bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cortical dendritic activity correlates with spindle-rich oscillations during sleep in rodents
Authors: Seibt Julie , Richard Clément J. , Sigl-Glöckner Johanna , Takahashi Naoya , Kaplan David I. , Doron Guy , de Limoges Denis , Bocklisch Christina , Larkum Matthew E. 
Published: September 2017

AbstractHow sleep influences brain plasticity is not known. In particular, why certain electroencephalographic (EEG) rhythms are linked to memory consolidation is poorly understood. Calcium activity in dendrites is known to be necessary for structural plasticity changes, but this has never been carefully examined during sleep. Here, we report that calcium activity in populations of neocortical dendrites is increased and synchronised during oscillations in the spindle range in naturally sleeping rodents. Remarkably, the same relationship is not found in cell bodies of the same neurons and throughout the cortical column. Spindles during sleep have been suggested to be important for brain development and plasticity. Our results provide evidence for a physiological link of spindles in the cortex specific to dendrites, the main site of synaptic plasticity.
Observation of nanoscale magnetic fields using twisted electron beams
Authors: Grillo Vincenzo , Harvey Tyler R. , Venturi Federico , Pierce Jordan S. , Balboni Roberto , Bouchard Frédéric , Carlo Gazzadi Gian , Frabboni Stefano , Tavabi Amir H. , Li Zi-An , Dunin-Borkowski Rafal E. , Boyd Robert W. , McMorran Benjamin J. , Karimi Ebrahim 
Published: September 2017

AbstractElectron waves give an unprecedented enhancement to the field of microscopy by providing higher resolving power compared to their optical counterpart. Further information about a specimen, such as electric and magnetic features, can be revealed in electron microscopy because electrons possess both a magnetic moment and charge. In-plane magnetic structures in materials can be studied experimentally using the effect of the Lorentz force. On the other hand, full mapping of the magnetic field has hitherto remained challenging. Here we measure a nanoscale out-of-plane magnetic field by interfering a highly twisted electron vortex beam with a reference wave. We implement a recently developed holographic technique to manipulate the electron wavefunction, which gives free electrons an additional unbounded quantized magnetic moment along their propagation direction. Our finding demonstrates that full reconstruction of all three components of nanoscale magnetic fields is possible without tilting the specimen.
Structural insights into the substrate binding adaptability and specificity of human O-GlcNAcase
Authors: Li Baobin , Li Hao , Hu Chia-Wei , Jiang Jiaoyang 
Published: September 2017

AbstractThe O-linked β-N-acetyl glucosamine (O-GlcNAc) modification dynamically regulates the functions of numerous proteins. A single human enzyme O-linked β-N-acetyl glucosaminase (O-GlcNAcase or OGA) hydrolyzes this modification. To date, it remains largely unknown how OGA recognizes various substrates. Here we report the structures of OGA in complex with each of four distinct glycopeptide substrates that contain a single O-GlcNAc modification on a serine or threonine residue. Intriguingly, these glycopeptides bind in a bidirectional yet conserved conformation within the substrate-binding cleft of OGA. This study provides fundamental insights into a general principle that confers the substrate binding adaptability and specificity to OGA in O-GlcNAc regulation.
Density-matrix simulation of small surface codes under current and projected experimental noise
Authors: O’Brien T. E. , Tarasinski B. , DiCarlo L. 
Published: September 2017

AbstractWe present a density-matrix simulation of the quantum memory and computing performance of the distance-3 logical qubit Surface-17, following a recently proposed quantum circuit and using experimental error parameters for transmon qubits in a planar circuit QED architecture. We use this simulation to optimize components of the QEC scheme (e.g., trading off stabilizer measurement infidelity for reduced cycle time) and to investigate the benefits of feedback harnessing the fundamental asymmetry of relaxation-dominated error in the constituent transmons. A lower-order approximate calculation extends these predictions to the distance-5 Surface-49. These results clearly indicate error rates below the fault-tolerance threshold of the surface code, and the potential for Surface-17 to perform beyond the break-even point of quantum memory. However, Surface-49 is required to surpass the break-even point of computation at state-of-the-art qubit relaxation times and readout speeds.
Apicomplexan actin polymerization depends on nucleation
Authors: Kumpula Esa-Pekka , Pires Isa , Lasiwa Devaki , Piirainen Henni , Bergmann Ulrich , Vahokoski Juha , Kursula Inari 
Published: September 2017

