bluuebunny/crossref_metadata_2025_split huggingface dataset:
Triggering Comet-Like Activity of Main Belt Comets
Authors: Haghighipour N. , Maindl T. I. , Schäfer C. , Speith R. , Dvorak R. 
Published: March 2016

AbstractMain Belt Comets (MBCs) have attracted a great deal of interest since their identification as a new class of bodies by Hsieh and Jewitt in 2006. Much of this interest is due to the implication that MBC activity is driven by the sublimation of volatile material (presumed to be water-ice) presenting these bodies as probable candidates for the delivery of a significant fraction of Earth's water. Results of the studies of the dynamics of MBCs suggest that these objects might have formed in-situ as the remnants of the break-up of large icy asteroids. Simulations also show that collisions among MBCs and small objects could have played an important role in triggering the cometary activity of these bodies. Such collisions might have exposed sub-surface water-ice which sublimated and created thin atmospheres and tails around MBCs. In order to drive the effort of understanding the nature of the activation of MBCs, we have investigated these collision processes by simulating the impacts in detail using a smooth particle hydrodynamics (SPH) approach that includes material strength and fracture models. We have carried out simulations for a range of impact velocities and angles, allowing m-sized impactors to erode enough of an MBC's surface to expose volatiles and trigger its activation. Impact velocities were varied between 0.5 km/s and 5.3 km/s, and the projectile radius was chosen to be 1 m. As expected, we observe significantly different crater depths depending on the impact energy, impact angle, and MBC's material strength. Results show that for all values of impact velocity and angle, crater depths are only a few meters, implying that if the activity of MBCs is due to the sublimation of water-ice, ice has to exist in no deeper than a few meters from the surface. We present details of our simulations and discuss the implications of their results.
Current research on pharmacologic and regenerative therapies for osteoarthritis
Authors: Zhang Wei , Ouyang Hongwei , Dass Crispin R , Xu Jiake 
Published: March 2016

AbstractOsteoarthritis (OA) is a degenerative joint disorder commonly encountered in clinical practice, and is the leading cause of disability in elderly people. Due to the poor self-healing capacity of articular cartilage and lack of specific diagnostic biomarkers, OA is a challenging disease with limited treatment options. Traditional pharmacologic therapies such as acetaminophen, non-steroidal anti-inflammatory drugs, and opioids are effective in relieving pain but are incapable of reversing cartilage damage and are frequently associated with adverse events. Current research focuses on the development of new OA drugs (such as sprifermin/recombinant human fibroblast growth factor-18, tanezumab/monoclonal antibody against β-nerve growth factor), which aims for more effectiveness and less incidence of adverse effects than the traditional ones. Furthermore, regenerative therapies (such as autologous chondrocyte implantation (ACI), new generation of matrix-induced ACI, cell-free scaffolds, induced pluripotent stem cells (iPS cells or iPSCs), and endogenous cell homing) are also emerging as promising alternatives as they have potential to enhance cartilage repair, and ultimately restore healthy tissue. However, despite currently available therapies and research advances, there remain unmet medical needs in the treatment of OA. This review highlights current research progress on pharmacologic and regenerative therapies for OA including key advances and potential limitations.
Stereocilia-staircase spacing is influenced by myosin III motors and their cargos espin-1 and espin-like
Authors: Ebrahim Seham , Avenarius Matthew R. , Grati M’hamed , Krey Jocelyn F. , Windsor Alanna M. , Sousa Aurea D. , Ballesteros Angela , Cui Runjia , Millis Bryan A. , Salles Felipe T. , Baird Michelle A. , Davidson Michael W. , Jones Sherri M. , Choi Dongseok , Dong Lijin , Raval Manmeet H. , Yengo Christopher M. , Barr-Gillespie Peter G. , Kachar Bechara 
Published: March 2016

