bluuebunny/crossref_metadata_2025_split huggingface dataset:
Acoustic Analogues of High-Index Optical Waveguide Devices
Authors: Zangeneh-Nejad Farzad , Fleury Romain 
Published: July 2018

AbstractHigh index optical waveguide devices such as slab waveguides, strip waveguides and fibers play extremely important roles in a wide range of modern applications including telecommunications, sensing, lasing, interferometry, and resonant amplification. Yet, transposing these advantageous applications from optics to acoustics remains a fundamental practical challenge, since most materials exhibit refractive indices lower than that of air for sound waves. Here, we demonstrate the relevance of acoustic metamaterials for tackling this pivotal problem. More specifically, we consider a metamaterial built from subwavelength air-filled acoustic pipes engineered to effectively exhibit a higher refractive index than homogenous air. We show that such medium can be employed to realize acoustic equivalents of dielectric slab or strip waveguides, and optical fibers. Unlike conventional acoustic pipes, our guiding approach allows the waveguide to remain open to the external medium, which opens an abundance of new opportunities in noise management, medical imaging, underwater communication systems, and sensing.
Quantitative fibre analysis of single-molecule localization microscopy data
Authors: Peters Ruby , Griffié Juliette , Burn Garth L. , Williamson David J. , Owen Dylan M. 
Published: July 2018

AbstractSingle molecule localization microscopy (SMLM) methods produce data in the form of a spatial point pattern (SPP) of all localized emitters. Whilst numerous tools exist to quantify molecular clustering in SPP data, the analysis of fibrous structures has remained understudied. Taking the SMLM localization coordinates as input, we present an algorithm capable of tracing fibrous structures in data generated by SMLM. Based upon a density parameter tracing routine, the algorithm outputs several fibre descriptors, such as number of fibres, length of fibres, area of enclosed regions and locations and angles of fibre branch points. The method is validated in a variety of simulated conditions and experimental data acquired using the image reconstruction by integrating exchangeable single-molecule localization (IRIS) technique. For this, the nanoscale architecture of F-actin at the T cell immunological synapse in both untreated and pharmacologically treated cells, designed to perturb actin structure, was analysed.
16S rRNA sequencing reveals likely beneficial core microbes within faecal samples of the EU protected slug Geomalacus maculosus
Authors: Reich Inga , Ijaz Umer Zeeshan , Gormally Mike , Smith Cindy J. 
Published: July 2018

AbstractThe EU-protected slug Geomalacus maculosus Allman occurs only in the West of Ireland and in northern Spain and Portugal. We explored the microbial community found within the faeces of Irish specimens with a view to determining whether a core microbiome existed among geographically isolated slugs which could give insight into the adaptations of G. maculosus to the available food resources within its habitat. Faecal samples of 30 wild specimens were collected throughout its Irish range and the V3 region of the bacterial 16S rRNA gene was sequenced using Illumina MiSeq. To investigate the influence of diet on the microbial composition, faecal samples were taken and sequenced from six laboratory reared slugs which were raised on two different foods. We found a widely diverse microbiome dominated by Enterobacteriales with three core OTUs shared between all specimens. While the reared specimens appeared clearly separated by diet in NMDS plots, no significant difference between the slugs fed on the two different diets was found. Our results indicate that while the majority of the faecal microbiome of G. maculosus is probably dependent on the microhabitat of the individual slugs, parts of it are likely selected for by the host.
An integrative, multi-omics approach towards the prioritization of Klebsiella pneumoniae drug targets
Authors: Ramos Pablo Ivan Pereira , Fernández Do Porto Darío , Lanzarotti Esteban , Sosa Ezequiel J. , Burguener Germán , Pardo Agustín M. , Klein Cecilia C. , Sagot Marie-France , de Vasconcelos Ana Tereza R. , Gales Ana Cristina , Marti Marcelo , Turjanski Adrián G. , Nicolás Marisa F. 
Published: July 2018