AbstractFilamentous actin is critical for apicomplexan motility and host cell invasion. Yet, parasite actin filaments are short and unstable. Their kinetic characterization has been hampered by the lack of robust quantitative methods. Using a modified labeling method, we carried out thorough biochemical characterization of malaria parasite actin. In contrast to the isodesmic polymerization mechanism suggested for Toxoplasma gondii actin, Plasmodium falciparum actin I polymerizes via the classical nucleation-elongation pathway, with kinetics similar to canonical actins. A high fragmentation rate, governed by weak lateral contacts within the filament, is likely the main reason for the short filament length. At steady state, Plasmodium actin is present in equal amounts of short filaments and dimers, with a small proportion of monomers, representing the apparent critical concentration of ~0.1 µM. The dimers polymerize but do not serve as nuclei. Our work enhances understanding of actin evolution and the mechanistic details of parasite motility, serving as a basis for exploring parasite actin and actin nucleators as drug targets against malaria and other apicomplexan parasitic diseases.
Efficient 3D-Silver Flower-like Microstructures for Non-Enzymatic Hydrogen Peroxide (H2O2) Amperometric Detection
Authors: El-Nagar Gumaa A. , Sarhan Radwan M. , Abouserie Ahed , Maticiuc Natalia , Bargheer Matias , Lauermann Iver , Roth Christina 
Published: September 2017

AbstractWe present an efficient non-enzymatic hydrogen peroxide sensor composed of flower-like silver microstructures. The silver microstructures´ morphology is controlled by adding minute amounts of either succinic or malonic acid as directing agents. Morphologically, silver particles showed ball-like structures in the absence of both directing agents, while the presence of 50 ppm of succinic acid and malonic acid lead to monodisperse chrysanthemum and water-lily flower-like structure, respectively. A higher concentration of succinic acid resulted in a rose flower-like structures. Electrochemically, the rose flower-like silver microstructures exhibited the best performance for H2O2 detection as evaluated by their outstanding electrocatalytic activity (12 times higher) and sensitivity (2.4 mM−1 cm−2, 24 times higher) with lower detection limit (0.4 µM, 5 times smaller) together with their excellent H2O2 selectivity compared to that of the ball-shaped structures. Additionally, rose-flower microstructures exhibited excellent long-term stability; 11 and 3 times higher compared to ball- and water-lily structures, respectively. This substantial performance enhancement is attributed to their unique flower-like structure providing a higher number of active surface sites (at least 8 times higher) and a faster detachment rate of in-situ generated oxygen bubbles from their surface.
A Virological and Phylogenetic Analysis of the Emergence of New Clades of Respiratory Syncytial Virus
Authors: Elawar Farah , Griffiths Cameron D. , Zhu Daniel , Bilawchuk Leanne M. , Jensen Lionel D. , Forss Lydia , Tang Julian , Hazes Bart , Drews Steven J. , Marchant David J. 
Published: September 2017

AbstractThe significant burden of Respiratory Syncytial Virus (RSV) in pediatric and elderly populations is well recognized. However, questions remain about transmission and evolution of RSV in the community, between seasons, and the role played by viral genetics in viral replication. Therefore, we integrated next generation sequencing, patient viral load, and viral replication analysis with surveillance of RSV to initiate a better understanding of viral adaptation in communities. RSV type-A and B infections were most closely related to RSV sequences from the USA and Asia, respectfully. The sample titres between RSV types-A and B were not significantly different. However, when the patient sample titre was compared to the phylogenetics of RSV, emergent clades were identified that we termed High Titre (HiT) clades of RSV. In conclusion, the correlation between patient viral load and replication kinetics of RSV patient isolates in culture indicated that viral genetics may determine virus replicative ability within patients. There was evolution or introduction of high-titre RSV type-A and B infections that seeded HiT clades in the subsequent year. Therefore, virological analysis of RSV isolates in conjunction with RSV phylogenetics may be a tool for predicting new clades of RSV in impending seasons.
Metagenomic-based Surveillance of Pacific Coast tick Dermacentor occidentalis Identifies Two Novel Bunyaviruses and an Emerging Human Ricksettsial Pathogen
Authors: Bouquet Jerome , Melgar Michael , Swei Andrea , Delwart Eric , Lane Robert S. , Chiu Charles Y. 
Published: September 2017