AbstractHair cells tightly control the dimensions of their stereocilia, which are actin-rich protrusions with graded heights that mediate mechanotransduction in the inner ear. Two members of the myosin-III family, MYO3A and MYO3B, are thought to regulate stereocilia length by transporting cargos that control actin polymerization at stereocilia tips. We show that eliminating espin-1 (ESPN-1), an isoform of ESPN and a myosin-III cargo, dramatically alters the slope of the stereocilia staircase in a subset of hair cells. Furthermore, we show that espin-like (ESPNL), primarily present in developing stereocilia, is also a myosin-III cargo and is essential for normal hearing. ESPN-1 and ESPNL each bind MYO3A and MYO3B, but differentially influence how the two motors function. Consequently, functional properties of different motor-cargo combinations differentially affect molecular transport and the length of actin protrusions. This mechanism is used by hair cells to establish the required range of stereocilia lengths within a single cell.
Interfacial Properties of Monolayer and Bilayer MoS2 Contacts with Metals: Beyond the Energy Band Calculations
Authors: Zhong Hongxia , Quhe Ruge , Wang Yangyang , Ni Zeyuan , Ye Meng , Song Zhigang , Pan Yuanyuan , Yang Jinbo , Yang Li , Lei Ming , Shi Junjie , Lu Jing 
Published: March 2016

AbstractAlthough many prototype devices based on two-dimensional (2D) MoS2 have been fabricated and wafer scale growth of 2D MoS2 has been realized, the fundamental nature of 2D MoS2-metal contacts has not been well understood yet. We provide a comprehensive ab initio study of the interfacial properties of a series of monolayer (ML) and bilayer (BL) MoS2-metal contacts (metal = Sc, Ti, Ag, Pt, Ni, and Au). A comparison between the calculated and observed Schottky barrier heights (SBHs) suggests that many-electron effects are strongly suppressed in channel 2D MoS2 due to a charge transfer. The extensively adopted energy band calculation scheme fails to reproduce the observed SBHs in 2D MoS2-Sc interface. By contrast, an ab initio quantum transport device simulation better reproduces the observed SBH in 2D MoS2-Sc interface and highlights the importance of a higher level theoretical approach beyond the energy band calculation in the interface study. BL MoS2-metal contacts generally have a reduced SBH than ML MoS2-metal contacts due to the interlayer coupling and thus have a higher electron injection efficiency.
A new type of vanadium carbide V5C3 and its hardening by tuning Fermi energy
Authors: Xing Wandong , Meng Fanyan , Yu Rong 
Published: March 2016

AbstractTransition metal compounds usually have various stoichiometries and crystal structures due to the coexistence of metallic, covalent and ionic bonds in them. This flexibility provides a lot of candidates for materials design. Taking the V-C binary system as an example, here we report the first-principles prediction of a new type of vanadium carbide, V5C3, which has an unprecedented stoichiometry in the V-C system and is energetically and mechanically stable. The material is abnormally much harder than neighboring compounds in the V-C phase diagram and can be further hardened by tuning the Fermi energy.
Detection of Temperature Difference in Neuronal Cells
Authors: Tanimoto Ryuichi , Hiraiwa Takumi , Nakai Yuichiro , Shindo Yutaka , Oka Kotaro , Hiroi Noriko , Funahashi Akira 
Published: March 2016

AbstractFor a better understanding of the mechanisms behind cellular functions, quantification of the heterogeneity in an organism or cells is essential. Recently, the importance of quantifying temperature has been highlighted, as it correlates with biochemical reaction rates. Several methods for detecting intracellular temperature have recently been established. Here we develop a novel method for sensing temperature in living cells based on the imaging technique of fluorescence of quantum dots. We apply the method to quantify the temperature difference in a human derived neuronal cell line, SH-SY5Y. Our results show that temperatures in the cell body and neurites are different and thus suggest that inhomogeneous heat production and dissipation happen in a cell. We estimate that heterogeneous heat dissipation results from the characteristic shape of neuronal cells, which consist of several compartments formed with different surface-volume ratios. Inhomogeneous heat production is attributable to the localization of specific organelles as the heat source.
Engineering Dark Chromoprotein Reporters for Photoacoustic Microscopy and FRET Imaging
Authors: Li Yan , Forbrich Alex , Wu Jiahui , Shao Peng , Campbell Robert E. , Zemp Roger 
Published: March 2016

