bluuebunny/crossref_metadata_2025_split huggingface dataset:
IRESPred: Web Server for Prediction of Cellular and Viral Internal Ribosome Entry Site (IRES)
Authors: Kolekar Pandurang , Pataskar Abhijeet , Kulkarni-Kale Urmila , Pal Jayanta , Kulkarni Abhijeet 
Published: June 2016

AbstractCellular mRNAs are predominantly translated in a cap-dependent manner. However, some viral and a subset of cellular mRNAs initiate their translation in a cap-independent manner. This requires presence of a structured RNA element, known as, Internal Ribosome Entry Site (IRES) in their 5′ untranslated regions (UTRs). Experimental demonstration of IRES in UTR remains a challenging task. Computational prediction of IRES merely based on sequence and structure conservation is also difficult, particularly for cellular IRES. A web server, IRESPred is developed for prediction of both viral and cellular IRES using Support Vector Machine (SVM). The predictive model was built using 35 features that are based on sequence and structural properties of UTRs and the probabilities of interactions between UTR and small subunit ribosomal proteins (SSRPs). The model was found to have 75.51% accuracy, 75.75% sensitivity, 75.25% specificity, 75.75% precision and Matthews Correlation Coefficient (MCC) of 0.51 in blind testing. IRESPred was found to perform better than the only available viral IRES prediction server, VIPS. The IRESPred server is freely available at http://bioinfo.net.in/IRESPred/.
The SDF-1 rs1801157 Polymorphism is Associated with Cancer Risk: An Update Pooled Analysis and FPRP Test of 17,876 Participants
Authors: Tong Xiang , Ma Yao , Deng Huajiang , Wang Xixi , Liu Sitong , Yan Zhipeng , Peng Shifeng , Fan Hong 
Published: June 2016

AbstractThe stromal cell derived factor-1 (SDF-1) rs1801157 gene polymorphism has been implicated in susceptibility to cancer, but the results were inconclusive. The current study was to precisely investigate the association between SDF-1 rs1801157 polymorphism and cancer risk using meta-analysis and the false positive report probability (FPRP) test. All 17,876 participants were included in the study. The meta-analysis results indicated a significant association between the SDF-1 rs1801157 polymorphism and cancer risk. By subgroup analyses, the results detected that the SDF-1 rs1801157 polymorphism was associated with cancer susceptibility among Asians and Caucasians. Additionally, we also found significant associations between the SDF-1 rs1801157 polymorphism and susceptibility to different types of cancer. However, to avoid a “false positive report”, we further investigated the significant associations observed in the present meta-analysis using the FPRP test. Interestingly, the results of the FPRP test indicated that only 4 gene models were truly associated with cancer risk, especially in Asians. Moreover, we confirmed that the SDF-1 rs1801157 gene polymorphism was only associated with lung and urologic cancer risk. In summary, this study suggested that the SDF-1 rs1801157 polymorphism may serve as a risk factor for cancer development among Asians, especially an increased risk of urologic and lung cancers.
High-contrast grating resonators for label-free detection of disease biomarkers
Authors: Sun Tianbo , Kan Shu , Marriott Gerard , Chang-Hasnain Connie 
Published: June 2016

AbstractA label-free optical biosensor is described that employs a silicon-based high-contrast grating (HCG) resonator with a spectral linewidth of ~500 pm that is sensitive to ligand-induced changes in surface properties. The device is used to generate thermodynamic and kinetic data on surface-attached antibodies with their respective antigens. The device can detect serum cardiac troponin I, a biomarker of cardiac disease to 100 pg/ml within 4 mins, which is faster and as sensitive as current enzyme-linked immuno-assays for cTnI.
The presence of disulfide bonds reveals an evolutionarily conserved mechanism involved in mitochondrial protein translocase assembly
Authors: Wrobel Lidia , Sokol Anna M. , Chojnacka Magdalena , Chacinska Agnieszka 
Published: June 2016

