bluuebunny/crossref_metadata_2025_split huggingface dataset:
The relationship between agricultural production and amphora manufacture on Roman Crete
Authors: Gallimore Scott 
Published: October 2018

While there have been a number of inquiries into agricultural production and amphora manufacture, discussion of the relationship between the two remains limited. A recent article by A. Bevan that examines the history of ‘containerization’ in the Mediterranean from the early Bronze Age to the 20th c. A.D. illustrates one side. It focuses on different manifestations of containers, emphasizing their cultural impact over the whole history of civilization in the region. While underscoring the importance of these transport vessels as packaging, particularly for liquid commodities, he provides limited consideration of the mechanisms behind the goods moving into these containers. Studies concerned with agricultural production are also on the rise, but scholars often limit the focus to amphorae. For instance, in analyzing capital investment in large-scale farms, A. Marzano commented:
rather than attempting a study of agricultural production through the containers for foodstuffs, this investigation focuses on the presses, the machinery for the processing of grapes and olive.
A dosimetric study of skin toxicity induced by 3-D conventional and intensity-modulated radiotherapy techniques using immobilization mask for treatment of head-and-neck (nasopharyngeal cancer) carcinoma: a prospective study
Authors: Radaideh Khaldoon Mahmoud 
Published: October 2018

AbstractBackgroundThe purpose of this study was to investigate variations in surface dose, with and without the use of a Klarity® Mask (Orfit Industries America, Wijnegem, Belgium), using intensity-modulated radiotherapy (IMRT) and 3-D conventional radiotherapy (3D-CRT).Materials and methodsThermoluminescent dosimeters (TLDs) together with a phantom were used to examine acute skin toxicity during nasopharyngeal cancer treatment. These plans were sequentially delivered to the perspex phantom. Dosimeters were placed in five fixed regions over the skin. A Klarity mask for immobilization was used for covering the head, neck, and shoulder. The phantom was irradiated with and without a Klarity Mask, using IMRT and 3D-CRT, respectively.ResultsThe Klarity mask increased the skin doses for IMRT and 3D-CRT approximately 18·6% and 8·6%, respectively, from the prescribed maximum skin dose using treatment planning system (TPS). Additionally, the average percentage dose between IMRT and 3D-CRT received on the surface region was 30·9%, 24·9% with and without Klarity mask respectively. The average percentage dose received on surfaces from the total therapeutic dose 70 Gy, without using the mask was 7·7% and 5·7%, for IMRT and 3D-CRT, respectively. The TPS overestimated the skin dose for IMRT planning by 20%, and for 3D-CRT by 16·6%, compared with TLD measurements.ConclusionsThe results of this study revealed that IMRT significantly increases acute skin toxicity, compared with CRT. Although it is recommended to use Klarity mask as a sparing tool of normal tissue, it increases the risk of skin toxicity. In conclusion, skin dose is an important issue of focus during radiotherapy.
Towards a cultural political economy of mitigation deterrence by negative emissions technologies (NETs)
Authors: Markusson Nils , McLaren Duncan , Tyfield David 
Published: October 2018

Non-technical summaryIn the face of limited carbon budgets, negative emissions technologies (NETs) offer hopes of removing greenhouse gases from the atmosphere. It is difficult to determine whether the prospect of NETs is significantly deterring or delaying timely action to cut emissions. This paper sets out a novel theoretical perspective to this challenge, enabling analysis that accounts for interactions between technologies, society and political and economic power. The paper argues that, seen in this light, the scope of NETs to substitute for mitigation may be easily exaggerated, and thus that the risk of harm from mitigation deterrence should be taken seriously.
Vapor detection and discrimination with a panel of odorant receptors
Authors: Kida Hitoshi , Fukutani Yosuke , Mainland Joel D. , de March Claire A. , Vihani Aashutosh , Li Yun Rose , Chi Qiuyi , Toyama Akemi , Liu Linda , Kameda Masaharu , Yohda Masafumi , Matsunami Hiroaki 
Published: October 2018