AbstractKlebsiella pneumoniae(Kp) is a globally disseminated opportunistic pathogen that can cause life-threatening infections. It has been found as the culprit of many infection outbreaks in hospital environments, being particularly aggressive towards newborns and adults under intensive care. ManyKpstrains produce extended-spectrum β-lactamases, enzymes that promote resistance against antibiotics used to fight these infections. The presence of other resistance determinants leading to multidrug-resistance also limit therapeutic options, and the use of ‘last-resort’ drugs, such as polymyxins, is not uncommon. The global emergence and spread of resistant strains underline the need for novel antimicrobials againstKpand related bacterial pathogens. To tackle this great challenge, we generated multiple layers of ‘omics’ data related toKpand prioritized proteins that could serve as attractive targets for antimicrobial development. Genomics, transcriptomics, structuromic and metabolic information were integrated in order to prioritize candidate targets, and this data compendium is freely available as a web server. Twenty-nine proteins with desirable characteristics from a drug development perspective were shortlisted, which participate in important processes such as lipid synthesis, cofactor production, and core metabolism. Collectively, our results point towards novel targets for the control ofKpand related bacterial pathogens.
Electrical resistivity of liquid Fe to 12 GPa: Implications for heat flow in cores of terrestrial bodies
Authors: Silber Reynold E. , Secco Richard A. , Yong Wenjun , Littleton Joshua A. H. 
Published: July 2018

AbstractElectrical and thermal transport properties of liquid Fe under high pressure have important implications for the dynamics and thermal evolution of planetary cores and the geodynamo. However, electrical resistivity (ρ) and thermal conductivity (k) of liquid Fe at high pressure still remain contentious properties. To date, only two experimental investigations of ρ of liquid Fe in the pressure region below 7 GPa are reported in literature. Here we report the results of measurements of ρ for solid and liquid Fe (inversely proportional to k through the Wiedemann-Franz law) at pressures from 3 to 12 GPa, using a large multi-anvil press. We show that ρ of liquid Fe decreases as a function of pressure up to the δ-γ-liquid triple point at ~5.2 GPa, and subsequently remains invariant from 6 to 12 GPa, which is consistent with an earlier study on liquid Ni. Our results demonstrate an important effect of solid phase on the structure and properties of liquid Fe. Our values of ρ for solid and liquid Fe are used to calculate k in Mercury’s solid inner core and along the adiabat in the liquid outer cores of Moon, Ganymede, Mercury and Mars. Our robust values of thermal conductivity place the focus on uncertainties in thermal expansion as the cause of variation in values of core conducted heat. Except for Mercury, our adiabatic heat flux values in these terrestrial cores validate the use of similar values used in several previous studies. Our high values of core adiabatic heat flux in Mercury would provide a stabilizing effect on, and lead to an increase in thickness of, the thermally stratified layer at the top of the core.
Improved G-AgarTrap: A highly efficient transformation method for intact gemmalings of the liverwort Marchantia polymorpha
Authors: Tsuboyama Shoko , Nonaka Satoko , Ezura Hiroshi , Kodama Yutaka 
Published: July 2018

AbstractLiverworts are key species for studies of plant evolution, occupying a basal position among the land plants. Marchantia polymorpha has emerged as a highly studied model liverwort, and many relevant techniques, including genetic transformation, have been established for this species. Agrobacterium-mediated transformation is widely used in many plant species because of its low cost. Recently, we developed a simplified Agrobacterium-mediated method for transforming M. polymorpha, known as AgarTrap (agar-utilized transformation with pouring solutions). The AgarTrap procedure, which involves culturing the liverwort tissue in various solutions on a single solid medium, yields up to a hundred independent transformants. AgarTrap is a simple procedure, requiring minimal expertise, cost, and time. Here, we investigated four factors that influence AgarTrap transformation efficiency: (1) humidity, (2) surfactant in the transformation buffer, (3) Agrobacterium strain, and (4) light/dark condition. We adapted the AgarTrap protocol for transforming intact gemmalings, achieving an exceptionally high transformation efficiency of 97%. The improved AgarTrap method will enhance the molecular biological study of M. polymorpha. Furthermore, this method provides new possibilities for improving transformation techniques for a variety of plant species.
Soluble Triggering Receptor Expressed on Myeloid Cells 1 in lung cancer
Authors: Kuemmel Andreas , Alflen Astrid , Schmidt Lars Henning , Sebastian Martin , Wiewrodt Rainer , Schulze Arik Bernard , Buhl Roland , Radsak Markus 
Published: July 2018

