bluuebunny/crossref_metadata_2025_split huggingface dataset:
Phylogeny and morphology ofOvipleistophora diplostomurin. sp. (Microsporidia) with a unique dual-host tropism for bluegill sunfish and the digenean parasitePosthodiplostomum minimum(Strigeatida)
Authors: LOVY J. , FRIEND S. E. 
Published: July 2017

SUMMARYMicrosporidia are diverse opportunistic parasites abundant in aquatic organisms with some species hyperparasitic in digenean parasites. In the current study, we describe a unique microsporidian parasite,Ovipleistophora diplostomurin. sp. that has a tropism for both the bluegill sunfishLepomis macrochirus, and its digenean parasitePosthodiplostomum minimum. Though the microsporidium first infects a fish, the subsequent infection causes hypertrophy of the metacercarial wall and degeneration of theP. minimummetacercariae within the fish tissue. Genetic analysis placed this species withinOvipleistophoraand ultrastructural characteristics were consistent with the genus, including the presence of dimorphic spores within sporophorous vesicles. Meronts did not have a surface coat of dense material, which has been previously reported for the genus. This is the firstOvipleistophoraspecies described that does not have a tropism for ovary. Genetics demonstrated thatO. diplostomurin. sp. groups closely within fish microsporidia and not other species known to be hyperparasitic in digeneans, suggesting that it evolved from fish-infecting microsporidians and developed a secondary tropism for a common and widespread digenean parasite. The high genetic identity toOvipleistophoraspecies demonstrates the close relationship of this unique microsporidian with other microsporidia that infect ovary.
Captain William Adams senior: whaling Master
Authors: Begg Hugh M. , Watson John 
Published: July 2017

ABSTRACTCaptain William Adams (1837–1890) was one of the exceptional whaling masters who sailed from Dundee in Scotland. This paper uses primary sources to confirm his reputation not only as a whaler but also as an adventurous explorer and wealthy businessman. He became outstandingly successful with Alexander Stephen & Sons, the Dundee shipping company that pioneered the use of auxiliary powered vessels for use in sealing in Labrador and fishing for whales in the Davis Strait and beyond. His first command was the Arctic in 1868, and his reputation was such that he was chosen by Albert Hastings Markham as his mentor in gaining experience for polar exploration. The unfortunate loss of the Arctic in Regent Sound in 1875 did no damage to this reputation and Adams was made Master of the newly built flagship of the company's fleet, the Arctic II. In 1883, by then a rich man, Adams became his own Master with the purchase of the Maud. In 1890, the vessel was returning to Dundee from Arctic waters when Captain Adams, who was accompanied by his son also William Adams (1869–1942) acting as Mate, was taken fatally ill, dying at Thurso in Caithness.
Irrational “Coefficients” in Renaissance Algebra
Authors: Oaks Jeffrey A. 
Published: July 2017

ArgumentFrom the time of al-Khwārizmī in the ninth century to the beginning of the sixteenth century algebraists did not allow irrational numbers to serve as coefficients. To multiply$\sqrt {18} $byx, for instance, the result was expressed as the rhetorical equivalent of$\sqrt {18{x^2}} $. The reason for this practice has to do with the premodern concept of a monomial. The coefficient, or “number,” of a term was thought of as how many of that term are present, and not as the scalar multiple that we work with today. Then, in sixteenth-century Europe, a few algebraists began to allow for irrational coefficients in their notation. Christoff Rudolff (1525) was the first to admit them in special cases, and subsequently they appear more liberally in Cardano (1539), Scheubel (1550), Bombelli (1572), and others, though most algebraists continued to ban them. We survey this development by examining the texts that show irrational coefficients and those that argue against them. We show that the debate took place entirely in the conceptual context of premodern, “cossic” algebra, and persisted in the sixteenth century independent of the development of the new algebra of Viète, Decartes, and Fermat. This was a formal innovation violating prevailing concepts that we propose could only be introduced because of the growing autonomy of notation from rhetorical text.
Genome-wide Identification and Characterization of Natural Antisense Transcripts by Strand-specific RNA Sequencing in Ganoderma lucidum
Authors: Shao Junjie , Chen Haimei , Yang Dan , Jiang Mei , Zhang Hui , Wu Bin , Li Jianqin , Yuan Lichai , Liu Chang 
Published: July 2017

