bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genomic and developmental characterisation of a novel bunyavirus infecting the crustacean Carcinus maenas
Authors: Bojko Jamie , Subramaniam Kuttichantran , Waltzek Thomas B. , Stentiford Grant D. , Behringer Donald C. 
Published: September 2019

AbstractCarcinus maenas is in the top 100 globally invasive species and harbours a wide diversity of pathogens, including viruses. We provide a detailed description for a novel bunyavirus (Carcinus maenas Portunibunyavirus 1) infecting C. maenas from its native range in the Faroe Islands. The virus genome is tripartite, including large (L) (6766 bp), medium (M) (3244 bp) and small (S) (1608 bp) negative sense, single-stranded RNA segments. Individual genomic segments are flanked by 4 bp regions of similarity (CCUG). The segments encode an RNA-dependent RNA-polymerase, glycoprotein, non-structural protein with a Zinc-Finger domain and a nucleoprotein. Most show highest identity to the ‘Wenling Crustacean Virus 9’ from an unidentified crustacean host. Phylogenomics of crustacean-infecting bunyaviruses place them across multiple bunyavirus families. We discuss the diversity of crustacean bunyaviruses and provide an overview of how these viruses may affect the health and survival of crustacean hosts, including those inhabiting niches outside of their native range.
Novel Method for Rapid Assessment of Cognitive Impairment Using High-Performance Eye-Tracking Technology
Authors: Oyama Akane , Takeda Shuko , Ito Yuki , Nakajima Tsuneo , Takami Yoichi , Takeya Yasushi , Yamamoto Koichi , Sugimoto Ken , Shimizu Hideo , Shimamura Munehisa , Katayama Taiichi , Rakugi Hiromi , Morishita Ryuichi 
Published: September 2019

AbstractA rapid increase in the number of patients with dementia has emerged as a global health challenge. Accumulating evidence suggests that early diagnosis and timely intervention can delay cognitive decline. The diagnosis of dementia is commonly performed using neuropsychological tests, such as the Mini-Mental State Examination (MMSE), administered by trained examiners. While these traditional neuropsychological tests are valid and reliable, they are neither simple nor sufficiently short as routine screening tools for dementia. Here, we developed a brief cognitive assessment utilizing an eye-tracking technology. The subject views a series of short (178 s) task movies and pictures displayed on a monitor while their gaze points are recorded by the eye-tracking device, and the cognitive scores are determined from the gaze plots data. The cognitive scores were measured by both an eye tracking-based assessment and neuropsychological tests in 80 participants, including 27 cognitively healthy controls (HC), 26 patients with mild cognitive impairment (MCI), and 27 patients with dementia. The eye tracking-based cognitive scores correlated well with the scores from the neuropsychological tests, and they showed a good diagnostic performance in detecting patients with MCI and dementia. Rapid cognitive assessment using eye-tracking technology can enable quantitative scoring and the sensitive detection of cognitive impairment.
Heteroplasmy concordance between mitochondrial DNA and RNA
Authors: Zhang Ruoyu , Nakahira Kiichi , Choi Augustine M. K. , Gu Zhenglong 
Published: September 2019

AbstractMitochondrial DNA (mtDNA) heteroplasmies are associated with various diseases but the transmission of heteroplasmy from mtDNA to mitochondrial RNA (mtRNA) remains unclear. We compared heteroplasmies in mtRNA from 446 human B-lymphoblastoid cell lines to their corresponding mtDNA using deep sequencing data from two independent studies. We observed 2786 heteroplasmies presenting in both DNA and RNA at 1% frequency cutoff. Among them, the frequencies of 2427 (87.1%) heteroplasmies were highly consistent (less than 5% frequency difference) between DNA and RNA. To validate these frequency consistencies, we isolated DNA and RNA simultaneously from GM12282 cell line used in those two sequencing studies, and resequenced its heteroplasmy sites. Interestingly, we also observed the rapid changes of heteroplasmy frequencies during 4 weeks of the cell culture: the frequencies at Day 14 increased by >25% than those at Day 0. However, the heteroplasmy frequencies from the same time point were highly consistent. In summary, our analysis on public data together within vitrostudy indicates that the heteroplasmies in DNA can be transcribed into RNA with high fidelity. Meanwhile, the observed rapid-changing heteroplasmy frequency can potentially disturb cell functions, which could be an overlooked confounding factor in cell line related studies.
Quantitative assessment of myelination patterns in preterm neonates using T2-weighted MRI
Authors: Wang Siying , Ledig Christian , Hajnal Joseph V. , Counsell Serena J. , Schnabel Julia A. , Deprez Maria 
Published: September 2019