AbstractAn increasing number of emerging tick-borne diseases has been reported in the United States since the 1970s. Using metagenomic next generation sequencing, we detected nucleic acid sequences from 2 novel viruses in the family Bunyaviridae and an emerging human rickettsial pathogen, Rickettsia philipii, in a population of the Pacific Coast tick, Dermacentor occidentalis in Mendocino County sampled annually from 2011 to 2014. A total of 250 adults of this human-biting, generalist tick were collected from contiguous chaparral and grassland habitats, and RNA from each individually extracted tick was deep sequenced to an average depth of 7.3 million reads. We detected a Francisella endosymbiont in 174 ticks (70%), and Rickettsia spp. in 19 ticks (8%); Rickettsia-infected ticks contained R. rhipicephali (16 of 250, 6.4%) or R. philipii (3 of 250,1.2%), the agent of eschar-associated febrile illness in humans. The genomes of 2 novel bunyaviruses (>99% complete) in the genera Nairovirus and Phlebovirus were also identified and found to be present in 20–91% of ticks, depending on the year of collection. The high prevalence of these bunyaviruses in sampled Dermacentor ticks suggests that they may be viral endosymbionts, although further studies are needed to determine whether they are infectious for vertebrate hosts, especially humans, and their potential role in tick ecology.
Sensing bacterial vibrations and early response to antibiotics with phase noise of a resonant crystal
Authors: Johnson Ward L. , France Danielle Cook , Rentz Nikki S. , Cordell William T. , Walls Fred L. 
Published: September 2017

AbstractThe speed of conventional antimicrobial susceptibility testing (AST) is intrinsically limited by observation of cell colony growth, which can extend over days and allow bacterial infections to advance before effective antibiotics are identified. This report presents an approach for rapidly sensing mechanical fluctuations of bacteria and the effects of antibiotics on these fluctuations. Bacteria are adhered to a quartz crystal resonator in an electronic bridge that is driven by a high-stability frequency source. Mechanical fluctuations of cells introduce time-dependent perturbations to the crystal boundary conditions and associated resonant frequency, which translate into phase noise measured at the output of the bridge. In experiments on nonmotile E. coli exposed to polymyxin B, cell-generated frequency noise dropped close to zero with the first spectra acquired 7 minutes after introduction of the antibiotic. In experiments on the same bacterial strain exposed to ampicillin, frequency noise began decreasing within 15 minutes of antibiotic introduction and proceeded to drop more rapidly with the onset of antibiotic-induced lysis. In conjunction with cell imaging and post-experiment counting of colony-forming units, these results provide evidence that cell death can be sensed through measurements of cell-generated frequency noise, potentially providing a basis for rapid AST.
Plasticity of Human Meniscus Fibrochondrocytes: A Study on Effects of Mitotic Divisions and Oxygen Tension
Authors: Liang Yan , Idrees Enaam , Andrews Stephen H. J. , Labib Kirollos , Szojka Alexander , Kunze Melanie , Burbank Andrea D. , Mulet-Sierra Aillette , Jomha Nadr M. , Adesida Adetola B. 
Published: September 2017

AbstractMeniscus fibrochondrocytes (MFCs) may be the optimal cell source to repair non-healing meniscus injuries using tissue engineering strategies. In this study, we investigated the effects of mitotic divisions and oxygen tension on the plasticity of adult human MFCs. Our assessment techniques included gene expression, biochemical, histological, and immunofluorescence assays. MFCs were expanded in monolayer culture with combined growth factors TGFβ1 and FGF-2 (T1F2) under normoxia (21% O2). Trilineage (adipogenesis, chondrogenesis and osteogenesis) differentiation was performed under both normoxic (21% O2) and hypoxic (3% O2) conditions. The data demonstrated that MFCs with a mean total population doubling of 10 can undergo adipogenesis and chondrogenesis. This capability was enhanced under hypoxic conditions. The MFCs did not undergo osteogenesis. In conclusion, our findings suggest that extensively expanded human MFCs have the capacity to generate tissues with the functional matrix characteristics of avascular meniscus. To this end, expanded MFCs may be an ideal cell source for engineering functional constructs for the replacement or repair of avascular meniscus.
An open-label, one-arm, dose-escalation study to evaluate safety and tolerability of extremely low frequency magnetic fields in acute ischemic stroke
Authors: Capone Fioravante , Liberti Micaela , Apollonio Francesca , Camera Francesca , Setti Stefania , Cadossi Ruggero , Quattrocchi Carlo Cosimo , Di Lazzaro Vincenzo 
Published: September 2017