AbstractGanoderma lucidum is a white-rot fungus best-known for its medicinal and ligninolytic activities. To discover the underlying genes responsible for these activities, we identified and characterized the natural antisense transcripts (NATs) using strand-specific (ss) RNA-seq data obtained from the mycelia, primordia and fruiting bodies. NATs were identified using a custom pipeline and then subjected to functional enrichment and differential expression analyses. A total of 1613 cis- and 244 trans- sense and antisense transcripts were identified. Mapping to GO terms and KEGG pathways revealed that NATs were frequently associated with genes of particular functional categories in particular stages. ssRT-qPCR experiments showed that the expression profiles of 30 of 50 (60%) transcripts were highly correlated with those of the RNA-seq results (r ≥ 0.9). Expression profiles of 22 of 25 (88%) pairs of NATs and STs were highly correlated (p ≤ 0.01), with 15 having r ≥ 0.8 and 4 having r ≤ -0.8. Six lignin-modifying genes and their NATs were analyzed in detail. Diverse patterns of differential expression among different stages and positive and negative correlations were observed. These results suggested that NATs were implicated in gene expression regulation in a function-group and developmental-stage specific manner through complex mechanisms.
Multi-pinhole fluorescent x-ray computed tomography for molecular imaging
Authors: Sasaya Tenta , Sunaguchi Naoki , Hyodo Kazuyuki , Zeniya Tsutomu , Yuasa Tetsuya 
Published: July 2017

AbstractWe propose a multi-pinhole fluorescent x-ray computed tomography (mp-FXCT) technique for preclinical molecular imaging that can provide the complete data necessary to produce 3-D tomographic images during anaesthesia. In this method, multiple projections are simultaneously acquired through a multi-pinhole collimator with a 2-D detector and full-field volumetric beam to accelerate the data acquisition process and enhance the signal-to-noise ratios of the projections. We constructed a 15-pinhole mp-FXCT imaging system at beamline ARNE-7A at KEK and performed preliminary experiments to investigate its imaging properties using physical phantoms and a non-radioactive I imaging agent. The mp-FXCT system could detect an I concentration of 0.038 mg/ml, the minimum required for in-vivo imaging, at a spatial resolution of about 0.3 mm during a data acquisition time of 90 min, which is less than the time for which anaesthesia is effective and suggests that preclinical molecular imaging is feasible with mp-FXCT.
A novel fluorescent probe-based flow cytometric assay for mineral-containing nanoparticles in serum
Authors: Smith Edward R. , Hewitson Tim D. , Cai Michael M. X. , Aghagolzadeh Parisa , Bachtler Matthias , Pasch Andreas , Holt Stephen G. 
Published: July 2017

AbstractCalciprotein particles, nanoscale aggregates of insoluble mineral and binding proteins, have emerged as potential mediators of phosphate toxicity in patients with Chronic Kidney Disease. Although existing immunochemical methods for their detection have provided compelling data, these approaches are indirect, lack specificity and are subject to a number of other technical and theoretical shortcomings. Here we have developed a rapid homogeneous fluorescent probe-based flow cytometric method for the detection and quantitation of individual mineral-containing nanoparticles in human and animal serum. This method allows the discrimination of membrane-bound from membrane-free particles and different mineral phases (amorphous vs. crystalline). Critically, the method has been optimised for use on a conventional instrument, without the need for manual hardware adjustments. Using this method, we demonstrate a consistency in findings across studies of Chronic Kidney Disease patients and commonly used uraemic animal models. These studies demonstrate that renal dysfunction is associated with the ripening of calciprotein particles to the crystalline state and reveal bone metabolism and dietary mineral as important modulators of circulating levels. Flow cytometric analysis of calciprotein particles may enhance our understanding of mineral handling in kidney disease and provide a novel indicator of therapeutic efficacy for interventions targeting Chronic Kidney Disease-Mineral Bone Disorder.
Calcifying algae maintain settlement cues to larval abalone following algal exposure to extreme ocean acidification
Authors: O’Leary Jennifer K. , Barry James P. , Gabrielson Paul W. , Rogers-Bennett Laura , Potts Donald C. , Palumbi Stephen R. , Micheli Fiorenza 
Published: July 2017