AbstractSoluble Triggering Receptor Expressed on Myeloid Cells 1 (sTREM-1) can be found in the sera of patients with infectious, autoimmune and malignant diseases. The primary objective of this study was to investigate the prognostic significance of sTREM-1 in lung cancer patients. We analyzed the sera of 164 patients with lung cancer of all histologies and all stages at the time of diagnosis. We employed an ELISA using the anti-TREM-1 clone 6B1.1G12 mAb and recombinant human TREM-1. Patient data was collected retrospectively by chart review. In ROC-analysis, a sTREM-1 serum level of 163.1 pg/ml showed the highest Youden-Index. At this cut-off value sTREM-1 was a marker of short survival in patients with NSCLC (median survival 8.5 vs. 13.3 months, p = 0.04). A Cox regression model showed stage (p < 0.001) and sTREM-1 (p = 0.011) to indicate short survival. There were no differences in sTREM-1 serum values among patients with or without infection, pleural effusion or COPD. sTREM-1 was not associated with metastasis at the time of diagnosis and was not a predictor of subsequent metastasis. In SCLC patients sTREM-1 levels were lower than in NSCLC patients (p = 0.001) and did not predict survival. sTREM-1 did not correlate with CRP or the number of neutrophils. In non-small cell lung cancer patients, sTREM-1 in serum has prognostic significance.
A monocyte gene expression signature in the early clinical course of Parkinson’s disease
Authors: Schlachetzki Johannes C. M. , Prots Iryna , Tao Jenhan , Chun Hyun B. , Saijo Kaoru , Gosselin David , Winner Beate , Glass Christopher K. , Winkler Jürgen 
Published: July 2018

AbstractMicroglia are the main immune cells of the brain and express a large genetic pattern of genes linked to Parkinson’s disease risk alleles. Monocytes like microglia are myeloid-lineage cells, raising the questions of the extent to which they share gene expression with microglia and whether they are already altered early in the clinical course of the disease. To decipher a monocytic gene expression signature in Parkinson’s disease, we performed RNA-seq and applied the two-sample Kolmogorov-Smirnov test to identify differentially expressed genes between controls and patients with Parkinson's disease and changes in gene expression variability and dysregulation. The gene expression profiles of normal human monocytes and microglia showed a plethora of differentially expressed genes. Additionally, we identified a distinct gene expression pattern of monocytes isolated from Parkinson’s disease patients at an early disease stage compared to controls using the Kolmogorov-Smirnov test. Differentially expressed genes included genes involved in immune activation such as HLA-DQB1, MYD88, REL, and TNF-α. Our data suggest that future studies of distinct leukocyte subsets are warranted to identify possible surrogate biomarkers and may lead to the identification of novel interventions early in the disease course.
Ontogenetic transition from specialized root hairs to specific root-fungus symbiosis in the dominant Mediterranean seagrass Posidonia oceanica
Authors: Borovec Ondřej , Vohník Martin 
Published: July 2018

AbstractTerrestrial plants typically take up nutrients through roots or mycorrhizae while freshwater plants additionally utilize leaves. Their nutrient uptake may be enhanced by root hairs whose occurrence is often negatively correlated with mycorrhizal colonization. Seagrasses utilize both leaves and roots and often form root hairs, but seem to be devoid of mycorrhizae. The Mediterranean seagrassPosidonia oceanicais an exception: its adults commonly lack root hairs and regularly form a specific association with a single pleosporalean fungus. Here we show that at two sites in the southern Adriatic, all its seedlings possessed abundant root hairs with peculiar morphology (swollen terminal parts) and anatomy (spirally formed cell walls) as apparent adaptations for better attachment to the substrate and increase of breaking strain. Later on, their roots became colonized by dark septate mycelium while root hairs were reduced. In adults, most of terminal fine roots possessed the specific fungal association while root hairs were absent. These observations indicate for the first time that processes regulating transition from root hairs to root fungal colonization exist also in some seagrasses. This ontogenetic shift in root traits may suggests an involvement of the specific root symbiosis in the nutrient uptake by the dominant Mediterranean seagrass.
Tidally disrupted stars as a possible origin of both cosmic rays and neutrinos at the highest energies
Authors: Biehl Daniel , Boncioli Denise , Lunardini Cecilia , Winter Walter 
Published: July 2018