AbstractDisulfide bond formation is crucial for the biogenesis and structure of many proteins that are localized in the intermembrane space of mitochondria. The importance of disulfide bond formation within mitochondrial proteins was extended beyond soluble intermembrane space proteins. Tim22, a membrane protein and core component of the mitochondrial translocase TIM22, forms an intramolecular disulfide bond in yeast. Tim22 belongs to the Tim17/Tim22/Tim23 family of protein translocases. Here, we present evidence of the high evolutionary conservation of disulfide bond formation in Tim17 and Tim22 among fungi and metazoa. Topological models are proposed that include the location of disulfide bonds relative to the predicted transmembrane regions. Yeast and human Tim22 variants that are not oxidized do not properly integrate into the membrane complex. Moreover, the lack of Tim17 oxidation disrupts the TIM23 translocase complex. This underlines the importance of disulfide bond formation for mature translocase assembly through membrane stabilization of weak transmembrane domains.
Large transverse Hall-like signal in topological Dirac semimetal Cd3As2
Authors: Guo Shih-Ting , Sankar R. , Chien Yung-Yu , Chang Tay-Rong , Jeng Horng-Tay , Guo Guang-Yu , Chou F. C. , Lee Wei-Li 
Published: June 2016

AbstractCadmium arsenide (Cd3As2) is known for its inverted band structure and ultra-high electron mobility. It has been theoretically predicted and also confirmed by ARPES experiments to exhibit a 3D Dirac semimetal phase containing degenerate Weyl nodes. From magneto-transport measurements in high quality single crystals of Cd3As2, a small effective mass m* ≈ 0.05 me is determined from the Shubnikov-de Haas (SdH) oscillations. In certain field orientations, we find a splitting of the SdH oscillation frequency in the FFT spectrum suggesting a possible lifting of the double degeneracy in accord with the helical spin texture at outer and inner Fermi surfaces with opposite chirality predicted by our ab initio calculations. Strikingly, a large antisymmetric magnetoresistance with respect to the applied magnetic fields is uncovered over a wide temperature range in needle crystal of Cd3As2 with its long axis along [112] crystal direction. It reveals a possible contribution of intrinsic anomalous velocity term in the transport equation resulting from a unique 3D Rashba-like spin splitted bands that can be obtained from band calculations with the inclusion of Cd antisite defects.
Accelerated dysbiosis of gut microbiota during aggravation of DSS-induced colitis by a butyrate-producing bacterium
Authors: Zhang Qianpeng , Wu Yanqiu , Wang Jing , Wu Guojun , Long Wenmin , Xue Zhengsheng , Wang Linghua , Zhang Xiaojun , Pang Xiaoyan , Zhao Yufeng , Zhao Liping , Zhang Chenhong 
Published: June 2016

AbstractButyrate-producing bacteria (BPB) are potential probiotic candidates for inflammatory bowel diseases as they are often depleted in the diseased gut microbiota. However, here we found that augmentation of a human-derived butyrate-producing strain, Anaerostipes hadrus BPB5, significantly aggravated colitis in dextran sulphate sodium (DSS)-treated mice while exerted no detrimental effect in healthy mice. We explored how the interaction between BPB5 and gut microbiota may contribute to this differential impact on the hosts. Butyrate production and severity of colitis were assessed in both healthy and DSS-treated mice, and gut microbiota structural changes were analysed using high-throughput sequencing. BPB5-inoculated healthy mice showed no signs of colitis, but increased butyrate content in the gut. In DSS-treated mice, BPB5 augmentation did not increase butyrate content, but induced significantly more severe disease activity index and much higher mortality. BPB5 didn’t induce significant changes of gut microbiota in healthy hosts, but expedited the structural shifts 3 days earlier toward the disease phase in BPB5-augmented than DSS-treated animals. The differential response of gut microbiota in healthy and DSS-treated mice to the same potentially beneficial bacterium with drastically different health consequences suggest that animals with dysbiotic gut microbiota should also be employed for the safety assessment of probiotic candidates.
Spatial confinement governs orientational order in patchy particles
Authors: Iwashita Yasutaka , Kimura Yasuyuki 
Published: June 2016

AbstractOrientational order in condensed matter plays a key role in determining material properties such as ferromagnetism, viscoelasticity or birefringence. We studied purely orientational ordering in closely-packed one-patch colloidal particles confined between flat substrates, where the particles can only rotate and are ordered via the sticky interaction between the patches. For the first time, we experimentally realized a rich variety of mesoscopic patterns through orientational ordering of colloids by controlling patch size and confinement thickness. The combination of experiment and numerical simulation reveals the decisive role of confinement: An ordered state(s) is selected from the (meta)stable options in bulk when it is commensurate with the system geometry and boundary conditions; otherwise, frustration induces a unique order. Our study offers a new means of systematic control over mesoscopic structures via orientational ordering in patchy particles. The system would also possess unique functionalities through the rotational response of the particles to external stimuli.
Anträge auf psychosomatische Rehabilitation – Häufigkeit, Qualität und Befürwortungsrate
Authors: Ahnert J. , Schuler M. , Legner R. , Schmale R. , Berger H. , Vogel H. 
Published: June 2016