AbstractMyelination is considered to be an important developmental process during human brain maturation and closely correlated with gestational age. Quantitative assessment of the myelination status requires dedicated imaging, but the conventional T2-weighted scans routinely acquired during clinical imaging of neonates carry signatures that are thought to be associated with myelination. In this work, we develop a quatitative marker of progressing myelination for assessment preterm neonatal brain maturation based on novel automatic segmentation method for myelin-like signals on T2-weighted magnetic resonance images. Firstly we define a segmentation protocol for myelin-like signals. We then develop an expectation-maximization framework to obtain the automatic segmentations of myelin-like signals with explicit class for partial volume voxels whose locations are configured in relation to the composing pure tissues via second-order Markov random fields. The proposed segmentation achieves high Dice overlaps of 0.83 with manual annotations. The automatic segmentations are then used to track volumes of myelinated tissues in the regions of the central brain structures and brainstem. Finally, we construct a spatio-temporal growth models for myelin-like signals, which allows us to predict gestational age at scan in preterm infants with root mean squared error 1.41 weeks.
Genetic diversity, phylogenetic structure and development of core collections in Melilotus accessions from a Chinese gene bank
Authors: Zhang Hongxiang , Bai Rong , Wu Fan , Guo Wenli , Yan Zhuanzhuan , Yan Qi , Zhang Yufei , Ma Jinxing , Zhang Jiyu 
Published: September 2019

AbstractMelilotus is an important forage legume, with high values as feed and medicine, and widely used as green manure, honey plant, and wildlife habitat enhancer. The genetic diversity, structure and subdivision of this forage crop remain unclear, and plant genetic resources are the basis of biodiversity and ecosystem diversity and have attracted increasing attention. In this study, the whole collection of 573 accessions from the National Gene Bank of Forage Germplasm (NGBFG, China) and 48 accessions from the National Plant Germplasm System (NPGS, USA) in genus Melilotus were measured with respect to five seed characters: seed length, width, width-to-length ratio, circumference and 100-seed weight. Shannon’ genetic diversity index (H’) and phenotypic differentiation (Pst) were calculated to better describe the genetic diversity. The ITS and matK sequences were used to construct phylogenetic trees and study the genetic relationships within genus Melilotu. Based on seed morphology and molecular marker data, we preliminarily developed core collections and the sampling rates of M. albus and M. officinalis were determined to be 15% and 25%, respectively. The results obtained here provide preliminary sorting and supplemental information for the Melilotus collections in NGBFG, China, and establish a reference for further genetic breeding and other related projects.
Omega-3 fatty acids decrease oxidative stress and inflammation in macrophages from patients with small abdominal aortic aneurysm
Authors: Meital Lara T. , Windsor Mark T. , Perissiou Maria , Schulze Karl , Magee Rebecca , Kuballa Anna , Golledge Jonathan , Bailey Tom G. , Askew Christopher D. , Russell Fraser D. 
Published: September 2019

AbstractAbdominal aortic aneurysm (AAA) is associated with inflammation and oxidative stress, the latter of which contributes to activation of macrophages, a prominent cell type in AAA. Omega-3 polyunsaturated fatty acids (n-3 PUFAs) have been reported to limit oxidative stress in animal models of AAA. The aim of this study was to evaluate the effect of the n-3 PUFA docosahexaenoic acid (DHA) on antioxidant defence in macrophages from patients with AAA. Cells were obtained from men with small AAA (diameter 3.0–4.5 cm, 75 ± 6 yr, n = 19) and age- matched male controls (72 ± 5 yr, n = 41) and incubated with DHA for 1 h before exposure to 0.1 µg/mL lipopolysaccharide (LPS) for 24 h. DHA supplementation decreased the concentration of tumour necrosis factor-α (TNF-α; control, 42.1 ± 13.6 to 5.1 ± 2.1 pg/ml, p < 0.01; AAA, 25.2 ± 9.8 to 1.9 ± 0.9 pg/ml, p < 0.01) and interleukin-6 (IL-6; control, 44.9 ± 7.7 to 5.9 ± 2.0 pg/ml, p < 0.001; AAA, 24.3 ± 5.2 to 0.5 ± 0.3 pg/ml, p < 0.001) in macrophage supernatants. DHA increased glutathione peroxidase activity (control, 3.2 ± 0.3 to 4.1 ± 0.2 nmol/min/ml/μg protein, p = 0.004; AAA, 2.3 ± 0.5 to 3.4 ± 0.5 nmol/min/ml/μg protein, p = 0.008) and heme oxygenase-1 mRNA expression (control, 1.5-fold increase, p < 0.001). The improvements in macrophage oxidative stress status serve as a stimulus for further investigation of DHA in patients with AAA.
Highly c-axis orientated superconducting core and large critical current density in Ba0.6Na0.4Fe2As2 powder-in-tube tape
Authors: Imai S. , Itou S. , Ishida S. , Tsuchiya Y. , Iyo A. , Eisaki H. , Matsuzaki K. , Nishio T. , Yoshida Y. 
Published: September 2019

