bluuebunny/crossref_metadata_2025_split huggingface dataset:
The international staging system improves the IPI risk stratification in patients with diffuse large B-cell lymphoma treated with R-CHOP
Authors: Wei Xiaolei , Hao Xiaoxiao , Zhou Lizhi , Wei Qi , Zhang Yuankun , Huang Weimin , Song Jialin , Feng Ru , Wei Yongqiang 
Published: October 2017

AbstractThe international staging system (ISS), based on serum beta-2 microglobulin and albumin, is used to predict survival in multiple myeloma, but its prognostic significance in diffuse large B-cell lymphoma (DLBCL) remains unknown. Herein, we retrospectively analyzed 215 de novo DLBCL patients. According to ISS, there were 90 of 215 (41.9%) patients in stage I, 98 of 215 (45.6%) in stage II and 27 of 215 (12.6%) in stage III group. Patients with ISS stage II/III showed shorter overall survival (OS) and event free survival (EFS) than those with stage I treated with R-CHOP (p = 0.012 and p = 0.043, respectively), but not those treated with CHOP regimen (p > 0.05). Multivariable analysis revealed that ISS, independent of IPI, indicated different survival in both OS (HR, 5.690; 95% CI, 1.270–25.495, p = 0.023) and EFS (HR, 2.116; 95% CI, 1.005–4.455, p = 0.049) in DLBCL patients treated with R-CHOP. ISS could identify patients with better outcome in intermediate-high/high IPI risk patients (p < 0.05). Our data suggests that advanced ISS stage is associated with inferior outcome in DLBCL patients treated with R-CHOP. ISS could identify a subgroup of DLBCL patients with superior outcome from high IPI risk patients, which may help to avoid intensive therapy.
Electron transfer pathways in a light, oxygen, voltage (LOV) protein devoid of the photoactive cysteine
Authors: Kopka Benita , Magerl Kathrin , Savitsky Anton , Davari Mehdi D. , Röllen Katrin , Bocola Marco , Dick Bernhard , Schwaneberg Ulrich , Jaeger Karl-Erich , Krauss Ulrich 
Published: October 2017

AbstractBlue-light absorption by the flavin chromophore in light, oxygen, voltage (LOV) photoreceptors triggers photochemical reactions that lead to the formation of a flavin-cysteine adduct. While it has long been assumed that adduct formation is essential for signaling, it was recently shown that LOV photoreceptor variants devoid of the photoactive cysteine can elicit a functional response and that flavin photoreduction to the neutral semiquinone radical is sufficient for signal transduction. Currently, the mechanistic basis of the underlying electron- (eT) and proton-transfer (pT) reactions is not well understood. We here reengineered pT into the naturally not photoreducible iLOV protein, a fluorescent reporter protein derived from theArabidopsis thalianaphototropin-2 LOV2 domain. A single amino-acid substitution (Q489D) enabled efficient photoreduction, suggesting that an eT pathway is naturally present in the protein. By using a combination of site-directed mutagenesis, steady-state UV/Vis, transient absorption and electron paramagnetic resonance spectroscopy, we investigate the underlying eT and pT reactions. Our study provides strong evidence that several Tyr and Trp residues, highly conserved in all LOV proteins, constitute the eT pathway for flavin photoreduction, suggesting that the propensity for photoreduction is evolutionary imprinted in all LOV domains, while efficient pT is needed to stabilize the neutral semiquinone radical.
Sedum alfredii SaNramp6 Metal Transporter Contributes to Cadmium Accumulation in Transgenic Arabidopsis thaliana
Authors: Chen Shuangshuang , Han Xiaojiao , Fang Jie , Lu Zhuchou , Qiu Wenmin , Liu Mingying , Sang Jian , Jiang Jing , Zhuo Renying 
Published: October 2017

