bluuebunny/crossref_metadata_2025_split huggingface dataset:
Deep-diving pilot whales make cheap, but powerful, echolocation clicks with 50 µL of air
Authors: Foskolos Ilias , Aguilar de Soto Natacha , Madsen Peter Teglberg , Johnson Mark 
Published: October 2019

AbstractEcholocating toothed whales produce powerful clicks pneumatically to detect prey in the deep sea where this long-range sensory channel makes them formidable top predators. However, air supplies for sound production compress with depth following Boyle’s law suggesting that deep-diving whales must use very small air volumes per echolocation click to facilitate continuous sensory flow in foraging dives. Here we test this hypothesis by analysing click-induced acoustic resonances in the nasal air sacs, recorded by biologging tags. Using 27000 clicks from 102 dives of 23 tagged pilot whales (Globicephala macrorhynchus), we show that click production requires only 50 µL of air/click at 500 m depth increasing gradually to 100 µL at 1000 m. With such small air volumes, the metabolic cost of sound production is on the order of 40 J per dive which is a negligible fraction of the field metabolic rate. Nonetheless, whales must make frequent pauses in echolocation to recycle air between nasal sacs. Thus, frugal use of air and periodic recycling of very limited air volumes enable pilot whales, and likely other toothed whales, to echolocate cheaply and almost continuously throughout foraging dives, providing them with a strong sensory advantage in diverse aquatic habitats.
Supercritical water anomalies in the vicinity of the Widom line
Authors: Karalis Konstantinos , Ludwig Christian , Niceno Bojan 
Published: October 2019

AbstractSupercritical water is used in a variety of chemical and industrial applications. As a consequence, a detailed knowledge of the structure-properties correlations is of uttermost importance. Although supercritical water was considered as a homogeneous fluid, recent studies revealed an anomalous behaviour due to nanoscale density fluctuations (inhomogeneity). The inhomogeneity is clearly demarked through the Widom line (maxima in response factions) and drastically affect the properties. In the current study the physical properties of supercritical water have been determined by classical molecular dynamics simulations using a variety of polarized and polarizable interatomic potentials. Their validity which was not available at supercritical conditions has been assessed based on the ability to reproduce experimental data. Overall, the polarized TIP4P/2005 model accurately predicted the properties of water in both liquid-like and gas-like regions. All interatomic potentials captured the anomalous behaviour providing a direct evidence of molecular-scale inhomogeneity.
Assessment of Nano-Indentation Method in Mechanical Characterization of Heterogeneous Nanocomposite Materials Using Experimental and Computational Approaches
Authors: Karimzadeh A. , R. Koloor S. S. , Ayatollahi M. R. , Bushroa A. R. , Yahya M. Y. 
Published: October 2019

AbstractThis study investigates the capacity of the nano-indentation method in the mechanical characterization of a heterogeneous dental restorative nanocomposite using experimental and computational approaches. In this respect, Filtek Z350 XT was selected as a nano-particle reinforced polymer nanocomposite with a specific range of the particle size (50 nm to 4 µm), within the range of indenter contact area of the nano-indentation experiment. A Sufficient number of nano-indentation tests were performed in various locations of the nanocomposite to extract the hardness and elastic modulus properties. A hybrid computational-experimental approach was developed to examine the extracted properties by linking the internal behaviour and the global response of the nanocomposite. In the computational part, several representative models of the nanocomposite were created in a finite element environment to simulate the mechanism of elastic-plastic deformation of the nanocomposite under Berkovich indenter. Dispersed values of hardness and elastic modulus were obtained through the experiment with 26.8 and 48.5 percent average errors, respectively, in comparison to the nanocomposite properties, respectively. A disordered shape was predicted for plastic deformation of the equilateral indentation mark, representing the interaction of the particles and matrix, which caused the experiment results reflect the local behaviour of the nanocomposite instead of the real material properties.
Ionic transport through a protein nanopore: a Coarse-Grained Molecular Dynamics Study
Authors: Basdevant Nathalie , Dessaux Delphine , Ramirez Rosa 
Published: October 2019