AbstractImprovement of the critical current density (Jc) of superconducting wires/tapes is one of the key issues in the field of superconductivity applications. Here we report the fabrication of a silver-sheathed Ba1−xNaxFe2As2 (BaNa-122) superconducting tape by using a powder-in-tube technique and its superconducting properties, in particular transport Jc, as well as the tape-core texture. The optimally-doped BaNa-122 tape with Na concentration x = 0.4 exhibits the superconducting critical temperature (Tc) of 33.7 K and high transport Jc of 4 × 104 A/cm2 at 4.2 K in a magnetic field of 4 T. Patterns of x-ray diffraction for the superconducting core show that the degree of c-axis orientation is significantly enhanced through the tape fabrication process. The tendency of c-axis orientation is advantageous for achieving higher Jc, suggesting the high potential of BaNa-122 for superconducting wire/tape applications.
Aberrant Regulation of RAD51 Promotes Resistance of Neoadjuvant Endocrine Therapy in ER-positive Breast Cancer
Authors: Jia Yan , Song Yueshuai , Dong Guolei , Hao Chunfang , Zhao Weipeng , Li Shufen , Tong Zhongsheng 
Published: September 2019

AbstractBreast cancer is one of the most common malignant cancers affecting females. Estrogen receptor (ER)-positive breast cancer is responsive to endocrine therapy. Although current therapies offer favorable prospects for improving survival, the development of resistance remains a severe problem. In this study, we explored the resistance mechanisms of ER-positive breast cancer to neoadjuvant endocrine therapy. Microarray data of GSE87411 contained 109 pairs of samples from Z1031 trial, including untreated samples and post-treated samples with neoadjuvant aromatase inhibitor (AI) therapy. The differentially expressed genes (DEGs) were obtained from two different comparisons: untreated samples versus post-treated samples with AIs, and post-treated samples sensitive versus resistant to AIs. Multiple bioinformatic methods were applied to evaluate biological function, protein-protein network and potential binding between target protein and aromatase inhibitor. Then, regulation of gene expression, DNA methylation and clinicopathological factors of breast cancer were further analyzed with TCGA data. From GSE87411 dataset, 30 overlapped DEGs were identified. Cell division was found to be the main function of overlapped DEGs by functional enrichment and gene ontology (GO) analysis. RAD51 recombinase (RAD51), a key protein of homologous recombination, was detected to interact with BReast CAncer genes 2 (BRCA2). Moreover, according to the docking simulation, RAD51 might potentially bind to AIs. Overexpressed RAD51 was associated with hypermethylation of BRCA2, resistance to AIs and poor overall survival of patients with ER-positive breast cancer. Furthermore, RAD51 was found to be a better indicator than MKI67 for predicting resistance in neoadjuvant setting. The results indicated that methylation of BRCA2 led to incomplete suppression on RAD51, which caused an increased expression of RAD51, subsequently AI-resistance and poor prognosis in ER-positive breast cancer. RAD51 could be a new candidate used as a predicative marker and therapeutic target in neoadjuvant endocrine treatment.
Generation of Broadband High-Purity Dual-Mode OAM Beams Using A Four-Feed Patch Antenna: Theory and Implementation
Authors: Huang Yuhan , Li Xiuping , Li Qingwen , Qi Zihang , Zhu Hua , Akram Zaid , Jiang Xing 
Published: September 2019

