bluuebunny/crossref_metadata_2025_split huggingface dataset:
Active-Tuning and Polarization-Independent Absorber and Sensor in the Infrared Region Based on the Phase Change Material of Ge2Sb2Te5 (GST)
Authors: Guo Zhongyi , Yang Xiao , Shen Fei , Zhou Qingfeng , Gao Jun , Guo Kai 
Published: August 2018

AbstractPhase-change materials (PCMs), possessing thermo-optic and thermo-electric properties, have constantly enabled the rewritable optical data storage and the commercialized phase-change memory devices. In particular, Ge2Sb2Te5 (GST) has been considered for configurable photonics applications, such as active dielectric metasurface. In this paper, we report an active absorber with metal-insulator-metal (MIM) scheme with GST in the infrared region. The absorber consists of Al disk and reflective Al film with a GST spacer layer. Extraordinary absorption with peaks of more than 90% can be achieved over a broad bandwidth, attributing to highly confined gap surface plasmon resonance. In addition, the absorption can be tuned via adjusting the proportion of GST crystallization, which is a unique advantage to design active device. Meanwhile, the absorption is polarization-independent owing to its structural symmetry. Furthermore, we introduce the designed absorber to the application of sensing. This nearly perfect absorbing strategy offers great potential in sensing applications due to its flexibility and polarization-independence.
Dynamics of biomass and carbon sequestration across a chronosequence of Caragana intermedia plantations on alpine sandy land
Authors: Li Qingxue , Jia Zhiqing , Feng Lili , He Lingxianzi , Yang Kaiyue 
Published: August 2018

AbstractConsidering the variations in carbon concentrations among different plant components can significantly improve carbon storage estimates. The aim of this study was to estimate the biomass and carbon storage and sequestration in Caragana intermedia Kuang et H. C. Fu plantations for six different ages. The biomass and carbon sequestration in shrub biomass were quantified using a destructive method that involved analysing the carbon concentrations in the leaves, branches, stem bark, stem wood, roots > 5 mm, 2 mm < roots ≤ 5 mm, and roots ≤ 2 mm. The biomass and biomass carbon density of the C. intermedia plantations increased with the age of the stands. The biomass carbon density of the woody components was at its maximum in the 30-year-old plantation (14.27 ± 2.71 t·ha−1), indicating that C. intermedia plantations in alpine sandy land are an important carbon pool. The carbon accumulation rate of the woody components was higher during the early stages of plantation development. The carbon concentrations differed significantly among the components but changed only slightly with the stand age. The weighted mean carbon concentration of the woody components, which was found to be 44%, must be considered when estimating the long-term carbon pools in C. intermedia plantations.
Circulating Fibroblast Growth Factor 21 is Associated with Subsequent Renal Injury Events in Patients Undergoing Coronary Angiography
Authors: Wu Cheng-Hsueh , Chou Ruey-Hsing , Kuo Chin-Sung , Huang Po-Hsun , Chang Chun-Chin , Leu Hsin-Bang , Huang Chin-Chou , Chen Jaw-Wen , Lin Shing-Jong 
Published: August 2018

AbstractFibroblast growth factor 21 (FGF21) is a regulator of glucose homeostasis, and is suggested to have protective effect on diabetic nephropathy. Its impact on non-diabetic kidney disease is unclear. To investigate the impact of FGF21 on contrast-induced nephropathy (CIN), 531 subjects underwent elective coronary angiography (CAG) were enrolled. Baseline creatinine and FGF21 were obtained before CAG. Patients were grouped into tertiles according to their FGF21 concentration. Creatinine was obtained 48 hours after CAG, and every 6 months in the follow-up period. Renal function decline was defined as >30% reduction of eGFR from baseline. All subjects were followed up till December 2016, or till the occurrence of major adverse cardiovascular events (MACE). Patients with higher FGF21 concentration were older, had higher incidence of hypertension, diabetes, chronic kidney disease, and heart failure. Thirty-four cases of CIN and 111 cases of renal function decline were identified during mean follow-up of 2.3 ± 1.3 years. Circulating FGF21 level was independently associated with CIN (aOR: 4.66, 95% CI: 1.29–16.86, p = 0.019) and renal function decline (aHR: 7.98, 95% CI: 4.07–15.66, p < 0.001) whether diabetes was present or not. In conclusion, circulating FGF21 level is independently associated with the incidence of CIN and subsequent kidney injury in patients undergoing CAG.
α-Synuclein interacts directly but reversibly with psychosine: implications for α-synucleinopathies
Authors: Abdelkarim Hazem , Marshall Michael S. , Scesa Giuseppe , Smith Rachael A. , Rue Emily , Marshall Jeffrey , Elackattu Vince , Stoskute Monika , Issa Yazan , Santos Marta , Nguyen Duc , Hauck Zane , van Breemen Richard , Celej Maria S. , Gaponenko Vadim , Bongarzone Ernesto R. 
Published: August 2018