AbstractExtremely low frequency magnetic fields (ELF-MF) could be an alternative neuroprotective approach for ischemic stroke because preclinical studies have demonstrated their effects on the mechanisms underlying ischemic damage. The purpose of this open-label, one arm, dose-escalation, exploratory study is to evaluate the safety and tolerability of ELF-MF in patients with acute ischemic stroke. Within 48 hours from the stroke onset, patients started ELF-MF treatment, daily for 5 consecutive days. Clinical follow-up lasted 12 months. Brain MRI was performed before and 1 month after the treatment. The distribution of ELF-MF in the ischemic lesion was estimated by dosimetry. Six patients were stimulated, three for 45 min/day and three for 120 min/day. None of them reported adverse events. Clinical conditions improved in all the patients. Lesion size was reduced in one patient stimulated for 45 minutes and in all the patients stimulated for 120 minutes. Magnetic field intensity within the ischemic lesion was above 1 mT, the minimum value able to trigger a biological effect in preclinical studies. Our pilot study demonstrates that ELF-MF are safe and tolerable in acute stroke patients. A prospective, randomized, placebo-controlled, double-blind study will clarify whether ELF-MFs could represent a potential therapeutic approach.
Anti-enterovirus 71 activities of Melissa officinalis extract and its biologically active constituent rosmarinic acid
Authors: Chen Sin-Guang , Leu Yann-Lii , Cheng Mei-Ling , Ting Siew Chin , Liu Ching-Chuan , Wang Shulhn-Der , Yang Cheng-Hung , Hung Cheng-Yu , Sakurai Hiroaki , Chen Kuan-Hsing , Ho Hung-Yao 
Published: September 2017

AbstractEnterovirus 71 (EV71) infection is endemic in the Asia-Pacific region. No specific antiviral drug has been available to treat EV71 infection. Melissa officinalis (MO) is a medicinal plant with long history of usage in the European and Middle East. We investigated whether an aqueous solution of concentrated methanolic extract (MOM) possesses antiviral activity. MOM inhibited plaque formation, cytopathic effect, and viral protein synthesis in EV71-infected cells. Using spectral techniques, we identified rosmarinic acid (RA) as a biologically active constituent of MOM. RA reduced viral attachment and entry; cleavage of eukaryotic translation initiation factor 4 G (eIF4G); reactive oxygen species (ROS) generation; and translocation of heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) from nucleus to cytoplasm. It alleviated EV71-induced hyperphosphorylation of p38 kinase and EPS15. RA is likely to suppress ROS-mediated p38 kinase activation, and such downstream molecular events as hnRNP A1 translocation and EPS15-regulated membrane trafficking in EV71-infected cells. These findings suggest that MO and its constituent RA possess anti-EV71 activities, and may serve as a candidate drug for therapeutic and prophylactic uses against EV71 infection.
Kynurenine aminotransferase activity of Aro8/Aro9 engage tryptophan degradation by producing kynurenic acid in Saccharomyces cerevisiae
Authors: Ohashi Kazuto , Chaleckis Romanas , Takaine Masak , Wheelock Craig E. , Yoshida Satoshi 
Published: September 2017

AbstractKynurenic acid (KA) is a tryptophan (Trp) metabolite that is synthesised in a branch of kynurenine (KYN) pathway. KYN aminotransferase (KAT) catalyses deamination of KYN, yielding KA. Although KA synthesis is evolutionarily conserved from bacteria to humans, the cellular benefits of synthesising KA are unclear. In this study, we constructed a KAT-null yeast mutant defective in KA synthesis to clarify the cellular function of KA. Amino acid sequence analysis and LC/MS quantification of KA revealed that Aro8 and Aro9 are the major KATs. KA was significantly decreased in the aro8Δ aro9Δ double mutant. We found that aro8Δ aro9Δ cells did not exhibit obvious defects in growth or oxidative stress response when proper amounts of amino acids are supplied in the media. We further found that aro8Δ aro9Δ cells were sensitive to excess Trp. The Trp sensitivity was not rescued by addition of KA, suggesting that Trp sensitivity is not due to the loss of KA. In conclusion, we propose that KAT activity is required for detoxification of Trp by converting it to the less toxic KA.
Cross-Talk Immunity of PEDOT:PSS Pressure Sensing Arrays with Gold Nanoparticle Incorporation
Authors: Karmakar Rajat Subhra , Lu Yu-Jen , Fu Yi , Wei Kuo-Chen , Chan Shun-Hsiang , Wu Ming-Chung , Lee Jyh-Wei , Lin Tzu-Kang , Wang Jer-Chyi 
Published: September 2017