AbstractA broadband four-feed circular patch antenna is demonstrated to generate high-purity dual-mode vortex beams carrying orbital angular momentum (OAM) for the first time. The electric field formula of the circularly polarized (CP) component is derived for analyzing radiation characteristics of different OAM modes, such as the CP property, phase and amplitude distributions. Theoretical calculation and numerical simulation results show that the four-feed patch antenna operating in the TMn1 mode can generate ±n OAM waves. A prototype of a four-feed circular TM21-mode patch antenna is fabricated and measured to verify the effectiveness of the theoretical analysis. The proposed antenna consists of a four-feed patch with an air-coupled parasitic patch and a four-way phase-shifting feeding network. Experimental results show that the proposed antenna can generate a left-hand CP OAM with mode l = +2 and a right-hand CP OAM with mode l = −2. The OAM beams are generated in a wide band from 5.50 to 6.50 GHz with a mode purity over 90%. The proposed method is very suitable for the generation of wideband, dual-mode and high-purity OAM beams in the microwave and millimeter wave bands.
Long-term stabilization of hydrogen peroxide by poly(vinyl alcohol) on paper-based analytical devices
Authors: Boonpoempoon Tuchpongpuch , Wonsawat Wanida , Kaneta Takashi 
Published: September 2019

AbstractStabilizing reagents that can be deposited onto paper is an important issue for researchers who depend on paper-based analytical devices (PADs), because long-term stability of the devices is essential in point-of-care testing. Here, we found that poly(vinyl alcohol) (PVA) would stabilize hydrogen peroxide placed on a paper substrate following exposure to air. Horseradish peroxidase was employed as a sample in colorimetric measurements of PADs after hydrogen peroxide and 3,3′,5,5′-tetramethylbenzidine were deposited as substrates in an enzymatic reaction. The addition of PVA to hydrogen peroxide significantly suppressed its degradation. Concentrations of PVA that ranged from 0.5 to 2%, increased the duration of the stability of hydrogen peroxide, and the results for a PVA concentration of 1% approximated those of 2% PVA. Storage of the PADs at 4 °C in a refrigerator extended the stability of the hydrogen peroxide containing 2% PVA by as much as 30 days. The stability of hydrogen peroxide without PVA was degraded after one day under room temperature.
Generative adversarial network based on chaotic time series
Authors: Naruse Makoto , Matsubara Takashi , Chauvet Nicolas , Kanno Kazutaka , Yang Tianyu , Uchida Atsushi 
Published: September 2019

AbstractGenerative adversarial networks (GANs) are becoming increasingly important in the artificial construction of natural images and related functionalities, wherein two types of networks called generators and discriminators evolve through adversarial mechanisms. Using deep convolutional neural networks and related techniques, high-resolution and highly realistic scenes, human faces, etc. have been generated. GANs generally require large amounts of genuine training data sets, as well as vast amounts of pseudorandom numbers. In this study, we utilized chaotic time series generated experimentally by semiconductor lasers for the latent variables of a GAN, whereby the inherent nature of chaos could be reflected or transformed into the generated output data. We show that the similarity in proximity, which describes the robustness of the generated images with respect to minute changes in the input latent variables, is enhanced, while the versatility overall is not severely degraded. Furthermore, we demonstrate that the surrogate chaos time series eliminates the signature of the generated images that is originally observed corresponding to the negative autocorrelation inherent in the chaos sequence. We also address the effects of utilizing chaotic time series to retrieve images from the trained generator.
Endemic diversity and distribution of the Iranian vascular flora across phytogeographical regions, biodiversity hotspots and areas of endemism
Authors: Noroozi Jalil , Talebi Amir , Doostmohammadi Moslem , Manafzadeh Sara , Asgarpour Zahra , Schneeweiss Gerald M. 
Published: September 2019

AbstractEndemism is one of the most important concepts in biogeography and is of high relevance for conservation biology. Nevertheless, our understanding of patterns of endemism is still limited in many regions of high biodiversity. This is also the case for Iran, which is rich in biodiversity and endemism, but there is no up-to-date account of diversity and distribution of its endemic species. In this study, a comprehensive list of all endemic vascular plant species of Iran, their taxonomic composition and their geographical distribution are presented. To this end, a total of 2,597 (sub)endemic vascular plant species of Iran were documented and their distribution in three phytogeographical regions, two biodiversity hotspots and five areas of endemism were analysed. The Irano-Turanian phytogeographical region harbours 88% of the Iranian endemics, the majority of which are restricted to the Irano-Anatolian biodiversity hotspot (84%). Nearly three quarters of the endemic species are restricted to mountain ranges. The rate of endemism increases along an elevational gradient, causing the alpine zone to harbour a disproportionally high number of endemics. With increasing pastoralism, urbanization, road construction and ongoing climate change, the risk of biodiversity loss in the Iranian mountains is very high, and these habitats need to be more effectively protected.
Adipose cell size changes are associated with a drastic actin remodeling
Authors: Hansson Björn , Morén Björn , Fryklund Claes , Vliex Lars , Wasserstrom Sebastian , Albinsson Sebastian , Berger Karin , Stenkula Karin G. 
Published: September 2019