AbstractAggregation of α-synuclein, the hallmark of α-synucleinopathies such as Parkinson’s disease, occurs in various glycosphingolipidoses. Although α-synuclein aggregation correlates with deficiencies in the lysosomal degradation of glycosphingolipids (GSL), the mechanism(s) involved in this aggregation remains unclear. We previously described the aggregation of α-synuclein in Krabbe’s disease (KD), a neurodegenerative glycosphingolipidosis caused by lysosomal deficiency of galactosyl-ceramidase (GALC) and the accumulation of the GSL psychosine. Here, we used a multi-pronged approach including genetic, biophysical and biochemical techniques to determine the pathogenic contribution, reversibility, and molecular mechanism of aggregation of α-synuclein in KD. While genetic knock-out of α-synuclein reduces, but does not completely prevent, neurological signs in a mouse model of KD, genetic correction of GALC deficiency completely prevents α-synuclein aggregation. We show that psychosine forms hydrophilic clusters and binds the C-terminus of α-synuclein through its amino group and sugar moiety, suggesting that psychosine promotes an open/aggregation-prone conformation of α-synuclein. Dopamine and carbidopa reverse the structural changes of psychosine by mediating a closed/aggregation-resistant conformation of α-synuclein. Our results underscore the therapeutic potential of lysosomal correction and small molecules to reduce neuronal burden in α-synucleinopathies, and provide a mechanistic understanding of α-synuclein aggregation in glycosphingolipidoses.
The heritable natural competency trait of Burkholderia pseudomallei in other Burkholderia species through comE and crp
Authors: Heacock-Kang Yun , McMillan Ian A. , Zarzycki-Siek Jan , Sun Zhenxin , Bluhm Andrew P. , Cabanas Darlene , Hoang Tung T. 
Published: August 2018

AbstractNatural competency requires uptake of exogenous DNA from the environment and the integration of that DNA into recipient bacteria can be used for DNA-repair or genetic diversification. The Burkholderia genus is unique in that only some of the species and strains are naturally competent. We identified and characterized two genes, comE and crp, from naturally competent B. pseudomallei 1026b that play a role in DNA uptake and catabolism. Single-copies of rhamnose-inducible comE and crp genes were integrated into a Tn7 attachment-site in non-naturally competent Burkholderia including pathogens B. pseudomallei K96243, B. cenocepacia K56-2, and B. mallei ATCC23344. Strains expressing comE or crp were assayed for their ability to uptake and catabolize DNA. ComE and Crp allowed non-naturally competent Burkholderia species to catabolize DNA, uptake exogenous gfp DNA and express GFP. Furthermore, we used synthetic comE and crp to expand the utility of the λ-red recombineering system for genetic manipulation of non-competent Burkholderia species. A newly constructed vector, pKaKa4, was used to mutate the aspartate semialdehyde dehydrogenase (asd) gene in four B. mallei strains, leading to the complete attenuation of these tier-1 select-agents. These strains have been excluded from select-agent regulations and will be of great interest to the field.
PPInS: a repository of protein-protein interaction sitesbase
Authors: Kumar Vicky , Mahato Suchismita , Munshi Anjana , Kulharia Mahesh 
Published: August 2018