AbstractThe MARTINI coarse-grained (CG) force field is used to test the ability of CG models to simulate ionic transport through protein nanopores. The ionic conductivity of CG ions in solution was computed and compared with experimental results. Next, we studied the electrostatic behavior of a solvated CG lipid bilayer in salt solution under an external electric field. We showed this approach correctly describes the experimental conditions under a potential bias. Finally, we performed CG molecular dynamics simulations of the ionic transport through a protein nanopore (α-hemolysin) inserted in a lipid bilayer, under different electric fields, for 2–3 microseconds. The resulting I − V curve is qualitatively consistent with experiments, although the computed current is one order of magnitude smaller. Current saturation was observed for potential biases over ±350 mV. We also discuss the time to reach a stationary regime and the role of the protein flexibility in our CG simulations.
A comparative assessment of conventional and molecular methods, including MinION nanopore sequencing, for surveying water quality
Authors: Acharya Kishor , Khanal Santosh , Pantha Kalyan , Amatya Niroj , Davenport Russell J. , Werner David 
Published: October 2019

AbstractNucleic acid based techniques, such as quantitative PCR (qPCR) and next generation sequencing (NGS), provide new insights into microbial water quality, but considerable uncertainty remains around their correct interpretation. We demonstrate, for different water sources in informal settlements in the Kathmandu Valley, Nepal, significant Spearman rank correlations between conventional and molecular microbiology methods that indicate faecal contamination. At family and genera level, 16S rRNA amplicon sequencing results obtained with the low-cost, portable next generation sequencer MinION from Oxford Nanopore Technologies had significant Spearman rank correlations with Illumina MiSeq sequencing results. However, method validation by amplicon sequencing of a MOCK microbial community revealed the need to ascertain MinION sequencing results for putative pathogens at species level with complementary qPCR assays. Vibrio cholerae hazards were poorly associated with plate count faecal coliforms, but flagged up by the MinION screening method, and confirmed by a qPCR assay. Plate counting methods remain important to assess viability of faecal coliforms in disinfected water sources. We outline a systematic approach for data collection and interpretation of such complementary results. In the Kathmandu Valley, there is high variability of water quality from different sources, including for treated water samples, illustrating the importance of disinfection at the point of use.
A topological transition by confinement of a phase separating system with radial quenching
Authors: Tsukada Tsuyoshi , Kurita Rei 
Published: October 2019

AbstractPhysicochemical systems are strongly modified by spatial confinement; the effect is more pronounced the stronger the confinement is, making its influence particularly important nanotechnology applications. For example, a critical point of a phase transition is shifted by a finite size effect; structure can be changed through wetting to a container wall. Recently, it has been shown that pattern formation during a phase separation is changed when a system is heterogeneously quenched instead of homogeneously. Flux becomes anisotropic due to a heterogeneous temperature field; this suggests that the mechanism behind heterogeneous quenching is different from that of homogeneous quenching. Here, we numerically study the confinement effect for heterogeneously quenched systems. We find that the pattern formed by the phase separation undergoes a topological change with stronger confinement i.e. when the height of a simulation box is varied, transforming from a one-dimensional layered pattern to a two-dimensional pattern. We show that the transition is induced by suppression of the heterogeneous flux by spatial confinement. Systems with heterogeneous flux are ubiquitous; the effect is expected to be relevant to a wide variety of non-equilibrium processes under the action of spatial confinement.
Firing activities of a fractional-order FitzHugh-Rinzel bursting neuron model and its coupled dynamics
Authors: Mondal Argha , Sharma Sanjeev Kumar , Upadhyay Ranjit Kumar , Mondal Arnab 
Published: October 2019

AbstractFractional-order dynamics of excitable systems can be physically described as a memory dependent phenomenon. It can produce diverse and fascinating oscillatory patterns for certain types of neuron models. To address these characteristics, we consider a nonlinear fast-slow FitzHugh-Rinzel (FH-R) model that exhibits elliptic bursting at a fixed set of parameters with a constant input current. The generalization of this classical order model provides a wide range of neuronal responses (regular spiking, fast-spiking, bursting, mixed-mode oscillations, etc.) in understanding the single neuron dynamics. So far, it is not completely understood to what extent the fractional-order dynamics may redesign the firing properties of excitable systems. We investigate how the classical order system changes its complex dynamics and how the bursting changes to different oscillations with stability and bifurcation analysis depending on the fractional exponent (0 < α ≤ 1). This occurs due to the memory trace of the fractional-order dynamics. The firing frequency of the fractional-order FH-R model is less than the classical order model, although the first spike latency exists there. Further, we investigate the responses of coupled FH-R neurons with small coupling strengths that synchronize at specific fractional-orders. The interesting dynamical characteristics suggest various neurocomputational features that can be induced in this fractional-order system which enriches the functional neuronal mechanisms.
Structure Based Multitargeted Molecular Docking Analysis of Selected Furanocoumarins against Breast Cancer
Authors: Acharya Reetuparna , Chacko Shinu , Bose Pritha , Lapenna Antonio , Pattanayak Shakti Prasad 
Published: October 2019