Zusammenfassung
Hintergrund: Der Anteil an psychischen Hauptdiagnosen hat bei den medizinischen Rehabilitationsleistungen der DRV in den letzten Jahren stetig zugenommen. Bisher existieren kaum Daten über Häufigkeit, Qualität und Befürwortungsquote von Anträgen auf eine psychosomatische Reha. Prüfärzte der DRV benötigen im Rehabilitationsantrag ausreichend Informationen über Rehabedarf, -motivation, -fähigkeit und -prognose eines Versicherten. Der ärztliche Befundbericht bei Reha-Anträgen von Patienten mit psychischer Hauptdiagnose wird oft durch den Hausarzt erstellt. Psychische Störungen werden von Hausärzten häufig fehlerhaft diagnostiziert.
Methodik: Bei der DRV Nordbayern und der DRV Bayern Süd wurden über 2 Wochen die prüfärztlichen Entscheidungen bei Reha-Anträgen im Rahmen einer prospektiven Aktenanalyse dokumentiert. Für jeden eingehenden Reha-Antrag wurden folgende Angaben notiert: psychische und somatische Hauptdiagnose/n, Vorliegen von Befundberichten, Angaben zu psychiatrischen/psychotherapeutischen Vorbehandlungen, nachträgliche Anforderung von weiteren Entscheidungsgrundlagen sowie die prüfärztliche Entscheidung.
Ergebnisse: Insgesamt konnten 1 366 Anträge (davon 81% Erstvorlagen) analysiert werden. 16,2% der Erstvorlagen stammen von Antragstellern mit psychischen Hauptdiagnosen. 44,0% dieser Anträge liegt nur ein Befundbericht vom Hausarzt bei. Der Anteil an nicht befürworteten (34,7%) und noch offenen Anträgen (27,2%) liegt bei Reha-Anträgen von Antragstellern mit psychischen Hauptdiagnosen höher als bei Antragstellern mit rein somatischen Hauptdiagnosen (19,6% nicht befürwortete, 12,7% offene Anträge) (χ2=79,8(4), p=0,001). Reha-Anträge von Patienten mit psychischen Hauptdiagnosen ohne Befundbericht vom Psychiater/Psychotherapeuten werden häufiger nicht befürwortet (45,3 vs. 32,3%) oder werden bei der Erstvorlage nicht entschieden (28,0 vs. 18,3%) (χ2=10,2(2), p=0,006). Unter Antragstellern, die bereits in psychiatrischer/psychotherapeutischer Vorbehandlung waren, zeigt sich bei Reha-Anträgen mit Befundbericht vom Hausarzt nur noch ein höherer Anteil an nicht entschiedenen Anträgen (35,7 vs. 18,2%). Bei nicht entschiedenen Anträgen mit Befundbericht vom Hausarzt wird am häufigsten (68,9%) noch ein Befundbericht vom Psychiater/Psychotherapeuten nachgefordert.
Schlussfolgerung: Um die Aussagekraft von Anträgen mit psychischer Erstdiagnose bzw. Anträgen auf eine psychosomatische Rehabilitation zu erhöhen und eine raschere Entscheidung und eine bessere Indikationsstellung zu ermöglichen, könnte es sinnvoll sein, Befundberichte von vornherein von Fachärzten für Psychiatrie oder Psychotherapeuten erstellen zu lassen.
Künstlerische Therapeuten im Gesundheitswesen
Authors: Oster J. , Melches J. 
Published: June 2016

ZusammenfassungDie Mitglieder der Bundesarbeitsgemeinschaft Künstlerische Therapien (BAG KT) hatten die Durchführung einer Berufsgruppenanalyse Künstlerische Therapeutinnen und Therapeuten im Format einer Online-Erhebung beschlossen. Hierzu wurde ein Fragebogen für alle Fachrichtungen Künstlerischer Therapien entwickelt, der neben soziodemografischen Angaben, Angaben zu der Qualifikation, zu den Tätigkeitsbereichen, zu Kennzeichen der Klientel, zum institutionellen Rahmen und Setting sowie zur Vergütung erfasst. Es liegen 2 303 auswertbare Datensätze vor. Im Fokus stehen hier die Künstlerischen Therapeuten, die im Gesundheitswesen gemäß SGB tätig sind (N=2134). 83% sind weiblich. 56% sind in der Akut- und Heilbehandlung, gefolgt von den Bereichen Rehabilitation und Kinder- und Jugendhilfe, tätig. Den größten Anteil haben in allen Bereichen die Fachrichtungen Musik- und Kunsttherapie. Einen Hochschulabschluss in künstlerischem Therapieverfahren weisen 57% auf, irgendeinen Hochschulabschluss haben 83%. Die Erlaubnis zur Ausübung der Heilkunde besitzen 42%. Qualitätssicherende Maßnahmen werden von fast allen angewendet. Die Ergebnisse unterstreichen die Implementierung der Künstlerischen Therapien im Gesundheitswesen.
An unusual case of seronegative, 16S PCR positive Brucella infection
Authors: Bharathan Binutha , Backhouse Lucy , Rawat David , Naik Sandhia , Millar Michael 
Published: June 2016