AbstractIn this study, the cross-talk effects and the basic piezoresistive characteristics of gold nanoparticle (Au-NP) incorporated poly(3,4-ethylenedioxythiophene):poly(styrenesulfonate) (PEDOT:PSS) pressure sensing 2 × 2 arrays are investigated using a cross-point electrode (CPE) structure. Transmission electron microscopy (TEM), scanning electron microscopy (SEM), and energy-dispersive X-ray spectroscopy (EDS) mappings were carried out to confirm the incorporation of Au-NPs in the PEDOT:PSS films. A solution mixing process was employed to incorporate the nanoparticles. When the diameter of the Au-NPs incorporated in the PEDOT:PSS films (Au-NPs/PEDOT:PSS) was 20 nm, the piezoresistive pressure sensing 2 × 2 arrays were almost immune to cross-talk effects, which enhances the pressure sensing accuracy of the array. The Au-NPs render the PEDOT:PSS films more resilient. This is confirmed by the high plastic resistance values using a nanoindenter, which reduce the interference between the active and passive cells. When the size of the Au-NPs is more than 20 nm, a significant cross-talk effect is observed in the pressure sensing arrays as a result of the high conductivity of the Au-NPs/PEDOT:PSS films with large Au-NPs. With the incorporation of optimally sized Au-NPs, the PEDOT:PSS piezoresistive pressure sensing arrays can be promising candidates for future high-resolution fingerprint identification system with multiple-electrode array structures.
Uptake and translocation of polycyclic aromatic hydrocarbons (PAHs) and heavy metals by maize from soil irrigated with wastewater
Authors: Zhang Shichao , Yao Hong , Lu Yintao , Yu Xiaohua , Wang Jing , Sun Shaobin , Liu Mingli , Li Desheng , Li Yi-Fan , Zhang Dayi 
Published: September 2017

AbstractBy investigating the uptake of 16 priority polycyclic aromatic hydrocarbons (PAHs) and five heavy metals from soils to maize at the farmlands with industrial wastewater irrigation, this study revealed the effects of heavy metals on PAHs uptake in terms of co-contamination. The results of 15 investigated soils showed medium contamination level and the vertical PAHs distribution in soils indicated that 2–3 rings PAHs with low octanol-water partition coefficient (log Kow < 4.5) were easier to transport in soils, causing a great potential risk immigrating to the groundwater. The 3-ring PAHs were most likely to be taken up by maize roots whereas 2- and 4–6 ring PAHs had the lower likelihood. The translocation of PAHs in maize tissues has positive relationship with log Kow less than 4.5, while negatively correlated otherwise. Redundancy analysis indicated the unexpected results that, except for soil PAHs concentration, the PAHs translocation by maize was reduced by Pb uptake, but not significantly affected by soil organic matters, pH or the other four heavy metals (Cr, Cu, Ni and Zn). This study for the first time provides the restricted factors of PAHs and heavy metal acropetal translocation by maize when they co-exist at wastewater irrigation sites.
Human-modified habitats facilitate forest-dwelling populations of an invasive predator, Vulpes vulpes
Authors: Hradsky Bronwyn A. , Robley Alan , Alexander Ray , Ritchie Euan G. , York Alan , Di Stefano Julian 
Published: September 2017

AbstractInvasive and over-abundant predators pose a major threat to biodiversity and often benefit from human activities. Effective management requires understanding predator use of human-modified habitats (including resource subsidies and disturbed environments), and individual variation within populations. We investigated selection for human-modified habitats by invasive red foxes, Vulpes vulpes, within two predominantly forested Australian landscapes. We predicted that foxes would select for human-modified habitats in their range locations and fine-scale movements, but that selection would vary between individuals. We GPS-tracked 19 foxes for 17–166 days; ranges covered 33 to >2500 ha. Approximately half the foxes selected for human-modified habitats at the range scale, with some ‘commuting’ more than five kilometres to farmland or townships at night. Two foxes used burnt forest intensively after a prescribed fire. In their fine-scale nocturnal movements, most foxes selected for human-modified habitats such as reservoirs, forest edges and roads, but there was considerable individual variation. Native fauna in fragmented and disturbed habitats are likely to be exposed to high rates of fox predation, and anthropogenic food resources may subsidise fox populations within the forest interior. Coordinating fox control across land-tenures, targeting specific landscape features, and limiting fox access to anthropogenic resources will be important for biodiversity conservation.