AbstractProtein-ProteinInteractionSitesbase (PPInS), a high-performance database of protein-protein interacting interfaces, is presented. The atomic level information of the molecular interaction happening amongst various protein chains in protein-protein complexes (as reported in the Protein Data Bank [PDB]) together with their evolutionary information in Structural Classification of Proteins (SCOPe release 2.06), is made available in PPInS. Total 32468 PDB files representing X-ray crystallized multimeric protein-protein complexes with structural resolution better than 2.5 Å had been shortlisted to demarcate the protein-protein interaction interfaces (PPIIs). A total of 111857 PPIIs with ~32.24 million atomic contact pairs (ACPs) were generated and made available on a web server for on-site analysis and downloading purpose. All these PPIIs and protein-protein interacting patches (PPIPs) involved in them, were also analyzed in terms of a number of residues contributing in patch formation, their hydrophobic nature, amount of surface area they contributed in binding, and their homo and heterodimeric nature, to describe the diversity of information covered in PPInS. It was observed that 42.37% of total PPIPs were made up of 6–20 interacting residues, 53.08% PPIPs had interface area ≤1000 Å2in PPII formation, 82.64% PPIPs were reported with hydrophobicity score of ≤10, and 73.26% PPIPs were homologous to each other with the sequence similarity score ranging from 75–100%. A subset “Non-Redundant Database (NRDB)” of the PPInS containing 2265 PPIIs, with over 1.8 million ACPs corresponding to the 1931 protein-protein complexes (PDBs), was also designed by removing structural redundancies at the level of SCOP superfamily (SCOP release 1.75). The web interface of the PPInS (http://www.cup.edu.in:99/ppins/home.php) offers an easy-to-navigate, intuitive and user-friendly environment, and can be accessed by providing PDB ID, SCOP superfamily ID, and protein sequence.
DNA-launched RNA replicon vaccines induce potent anti-Ebolavirus immune responses that can be further improved by a recombinant MVA boost
Authors: Öhlund Pontus , García-Arriaza Juan , Zusinaite Eva , Szurgot Inga , Männik Andres , Kraus Annette , Ustav Mart , Merits Andres , Esteban Mariano , Liljeström Peter , Ljungberg Karl 
Published: August 2018

AbstractThere are currently no licensed therapeutic treatment or preventive vaccines against Ebolavirus disease, and the 2013–2016 West African outbreak of Ebolavirus disease spread rapidly and resulted in almost 30,000 cases and more than 11,000 deaths. However, the devastating outbreak has spurred the development of novel Ebolavirus vaccines. Here, we demonstrate that alphavirus-based DNA-launched self-replicating RNA replicon vaccines (DREP) encoding either the glycoprotein (GP) gene or co-expressing the GP and VP40 genes of Sudan or Zaire Ebolavirus are immunogenic in mice inducing both binding and neutralizing antibodies as well as CD8 T cell responses. In addition, antibodies were cross-reactive against another Ebolavirus, although the specificity was higher for the vaccination antigen. DREP vaccines were more immunogenic than recombinant MVA vaccines expressing the same Ebolavirus antigens. However, a DREP prime followed by an MVA boost immunization regimen improved vaccine immunogenicity as compared to DREP and MVA homologous prime-boost immunizations. Moreover, we show that a bivalent approach targeting both Sudan and Zaire Ebolavirus can be employed without significant loss of immunity. This opens for further investigation of a pan-Ebolavirus or even a pan-filovirus vaccine.
Resonant soft X-ray scattering reveals cellulose microfibril spacing in plant primary cell walls
Authors: Ye Dan , Kiemle Sarah N. , Rongpipi Sintu , Wang Xuan , Wang Cheng , Cosgrove Daniel J. , Gomez Esther W. , Gomez Enrique D. 
Published: August 2018

AbstractCellulose microfibrils are crucial for many of the remarkable mechanical properties of primary cell walls. Nevertheless, many structural features of cellulose microfibril organization in cell walls are not yet fully described. Microscopy techniques provide direct visualization of cell wall organization, and quantification of some aspects of wall microstructure is possible through image processing. Complementary to microscopy techniques, scattering yields structural information in reciprocal space over large sample areas. Using the onion epidermal wall as a model system, we introduce resonant soft X-ray scattering (RSoXS) to directly quantify the average interfibril spacing. Tuning the X-ray energy to the calcium L-edge enhances the contrast between cellulose and pectin due to the localization of calcium ions to homogalacturonan in the pectin matrix. As a consequence, RSoXS profiles reveal an average center-to-center distance between cellulose microfibrils or microfibril bundles of about 20 nm.
Machine-learned epidemiology: real-time detection of foodborne illness at scale
Authors: Sadilek Adam , Caty Stephanie , DiPrete Lauren , Mansour Raed , Schenk Tom , Bergtholdt Mark , Jha Ashish , Ramaswami Prem , Gabrilovich Evgeniy 
Published: August 2018