Introduction:

Brucella is a zoonotic infection commonly diagnosed by isolation of the organism from blood culture or positive serological testing. It is an uncommon cause of a pyrexia of unknown origin in the United Kingdom.

Case presentation:
We describe the case of a 14-year-old girl with no history of travel who presented with pyrexia, weight loss, arthralgia, multiple splenic abscesses and a subsequent pleural effusion, the latter of which isolated a Brucella species on 16S rRNA PCR. The patient responded well to initiation of treatment for brucellosis and on repeat imaging, after 3 months, the splenic abscesses had resolved.

Conclusion:
This unique case demonstrates uncommon complications of brucellosis and the challenges of diagnosing the organism, the latter of which can be alleviated by the utilization of molecularbased technologies. This patient had a negative serology result for brucellosis, which highlights the need to interpret serology results with caution in non-endemic regions for brucellosis.
KIF1A/UNC-104 transports ATG-9 to regulate neurodevelopment and autophagy at synapses
Authors: Stavoe Andrea K. H. , Hill Sarah E. , Colón-Ramos Daniel A. 
Published: June 2016

SUMMARYAutophagy is a cellular degradation process essential for neuronal development and survival. Neurons are highly polarized cells in which autophagosome biogenesis is spatially compartmentalized. The mechanisms and physiological importance of this spatial compartmentalization of autophagy in the neuronal development of living animals are not well understood. Here we determine that, inC. elegansneurons, autophagosomes form near synapses and are required for neurodevelopment. We first determined, through unbiased genetic screens and systematic genetic analyses, that autophagy is required cell-autonomously for presynaptic assembly and for axon outgrowth dynamics in specific neurons. We observe autophagosomes in the axon near synapses, and this localization depends on the synaptic vesicle kinesin, KIF1A/UNC-104. KIF1A/UNC-104 coordinates localized autophagosome formation by regulating the transport of the integral membrane autophagy protein, ATG-9. Our findings indicate that autophagy is spatially regulated in neurons through the transport of ATG-9 by KIF1A/UNC-104 to regulate neurodevelopment.
Fungal Induced Protein Hyperacetylation Identified by Acetylome Profiling
Authors: Walley Justin W , Shen Zhouxin , McReynolds Maxwell R. , Briggs Steven P. 
Published: June 2016

ABSTRACTLysine acetylation is a key post-translational modification that regulates diverse proteins involved in a range of biological processes. The role of histone acetylation in plant defense is well established and it is known that pathogen effector proteins encoding acetyltransferses can directly acetylate host proteins to alter immunity. However, it is unclear whether endogenous plant enzymes can modulate protein acetylation during an immune response. Here we investigate how the effector molecule HC-toxin, a histone deacetylase inhibitor, produced byCochliobolus carbonumrace 1 promotes pathogen virulence in maize through altering protein acetylation. Using mass spectrometry we globally quantified the abundance of 3,636 proteins and the levels of acetylation at 2,791 sites in maize plants treated with HC-toxin as well as HC-toxin deficient or producing strains ofC. carbonum.Analyses of these data demonstrate that acetylation is a widespread post-translational modification impacting proteins encoded by many intensively studied maize genes. Furthermore, the application of exogenous HC-toxin enabled us to show that the activity of plant-encoded enzymes can be modulated to alter acetylation of non-histone proteins during an immune response. Collectively, these results provide a resource for further mechanistic studies examining the regulation of protein function and offer insight into the complex immune response triggered by virulentC. carbonum.
Deleterious variants in Asian rice and the potential cost of domestication
Authors: Liu Qingpo , Zhou Yongfeng , Morrell Peter L. , Gaut Brandon S. 
Published: June 2016

