bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Aspergillus fumigatus UDP-Galactopyranose Mutase Inhibitors
Authors: Martin del Campo Julia S. , Eckshtain-Levi Meital , Vogelaar Nancy J. , Sobrado Pablo 
Published: September 2017

AbstractAspergillus fumigatus is an opportunistic human pathogen responsible for deadly, invasive infections in immunocompromised patients. The A. fumigatus cell wall is a complex network of polysaccharides among them galactofuran, which is absent in humans. UDP-galactopyranose mutase (UGM) catalyzes the conversion of UDP-galactofuranose (UDP-Galf) to UDP-galactopyranose (UDP-Galp) and is an important virulence factor. UGM is a flavin-dependent enzyme that requires the reduced flavin for activity; flavin reduction is achieved by reaction with NADPH. The aim of this work was to discover inhibitors of UGM by targeting the NADPH binding site using an ADP-TAMRA probe in a high-throughput screening assay. The flavonoids (2S)-hesperetin and (2S)-naringenin were validated as competitive inhibitors of UGM against NADPH with Ki values of 6 µM and 74 µM, respectively. To gain insight into the active chemical substituents involved in the inhibition of UGM, several derivatives of these inhibitors were studied. The results show that the hydroxyl groups of (2S)-hesperetin are important for inhibition, in particular the phenyl-chroman moiety. Congo red susceptibility assay and growth temperature effects showed that these compounds affected cell wall biosynthesis in A. fumigatus. This work is the first report of inhibition studies on UGM from eukaryotic human pathogens.
Revised version of the Cenozoic Collision along the Zagros Orogen, Insights from Cr-spinel and Sandstone Modal Analyses
Authors: Gholami Zadeh Parisa , Adabi Mohammad Hossein , Hisada Ken-ichiro , Hosseini-Barzi Mahboubeh , Sadeghi Abbas , Ghassemi Mohammad Reza 
Published: September 2017

AbstractGeoscientists have always considered the Neyriz region, located along the Zagros Suture Zone, an important area of interest because of the outcrops of Neotethys ophiolitic rocks. We carried out a modal analysis of the Cenozoic sandstones and geochemistry of the detrital Cr-spinels at Neyriz region in order to determine their provenance and tectonic evolution in the proximal part of Zagros Basin. Our data shows a clear change in provenance from the Late Cretaceous onwards. As from the Late Cretaceous to Eocene, lithic grains are mostly chert and serpentinite; and higher Cr# values of the detrital Cr-spinel compositions indicate that they originate from the fore-arc peridotites and deposited in an accretionary prism setting during this period. From the Late Oligocene to the Miocene periods, volcaniclastic and carbonate lithic grains show an increasing trend, and in the Miocene, metasedimentary lithic grains appear in the sediments. Ophiolite obduction caused a narrow trough sub-basin to be formed parallel to the general trend of the Zagros Orogeny between the Arabian and Iranian plates in Oligocene. From the Miocene onwards, the axial metamorphic complex belt was uplifted in the upper plate. Therefore, the collision along the Zagros Suture Zone must have occurred in the Late Oligocene.
T cells display mitochondria hyperpolarization in human type 1 diabetes
Authors: Chen Jing , Chernatynskaya Anna V. , Li Jian-Wei , Kimbrell Matthew R. , Cassidy Richard J. , Perry Daniel J. , Muir Andrew B. , Atkinson Mark A. , Brusko Todd M. , Mathews Clayton E. 
Published: September 2017

AbstractT lymphocytes constitute a major effector cell population in autoimmune type 1 diabetes. Despite essential functions of mitochondria in regulating activation, proliferation, and apoptosis of T cells, little is known regarding T cell metabolism in the progression of human type 1 diabetes. In this study, we report, using two independent cohorts, that T cells from patients with type 1 diabetes exhibited mitochondrial inner-membrane hyperpolarization (MHP). Increased MHP was a general phenotype observed in T cell subsets irrespective of prior antigen exposure, and was not correlated with HbA1C levels, subject age, or duration of diabetes. Elevated T cell MHP was not detected in subjects with type 2 diabetes. T cell MHP was associated with increased activation-induced IFNγ production, and activation-induced IFNγ was linked to mitochondria-specific ROS production. T cells from subjects with type 1 diabetes also exhibited lower intracellular ATP levels. In conclusion, intrinsic mitochondrial dysfunction observed in type 1 diabetes alters mitochondrial ATP and IFNγ production; the latter is correlated with ROS generation. These changes impact T cell bioenergetics and function.
Automated video-mosaicking approach for confocal microscopic imaging in vivo: an approach to address challenges in imaging living tissue and extend field of view
Authors: Kose Kivanc , Gou Mengran , Yélamos Oriol , Cordova Miguel , Rossi Anthony M. , Nehal Kishwer S. , Flores Eileen S. , Camps Octavia , Dy Jennifer G. , Brooks Dana H. , Rajadhyaksha Milind 
Published: September 2017