AbstractA subset of the family of fluorescent proteins are the non-fluorescent chromoproteins which are promising probe molecules for use in photoacoustic imaging and as acceptor chromophores in Förster resonance energy transfer (FRET)-based biosensors. Typical approaches for fluorescent protein optimization by screening of large libraries of variants cannot be effectively applied to chromoproteins due to their characteristic lack of fluorescence. To address this challenge, we have developed a directed evolution method to iteratively screen large libraries of protein variants on the basis of their photoacoustic signal levels. By applying this procedure to the promising Ultramarine and cjBlue chromoprotein templates, we were able to identify improved variants with a 02–04 fold increase in photoacoustic signal-to-noise ratio after only a few evolutionary steps. These improved variants enable more accurate spectral de-mixing and localization of protein-producing bacteria in vivo and serve as effective FRET acceptors for both fluorescence- and photoacoustic-based detection of protease activity.
Plasmonic and silicon spherical nanoparticle antireflective coatings
Authors: Baryshnikova K. V. , Petrov M. I. , Babicheva V. E. , Belov P. A. 
Published: March 2016

AbstractOver the last decade, plasmonic antireflecting nanostructures have been extensively studied to be utilized in various optical and optoelectronic systems such as lenses, solar cells, photodetectors, and others. The growing interest to all-dielectric photonics as an alternative optical technology along with plasmonics motivates us to compare antireflective properties of plasmonic and all-dielectric nanoparticle coatings based on silver and crystalline silicon respectively. Our simulation results for spherical nanoparticles array on top of amorphous silicon show that both silicon and silver coatings demonstrate strong antireflective properties in the visible spectral range. For the first time, we show that zero reflectance from the structure with silicon coatings originates from the destructive interference of electric- and magnetic-dipole responses of nanoparticle array with the wave reflected from the substrate, and we refer to this reflection suppression as substrate-mediated Kerker effect. We theoretically compare the silicon and silver coating effectiveness for the thin-film photovoltaic applications. Silver nanoparticles can be more efficient, enabling up to 30% increase of the overall absorbance in semiconductor layer. Nevertheless, silicon coatings allow up to 64% absorbance increase in the narrow band spectral range because of the substrate-mediated Kerker effect, and band position can be effectively tuned by varying the nanoparticles sizes.
Establishment and characterisation of patient-derived xenografts as paraclinical models for gastric cancer
Authors: Choi Yoon Young , Lee Jae Eun , Kim Hyunki , Sim Moon Hee , Kim Ka-Kyung , Lee Gunho , Kim Hyoung-Il , An Ji Yeong , Hyung Woo Jin , Kim Choong-Bai , Noh Sung Hoon , Kim Sangwoo , Cheong Jae-Ho 
Published: March 2016

AbstractThe patient-derived xenograft (PDX) model is emerging as a promising translational platform to duplicate the characteristics of tumours. However, few studies have reported detailed histological and genomic analyses for model fidelity and for factors affecting successful model establishment of gastric cancer. Here, we generated PDX tumours surgically-derived from 62 gastric cancer patients. Fifteen PDX models were successfully established (24.2%, 15/62) and passaged to maintain tumours in immune-compromised mice. Diffuse type and low tumour cell percentage were negatively correlated with success rates (p = 0.005 and p = 0.025, respectively), while reducing ex vivo and overall procedure times were positively correlated with success rates (p = 0.003 and p = 0.01, respectively). The histology and genetic characteristics of PDX tumour models were stable over subsequent passages. Lymphoma transformation occurred in five cases (33.3%, 5/15), and all were in the NOG mouse, with none in the nude mouse. Together, the present study identified Lauren classification, tumour cell percentages, and ex vivo times along with overall procedure times, as key determinants for successful PDX engraftment. Furthermore, genetic and histological characteristics were highly consistent between primary and PDX tumours, which provide realistic paraclinical models, enabling personalised development of treatment options for gastric cancer.
Improved estimation of hydraulic conductivity by combining stochastically simulated hydrofacies with geophysical data
Authors: Zhu Lin , Gong Huili , Chen Yun , Li Xiaojuan , Chang Xiang , Cui Yijiao 
Published: March 2016