AbstractMachine learning has become an increasingly powerful tool for solving complex problems, and its application in public health has been underutilized. The objective of this study is to test the efficacy of a machine-learned model of foodborne illness detection in a real-world setting. To this end, we built FINDER, a machine-learned model for real-time detection of foodborne illness using anonymous and aggregated web search and location data. We computed the fraction of people who visited a particular restaurant and later searched for terms indicative of food poisoning to identify potentially unsafe restaurants. We used this information to focus restaurant inspections in two cities and demonstrated that FINDER improves the accuracy of health inspections; restaurants identified by FINDER are 3.1 times as likely to be deemed unsafe during the inspection as restaurants identified by existing methods. Additionally, FINDER enables us to ascertain previously intractable epidemiological information, for example, in 38% of cases the restaurant potentially causing food poisoning was not the last one visited, which may explain the lower precision of complaint-based inspections. We found that FINDER is able to reliably identify restaurants that have an active lapse in food safety, allowing for implementation of corrective actions that would prevent the potential spread of foodborne illness.
Metal dyshomeostasis based biomarkers of lung cancer using human biofluids
Authors: Callejón-Leblic Belén , Gómez-Ariza José Luis , Pereira-Vega Antonio , García-Barrera Tamara 
Published: August 2018

Abstract
Lung cancer (LC) is one of the most common causes of cancer-related deaths in the world and it is well known that trace elements play important roles in the carcinogenic process activating and inhibiting enzymatic reactions and metalloproteins, in which they usually participate as cofactors. A cross-sectional study was conducted on 48 lung cancer patients and 39 controls (56 men and 31 women), aged 44–76 years between March 2011 and June 2012. Eleven elements have been included in the study: V, Cr, Mn, Fe, Co, Cu, Zn, Se, Mo, Cd, and Pb, some of them considered toxic (V, Cd, Cr and Pb), while others are essential (Co, Mo, Se, Fe and Zn), and they have been analyzed by ICP-QQQ-MS in serum, urine and for the first time in bronchoalveolar lavage fluid (BALF). In order to understand the involvement of metals in this process, an analytical metallomic approach based on non-denaturing precipitation of proteins (NDPP) has been optimized for the fractionation of high molecular mass (HMM) and low molecular mass (LMM) metal species, in order to distinguish between metal species that affect the biological activity and toxicological potential of the elements. In this work, the NDPP followed by the analysis of metals by ICP-QQQ-MS has been applied for the first time to serum, urine and BALF samples from lung cancer patients and controls in order to get metal-size molecule profiles (MSMP), which can be used as metal-based biomarkers of altered metabolic processes such as oxidative stress and homeostasis. In this sense, we have demonstrated that several metals are good biomarkers when they are related to labile complexes, complexed with low molecular mass ligands, or in the form of metalloproteins (i.e. V and Cr in HMM and Cu in LMM), which has been described for the first time. On the other hand, metal dyshomeostasis biomarkers are proposed using metal ratios and correlations. Finally, the ratios between elements were shown to be important biomarkers for lung cancer in serum (V/Mn, V/Pb, V/Zn, Cr/Pb), urine (Cr/Cd, Mn/Cd, V/Cd, Co/Cd, Cd/Pb) and BALF (V/Cu), which reflects the dyshomeostasis of metals in lung cancer. In this sense, several metals are correlated to others suggesting also the existence of an interconnected homeostasis in lung cancer.
Distributional Cues to Language Learning in Children With Intellectual Disabilities
Authors: Kover Sara T. 
Published: August 2018

Purpose

In typical development,
distributional cues
—patterns in input—are related to language acquisition processes. Statistical and implicit learning refer to the utilization of such cues. In children with intellectual disability, much less is known about the extent to which distributional cues are harnessed in mechanisms of language learning.

Method
This tutorial presents what is known about the process of language learning in children with language impairments associated with different sources of intellectual disability: Williams syndrome, autism spectrum disorder, Down syndrome, and fragile X syndrome.

Results
A broad view is taken on distributional cues relevant to language learning, including statistical learning (e.g., transitional probabilities) and other patterns that support lexical acquisition (e.g., sensitivities to sound patterns, cross-situational word learning) or relate to syntactic development (e.g., nonadjacent dependencies).