AbstractOlfactory systems have evolved the extraordinary capability to detect and discriminate volatile odorous molecules (odorants) in the environment. Fundamentally, this process relies on the interaction of odorants and their cognate olfactory receptors (ORs) encoded in the genome. Here, we conducted a cell-based screen using over 800 mouse ORs against seven odorants, resulting in the identification of a set of high-affinity and/or broadly-tuned ORs. We then test whether heterologously expressed ORs respond to odors presented in vapor phase by individually expressing 31 ORs to measure cAMP responses against vapor phase odor stimulation. Comparison of response profiles demonstrates this platform is capable of discriminating between structural analogs. Lastly, co-expression of carboxyl esterase Ces1d expressed in olfactory mucosa resulted in marked changes in activation of specific odorant-OR combinations. Altogether, these results establish a cell-based volatile odor detection and discrimination platform and form the basis for an OR-based volatile odor sensor.
Microsphere-based interferometric optical probe
Authors: Jo Yongjae , Kwon Junhwan , Kim Moonseok , Choi Wonshik , Choi Myunghwan 
Published: October 2018

AbstractFluorescent optical probes have rapidly transformed our understanding of complex biological systems by providing specific information on biological targets in the natural living state. However, their utility is often limited by insufficient brightness, photostability, and multiplexing capacity. Here, we report a conceptually new optical probe, termed ‘reflectophore’, which is based on the spectral interference from a dielectric microsphere. Reflectophores are orders-of-magnitudes brighter than conventional fluorophores and are free from photobleaching, enabling practically unlimited readout at high fidelity. They also offer high-degree multiplexing, encoded in their optical size, which can be readily decoded through interferometric detection with nanoscale accuracy, even in turbid biological media. Furthermore, we showcase their biological applications in cellular barcoding and microenvironmental sensing of a target protein and local electric field.
Three-dimensional topological acoustic crystals with pseudospin-valley coupled saddle surface states
Authors: He Cheng , Yu Si-Yuan , Ge Hao , Wang Huaiqiang , Tian Yuan , Zhang Haijun , Sun Xiao-Chen , Chen Y. B. , Zhou Jian , Lu Ming-Hui , Chen Yan-Feng 
Published: October 2018

AbstractTopological valley states at the domain wall between two artificial crystals with opposite valley Chern numbers offer a feasible way to realize robust wave transport since only broken spatial symmetry is required. In addition to the valley, spin and crystal dimension are two other important degrees of freedom, particularly in realizing spin-related topological phenomena. Here we experimentally demonstrate that it is possible to construct two-dimensional acoustic topological pseudospin-valley coupled saddle surface states, designed from glide symmetry in a three-dimensional system. By taking advantage of such two-dimensional surface states, a full set of acoustic pseudospins can be realized, exhibiting pseudospin-valley dependent transport. Furthermore, due to the hyperbolic character of the dispersion of saddle surface states, multi-directional anisotropic controllable robust sound transport with little backscattering is observed. Our findings may open research frontiers for acoustic pseudospins and provide a satisfactory platform for exploring unique acoustic topological properties in three-dimensional structures.
A Thin Layer of Decellularized Porcine Myocardium for Cell Delivery
Authors: Shah Mickey , KC Pawan , Copeland Katherine M. , Liao Jun , Zhang Ge 
Published: October 2018

AbstractDecellularized porcine myocardium has shown many benefits as a cell delivery scaffold for cardiac therapy. However, using full thickness decellularized myocardium as cardiac patch may lead to poor viability and inhomogeneous distribution of delivered cells, due to perfusion limitations. In this study, we explored the feasibility of decellularized porcine myocardial slice (dPMS) to construct a vascularized cardiac patch for cell delivery. Decellularized porcine myocardium was sliced into thin layers (thickness~300 µm). Adipose-derived Stem cells (ASCs) obtained from rat and pig were seeded on dPMS. The viability, infiltration, and differentiation of seeded ASCs were examined. The mechanical properties of dPMSs of various thickness and native myocardium were tested. We noticed dPMS supported attachment and growth of rat and pig ASCs. Both rat and pig ASCs showed high viability, similar patterns of proliferation and infiltration within dPMS. Rat ASCs showed expression of early-endothelial markers followed by mature-endothelial marker without any additional inducers on dPMS. Using rat myocardial infarction model, we delivered ASCs using dPMS patched to the infarcted myocardium. After 1 week, a higher number of transplanted cells were present in the infarcted area when cells were delivered using dPMS versus direct injection. Compared with MI group, increased vascular formation was also observed.
ERK1/2-dependent gene expression in the bovine ovulating follicle
Authors: Schuermann Yasmin , Rovani Monique T. , Gasperin Bernardo , Ferreira Rogério , Ferst Juliana , Madogwe Ejimedo , Gonçalves Paulo B. , Bordignon Vilceu , Duggavathi Raj 
Published: October 2018