AbstractAdipose tissue plays a major role in regulating whole-body insulin sensitivity and energy metabolism. To accommodate surplus energy, the tissue rapidly expands by increasing adipose cell size (hypertrophy) and cell number (hyperplasia). Previous studies have shown that enlarged, hypertrophic adipocytes are less responsive to insulin, and that adipocyte size could serve as a predictor for the development of type 2 diabetes. In the present study, we demonstrate that changes in adipocyte size correlate with a drastic remodeling of the actin cytoskeleton. Expansion of primary adipocytes following 2 weeks of high-fat diet (HFD)-feeding in C57BL6/J mice was associated with a drastic increase in filamentous (F)-actin as assessed by fluorescence microscopy, increased Rho-kinase activity, and changed expression of actin-regulating proteins, favoring actin polymerization. At the same time, increased cell size was associated with impaired insulin response, while the interaction between the cytoskeletal scaffolding protein IQGAP1 and insulin receptor substrate (IRS)-1 remained intact. Reversed feeding from HFD to chow restored cell size, insulin response, expression of actin-regulatory proteins and decreased the amount of F-actin filaments. Together, we report a drastic cytoskeletal remodeling during adipocyte expansion, a process which could contribute to deteriorating adipocyte function.
G-CSF and GM-CSF Modify Neutrophil Functions at Concentrations found in Cystic Fibrosis
Authors: Castellani Stefano , D’Oria Susanna , Diana Anna , Polizzi Angela Maria , Di Gioia Sante , Mariggiò Maria Addolorata , Guerra Lorenzo , Favia Maria , Vinella Angela , Leonetti Giuseppina , De Venuto Domenica , Gallo Crescenzio , Montemurro Pasqualina , Conese Massimo 
Published: September 2019

AbstractThe role of colony stimulating factors (CSFs) in cystic fibrosis (CF) circulating neutrophils has not been thoroughly evaluated, considering that the neutrophil burden of lung inflammation in these subjects is very high. The aim of this study was to assess granulocyte-CSF (G-CSF) and granulocyte-macrophage-CSF (GM-CSF) levels in CF patients in various clinical conditions and how these cytokines impact on activation and priming of neutrophils. G-CSF and GM-CSF levels were measured in sputum and serum samples of stable CF patients (n = 21) and in CF patients with acute exacerbation before and after a course of antibiotic therapy (n = 19). CSFs were tested on non CF neutrophils to investigate their effects on reactive oxygen species (ROS) production, degranulation (CD66b, elastase, lactoferrin, MMP-9), and chemotaxis. At very low concentrations found in CF patients (0.005–0.1 ng/ml), both cytokines inhibited ROS production, while higher concentrations (1–5 ng/ml) exerted a stimulatory effect. While either CSF induced elastase and MMP-9 secretion, lactoferrin levels were increased only by G-CSF. Chemotaxis was inhibited by GM-CSF, but was increased by G-CSF. However, when present together at low concentrations, CSFs increased basal and fMLP-stimulated ROS production and chemotaxis. These results suggest the CSF levels that circulating neutrophils face before extravasating into the lungs of CF patients may enhance their function contributing to the airway damage.
Multiscale analysis of hydrogen-induced softening in f.c.c. nickel single crystals oriented for multiple-slips: elastic screening effect
Authors: Ghermaoui I. M. A. , Oudriss A. , Metsue A. , Milet R. , Madani K. , Feaugas X. 
Published: September 2019

AbstractHydrogen-deformation interactions and their role in plasticity are well accepted as key features in understanding hydrogen embrittlement. In order to understand the nature of the hydrogen-induced softening process in f.c.c. metals, a substantial effort was made in this study to determine the effect of hydrogen on the tensile stress-strain behavior of nickel single crystal oriented for multiple-slips. It was clearly established that the hydrogen softening process was the result of a shielding of the elastic interactions at different scales. Hydrogen-induced softening was then formalized by a screening factor S of 0.8 ± 0.05 for 7 wppm of hydrogen, which can be incorporated into standard dislocation theory processes. The amplitude of softening suggests that the shielding process is mainly responsible for the stress softening through the formation of vacancy clusters, rather than a direct impact of hydrogen. This effect is expected to be of major importance when revisiting the impact of hydrogen on the processes causing damage to the structural alloys used in engineering.