AbstractHydraulic conductivity is a major parameter affecting the output accuracy of groundwater flow and transport models. The most commonly used semi-empirical formula for estimating conductivity is Kozeny-Carman equation. However, this method alone does not work well with heterogeneous strata. Two important parameters, grain size and porosity, often show spatial variations at different scales. This study proposes a method for estimating conductivity distributions by combining a stochastic hydrofacies model with geophysical methods. The Markov chain model with transition probability matrix was adopted to re-construct structures of hydrofacies for deriving spatial deposit information. The geophysical and hydro-chemical data were used to estimate the porosity distribution through the Archie’s law. Results show that the stochastic simulated hydrofacies model reflects the sedimentary features with an average model accuracy of 78% in comparison with borehole log data in the Chaobai alluvial fan. The estimated conductivity is reasonable and of the same order of magnitude of the outcomes of the pumping tests. The conductivity distribution is consistent with the sedimentary distributions. This study provides more reliable spatial distributions of the hydraulic parameters for further numerical modeling.
General immunity and superadditivity of two-way Gaussian quantum cryptography
Authors: Ottaviani Carlo , Pirandola Stefano 
Published: March 2016

AbstractWe consider two-way continuous-variable quantum key distribution, studying its security against general eavesdropping strategies. Assuming the asymptotic limit of many signals exchanged, we prove that two-way Gaussian protocols are immune to coherent attacks. More precisely we show the general superadditivity of the two-way security thresholds, which are proven to be higher than the corresponding one-way counterparts in all cases. We perform the security analysis first reducing the general eavesdropping to a two-mode coherent Gaussian attack and then showing that the superadditivity is achieved by exploiting the random on/off switching of the two-way quantum communication. This allows the parties to choose the appropriate communication instances to prepare the key, accordingly to the tomography of the quantum channel. The random opening and closing of the circuit represents, in fact, an additional degree of freedom allowing the parties to convert, a posteriori, the two-mode correlations of the eavesdropping into noise. The eavesdropper is assumed to have no access to the on/off switching and, indeed, cannot adapt her attack. We explicitly prove that this mechanism enhances the security performance, no matter if the eavesdropper performs collective or coherent attacks.
Visualization of complex DNA double-strand breaks in a tumor treated with carbon ion radiotherapy
Authors: Oike Takahiro , Niimi Atsuko , Okonogi Noriyuki , Murata Kazutoshi , Matsumura Akihiko , Noda Shin-Ei , Kobayashi Daijiro , Iwanaga Mototaro , Tsuchida Keisuke , Kanai Tatsuaki , Ohno Tatsuya , Shibata Atsushi , Nakano Takashi 
Published: March 2016

AbstractCarbon ion radiotherapy shows great potential as a cure for X-ray-resistant tumors. Basic research suggests that the strong cell-killing effect induced by carbon ions is based on their ability to cause complex DNA double-strand breaks (DSBs). However, evidence supporting the formation of complex DSBs in actual patients is lacking. Here, we used advanced high-resolution microscopy with deconvolution to show that complex DSBs are formed in a human tumor clinically treated with carbon ion radiotherapy, but not in a tumor treated with X-ray radiotherapy. Furthermore, analysis using a physics model suggested that the complexity of radiotherapy-induced DSBs is related to linear energy transfer, which is much higher for carbon ion beams than for X-rays. Visualization of complex DSBs in clinical specimens will help us to understand the anti-tumor effects of carbon ion radiotherapy.
On a Possible Unified Scaling Law for Volcanic Eruption Durations
Authors: Cannavò Flavio , Nunnari Giuseppe 
Published: March 2016

AbstractVolcanoes constitute dissipative systems with many degrees of freedom. Their eruptions are the result of complex processes that involve interacting chemical-physical systems. At present, due to the complexity of involved phenomena and to the lack of precise measurements, both analytical and numerical models are unable to simultaneously include the main processes involved in eruptions thus making forecasts of volcanic dynamics rather unreliable. On the other hand, accurate forecasts of some eruption parameters, such as the duration, could be a key factor in natural hazard estimation and mitigation. Analyzing a large database with most of all the known volcanic eruptions, we have determined that the duration of eruptions seems to be described by a universal distribution which characterizes eruption duration dynamics. In particular, this paper presents a plausible global power-law distribution of durations of volcanic eruptions that holds worldwide for different volcanic environments. We also introduce a new, simple and realistic pipe model that can follow the same found empirical distribution. Since the proposed model belongs to the family of the self-organized systems it may support the hypothesis that simple mechanisms can lead naturally to the emergent complexity in volcanic behaviour.
Molecular characterization of HIV-1 Nef and ACOT8 interaction: insights from in silico structural predictions and in vitro functional assays
Authors: Serena Michela , Giorgetti Alejandro , Busato Mirko , Gasparini Francesca , Diani Erica , Romanelli Maria Grazia , Zipeto Donato 
Published: March 2016