AbstractOvulation is triggered by gonadotropin surge-induced signaling cascades. To study the role of extracellular signal-regulated kinase 1/2 (ERK1/2) in bovine ovulation, we administered the pharmacological inhibitor, PD0325901, into the preovulatory dominant follicle by intrafollicular injection. Four of five cows treated with 50 µM PD0325901 failed to ovulate. To uncover the molecular basis of anovulation in ERK1/2-inhibited cows, we collected granulosa and theca cells from Vehicle and PD0325901 treated follicles. Next-generation sequencing of granulosa cell RNA revealed 285 differentially expressed genes between Vehicle and PD0325901-treated granulosa cells at 6 h post-GnRH. Multiple inflammation-related pathways were enriched among the differentially expressed genes. The ERK1/2 dependent LH-induced genes in granulosa cells included EGR1, ADAMTS1, STAT3 and TNFAIP6. Surprisingly, PD0325901 treatment did not affect STAR expression in granulosa cells at 6 h post-GnRH. Granulosa cells had higher STAR protein and theca cells had higher levels of STAR mRNA in ERK1/2-inhibited follicles. Further, both granulosa and theca cells of ERK1/2-inhibited follicles had higher expression of SLC16A1, a monocarboxylate transporter, transporting substances including β-hydroxybutyrate across the plasma membrane. Taken together, ERK1/2 plays a significant role in mediating LH surge-induced gene expression in granulosa and theca cells of the ovulating follicle in cattle.
Exploring the PXR ligand binding mechanism with advanced Molecular Dynamics methods
Authors: Motta Stefano , Callea Lara , Giani Tagliabue Sara , Bonati Laura 
Published: October 2018

AbstractThe Pregnane X Receptor (PXR) is a ligand-activated transcription factor belonging to the nuclear receptor family. PXR can bind diverse drugs and environmental toxicants with different binding modes, making it an intriguing target for drug discovery. Here we investigated the binding mechanism of the SR12813 ligand to elucidate the significant steps, from the ligand entrance pathway into the binding cavity, to the ligand-induced conformational changes, and to the exploration of its alternative binding geometries. We used the advanced Molecular Dynamics-based methods implemented in the BiKi suite and developed specific methodological approaches to overcome the complexity induced by the buried and flexible binding cavity. The adopted methods provided a full dynamic description of the binding event and allowed rationalization of the observed multiple binding modes. These results suggest that the same approach could be exploited for the study of other binding processes with similar characteristics.
Hornerin contains a Linked Series of Ribosome-Targeting Peptide Antibiotics
Authors: Gerstel Ulrich , Latendorf Ties , Bartels Joachim , Becker Alexander , Tholey Andreas , Schröder Jens-Michael 
Published: October 2018

AbstractCationic intrinsically disordered antimicrobial peptides (CIDAMPs) belong to a novel class of epithelial peptide antibiotics with microbicidal activity against various pathogens, including Pseudomonas aeruginosa, Escherichia coli, Staphylococcus aureus and Candida albicans. Here we show that treatment of distinct bacteria with different hornerin (HRNR)-derived CIDAMPs cause formation of unique cytoplasmic protein aggregates, suggesting a common intracellular mode of action. We further found that, unlike most amphipathic antimicrobial peptides, HRNR traverses bacterial membranes energy-dependently and accumulates within the cytoplasm. Strikingly, certain structurally different, HRNR-based CIDAMPs were found to bind to an identical panel of distinct bacterial ribosomal proteins, thereby manifesting features of several known classes of antibiotics. This may cause the formation of aberrant proteins and toxic protein aggregates in HRNR-treated pathogens which eventually may induce its death. Our study reveals evidence that structurally distinct CIDAMPs of an abundant body surface protein simultaneously target multiple sites of the bacterial protein synthesis machinery.
Phosphorylation of the neurogenic transcription factor SOX11 on serine 133 modulates neuronal morphogenesis
Authors: Balta Elli-Anna , Schäffner Iris , Wittmann Marie-Theres , Sock Elisabeth , von Zweydorf Felix , von Wittgenstein Julia , Steib Kathrin , Heim Birgit , Kremmer Elisabeth , Häberle Benjamin Martin , Ueffing Marius , Lie Dieter Chichung , Gloeckner Christian Johannes 
Published: October 2018