AbstractBreast cancer is one of the biggest global dilemmas and its current therapy is to target the hormone receptors by the use of partial agonists/antagonists. Potent drugs for breast cancer treatment are Tamoxifen, Trastuzumab, Paclitaxel, etc. which show adverse effects and resistance in patients. The aim of the study has been on certain phytochemicals which has potent actions on ERα, PR, EGFR and mTOR inhibition. The current study is performed by the use of molecular docking as protein-ligand interactions play a vital role in drug design. The 3D structures of ERα, PR, EGFR and mTOR were obtained from the protein data bank and docked with 23 3D PubChem structures of furanocoumarin compounds using FlexX. Drug-likeness property was checked by applying the Lipinski’s rule of five on the furanocoumarins to evaluate anti-breast cancer activity. Antagonist and inhibition assay of ERα, EGFR and mTOR respectively has been performed using appropriatein-vitrotechniques. The results confirm that Xanthotoxol has the best docking score for breast cancer followed by Bergapten, Angelicin, Psoralen and Isoimperatorin. Further, thein-vitroresults also validate the molecular docking analysis. This study suggests that the selected furanocoumarins can be further investigated and evaluated for breast cancer treatment and management strategies.
Exhaled volatile substances in children suffering from type 1 diabetes mellitus: results from a cross-sectional study
Authors: Trefz Phillip , Obermeier Juliane , Lehbrink Ruth , Schubert Jochen K. , Miekisch Wolfram , Fischer Dagmar-Christiane 
Published: October 2019

AbstractMonitoring metabolic adaptation to type 1 diabetes mellitus in children is challenging. Analysis of volatile organic compounds (VOCs) in exhaled breath is non-invasive and appears as a promising tool. However, data on breath VOC profiles in pediatric patients are limited. We conducted a cross-sectional study and applied quantitative analysis of exhaled VOCs in children suffering from type 1 diabetes mellitus (T1DM) (n = 53) and healthy controls (n = 60). Both groups were matched for sex and age. For breath gas analysis, a very sensitive direct mass spectrometric technique (PTR-TOF) was applied. The duration of disease, the mode of insulin application (continuous subcutaneous insulin infusion vs. multiple daily insulin injection) and long-term metabolic control were considered as classifiers in patients. The concentration of exhaled VOCs differed between T1DM patients and healthy children. In particular, T1DM patients exhaled significantly higher amounts of ethanol, isopropanol, dimethylsulfid, isoprene and pentanal compared to healthy controls (171, 1223, 19.6, 112 and 13.5 ppbV vs. 82.4, 784, 11.3, 49.6, and 5.30 ppbV). The most remarkable differences in concentrations were found in patients with poor metabolic control, i.e. those with a mean HbA1c above 8%. In conclusion, non-invasive breath testing may support the discovery of basic metabolic mechanisms and adaptation early in the progress of T1DM.
3D Porous Graphene Based Aerogel for Electromagnetic Applications
Authors: Cheraghi Bidsorkhi Hossein , D’Aloia Alessandro Giuseppe , Tamburrano Alessio , De Bellis Giovanni , Delfini Andrea , Ballirano Paolo , Sarto Maria Sabrina 
Published: October 2019