AbstractThe plant natural resistance-associated macrophage protein (Nramp) family plays an important role in tolerance to heavy metal stress. However, few Nramps have been functionally characterized in the heavy metal-accumulating plant Sedum alfredii. Here, Nramp6 was cloned and identified from S. alfredii and its function analyzed in transgenic Arabidopsis thaliana. SaNramp6 cDNA contains an open reading frame of 1, 638 bp encoding 545 amino acids. SaNramp6′s expression can be induced by cadmium (Cd) stress, and, after treatment, it peaked at one week and 12 h in the roots and leaves, respectively. SaNramp6 localized to the plasma membrane in protoplasts isolated from A. thaliana, Nicotiana benthamiana lower leaf and onion (Allium cepa) epidermal cells. The heterologous expression of SaNramp6 in the Δycf1 yeast mutant increased the Cd content in yeast cells. SaNramp6 also rescued the low Cd accumulation of the A. thaliana nramp1 mutant. Transgenic A. thaliana expressing SaNramp6 exhibited high Cd accumulation levels, as determined by a statistical analysis of the Cd concentration, translocation factors and net Cd2+ fluxes under Cd stress. Thus, SaNramp6 may play a significant role in improving Cd accumulation, and the gene may be useful for the biotechnological development of transgenic plants for phytoremediation.
Dynamic and Modularized MicroRNA Regulation and Its Implication in Human Cancers
Authors: Shu Jiang , Silva Bruno Vieira Resende e , Gao Tian , Xu Zheng , Cui Juan 
Published: October 2017

AbstractMicroRNA is responsible for the fine-tuning of fundamental cellular activities and human disease development. The altered availability of microRNAs, target mRNAs, and other types of endogenous RNAs competing for microRNA interactions reflects the dynamic and conditional property of microRNA-mediated gene regulation that remains under-investigated. Here we propose a new integrative method to study this dynamic process by considering both competing and cooperative mechanisms and identifying functional modules where different microRNAs co-regulate the same functional process. Specifically, a new pipeline was built based on a meta-Lasso regression model and the proof-of-concept study was performed using a large-scale genomic dataset from ~4,200 patients with 9 cancer types. In the analysis, 10,726 microRNA-mRNA interactions were identified to be associated with a specific stage and/or type of cancer, which demonstrated the dynamic and conditional miRNA regulation during cancer progression. On the other hands, we detected 4,134 regulatory modules that exhibit high fidelity of microRNA function through selective microRNA-mRNA binding and modulation. For example, miR-18a-3p, −320a, −193b-3p, and −92b-3p co-regulate the glycolysis/gluconeogenesis and focal adhesion in cancers of kidney, liver, lung, and uterus. Furthermore, several new insights into dynamic microRNA regulation in cancers have been discovered in this study.
Electrocatalytic Performance of Chemically Synthesized PIn-Au-SGO Composite toward Mediated Biofuel Cell Anode
Authors: Perveen Ruma , Inamuddin  , ul Haque Sufia , Nasar Abu , Asiri Abdullah M. , Md Ashraf Ghulam 
Published: October 2017

AbstractThe proposed work intended to make an intellectual contribution to the domain of green nanotechnology which emphasizes the chemical synthesis of a conducting nanocomposite based on the incorporation of gold nanoparticles (Au) into the redox matrix of polyindole (PIn) along with the subsequent improvement in the overall properties of the composite by the addition of sulfonated graphene oxide (SGO). The bioanode was developed by the deposition of the PIn-Au-SGO nanocomposite with subsequent immobilization of ferritin (Frt) and glucose oxidase (GOx) on the glassy carbon electrode (GC). The successful application of the PIn-Au-SGO nanocomposite toward the development of a ferritin-mediated glucose biofuel cell anode was studied by the electrochemical characterization of the constructed bioanode (GC-PIn-Au-SGO/Frt/GOx) for the bioelectrocatalytic oxidation of glucose. The maximum current density obtained by the modified bioanode was found to be 17.8 mA cm−2 at the limiting glucose concentration of 50 mM in 0.1 M K4Fe(CN)6 at a scan rate of 100 mVs−1. The lifetime of the concerned bioelectrode when stored at 4 °C was estimated to be 53 days approximately. The appreciable results of the structural and electrochemical characterization of the PIn-Au-SGO based bioelectrode reveal its potential applications exclusively in implantable medical devices.
Cationic double K-hole pre-edge states of CS2 and SF6
Authors: Feifel R. , Eland J. H. D. , Carniato S. , Selles P. , Püttner R. , Koulentianos D. , Marchenko T. , Journel L. , Guillemin R. , Goldsztejn G. , Travnikova O. , Ismail I. , Miranda B. Cunha de , Lago A. F. , Céolin D. , Lablanquie P. , Penent F. , Piancastelli M. N. , Simon M. 
Published: October 2017