AbstractTidal Disruption Events (TDEs) are processes where stars are torn apart by the strong gravitational force near to a massive or supermassive black hole. If a jet is launched in such a process, particle acceleration may take place in internal shocks. We demonstrate that jetted TDEs can simultaneously describe the observed neutrino and cosmic ray fluxes at the highest energies if stars with heavier compositions, such as carbon-oxygen white dwarfs, are tidally disrupted and these events are sufficiently abundant. We simulate the photo-hadronic interactions both in the TDE jet and in the propagation through the extragalactic space and we show that the simultaneous description of Ultra-High Energy Cosmic Ray (UHECR) and PeV neutrino data implies that a nuclear cascade in the jet is developed by photo-hadronic interactions.
Mild Maternal Obstructive Sleep Apnea in Non-obese Pregnant Women and Accelerated Fetal Growth
Authors: Telerant Ayana , Dunietz Galit Levi , Many Ariel , Tauman Riva 
Published: July 2018

AbstractThe prevalence of obstructive sleep apnea (OSA) during pregnancy is rising. OSA during pregnancy has been associated with hypertensive disorders of pregnancy and gestational diabetes. The effect of maternal OSA on the fetus, particularly on fetal growth, is less apparent. Most of the currently available human data is based on non-objective assessment of OSA and includes heterogeneous populations with inadequate control on confounders, such as maternal obesity and pregnancy complications. Using objective tools in non-obese women with uncomplicated pregnancies, we aimed to investigate the association between maternal OSA and fetal growth. A total of 155 non-obese pregnant women were recruited. Birth-weight percentile of the newborns of women with mild OSA was significantly higher compared with the newborns of non-OSA controls (72% vs. 57%, respectively, P < 0.01). Birth-length and triceps thickness measurements were significantly higher among the newborns of women with OSA compared with controls (P = 0.02 for both). The proportion of large for gestational age (LGA) newborns was higher among women with OSA compared with controls (28% vs. 8%, respectively, P = 0.04). Our results suggest that maternal OSA during the third trimester of pregnancy - even in a mild form -is associated with accelerated fetal growth.
The sources of high airborne radioactivity in cryoconite holes from the Caucasus (Georgia)
Authors: Łokas Edyta , Zawierucha Krzysztof , Cwanek Anna , Szufa Katarzyna , Gaca Paweł , Mietelski Jerzy W. , Tomankiewicz Ewa 
Published: July 2018

AbstractCryoconite granules are mixtures of mineral particles, organic substances and organisms on the surface of glaciers where they decrease the ice albedo and are responsible for formation of water-filled holes. The contaminants are effectively trapped in the cryoconite granules and stay there for many years. This study evaluates the contamination level of artificial and natural radionuclides in cryoconite holes from Adishi glacier (Georgia) and identifies the sources of contamination based on activity or mass ratios among artificial radionuclides. Results revealed high activity concentrations of fallout radionuclides reaching 4900 Bq/kg, 2.5 Bq/kg, 107 Bq/kg and 68 Bq/kg for 137Cs, 238Pu, 239+240Pu and 241Am, respectively. The main source of Pu is global fallout, but the low 240Pu/239Pu atomic ratios also indicated local tropospheric source of 239Pu, probably from the Kapustin Yar nuclear test site. Also, high activity ratios of 241Am/239+240Pu could originate from Kapustin Yar. The natural radionuclides originate from the surrounding rocks and were measured to control the environmental processes. 210Pb in cryoconite granules comes predominantly from the atmospheric deposition, and its activity concentrations reach high values up to 12000 Bq/kg.
Lethal and sub-lethal effects of the insecticide fipronil on juvenile brown shrimp Farfantepenaeus aztecus
Authors: Al-Badran Ali Abdulameer , Fujiwara Masami , Gatlin Delbert M. , Mora Miguel A. 
Published: July 2018