AbstractOcean acidification (OA) increasingly threatens marine systems, and is especially harmful to calcifying organisms. One important question is whether OA will alter species interactions. Crustose coralline algae (CCA) provide space and chemical cues for larval settlement. CCA have shown strongly negative responses to OA in previous studies, including disruption of settlement cues to corals. In California, CCA provide cues for seven species of harvested, threatened, and endangered abalone. We exposed four common CCA genera and a crustose calcifying red algae,Peyssonnelia(collectively CCRA) from California to three pCO2levels ranging from 419–2,013 µatm for four months. We then evaluated abalone (Haliotis rufescens) settlement under ambient conditions among the CCRA and non-algal controls that had been previously exposed to the pCO2treatments. Abalone settlement and metamorphosis increased from 11% in the absence of CCRA to 45–69% when CCRA were present, with minor variation among CCRA genera. Though all CCRA genera reduced growth during exposure to increased pCO2, abalone settlement was unaffected by prior CCRA exposure to increased pCO2. Thus, we find no impacts of OA exposure history on CCRA provision of settlement cues. Additionally, there appears to be functional redundancy in genera of CCRA providing cues to abalone, which may further buffer OA effects.
Quantitative Measurement of the Thyroid Uptake Function of Mouse by Cerenkov Luminescence Imaging
Authors: Ke Chien-Chih , He Zi-Ming , Hsieh Ya-Ju , Huang Chia-Wen , Li Jia-Je , Hwu Luen , Chen Yi-An , Yang Bang-Hung , Chang Chi-Wei , Huang Wen-Sheng , Liu Ren-Shyan 
Published: July 2017

AbstractCerenkov luminescence imaging (CLI) has been an evolutional and alternative approach of nuclear imaging in basic research. This study aimed to measure the 131I thyroid uptake of mouse using CLI for assessment of thyroid function. Quantification of 131I thyroid uptake of mice in euthyroid, hypothyroid and hyperthyroid status was performed by CLI and γ-scintigraphy at 24 hours after injection of 131I. The 131I thyroid uptake was calculated using the equation: (thyroid counts − background counts)/(counts of injected dose of 131I) × 100%. Serum T4 concentration was determined to evaluate the thyroid function. The radioactivity of 131I was linearly correlated with the CL signals in both in vitro and in vivo measurements. CLI showed a significant decrease and increase of 131I thyroid uptake in the mice in hypo- and hyperfunctioning status, respectively, and highly correlated with that measured by γ-scintigraphy. However, the percent thyroid uptake measured by CLI were one-fifth of those measured by γ-scintigraphy due to insufficient tissue penetration of CL. These results indicate that CLI, in addition to nuclear imaging, is able to image and evaluate the 131I thyroid uptake function in mice in preclinical and research settings.
Betulinic acid is a PPARγ antagonist that improves glucose uptake, promotes osteogenesis and inhibits adipogenesis
Authors: Brusotti Gloria , Montanari Roberta , Capelli Davide , Cattaneo Giulia , Laghezza Antonio , Tortorella Paolo , Loiodice Fulvio , Peiretti Franck , Bonardo Bernadette , Paiardini Alessandro , Calleri Enrica , Pochetti Giorgio 
Published: July 2017