AbstractWe describe a computer vision-based mosaicking method for in vivo videos of reflectance confocal microscopy (RCM). RCM is a microscopic imaging technique, which enables the users to rapidly examine tissue in vivo. Providing resolution at cellular-level morphology, RCM imaging combined with mosaicking has shown to be highly sensitive and specific for non-invasively guiding skin cancer diagnosis. However, current RCM mosaicking techniques with existing microscopes have been limited to two﻿-dimensional sequences of individual still images, acquired in a highly controlled manner, and along a specific predefined raster path, covering a limited area. The recent advent of smaller handheld microscopes is enabling acquisition of videos, acquired in a relatively uncontrolled manner and along an ad-hoc arbitrarily free-form, non-rastered path. Mosaicking of video-images (video-mosaicking) is necessary to display large areas of tissue. Our video-mosaicking methods addresses this need. The method can handle unique challenges encountered during video capture such as motion blur artifacts due to rapid motion of the microscope over the imaged area, warping in frames due to changes in contact angle and varying resolution with depth. We present test examples of video-mosaics of melanoma and non-melanoma skin cancers, to demonstrate potential clinical utility.
CG200745, an HDAC inhibitor, induces anti-tumour effects in cholangiocarcinoma cell lines via miRNAs targeting the Hippo pathway
Authors: Jung Dawoon E. , Park Soo Been , Kim Kahee , Kim Chanyang , Song Si Young 
Published: September 2017

AbstractCholangiocarcinoma is a devastating malignancy with fatal complications that exhibits low response and resistance to chemotherapy. Here, we evaluated the anticancer effects of CG200745, a novel histone deacetylase inhibitor, either alone or in combination with standard chemotherapy drugs in cholangiocarcinoma cells. CG200745 dose-dependently reduced the viability of cholangiocarcinoma cells in vitro and decreased tumour volume and weight in a xenograft model. Administering CG200745 along with other chemotherapeutic agents including gemcitabine, 5-fluorouracil (5-FU), cisplatin, oxaliplatin, or gemcitabine plus cisplatin further decreased cholangiocarcinoma cell viability, with a combination index < 1 that indicated synergistic action. CG200745 also enhanced the sensitivity of gemcitabine-resistant cells to gemcitabine and 5-FU, thereby decreasing cell viability and inducing apoptosis. This was accompanied by downregulation of YAP, TEAD4, TGF-β2, SMAD3, NOTCH3, HES5, Axl, and Gas6 and upregulation of the miRNAs miR-22-3p, miR-22-5p, miR-194-5p, miR-194-3p, miR-194-5p, miR-210-3p, and miR-509-3p. The Ingenuity Pathway Analysis revealed that CG200745 mainly targets the Hippo signalling pathway by inducing miR-509-3p expression. Thus, CG200745 inhibits cholangiocarcinoma growth in vitro and in vivo, and acts synergistically when administered in combination with standard chemotherapeutic agents, enabling dose reduction. CG200745 is therefore expected to improve the outcome of cholangiocarcinoma patients who exhibit resistance to conventional therapies.
Computational genome-wide survey of odorant receptors from two solitary bees Dufourea novaeangliae (Hymenoptera: Halictidae) and Habropoda laboriosa (Hymenoptera: Apidae)
Authors: Karpe Snehal D. , Dhingra Surbhi , Brockmann Axel , Sowdhamini R. 
Published: September 2017