AbstractChemical pesticides are widely used around the world, but at the same time, they may cause direct or indirect risks to many non-target organisms. Recent increased use of insecticides in coastal areas, for example to control invasive tawny crazy ants, raises concern that insecticides may affect ecologically and/or commercially important species found in estuaries. Here, we investigated the lethal and sub-lethal effects of fipronil on juvenile brown shrimp Farfantepenaeus aztecus over 29 days at five different nominal concentrations (0.1, 1.0, 3.0, 6.4, and 10.0 µg/L) in a laboratory experiment. Exposure to all of the fipronil treatments resulted in all individuals dying before the end of the experiment; whereas, no individual died in the control (0.0 µg/L). The 96-hour LC50 was determined to be 1.3 µg/L. Shrimp also experienced weight loss under all of the fipronil treatments. Inter-moult interval was increased from 12.2 ± 1.64 day in the control group to 15.5 ± 0.53 day in the 1.0 μg/L treatment. Lipid content of shrimp increased significantly in a concentration-dependent manner. Finally, behavioral and body color changes were also observed under the fipronil treatments. We conclude F. aztecus is very sensitive to fipronil and monitoring is needed in coastal areas.
Proteomic Analysis and Functional Characterization of P4-ATPase Phospholipid Flippases from Murine Tissues
Authors: Wang Jiao , Molday Laurie L. , Hii Theresa , Coleman Jonathan A. , Wen Tieqiao , Andersen Jens P. , Molday Robert S. 
Published: July 2018

AbstractP4-ATPases are a subfamily of P-type ATPases that flip phospholipids across membranes to generate lipid asymmetry, a property vital to many cellular processes. Mutations in several P4-ATPases have been linked to severe neurodegenerative and metabolic disorders. Most P4-ATPases associate with one of three accessory subunit isoforms known as CDC50A (TMEM30A), CDC50B (TMEM30B), and CDC50C (TMEM30C). To identify P4-ATPases that associate with CDC50A, in vivo, and determine their tissue distribution, we isolated P4-ATPases-CDC50A complexes from retina, brain, liver, testes, and kidney on a CDC50A immunoaffinity column and identified and quantified P4-ATPases from their tryptic peptides by mass spectrometry. Of the 12 P4-ATPase that associate with CDC50 subunits, 10 P4-ATPases were detected. Four P4-ATPases (ATP8A1, ATP11A, ATP11B, ATP11C) were present in all five tissues. ATP10D was found in low amounts in liver, brain, testes, and kidney, and ATP8A2 was present in significant amounts in retina, brain, and testes. ATP8B1 was detected only in liver, ATP8B3 and ATP10A only in testes, and ATP8B2 primarily in brain. We also show that ATP11A, ATP11B and ATP11C, like ATP8A1 and ATP8A2, selectively flip phosphatidylserine and phosphatidylethanolamine across membranes. These studies provide new insight into the tissue distribution, relative abundance, subunit interactions and substrate specificity of P4-ATPase-CDC50A complexes.
Enhancing enterocyte fatty acid oxidation in mice affects glycemic control depending on dietary fat
Authors: Ramachandran Deepti , Clara Rosmarie , Fedele Shahana , Michel Ladina , Burkard Johannes , Kaufman Sharon , Diaz Abdiel Alvarado , Weissfeld Nadja , De Bock Katrien , Prip-Buus Carina , Langhans Wolfgang , Mansouri Abdelhak 
Published: July 2018

AbstractStudies indicate that modulating enterocyte metabolism might affect whole body glucose homeostasis and the development of diet-induced obesity (DIO). We tested whether enhancing enterocyte fatty acid oxidation (FAO) could protect mice from DIO and impaired glycemic control. To this end, we used mice expressing a mutant form of carnitine palmitoyltransferase-1a (CPT1mt), insensitive to inhibition by malonyl-CoA, in their enterocytes (iCPT1mt) and fed them low-fat control diet (CD) or high-fat diet (HFD) chronically. CPT1mt expression led to an upregulation of FAO in the enterocytes. On CD, iCPT1mt mice had impaired glycemic control and showed concomitant activation of lipogenesis, glycolysis and gluconeogenesis in their enterocytes. On HFD, both iCPT1mt and control mice developed DIO, but iCPT1mt mice showed improved glycemic control and reduced visceral fat mass. Together these data indicate that modulating enterocyte metabolism in iCPT1mt mice affects glycemic control in a body weight-independent, but dietary fat-dependent manner.