Conclusions
Critical gaps in the literature are highlighted. Research in this area is especially limited for Down syndrome and fragile X syndrome. Future directions for taking learning theories into account in interventions for children with intellectual disability are discussed, with a focus on the importance of language input.
Learning Without Trying: The Clinical Relevance of Statistical Learning
Authors: Plante Elena , Gómez Rebecca L. 
Published: August 2018

PurposeStatistical learning research seeks to identify the means by which learners, with little perceived effort, acquire the complexities of language. In the past 50 years, numerous studies have uncovered powerful learning mechanisms that allow for learning within minutes of exposure to novel language input.MethodWe consider the value of information from statistical learning studies that show potential for making treatment of language disorders faster and more effective.ResultsAvailable studies include experimental research that demonstrates the conditions under which rapid learning is possible, research showing that these findings apply to individuals with disorders, and translational work that has applied learning principles in treatment and educational contexts. In addition, recent research on memory formation has implications for treatment of language deficits.ConclusionThe statistical learning literature offers principles for learning that can improve clinical outcomes for children with language impairment. There is potential for further applications of this basic research that is yet unexplored.
Cosmic dance in the Shapley Concentration Core
Authors: Di Gennaro G. , Venturi T. , Dallacasa D. , Giacintucci S. , Merluzzi P. , Busarello G. , Mercurio A. , Bardelli S. , Gastaldello F. , Grado A. , Haines C. P. , Limatola L. , Rossetti M. 
Published: August 2018

Context. The Shapley Concentration (⟨z⟩ ≈ 0.048) covers several degrees in the southern hemisphere, and includes galaxy clusters in advanced evolutionary stages, groups of clusters in the very early stages of merger, fairly massive clusters with ongoing accretion activity, and smaller groups located in filaments in the regions between the main clusters.
Aims. With the goal to investigate the role of cluster mergers and accretion on the radio galaxy population, we performed a multi-wavelength study of the brightest cluster galaxies (BCGs) and of the galaxies showing extended radio emission in the cluster complexes of Abell 3528 and Abell 3558. In total, our study is based on a sample of 12 galaxies.
Methods. We observed the clusters with the Giant Metrewave Radio Telescope (GMRT) at 235, 325, and 610 MHz, and with the Very Large Array (VLA) at 8.46 GHz. We complemented our study with the TIFR GMRT Sky Survey (TGSS) at 150 MHz, the Sydney University Molonglo Sky Survey (SUMSS) at 843 MHz, and the Australia Telescope Compact array (ATCA) at 1380, 1400, 2380, and 4790 MHz data. Finally, optical imaging with the VLT Survey Telescope (VST) is also available for the host galaxies as well as the mid-infrared coverage with the Wide-Field Infrared Survey Explorer (WISE).
Results. We found significant differences in the properties of the radio emission of the BCGs in the two cluster complexes. The BCGs in the A 3528 complex and in A 3556, which are relaxed cool-core objects, are powerful active radio galaxies. They also present hints of restarted activity. On the contrary, the BCGs in A 3558 and A 3562, which are well-known merging systems, are very faint, or quiet, in the radio band. The optical and infrared properties of the galaxies, on the other hand, are fairly similar in the two complexes, showing all passive red galaxies.
Conclusions. Our study shows remarkable differences in the radio properties of the BGCs, which we relate to the different dynamical state of the host cluster. On the contrary, the lack of changes between such different environments in the optical band suggests that the dynamical state of galaxy clusters does not affect the optical counterparts of the radio galaxies, at least over the lifetime of the radio emission.
Multiplicity among solar-type stars
Authors: Halbwachs J.-L. , Mayor M. , Udry S. 
Published: August 2018

Context. The statistical properties of binary stars are clues for understanding their formation process. A radial velocity survey was carried on amongst nearby G-type stars and the results were published in 1991.
Aims. The survey of radial velocity measurements was extended towards K-type stars.
Methods. A sample of 261 K-type stars was observed with the spectrovelocimeter CORAVEL (COrrelation RAdial VELocities). Those stars with a variable radial velocity were detected on the basis of the P(Χ2) test. The orbital elements of the spectroscopic binaries were then derived.
Results. The statistical properties of binary stars were derived from these observations and published in 2003. We present the catalogue of the radial velocity measurements obtained with CORAVEL for all the K stars of the survey and the orbital elements derived for 34 spectroscopic systems. In addition, the catalogue contains eight G-type spectroscopic binaries that have received additional measurements since 1991 and for which the orbital elements are revised or derived for the first time.