM. Activity also had location- and time of day-specific effects. Time of day had main effects; at nighttime, dogs slept more and spent less time in drowsiness and awake after first drowsiness, and more time in NREM and in REM. Location had a main effect; when not at home, REM sleep following a first NREM was less likely. Findings are consistent with and extend prior human and dog data and have implications for the dog as an animal model and for informing future comparative research on sleep.
Stress-associated changes in salivary microRNAs can be detected in response to the Trier Social Stress Test: An exploratory study
Authors: Wiegand Conrad , Heusser Peter , Klinger Claudia , Cysarz Dirk , Büssing Arndt , Ostermann Thomas , Savelsbergh Andreas 
Published: May 2018

AbstractStress is an important co-factor for the genesis and maintenance of many diseases and is known to have an effect on gene expression via epigenetic regulation. MicroRNAs (miRNAs) appear to function as one of the key factors of this regulation. This is the first study to investigate the response of 11 stress-associated miRNAs in human saliva - as a non-invasive source - in an experimental condition of acute psychological stress, and also their correlation with established psychological (subjective stress perception), physiological (heart rate and heart rate variability) and biochemical stress parameters (salivary cortisol and alpha-amylase). 24 healthy participants between 20 and 35 years of age were investigated, using the Trier Social Stress Test (TSST) to induce acute psychological stress. Stress-associated changes were significant for miR-20b, -21 and 26b, and changes in miR-16 and -134 were close to significance, recommending further research on these miRNAs in the context of stress reactions. Significant correlations with alpha-amylase suggest their integration in sympathetic stress regulation processes. Additionally, our results demonstrate the TSST as a reliable tool for studying salivary miRNAs as non-invasive indicators of epigenetic processes in acute psychological stress reactions.
Negative association between resilience and event-related potentials evoked by negative emotion
Authors: Chen Dan , Wu Jianhui , Yao Zhuxi , Lei Kaikai , Luo Yuejia , Li Zhihao 
Published: May 2018

AbstractIndividuals with low level of resilience are documented to be less capable of regulating negative emotion. To investigate the underlying neurophysiology, the present study examined the relationship between resilience and the late positive potential (LPP) evoked by emotionally negative pictures. Fifty-four participants watched negative and neutral pictures passively while their electroencephalogram (EEG) was recorded to assess LPP. Participants also completed the Connor-Davidson Resilience Scale (CD-RISC) for assessment of their resilience levels. We found that resilience was negatively correlated with the LPP response to negative emotional pictures. Additionally, this negative correlation was mainly driven by optimism, one of the three composite factors that contribute to resilience. Our results showed a neurophysiological correlate for the effect of resilience on negative emotion, and suggested a predictive value of optimism in identifying individuals potentially sensitive to affective interruptions.
Bile acids and their respective conjugates elicit different responses in neonatal cardiomyocytes: role of Gi protein, muscarinic receptors and TGR5
Authors: Ibrahim Effendi , Diakonov Ivan , Arunthavarajah Dulasi , Swift Teresa , Goodwin Mary , McIlvride Saraid , Nikolova Vanya , Williamson Catherine , Gorelik Julia 
Published: May 2018

AbstractBile acids are recognised as bioactive signalling molecules. While they are known to influence arrhythmia susceptibility in cholestasis, there is limited knowledge about the underlying mechanisms. To delineate mechanisms underlying fetal heart rhythm disturbances in cholestatic pregnancy, we used FRET microscopy to monitor cAMP release and contraction measurements in isolated rodent neonatal cardiomyocytes. The unconjugated bile acids CDCA, DCA and UDCA and, to a lesser extent, CA were found to be relatively potent agonists for the GPBAR1 (TGR5) receptor and elicit cAMP release, whereas all glyco- and tauro- conjugated bile acids are weak agonists. The bile acid-induced cAMP production does not lead to an increase in contraction rate, and seems to be mediated by the RI isoform of adenylate cyclase, unlike adrenaline-dependent release which is mediated by the RII isoform. In contrast, bile acids elicited slowing of neonatal cardiomyocyte contraction indicating that other signalling pathways are involved. The conjugated bile acids were found to be partial agonists of the muscarinic M2, but not sphingosin-1-phosphate-2, receptors, and act partially through the Gi pathway. Furthermore, the contraction slowing effect of unconjugated bile acids may also relate to cytotoxicity at higher concentrations.