AbstractThe intellectual disability gene, Sox11, encodes for a critical neurodevelopmental transcription factor with functions in precursor survival, neuronal fate determination, migration and morphogenesis. The mechanisms regulating SOX11’s activity remain largely unknown. Mass spectrometric analysis uncovered that SOX11 can be post-translationally modified by phosphorylation. Here, we report that phosphorylatable serines surrounding the high-mobility group box modulate SOX11’s transcriptional activity. Through Mass Spectrometry (MS), co-immunoprecipitation assays and in vitro phosphorylation assays followed by MS we verified that protein kinase A (PKA) interacts with SOX11 and phosphorylates it on S133. In vivo replacement of SoxC factors in developing adult-generated hippocampal neurons with SOX11 S133 phospho-mutants indicated that phosphorylation on S133 modulates dendrite development of adult-born dentate granule neurons, while reporter assays suggested that S133 phosphorylation fine-tunes the activation of select target genes. These data provide novel insight into the control of the critical neurodevelopmental regulator SOX11 and imply SOX11 as a mediator of PKA-regulated neuronal development.
Integrating in vitro experiments with in silico approaches for Glioblastoma invasion: the role of cell-to-cell adhesion heterogeneity
Authors: Oraiopoulou M.-E. , Tzamali E. , Tzedakis G. , Liapis E. , Zacharakis G. , Vakis A. , Papamatheakis J. , Sakkalis V. 
Published: October 2018

AbstractGlioblastoma cells adopt migration strategies to invade into the brain parenchyma ranging from individual to collective mechanisms, whose role and dynamics are not yet fully understood. In this work, we explore Glioblastoma heterogeneity and recapitulate its invasive patterns both in vitro, by utilizing primary cells along with the U87MG cell line, and in silico, by adopting discrete, individual cell-based mathematics. Glioblastoma cells are cultured three-dimensionally in an ECM-like substrate. The primary Glioblastoma spheroids adopt a novel cohesive pattern, mimicking perivascular invasion in the brain, while the U87MG adopt a typical, starburst invasive pattern under the same experimental setup. Mathematically, we focus on the role of the intrinsic heterogeneity with respect to cell-to-cell adhesion. Our proposed mathematical approach mimics the invasive morphologies observed in vitro and predicts the dynamics of tumour expansion. The role of the proliferation and migration is also explored showing that their effect on tumour morphology is different per cell type. The proposed model suggests that allowing cell-to-cell adhesive heterogeneity within the tumour population is sufficient for variable invasive morphologies to emerge which remain originally undetectable by conventional imaging, indicating that exploration in pathological samples is needed to improve our understanding and reveal potential patient-specific therapeutic targets.
Information spectra and optimal background states for dynamical networks
Authors: Menolascino Delsin , Ching ShiNung 
Published: October 2018

AbstractWe consider the notion of stimulus representation over dynamic networks, wherein the network states encode information about the identify of an afferent input (i.e. stimulus). Our goal is to understand how the structure and temporal dynamics of networks support information processing. In particular, we conduct a theoretical study to reveal how the background or ‘default’ state of a network with linear dynamics allows it to best promote discrimination over a continuum of stimuli. Our principal contribution is the derivation of a matrix whose spectrum (eigenvalues) quantify the extent to which the state of a network encodes its inputs. This measure, based on the notion of a Fisher linear discriminant, is relativistic in the sense that it provides an information value quantifying the ‘knowablility’ of an input based on its projection onto the background state. We subsequently optimize the background state and highlight its relationship to underlying state noise covariance. This result demonstrates how the best idle state of a network may be informed by its structure and dynamics. Further, we relate the proposed information spectrum to the controllabilty gramian matrix, establishing a link between fundamental control-theoretic network analysis and information processing.
Fluidic Patterning of Transparent Polymer Heaters
Authors: Romasanta Laura J. , Schäfer Philip , Leng Jacques 
Published: October 2018