AbstractLightweight multifunctional electromagnetic (EM) absorbing materials with outstanding thermal properties, chemical resistance and mechanical stability are crucial for space, aerospace and electronic devices and packaging. Therefore, 3D porous graphene aerogels are attracting ever growing interest. In this paper we present a cost effective lightweight 3D porous graphene-based aerogel for EM wave absorption, constituted by a poly vinylidene fluoride (PVDF) polymer matrix filled with graphene nanoplatelets (GNPs) and we show that the thermal, electrical, mechanical properties of the aerogel can be tuned through the proper selection of the processing temperature, controlled either at 65 °C or 85 °C. The produced GNP-filled aerogels are characterized by exceptional EM properties, allowing the production of absorbers with 9.2 GHz and 6.4 GHz qualified bandwidths with reflection coefficients below −10 dB and −20 dB, respectively. Moreover, such aerogels show exceptional thermal conductivities without any appreciable volume change after temperature variations. Finally, depending on the process parameters, it is shown the possibility to obtain water repellent aerogel composites, thus preventing their EM and thermal properties from being affected by environmental humidity and allowing the realization of EM absorber with a stable response.
High-performance Acetone Soluble Tape Transfer Printing Method for Heterogeneous Integration
Authors: Zhang Jiaqi , Wu Yichang , Li Zhe , Zhang Yachao , Peng Yue , Chen Dazheng , Zhu Weidong , Xu Shengrui , Zhang Chunfu , Hao Yue 
Published: October 2019

AbstractA high-performance transfer printing method using a new soluble tape which can be dissolved in acetone is proposed to be used in heterogeneous integration. Si inks array was transferred from SOI wafers onto various substrates without adhesion promoter by this new method which we refer to as the acetone soluble tape (AST) method to compare with other transfer printing methods by using thermal release tape (TRT), water soluble tape (WST) and polydimethylsiloxane (PDMS). By using the AST method, the transfer printing process does not involve interface contention between stamp/inks and inks/receiver substrate so that it maximizes the transfer printing efficiency. Experimental results present the AST method has good performances, and various alien substrates, even curvilinear surfaces, can be selected as receiver substrates by the AST method. To examine the quality of the transferred Si inks, the Si TFTs were fabricated by using the Si membrane transferred by the AST method on sapphire substrate and the devices show the good performance. All the results confirm that the AST method is an effective method in heterogeneous integration.
Targeting ERβ in Macrophage Reduces Crown-like Structures in Adipose Tissue by Inhibiting Osteopontin and HIF-1α
Authors: Wang Li , Zhao Rui-peng , Song Xiao-yu , Wu Wan-fu 
Published: October 2019

AbstractProinflammatory processes in adipose tissue contribute to development of breast cancer and insulin resistance. Crown-like structures (CLS) are histologic hallmarks of the proinflammatory process in adipose tissue. CLS are microscopic foci of dying adipocytes surrounded by macrophages mostly derived from monocytes in blood. Estrogen receptor β (ERβ) is expressed in microglia, macrophages within the central nervous system (CNS), where it evokes an anti-inflammatory response. The present study investigates the function of ERβ in macrophages within CLS. We report that even though monocytes in the blood have no detectable levels of ERβ, macrophages in CLS do express ERβ. In ERβ−/− mice, there was a significant increase in the number of CLS in both subcutaneous adipose tissue (SAT) and visceral adipose tissue (VAT). CLS in these mice were dominated by pro-inflammatory macrophages (M1 macrophages) with higher expression of osteopontin (OPN) and an increase in number of proliferating macrophages. In mice made obese by Western diet, treatment with an ERβ selective agonist (LY3201) reduced the number of CLS in both SAT and VAT with downregulation of OPN, activated hypoxia-inducible factor-1α (HIF-1α), proliferation and upregulation prolyl hydroxylase 2 (PHD2), the enzyme which prevents activation of HIF1α, in macrophages. We conclude that ERβ expression is induced in macrophages in CLS within adipose tissue where it plays a pivotal role in suppression of CLS. Thus ERβ agonists may be used to alleviate CLS-related breast cancer and insulin resistance in adipose tissue.
Establishment of an induced pluripotent cell line from Taiwan black silkie chick embryonic fibroblasts for replication-incompetent virus production
Authors: Liou Jenn-Fa , Wu Wen-Ren , Chen Lih-Ren , Shiue Yow-Ling 
Published: October 2019