AbstractOlfactory/odorant receptors (ORs) probably govern eusocial behaviour in honey bees through detection of cuticular hydrocarbons (CHCs) and queen mandibular gland pheromones (QMP). CHCs are involved in nest-mate recognition whereas QMP acts as sex pheromone for drones and as retinue pheromone for female workers. Further studies on the effect of eusociality on the evolution of ORs are hindered by the non-availability of comprehensive OR sets of solitary species. We report complete OR repertoires from two solitary beesDufourea novaeangliae(112 ORs) andHabropoda laboriosa(151 ORs). We classify these ORs into 34 phylogenetic clades/subfamilies. Differences in the OR sets of solitary and eusocial bees are observed in individual subfamilies like subfamily 9-exon (putative CHC receptors) and L (contains putative QMP receptor group). A subfamily (H) including putative floral scent receptors is expanded in the generalist honey bees only, but not in the specialists. On the contrary, subfamily J is expanded in all bees irrespective of their degree of social complexity or food preferences. Finally, we show species-lineage specific and OR-subfamily specific differences in the putativecis-regulatory DNA motifs of the ORs from six hymenopteran species. Out of these, [A/G]CGCAAGCG[C/T] is a candidate master transcription factor binding site for multiple olfactory genes.
Associations between trunk muscle morphology, strength and function in older adults
Authors: Shahtahmassebi Behnaz , Hebert Jeffrey J. , Hecimovich Mark D. , Fairchild Timothy J. 
Published: September 2017

AbstractSkeletal muscle plays an important role in performing activities of daily living. While the importance of limb musculature in performing these tasks is well established, less research has focused on the muscles of the trunk. The purpose of the current study therefore, was to examine the associations between functional ability and trunk musculature in sixty-four community living males and females aged 60 years and older. Univariate and multivariate analyses of the a priori hypotheses were performed and reported with correlation coefficients and unstandardized beta coefficients (β) respectively. The univariate analysis revealed significant correlations between trunk muscle size and functional ability (rectus abdominis: six-minute walk performance, chair stand test, sitting and rising test; lumbar multifidus: timed up and go) as well as trunk muscle strength and functional ability (trunk composite strength: six-minute walk performance, chair stand test, Berg balance performance, sitting and rising test). After controlling for covariates (age and BMI) in the multivariate analysis, higher composite trunk strength (β = 0.34) and rectus abdominis size (β = 0.33) were associated with better performance in the sitting and rising test. The importance of incorporating trunk muscle training into programs aimed at improving balance and mobility in older adults merits further exploration.
Target margin design for real-time lung tumor tracking stereotactic body radiation therapy using CyberKnife Xsight Lung Tracking System
Authors: Yang Zhi-Yong , Chang Yu , Liu Hong-Yuan , Liu Gang , Li Qin 
Published: September 2017

AbstractThe objective of this study is to quantify the clinical accuracy of the Cyberknife Xsight Lung Tracking System (XLTS) in our center and calculate the PTV margin of XLTS treated lung tumors. Data from the treatment log files of 22 lung cancer patients treated with the CyberKnife XLTS were analyzed and the PTV margin was calculated. Segmentation, deformation, correlation, prediction and targeting errors were calculated from the log files of XLTS treatments. Two different methods were used to calculate anisotropic treatment margin. The relationships between tumor motion ranges and the correlation and prediction errors were also analyzed. Based on our estimation of a 4 mm global margin, 95% coverage in the S-I direction and 100% coverage in the L-R and A-P directions were obtained. Strong correlations between tumor motion range and the standard deviation (SD) of correlation and prediction errors were also found. Tumor position motion caused by respiration can be compensated using the Xsight Lung Tracking System. We found total tracking errors to be less than 4 mm in all three directions. This result could provide a reference for the selection of PTV margin for treatment with the CyberKnife XLTS.
Reconciling the opposing effects of warming on phytoplankton biomass in 188 large lakes
Authors: Kraemer Benjamin M. , Mehner Thomas , Adrian Rita 
Published: September 2017