AbstractHIV-1 Nef interacts with several cellular proteins, among which the human peroxisomal thioesterase 8 (ACOT8). This interaction may be involved in the endocytosis regulation of membrane proteins and might modulate lipid composition in membrane rafts. Nef regions involved in the interaction have been experimentally characterized, whereas structural details of the ACOT8 protein are unknown. The lack of structural information hampers the comprehension of the functional consequences of the complex formation during HIV-1 infection. We modelled, through in silico predictions, the ACOT8 structure and we observed a high charge complementarity between Nef and ACOT8 surfaces, which allowed the identification of the ACOT8 putative contact points involved in the interaction. The predictions were validated by in vitro assays through the development of ACOT8 deletion mutants. Coimmunoprecipitation and immunofluorescence analyses showed that ACOT8 Arg45-Phe55 and Arg86-Pro93 regions are involved in Nef association. In addition, K91S mutation abrogated the interaction with Nef, indicating that Lys91 plays a key role in the interaction. Finally, when associated with ACOT8, Nef may be preserved from degradation. These findings improve the comprehension of the association between HIV-1 Nef and ACOT8, helping elucidating the biological effect of their interaction.
Structural insights into Cydia pomonella pheromone binding protein 2 mediated prediction of potentially active semiochemicals
Authors: Tian Zhen , Liu Jiyuan , Zhang Yalin 
Published: March 2016

AbstractGiven the advantages of behavioral disruption application in pest control and the damage of Cydia pomonella, due progresses have not been made in searching active semiochemicals for codling moth. In this research, 31 candidate semiochemicals were ranked for their binding potential to Cydia pomonella pheromone binding protein 2 (CpomPBP2) by simulated docking and this sorted result was confirmed by competitive binding assay. This high predicting accuracy of virtual screening led to the construction of a rapid and viable method for semiochemicals searching. By reference to binding mode analyses, hydrogen bond and hydrophobic interaction were suggested to be two key factors in determining ligand affinity, so is the length of molecule chain. So it is concluded that semiochemicals of appropriate chain length with hydroxyl group or carbonyl group at one head tended to be favored by CpomPBP2. Residues involved in binding with each ligand were pointed out as well, which were verified by computational alanine scanning mutagenesis. Progress made in the present study helps establish an efficient method for predicting potentially active compounds and prepares for the application of high-throughput virtual screening in searching semiochemicals by taking insights into binding mode analyses.
Revisiting the Local Structure in Ge-Sb-Te based Chalcogenide Superlattices
Authors: Casarin Barbara , Caretta Antonio , Momand Jamo , Kooi Bart J. , Verheijen Marcel A. , Bragaglia Valeria , Calarco Raffaella , Chukalina Marina , Yu Xiaoming , Robertson John , Lange Felix R. L. , Wuttig Matthias , Redaelli Andrea , Varesi Enrico , Parmigiani Fulvio , Malvestuto Marco 
Published: March 2016

AbstractThe technological success of phase-change materials in the field of data storage and functional systems stems from their distinctive electronic and structural peculiarities on the nanoscale. Recently, superlattice structures have been demonstrated to dramatically improve the optical and electrical performances of these chalcogenide based phase-change materials. In this perspective, unravelling the atomistic structure that originates the improvements in switching time and switching energy is paramount in order to design nanoscale structures with even enhanced functional properties. This study reveals a high- resolution atomistic insight of the [GeTe/Sb2Te3] interfacial structure by means of Extended X-Ray Absorption Fine Structure spectroscopy and Transmission Electron Microscopy. Based on our results we propose a consistent novel structure for this kind of chalcogenide superlattices.