AbstractPPAR antagonists are ligands that bind their receptor with high affinity without transactivation activity. Recently, they have been demonstrated to maintain insulin-sensitizing and antidiabetic properties, and they serve as an alternative treatment for metabolic diseases. In this work, an affinity-based bioassay was found to be effective for selecting PPAR ligands from the dried extract of an African plant (Diospyros bipindensis). Among the ligands, we identified betulinic acid (BA), a compound already known for its anti-inflammatory, anti-tumour and antidiabetic properties, as a PPARγ and PPARα antagonist. Cell differentiation assays showed that BA inhibits adipogenesis and promotes osteogenesis; either down-regulates or does not affect the expression of a series of adipogenic markers; and up-regulates the expression of osteogenic markers. Moreover, BA increases basal glucose uptake in 3T3-L1 adipocytes. The crystal structure of the complex of BA with PPARγ sheds light, at the molecular level, on the mechanism by which BA antagonizes PPARγ, and indicates a unique binding mode of this antagonist type. The results of this study show that the natural compound BA could be an interesting and safe candidate for the treatment of type 2 diabetes and bone diseases.
Comparison between an African town and a neighbouring village shows delayed, but not decreased, sleep during the early stages of urbanisation
Authors: Beale Andrew D. , Pedrazzoli Mario , Gonçalves Bruno da Silva B. , Beijamini Felipe , Duarte Núbia E. , Egan Kieren J. , Knutson Kristen L. , Schantz Malcolm von , Roden Laura C. 
Published: July 2017

AbstractThe well-established negative health outcomes of sleep deprivation, and the suggestion that availability of electricity may enable later bed times without compensating sleep extension in the morning, have stimulated interest in studying communities whose sleep pattern may resemble a pre-industrial state. Here, we describe sleep and activity in two neighbouring communities, one urban (Milange) and one rural (Tengua), in a region of Mozambique where urbanisation is an ongoing process. The two communities differ in the amount and timing of daily activity and of light exposure, with later bedtimes (≈1 h) associated with more evening and less daytime light exposure seen in the town of Milange. In contrast to previous reports comparing communities with and without electricity, sleep duration did not differ between Milange (7.28 h) and Tengua (7.23 h). Notably, calculated sleep quality was significantly poorer in rural Tengua than in Milange, and poor sleep quality was associated with a number of attributes more characteristic of rural areas, including more intense physical labour and less comfortable sleeping arrangements. Thus, whilst our data support the hypothesis that access to electricity delays sleep timing, the higher sleep quality in the urban population also suggests that some aspects of industrialisation are beneficial to sleep.
A portable system for rapid bacterial composition analysis using a nanopore-based sequencer and laptop computer
Authors: Mitsuhashi Satomi , Kryukov Kirill , Nakagawa So , Takeuchi Junko S. , Shiraishi Yoshiki , Asano Koichiro , Imanishi Tadashi 
Published: July 2017

AbstractWe developed a portable system for 16S rDNA analyses consisting of a nanopore technology-based sequencer, the MinION, and laptop computers, and assessed its potential ability to determine bacterial compositions rapidly. We tested our protocols using a mock bacterial community that contained equimolar 16S rDNA and a pleural effusion from a patient with empyema, for time effectiveness and accuracy. MinION sequencing targeting 16S rDNA detected all 20 of the bacterial species present in the mock bacterial community. Time course analysis indicated that the sequence data obtained during the first 5 minutes of sequencing (1,379 bacterial reads) were enough to detect all 20 bacteria in the mock sample and to determine species composition, consistent with results of those obtained from 4 hours of sequencing (24,202 reads). Additionally, using a clinical sample extracted from the empyema patient’s pleural effusion, we could identify major bacterial pathogens in that effusion using our rapid sequencing and analysis protocol. All results are comparable to conventional 16S rDNA sequencing results using an IonPGM sequencer. Our results suggest that rapid sequencing and bacterial composition determination are possible within 2 hours after obtaining a DNA sample.
Assessment of the occurrence, spatiotemporal variations and geoaccumulation of fifty-two inorganic elements in sewage sludge: A sludge management revisit
Authors: Suanon Fidèle , Sun Qian , Yang Xiaoyong , Chi Qiaoqiao , Mulla Sikandar I. , Mama Daouda , Yu Chang-Ping 
Published: July 2017