AbstractLake ecosystems are deeply integrated into local and regional economies through recreation, tourism, and as sources of food and drinking water. Shifts in lake phytoplankton biomass, which are mediated by climate warming will alter these benefits with potential cascading effects on human well-being. The metabolic theory of ecology suggests that warming reduces lake phytoplankton biomass as basal metabolic costs increase, but this hypothesis has not been tested at the global scale. We use satellite-based estimates of lake surface temperature (LST) and lake surface chlorophyll-a concentration (chl-a; as a proxy for phytoplankton biomass) in 188 of the world’s largest lakes from 2002-2016 to test for interannual associations between chl-a and LST. In contrast to predictions from metabolic ecology, we found that LST and chl-a were positively correlated in 46% of lakes (p < 0.05). The associations between LST and chl-a depended on lake trophic state; warming tended to increase chl-a in phytoplankton-rich lakes and decrease chl-a in phytoplankton-poor lakes. We attribute the opposing responses of chl-a to LST to the effects of temperature on trophic interactions, and the availability of resources to phytoplankton. These patterns provide insights into how climate warming alters lake ecosystems on which millions of people depend for their livelihoods.
Pokémon GO and psychological distress, physical complaints, and work performance among adult workers: a retrospective cohort study
Authors: Watanabe Kazuhiro , Kawakami Norito , Imamura Kotaro , Inoue Akiomi , Shimazu Akihito , Yoshikawa Toru , Hiro Hisanori , Asai Yumi , Odagiri Yuko , Yoshikawa Etsuko , Tsutsumi Akizumi 
Published: September 2017

AbstractThe effects of Pokémon GO, a new mobile game application which utilizes augmented reality, on risky behavior and health have already been discussed in anecdotal evidence. However, there have been no studies about its effects on mental health. This study investigated the relationships between Pokémon GO and psychological distress from an existing workers’ cohort in Japan. Online surveys were conducted to 3,915 full-time workers, at baseline (Nov 26, 2015–Feb 18, 2016) and at follow-up (Dec 1–4, 2016), using a self-report questionnaire. Pokémon GO players were defined as participants who had played Pokémon GO for one month or longer. Psychological distress was measured using validated scales. Of the completers, 246 (9.7%) had continued to play Pokémon GO. They were significantly younger than non-players. From the results of the general linear modeling, improvement in psychological distress was significantly greater among Pokémon GO players than among non-players (p = 0.025). Cohen’s d for the difference in psychological distress was −0.20 (95% CI, −0.33, −0.07). Pokémon GO may be effective for improving psychological distress among workers. Although its effect size is small, the game could have positive effects on the mental health of the adult working population.
Quantitative imaging of anti-phase domains by polarity sensitive orientation mapping using electron backscatter diffraction
Authors: Naresh-Kumar G. , Vilalta-Clemente A. , Jussila H. , Winkelmann A. , Nolze G. , Vespucci S. , Nagarajan S. , Wilkinson A. J. , Trager-Cowan C. 
Published: September 2017

AbstractAdvanced structural characterisation techniques which are rapid to use, non-destructive and structurally definitive on the nanoscale are in demand, especially for a detailed understanding of extended-defects and their influence on the properties of materials. We have applied the electron backscatter diffraction (EBSD) technique in a scanning electron microscope to non-destructively characterise and quantify antiphase domains (APDs) in GaP thin films grown on different (001) Si substrates with different offcuts. We were able to image and quantify APDs by relating the asymmetrical intensity distributions observed in the EBSD patterns acquired experimentally and comparing the same with the dynamical electron diffraction simulations. Additionally mean angular error maps were also plotted using automated cross-correlation based approaches to image APDs. Samples grown on substrates with a 4° offcut from the [110] do not show any APDs, whereas samples grown on the exactly oriented substrates contain APDs. The procedures described in our work can be adopted for characterising a wide range of other material systems possessing non-centrosymmetric point groups.
Effects of influent C/N ratios and treatment technologies on integral biogas upgrading and pollutants removal from synthetic domestic sewage
Authors: Xu Jie , Wang Xue , Sun Shiqing , Zhao Yongjun , Hu Changwei 
Published: September 2017

AbstractThree different treatment technologies, namely mono-algae culture, algal-bacterial culture, and algal-fungal culture, were applied to remove pollutants form synthetic domestic sewage and to remove CO2from biogas in a photobioreactor. The effects of different initial influent C/N ratios on microalgal growth rates and pollutants removal efficiencies by the three microalgal cultures were investigated. The best biogas upgrading and synthetic domestic sewage pollutants removal effect was achieved in the algal-fungal system at the influent C/N ratio of 5:1. At the influent C/N ratio of 5:1, the algal-fungal system achieved the highest mean chemical oxygen demand (COD) removal efficiency of 81.92% and total phosphorus (TP) removal efficiency of 81.52%, respectively, while the algal-bacterial system demonstrated the highest mean total nitrogen (TN) removal efficiency of 82.28%. The average CH4concentration in upgraded biogas and the removal efficiencies of COD, TN, and TP were 93.25 ± 3.84% (v/v), 80.23 ± 3.92%, 75.85 ± 6.61%, and 78.41 ± 3.98%, respectively. These results will provide a reference for wastewater purification ad biogas upgrading with microalgae based technology.
Integrated Method to Attach DNA Handles and Functionally Select Proteins to Study Folding and Protein-Ligand Interactions with Optical Tweezers
Authors: Hao Yuxin , Canavan Clare , Taylor Susan S. , Maillard Rodrigo A. 
Published: September 2017