AbstractRecent advances in X-ray instrumentation have made it possible to measure the spectra of an essentially unexplored class of electronic states associated with double inner-shell vacancies. Using the technique of single electron spectroscopy, spectra of states in CS2 and SF6 with a double hole in the K-shell and one electron exited to a normally unoccupied orbital have been obtained. The spectra are interpreted with the aid of a high-level theoretical model giving excellent agreement with the experiment. The results shed new light on the important distinction between direct and conjugate shake-up in a molecular context. In particular, systematic similarities and differences between pre-edge states near single core holes investigated in X-ray absorption spectra and the corresponding states near double core holes studied here are brought out.
The optimal window size for analysing longitudinal networks
Authors: Uddin Shahadat , Choudhury Nazim , Farhad Sardar M. , Rahman Md. Towfiqur 
Published: October 2017

AbstractThe time interval between two snapshots is referred to as the window size. A given longitudinal network can be analysed from various actor-level perspectives, such as exploring how actors change their degree centrality values or participation statistics over time. Determining the optimal window size for the analysis of a given longitudinal network from different actor-level perspectives is a well-researched network science problem. Many researchers have attempted to develop a solution to this problem by considering different approaches; however, to date, no comprehensive and well-acknowledged solution that can be applied to various longitudinal networks has been found. We propose a novel approach to this problem that involves determining the correct window size when a given longitudinal network is analysed from different actor-level perspectives. The approach is based on the concept of actor-level dynamicity, which captures variability in the structural behaviours of actors in a given longitudinal network. The approach is applied to four real-world, variable-sized longitudinal networks to determine their optimal window sizes. The optimal window length for each network, determined using the approach proposed in this paper, is further evaluated via time series and data mining methods to validate its optimality. Implications of this approach are discussed in this article.
Creating single Majorana type topological zero mode in superfluids of cold fermionic atoms
Authors: Ye Xiao-Shan , Liu Yong-Jun , Zhang Xiu Yun , Wu Guoqing 
Published: October 2017

AbstractWe explore the topological phase, which involves Majorana type topological zero mode fermions (MTZFs) at the edge, using d–wave superfluid with Rashba spin-orbit coupling (SOC) interactions. The self-Hermitian of this MTZF($${{\boldsymbol{\gamma }}}^{{\boldsymbol{\dagger }}}{\boldsymbol{(}}{\bf{k}}{\boldsymbol{)}}{\boldsymbol{=}}{\boldsymbol{\gamma }}{\boldsymbol{(}}{\bf{k}}{\boldsymbol{)}}$$

γ

†

(
k
)
=
γ
(
k
)
) is similar to that of the Majorana fermions (MFs) ($${{\boldsymbol{\gamma }}}^{{\boldsymbol{\dagger }}}={\boldsymbol{\gamma }}$$

γ

†

=
γ
). We show that, to realize a single MTZF at each edge in superfluid with d–wave pairing in a Majorana type Kramers Doublet (MTKD) state, it is important to lift both the spin and the Dirac Cones degeneracies. These non-Abelian anyons obey the non-Abelian statistics which may be useful to realize topological quantum computation. We suggest that the topological feature could be tested experimentally in superfluids of cold fermionic atoms with laser field induced spin orbit interactions. These studies give a new possible way to investigate the MTZFs in a two-dimensional (2D) system as compared to MFs in the one-dimensional (1D) nano-wire and 2D system, and enrich the theoretical research on finding non-Abelian anyons in topological system.
The potential for coral reef establishment through free-living stabilization
Authors: Hennige S. J. , Burdett H. L. , Perna G. , Tudhope A. W. , Kamenos N. A. 
Published: October 2017

AbstractCorals thrive in a variety of environments, from low wave and tidal energy lagoons, to high energy tidal reef flats, but remain dependent upon suitable substrate. Herein we reviewed the phenomenon of free-living corals (coralliths), examined whether they have the capacity to create their own stable habitat in otherwise uninhabitable, poor substrate environments through ‘free-living stabilization’, and explore their potential ecological role on coral reefs. This stabilization could be achieved by coral settlement and survival on mobile substrate, with subsequent growth into free-living coralliths until a critical mass is reached that prevents further movement. This allows for secondary reef colonization by other coral species. To preliminarily test this hypothesis we provide evidence that the potential to support secondary coral colonisation increases with corallith size. Due to the limited diversity of corallith species observed here and in the literature, and the lack of physiological differences exhibited by coralliths here to static controls, it seems likely that only a small selection of coral species have the ability to form coralliths, and the potential to create their own stable habitat.
Roles of bulk and surface magnetic anisotropy on the longitudinal spin Seebeck effect of Pt/YIG
Authors: Kalappattil Vijaysankar , Das Raja , Phan Manh-Huong , Srikanth Hariharan 
Published: October 2017