AbstractThe limited information about the sludge quality has made its management a top environmental challenge. In the present study, occurrence and the spatiotemporal variations of 52 inorganic elements were investigated in the sludge samples from three wastewater treatment plants (WWTPs) in Xiamen city, China. The results showed, the occurrence of 49 elements with the concentrations in the range of >125–53500 mg kg−1 dry sludge (DS) for commonly used industrial metals, 1.22–14.0 mg kg−1 DS for precious metals, and 1.12–439.0 mg kg−1 DS for rare earth elements. The geo-accumulation studies indicated a moderate to high levels of buildup of some elements in the sewage sludge. Principal components analysis (PCA) indicated strong spatial and weak temporal variations in the concentrations of the elements. Therefore, the sludge disposal operations, based on the element concentrations, geoaccumulation and economic potential are suggested for each WWTP. Sludge from W1 and W2 were found suitable for agricultural usage, while that from W3 showed a higher economic potential for the recovery of precious metals. This study concludes that a comprehensive analysis of the elements in the sewage sludge could provide critical information for the disposal and management of the sludge.
Laser-pulse-shape control of seeded QED cascades
Authors: Tamburini Matteo , Di Piazza Antonino , Keitel Christoph H. 
Published: July 2017

AbstractQED cascades are complex avalanche processes of hard photon emission and electron-positron pair creation driven by ultrastrong electromagnetic fields. They play a fundamental role in astrophysical environments such as a pulsars’ magnetosphere, rendering an earth-based implementation with intense lasers attractive. In the literature, QED cascades were also predicted to limit the attainable intensity in a set-up of colliding laser beams in a tenuous gas such as the residual gas of a vacuum chamber, therefore severely hindering experiments at extreme field intensities. Here, we demonstrate that the onset of QED cascades may be either prevented even at intensities around 1026 W/cm2 with tightly focused laser pulses and low-Z gases, or facilitated at intensities below 1024 W/cm2 with enlarged laser focal areas or high-Z gases. These findings pave the way for the control of novel experiments such as the generation of pure electron-positron-photon plasmas from laser energy, and for probing QED in the extreme-intensity regime where the quantum vacuum becomes unstable.
Evidence of Multi-Domain Morphological Structures in Living Escherichia coli
Authors: Tavaddod Sharareh , Naderi-Manesh Hossein 
Published: July 2017

AbstractA combination of light-microscopy and image processing was used to elaborate on the fluctuation in the width of the cylindrical part of Escherichia coli at sub-pixel-resolution, and under in vivo conditions. The mean-squared-width-difference along the axial direction of the cylindrical part of a number of bacteria was measured. The results reveal that the cylindrical part of Escherichia coli is composed of multi-domain morphological structures. The length of the domains starts at 150 nm in newborn cells, and linearly increases in length up to 300 nm in aged cells. The fluctuation in the local-cell-widths in each domain is less than the fluctuation of local-cell-widths between different domains. Local cell width correlations along the cell body occur on a length scale of less than 50 nm. This finding could be associated with the flexibility of the cell envelope in the radial versus longitudinal directions.
A Predictive Mathematical Modeling Approach for the Study of Doxorubicin Treatment in Triple Negative Breast Cancer
Authors: McKenna Matthew T. , Weis Jared A. , Barnes Stephanie L. , Tyson Darren R. , Miga Michael I. , Quaranta Vito , Yankeelov Thomas E. 
Published: July 2017

AbstractDoxorubicin forms the basis of chemotherapy regimens for several malignancies, including triple negative breast cancer (TNBC). Here, we present a coupled experimental/modeling approach to establish an in vitro pharmacokinetic/pharmacodynamic model to describe how the concentration and duration of doxorubicin therapy shape subsequent cell population dynamics. This work features a series of longitudinal fluorescence microscopy experiments that characterize (1) doxorubicin uptake dynamics in a panel of TNBC cell lines, and (2) cell population response to doxorubicin over 30 days. We propose a treatment response model, fully parameterized with experimental imaging data, to describe doxorubicin uptake and predict subsequent population dynamics. We found that a three compartment model can describe doxorubicin pharmacokinetics, and pharmacokinetic parameters vary significantly among the cell lines investigated. The proposed model effectively captures population dynamics and translates well to a predictive framework. In a representative cell line (SUM-149PT) treated for 12 hours with doxorubicin, the mean percent errors of the best-fit and predicted models were 14% (±10%) and 16% (±12%), which are notable considering these statistics represent errors over 30 days following treatment. More generally, this work provides both a template for studies quantitatively investigating treatment response and a scalable approach toward predictions of tumor response in vivo.