AbstractOptical tweezers has emerged as a powerful tool to study folding, ligand binding, and motor enzymes. The manipulation of proteins with optical tweezers requires attaching molecular handles to the protein of interest. Here, we describe a novel method that integrates the covalent attachment of DNA handles to target proteins with a selection step for functional and properly folded molecules. In addition, this method enables obtaining protein molecules in different liganded states and can be used with handles of different lengths. We apply this method to study the cAMP binding domain A (CBD-A) of Protein kinase A. We find that the functional selection step drastically improves the reproducibility and homogeneity of the single molecule data. In contrast, without a functional selection step, proteins often display misfolded conformations. cAMP binding stabilizes the CBD-A against a denaturing force, and increases the folded state lifetime. Data obtained with handles of 370 and 70 base pairs are indistinguishable, but at low forces short handles provide a higher spatial resolution. Altogether, this method is flexible, selects for properly folded molecules in different liganded states, and can be readily applicable to study protein folding or protein-ligand interactions with force spectroscopy that require molecular handles.
Structural basis for functional selectivity and ligand recognition revealed by crystal structures of human secreted phospholipase A2 group IIE
Authors: Hou Shulin , Xu Tingting , Xu Jinxin , Qu Linbing , Xu Yong , Chen Ling , Liu Jinsong 
Published: September 2017

AbstractSecreted phospholipases A2s (sPLA2s) are involved in various pathological conditions such as rheumatoid arthritis and cardiovascular disease. Many inhibitors were developed and studied in clinical trials, but none have reached the market yet. This failure may be attributed to the lack of subtype selectivity for these inhibitors. Therefore, more structural information for subtype sPLA2 is needed to guide the selective inhibitor development. In this study, the crystal structure of human sPLA2 Group IIE (hGIIE), coupled with mutagenesis experiments, proved that the flexible second calcium binding site and residue Asn21 in hGIIE are essential to its enzymatic activity. Five inhibitor bound hGIIE complex structures revealed the key residues (Asn21 and Gly6) of hGIIE that are responsible for interacting with inhibitors, and illustrated the difference in the inhibitor binding pocket with other sPLA2s. This will facilitate the structure-based design of sPLA2’s selective inhibitors.
Extraction, separation and characterization of endotoxins in water samples using solid phase extraction and capillary electrophoresis-laser induced fluorescence
Authors: Fung Fun Man , Su Min , Feng Hua-tao , Li Sam Fong Yau 
Published: September 2017

AbstractThis study focuses on one of the key environmental threats, endotoxins, also known as lipopolysaccharides (LPS). A capillary electrophoresis method in combination with laser induced fluorescence (LIF) detection was developed for the analysis of endotoxins from 16 different bacterial strains. LPSs were derivatized with the amino-reactive fluorescent dye, fluorescein isothiocyanate (FITC), separated by capillary zone electrophoresis (CZE) under the optimized conditions with the use of 50 mM sodium tetraborate buffer (pH 9.30), and detected by LIF detector. To improve the sensitivity of CZE-LIF detection for the determination of trace amounts of endotoxins and to remove possible interference materials in environmental samples, a solid phase extraction (SPE) pre-concentration technique was applied successfully. The SPE targeted at polysaccharide moieties of LPSs and showed LPS enrichment effects too. CE migration time could also reveal the O-antigen chain lengths of LPSs. This CE method and SPE pretreatment showed linearity at 99.84%, and repeatabilities at 8.44% and 11.0% for endotoxins from E. Coli O55:B5 and E. Coli O26:B6. The limit of detection (LOD) could reach around 5 ng/mL at optimized condition. The method was applied successfully to the determination of LPS levels in tap water and wastewater, and demonstrated sensitive, reproducible and reliable results.