AbstractA clear understanding of the temperature evolution of the longitudinal spin Seebeck effect (LSSE) in the classic Pt/yttrium iron garnet (YIG) system and its association with magnetic anisotropy is essential towards optimization of its spin-caloric functionality for spintronics applications. We report here for the first time the temperature dependences of LSSE voltage (VLSSE), magnetocrystalline anisotropy field (HK) and surface perpendicular magnetic anisotropy field (HKS) in the same Pt/YIG system. We show that on lowering temperature, the sharp drop in VLSSE and the sudden increases in HK and HKS at ~175 K are associated with the spin reorientation due to single ion anisotropy of Fe2+ ions. The VLSSE peak at ~75 K is attributed to the HKS and MS (saturation magnetization) whose peaks also occur at the same temperature. The effects of surface and bulk magnetic anisotropies are corroborated with those of thermally excited magnon number and magnon propagation length to satisfactorily explain the temperature dependence of LSSE in the Pt/YIG system. Our study also emphasizes the important roles of bulk and surface anisotropies in the LSSE in YIG and paves a new pathway for developing novel spin-caloric materials.
Genome-wide identification of microRNAs responsive to Ectropis oblique feeding in tea plant (Camellia sinensis L.)
Authors: Jeyaraj Anburaj , Liu Shengrui , Zhang Xiao , Zhang Ran , Shangguan Mingzhu , Wei Chaoling 
Published: October 2017

AbstractThe tea plant (Camellia sinensis L.) is vulnerable to the geometrid Ectropis oblique; although microRNAs (miRNAs) are important for plant growth, development and stress response, the function of miRNAs in the response of C. sinensis to stress from E. oblique is unclear. To identify E. oblique stress-responsive miRNAs and their target genes in tea plant, three small RNA libraries were constructed from leaves subjected to mechanical wounding (MW), geometrid attack (GA) and from healthy control (CK) leaves. Using high-throughput sequencing, 130 known miRNAs and 512 novel miRNAs were identified; of these, differential expression under GA stress was observed for 36 known and 139 novel miRNAs. Furthermore, 169 GA-responsive and 173 MW-responsive miRNAs were detected by miRNA microarray. The expression patterns of six GA-responsive miRNAs were validated by qRT-PCR. Several target genes for these miRNAs encode various transcription factors, including ethylene-responsive transcription factors and squamosa promoter-binding-like proteins, which suggests that these miRNAs may regulate stress-responsive transcriptional processes in tea plant. The present findings provide novel insights into miRNA-mediated regulatory mechanisms underlying the response to GA stress, and also offer valuable information for development of pest resistance using RNA interference-based strategies in tea plants.
A new mode of contrast in biological second harmonic generation microscopy
Authors: Green Nicola H. , Delaine-Smith Robin M. , Askew Hannah J. , Byers Robert , Reilly Gwendolen C. , Matcher Stephen J. 
Published: October 2017

AbstractEnhanced image contrast in biological second harmonic imaging microscopy (SHIM) has previously been reported via quantitative assessments of forward- to epi-generated signal intensity ratio and by polarization analysis. Here we demonstrate a new form of contrast: the material-specific, wavelength-dependence of epi-generated second harmonic generation (SHG) excitation efficiency, and discriminate collagen and myosin by ratiometric epi-generated SHG images at 920 nm and 860 nm. Collagen shows increased SHG intensity at 920 nm, while little difference is detected between the two for myosin; allowing SHIM to characterize different SHG-generating components within a complex biological sample. We propose that momentum-space mapping of the second-order non-linear structure factor is the source of this contrast and develop a model for the forward and epi-generated SHG wavelength-dependence. Our model demonstrates that even very small changes in the assumed material fibrillar structure can produce large changes in the wavelength-dependency of epi-generated SHG. However, in the case of forward SHG, although the same changes impact upon absolute intensity at a given wavelength, they have very little effect on wavelength-dependency beyond the expected monotonic fall. We also propose that this difference between forward and epi-generated SHG provides an explanation for many of the wavelength-dependency discrepancies in the published literature.
Transcription factors and stress response gene alterations in human keratinocytes following Solar Simulated Ultra Violet Radiation
Authors: Marais Thomas L. Des , Kluz Thomas , Xu Dazhong , Zhang Xiaoru , Gesumaria Lisa , Matsui Mary S. , Costa Max , Sun Hong 
Published: October 2017