AbstractThe objective of this study was to establish a versatile cell line for replication-incompetent virus production and inactivation with formaldehyde to generate a model of cell-based vaccine manufacturing process. To achieve this goal, we took advantage of the easily accessed chick embryonic fibroblasts. Nine-day old chick embryonic fibroblasts were obtained and subjected to be transduced with a set of lentivirus to develop a chick induced pluripotent stem (ciPS) cell line. Morphological features, positive periodic acid-Schiff staining as well as strong immunocytofluorescence of alkaline phosphatase, intestinal (ALPI) and POU class 5 homeobox 1 (POU5F1) proteins suggested that these chick embryonic fibroblasts have been transformed into ciPS cells. Further differentiation and immunocytofluorescence assays confirmed that this ciPS cell line possesses capacities and potentials to form embryoid bodies, differentiate into all three embryonic layers: ectoderm, mesoderm and endoderm with evidence of strongly positive and specific molecular markers. Immunoblot analysis next demonstrated that through recombinant DNA technology and the 2nd generation lentiviral transfer system, the goose hemagglutinin gene (H5) gene was packaged into the replication-incompetent virus and highly expressed in a bladder cancer-derived cell line, T24, after transduction. The titer of ciPS-generated replication-incompetent virus is comparable to that from the Phoenix-AMPHO cell line, which is a commercial and high productive retrovirus producer. Our study successfully established a ciPS cell line which is able to produce replication-incompetent virus, providing a new strategy for cell-based vaccine production after virus inactivation.
Oct4-mediated reprogramming induces embryonic-like microRNA expression signatures in human fibroblasts
Authors: Peskova Lucie , Cerna Katerina , Oppelt Jan , Mraz Marek , Barta Tomas 
Published: October 2019

AbstractOct4-mediated reprogramming has recently become a novel tool for the generation of various cell types from differentiated somatic cells. Although molecular mechanisms underlying this process are unknown, it is well documented that cells over-expressing Oct4 undergo transition from differentiated state into plastic state. This transition is associated with the acquisition of stem cells properties leading to epigenetically “open” state that is permissive to cell fate switch upon external stimuli. In order to contribute to our understanding of molecular mechanisms driving this process, we characterised human fibroblasts over-expressing Oct4 and performed comprehensive small-RNAseq analysis. Our analyses revealed new interesting aspects of Oct4-mediated cell plasticity induction. Cells over-expressing Oct4 lose their cell identity demonstrated by down-regulation of fibroblast-specific genes and up-regulation of epithelial genes. Interestingly, this process is associated with microRNA expression profile that is similar to microRNA profiles typically found in pluripotent stem cells. We also provide extensive network of microRNA families and clusters allowing us to precisely determine the miRNAome associated with the acquisition of Oct4-induced transient plastic state. Our data expands current knowledge of microRNA and their implications in cell fate alterations and contributing to understanding molecular mechanisms underlying it.
Phylogenetic evidence of the intercontinental circulation of a Canine distemper virus lineage in the Americas
Authors: Duque-Valencia July , Forero-Muñoz Norma R. , Díaz Francisco J. , Martins Elisabete , Barato Paola , Ruiz-Saenz Julian 
Published: October 2019

AbstractCanine distemper virus (CDV) is the cause of a multisystem disease in domestic dogs and wild animals, infecting more than 20 carnivore and non-carnivore families and even infecting human cell lines in in vitro conditions. Phylogenetic classification based on the hemagglutinin gene shows 17 lineages with a phylogeographic distribution pattern. In Medellín (Colombia), the lineage South America-3 is considered endemic. Phylogenetic studies conducted in Ecuador using fragment coding for the fusion protein signal peptide (Fsp) characterized a new strain belonging to a different lineage. For understanding the distribution of the South America-3 lineage in the north of the South American continent, we characterized CDV from three Colombian cities (Medellín, Bucaramanga, and Bogotá). Using phylogenetic analysis of the hemagglutinin gene and the Fsp region, we confirmed the circulation of CDV South America-3 in different areas of Colombia. We also described, for the first time to our knowledge, the circulation of a new lineage in Medellín that presents a group monophyletic with strains previously characterized in dogs in Ecuador and in wildlife and domestic dogs in the United States, for which we propose the name “South America/North America-4” due its intercontinental distribution. In conclusion, our results indicated that there are at least four different CDV lineages circulating in domestic dogs in South America: the Europe/South America-1 lineage circulating in Brazil, Uruguay, and Argentina; the South America-2 lineage restricted to Argentina; the South America-3 lineage, which has only been reported in Colombia; and lastly an intercontinental lineage present in Colombia, Ecuador, and the United States, referred to here as the “South America/North America-4” lineage.