ABSTRACTMany SNPs are predicted to encode deleterious amino acid variants. These slightly deleterious mutations can provide unique insights into population history, the dynamics of selection, and the genetic bases of phenotypes. This is especially true for domesticated species, where a history of bottlenecks and selection may affect the frequency of deleterious variants and signal a ‘cost of domestication’. Here we investigated the numbers and frequencies of deleterious variants in Asian rice (O. sativa), focusing on two varieties (japonicaandindica)and their wild relative (O. rufipogon). We investigated three signals of a potential cost of domestication in Asian rice relative toO. rufipogon: an increase in the frequency of deleterious SNPs (dSNPs), an enrichment of dSNPs compared to synonymous SNPs (sSNPs), and an increased number of deleterious variants. We found evidence for all three signals, and domesticated individuals contained ~3-4% more deleterious alleles than wild individuals. Deleterious variants were enriched within low recombination regions of the genome and experienced frequency increases similar to sSNPs within regions of putative selective sweeps. A characteristic feature of rice domestication was a shift in mating system from outcrossing to predominantly selfing. Forward simulations suggest that this shift in mating system may have been the dominant factor in shaping both deleterious and neutral diversity in rice.
Role of management accounting in applying new institutional logics
Authors: Järvinen Janne T. 
Published: June 2016

Purpose– The purpose of this paper is to explore the adoption of management accounting and control systems in the non-profit sector.Design/methodology/approach– The theoretical framework of this comparative interpretative study draws on new institutional theory, especially the concepts of institutional logics and institutional work.Findings– New accounting and management controls serve as a medium through which organizations negotiate between multiple and conflicting objectives and choose institutional logics in the organizational field.Research limitations/implications– The data comprise interviews, observations and archival data and provides a limited view on how the organizational field is structured.Originality/value– The paper contributes to the accounting literature by investigating how institutional work and operating under contradictory logics explain management accounting change.
Resource organization and firm performance
Authors: Andersén Jim , Samuelsson Joachim 
Published: June 2016

Purpose
– The purpose of this paper is to examine how entrepreneurial orientation (EO) and the use of management accounting practices (MAPs) in decision making affects the profitability of small- and medium-sized enterprises (SMEs), and also to analyze the extent to which EO and the use of MAPs affects profitability differently in growing and non-growing SMEs.

Design/methodology/approach
– The paper employs an empirical investigation which is based on a sample of 153 Swedish manufacturing SMEs. The data are analyzed by two- and three-way interaction regressions.

Findings
– EO and MAPs have a positive effect on profitability in non-growing SMEs, but the combined effect of EO and MAPs has no additional effect. However, for growing SMEs, high usage of MAPs in decision making is a prerequisite for EO to influence profitability.

Originality/value
– This study is the first to use the resource-based view to examine the relationship between two dimensions of resource organization and SME profitability. EO is used as a proxy for how resources are organized in order to identify opportunities, and MAPs are used as a proxy for how efficiently resources are organized.
An investigation into the role of emotion in leadership development for entrepreneurs
Authors: Huxtable-Thomas Louisa A. , Hannon Paul D , Thomas Steffan W. 
Published: June 2016

Purpose– The Holy Grail of leadership learning is to stimulate behavioural changes that continue beyond the learning environment into the workplace, ultimately leading to improved productivity and value. The purpose of this paper is to explore the interface between emotion and leadership learning and provides evidence from research undertaken in Wales (UK) to support further research on the use of emotion in this endeavour.Design/methodology/approach– Unique access to a successful programme of guided leadership development for owner-managers of small and medium sized enterprises (SMEs) in Wales, UK, provided an opportunity to observe emotion being used and experienced by both learners and trainers. Literature reviews were used to inform initial inferences made during participant observations of a sample of the learners (n=91). Focus groups were undertaken with a sample (n=27) of participants in order to determine the emotional impact and perceived effectiveness of the method by the learners.Findings– The data corroborated the authors’ observations that emotion plays a role in the leadership practice of the learners and in the learning process. No appropriate conceptual model exists that describes this learning method or its mode of impact upon learning. A gap exists in the academic understanding of this observed social reality and multi-disciplinary research is required in order to further characterise and understand it.Practical implications– Improvements in leadership have been consistently linked to improvements in firm performance. Bringing new insights that lead to effective learning and constructive behaviour changes in the leaders of SMEs and their employees could have profound positive impacts on entrepreneurial economies.Originality/value– This novel perspective on leadership development within the life world of the entrepreneur moves away from the established literature which has traditionally focused on cognitive or conative constructs, often focused on the corporate or large organisation leader, and calls for further research into the synthesis of leadership, entrepreneurship and emotion.