AbstractUltraviolet radiation (UVR) from sunlight is the major effector for skin aging and carcinogenesis. However, genes and pathways altered by solar-simulated UVR (ssUVR), a mixture of UVA and UVB, are not well characterized. Here we report global changes in gene expression as well as associated pathways and upstream transcription factors in human keratinocytes exposed to ssUVR. Human HaCaT keratinocytes were exposed to either a single dose or 5 repetitive doses of ssUVR. Comprehensive analyses of gene expression profiles as well as functional annotation were performed at 24 hours post irradiation. Our results revealed that ssUVR modulated genes with diverse cellular functions changed in a dose-dependent manner. Gene expression in cells exposed to a single dose of ssUVR differed significantly from those that underwent repetitive exposures. While single ssUVR caused a significant inhibition in genes involved in cell cycle progression, especially G2/M checkpoint and mitotic regulation, repetitive ssUVR led to extensive changes in genes related to cell signaling and metabolism. We have also identified a panel of ssUVR target genes that exhibited persistent changes in gene expression even at 1 week after irradiation. These results revealed a complex network of transcriptional regulators and pathways that orchestrate the cellular response to ssUVR.
Knockout of maternal CD163 protects fetuses from infection with porcine reproductive and respiratory syndrome virus (PRRSV)
Authors: Prather Randall S. , Wells Kevin D. , Whitworth Kristin M. , Kerrigan Maureen A. , Samuel Melissa S. , Mileham Alan , Popescu Luca N. , Rowland Raymond R. R. 
Published: October 2017

AbstractAfter infection of the porcine dam at about 90 days of gestation, porcine reproductive and respiratory syndrome virus (PRRSV) crosses the placenta and begins to infect fetuses. Outcomes of include abortion, fetal death and respiratory disease in newborn piglets. CD163 is the receptor for the virus. In this study, CD163-positive fetuses, recovered between 109 days of gestation or 20 days after maternal infection, were completely protected from PRRSV in dams possessing a complete knockout of the CD163 receptor. The results demonstrate a practical means to eliminate PRRSV-associated reproductive disease, a major source of economic hardship to agriculture.
Giant Enhancement of Exchange Coupling in Entropy-Stabilized Oxide Heterostructures
Authors: Meisenheimer P. B. , Kratofil T. J. , Heron J. T. 
Published: October 2017

AbstractEntropy-stabilized materials are stabilized by the configurational entropy of the constituents, rather than the enthalpy of formation of the compound. A unique benefit to entropy-stabilized materials is the increased solubility of elements, which opens a broad compositional space, with subsequent local chemical and structural disorder resulting from different atomic sizes and preferred coordinations of the constituents. Known entropy-stabilized oxides contain magnetically interesting constituents, however, the magnetic properties of the multi-component oxide have yet to be investigated. Here we examine the role of disorder and composition on the exchange anisotropy of permalloy/(Mg0.25(1-x)CoxNi0.25(1-x)Cu0.25(1-x)Zn0.25(1-x))O heterostructures. Anisotropic magnetic exchange and the presence of a critical blocking temperature indicates that the magnetic order of the entropy-stabilized oxides considered here is antiferromagnetic. Changing the composition of the oxide tunes the disorder, exchange field and magnetic anisotropy. Here, we exploit this tunability to enhance the strength of the exchange field by a factor of 10x at low temperatures, when compared to a permalloy/CoO heterostructure. Significant deviations from the rule of mixtures are observed in the structural and magnetic parameters, indicating that the crystal is dominated by configurational entropy. Our results reveal that the unique characteristics of entropy-stabilized materials can be utilized and tailored to engineer magnetic functional phenomena in oxide thin films.