AbstractSemi-conducting polymers are promising materials for current and next generations of electronic devices, sensors and actuators, especially regarding their ability to conform to flexibles architectures. In particular, aqueous-based dispersions of semi-conducting complexes such as PEDOT:PSS can be printed using a variety of coating techniques and the conductivity of the final deposit may reach high values upon a proper treatment. The micro-structuration of these polymeric deposits remains challenging and of prime importance for further integration. We show here that a microfluidic post-treatment of PEDOT:PSS films of permits us to boost locally only their conductivity by several orders of magnitude, with a micron scale resolution. This is a fast process (~second), straightforward to upscale, that yields conductive patterns within the pristine film. Taking advantage of the localized Joule’s effect, we evidence using quantitative thermography a very efficient heating behaviour of the conductive tracks, which makes these polymeric structures promising candidates for low cost, clean-room free electrodes for lab-on-chip applications.
Dual-band Tm3+-doped tellurite fiber amplifier and laser at 1.9 μm and 2.3 μm
Authors: Muravyev S. V. , Anashkina E. A. , Andrianov A. V. , Dorofeev V. V. , Motorin S. E. , Koptev M. Y. , Kim A. V. 
Published: October 2018

AbstractUltrabroadband amplification and two-color CW lasing simultaneously near 1.9 μm and 2.3 μm in a Tm3+-doped tellurite fiber were demonstrated experimentally, for the first time to the best of our knowledge. A low-loss Tm3+-doped core fiber from TeO2–ZnO–La2O3–Na2O glasses stable against crystallization was produced by a special technique, providing a low concentration of hydroxyl groups. Supercontinuum from a highly GeO2 doped silica fiber pumped by an Er fiber laser system was used as a seed for an amplifier. A maximum gain of 30 dB and 7 dB was measured at 1.9 μm and 2.3 μm, respectively. We report detailed experimental and theoretical studies, which are in a very good agreement, of laser amplification and generation in the manufactured fiber with carefully measured and calculated parameters. A quantitatively verified numerical model was used to predict power scalability at 2.3 μm in schemes with optimized parameters at increased pump power. The presented results show that a high-quality tellurite fiber is a promising candidate for developing lasers in the 2.3 μm atmospheric window which are particularly relevant for applications in gas sensing, eye-safe laser radars, breath analysis, remote sensing and stand-off trace gas detection.
Allosteric Site Inhibitor Disrupting Auto-Processing of Malarial Cysteine Proteases
Authors: Pant A. , Kumar R. , Wani N. A. , Verma S. , Sharma R. , Pande V. , Saxena A. K. , Dixit R. , Rai R. , Pandey K. C. 
Published: October 2018

AbstractFalcipains are major haemoglobinases ofPlasmodium falciparumrequired for parasite growth and development. They consist of pro- and mature domains that interact via ‘hot-spot’ interactions and maintain the structural integrity of enzyme in zymogen state. Upon sensing the acidic environment, these interactions dissociate and active enzyme is released. For inhibiting falcipains, several active site inhibitors exist, however, compounds that target via allosteric mechanism remains uncharacterized. Therefore, we designed and synthesized six azapeptide compounds, among which, NA-01 & NA-03 arrested parasite growth by specifically blocking the auto-processing of falcipains. Inhibitors showed high affinity for enzymes in presence of the prodomain without affecting the secondary structure. Binding of NA-03 at the interface induced rigidity in the prodomain preventing structural reorganization. We further reported a histidine-dependent activation of falcipain. Collectively, for the first time we provide a framework for blocking the allosteric site of crucial haemoglobinases of the human malaria parasite. Targeting the allosteric site could provide high selectivity and less vulnerable to drug resistance.
Acoustic Imaging with Metamaterial Luneburg Lenses
Authors: Xie Yangbo , Fu Yangyang , Jia Zhetao , Li Junfei , Shen Chen , Xu Yadong , Chen Huanyang , Cummer Steven A. 
Published: October 2018

AbstractThe Luneburg lens is a spherically symmetrical gradient refractive index (GRIN) device with unique imaging properties. Its wide field-of-view (FoV) and minimal aberration have lead it to be successfully applied in microwave antennas. However, only limited realizations have been demonstrated in acoustics. Previously proposed acoustic Luneburg lenses are mostly limited to inherently two-dimensional designs at frequencies from 1 kHz to 7 kHz. In this paper, we apply a new design method for scalable and self-supporting metamaterials to demonstrate Luneburg lenses for airborne sound and ultrasonic waves. Two Luneburg lenses are fabricated: a 2.5D ultrasonic version for 40 kHz and a 3D version for 8 kHz sound. Imaging performance of the ultrasonic version is experimentally demonstrated.