bluuebunny/crossref_metadata_2025_split huggingface dataset:
A global threats overview for Numeniini populations: synthesising expert knowledge for a group of declining migratory birds
Authors: PEARCE-HIGGINS JAMES W. , BROWN DANIEL J. , DOUGLAS DAVID J. T. , ALVES JOSÉ A. , BELLIO MARIAGRAZIA , BOCHER PIERRICK , BUCHANAN GRAEME M. , CLAY ROB P. , CONKLIN JESSE , CROCKFORD NICOLA , DANN PETER , ELTS JAANUS , FRIIS CHRISTIAN , FULLER RICHARD A. , GILL JENNIFER A. , GOSBELL KEN , JOHNSON JAMES A. , MARQUEZ-FERRANDO ROCIO , MASERO JOSE A. , MELVILLE DAVID S. , MILLINGTON SPIKE , MINTON CLIVE , MUNDKUR TAEJ , NOL ERICA , PEHLAK HANNES , PIERSMA THEUNIS , ROBIN FRÉDÉRIC , ROGERS DANNY I. , RUTHRAUFF DANIEL R. , SENNER NATHAN R. , SHAH JUNID N. , SHELDON ROB D. , SOLOVIEV SERGEJ A. , TOMKOVICH PAVEL S. , VERKUIL YVONNE I. 
Published: March 2017

SummaryThe Numeniini is a tribe of 13 wader species (Scolopacidae, Charadriiformes) of which seven are Near Threatened or globally threatened, including two Critically Endangered. To help inform conservation management and policy responses, we present the results of an expert assessment of the threats that members of this taxonomic group face across migratory flyways. Most threats are increasing in intensity, particularly in non-breeding areas, where habitat loss resulting from residential and commercial development, aquaculture, mining, transport, disturbance, problematic invasive species, pollution and climate change were regarded as having the greatest detrimental impact. Fewer threats (mining, disturbance, problematic native species and climate change) were identified as widely affecting breeding areas. Numeniini populations face the greatest number of non-breeding threats in the East Asian-Australasian Flyway, especially those associated with coastal reclamation; related threats were also identified across the Central and Atlantic Americas, and East Atlantic flyways. Threats on the breeding grounds were greatest in Central and Atlantic Americas, East Atlantic and West Asian flyways. Three priority actions were associated with monitoring and research: to monitor breeding population trends (which for species breeding in remote areas may best be achieved through surveys at key non-breeding sites), to deploy tracking technologies to identify migratory connectivity, and to monitor land-cover change across breeding and non-breeding areas. Two priority actions were focused on conservation and policy responses: to identify and effectively protect key non-breeding sites across all flyways (particularly in the East Asian- Australasian Flyway), and to implement successful conservation interventions at a sufficient scale across human-dominated landscapes for species’ recovery to be achieved. If implemented urgently, these measures in combination have the potential to alter the current population declines of many Numeniini species and provide a template for the conservation of other groups of threatened species.
Spatiotemporally restricted arenavirus replication induces immune surveillance and type I interferon-dependent tumour regression
Authors: Kalkavan Halime , Sharma Piyush , Kasper Stefan , Helfrich Iris , Pandyra Aleksandra A. , Gassa Asmae , Virchow Isabel , Flatz Lukas , Brandenburg Tim , Namineni Sukumar , Heikenwalder Mathias , Höchst Bastian , Knolle Percy A. , Wollmann Guido , von Laer Dorothee , Drexler Ingo , Rathbun Jessica , Cannon Paula M. , Scheu Stefanie , Bauer Jens , Chauhan Jagat , Häussinger Dieter , Willimsky Gerald , Löhning Max , Schadendorf Dirk , Brandau Sven , Schuler Martin , Lang Philipp A. , Lang Karl S. 
Published: March 2017

AbstractImmune-mediated effector molecules can limit cancer growth, but lack of sustained immune activation in the tumour microenvironment restricts antitumour immunity. New therapeutic approaches that induce a strong and prolonged immune activation would represent a major immunotherapeutic advance. Here we show that the arenaviruses lymphocytic choriomeningitis virus (LCMV) and the clinically used Junin virus vaccine (Candid#1) preferentially replicate in tumour cells in a variety of murine and human cancer models. Viral replication leads to prolonged local immune activation, rapid regression of localized and metastatic cancers, and long-term disease control. Mechanistically, LCMV induces antitumour immunity, which depends on the recruitment of interferon-producing Ly6C+monocytes and additionally enhances tumour-specific CD8+T cells. In comparison with other clinically evaluated oncolytic viruses and to PD-1 blockade, LCMV treatment shows promising antitumoural benefits. In conclusion, therapeutically administered arenavirus replicates in cancer cells and induces tumour regression by enhancing local immune responses.
Fluorene-9-bisphenol is anti-oestrogenic and may cause adverse pregnancy outcomes in mice
Authors: Zhang Zhaobin , Hu Ying , Guo Jilong , Yu Tong , Sun Libei , Xiao Xuan , Zhu Desheng , Nakanishi Tsuyoshi , Hiromori Youhei , Li Junyu , Fan Xiaolin , Wan Yi , Cheng Siyu , Li Jun , Guo Xuan , Hu Jianying 
Published: March 2017

AbstractBisphenol A (BPA) is used in the production of plastic but has oestrogenic activity. Therefore, BPA substitutes, such as fluorene-9-bisphenol (BHPF), have been introduced for the production of so-called ‘BPA-free’ plastics. Here we show that BHPF is released from commercial ‘BPA-free’ plastic bottles into drinking water and has anti-oestrogenic effects in mice. We demonstrate that BHPF has anti-oestrogenic activity in vitro and, in an uterotrophic assay in mice, induces low uterine weight, atrophic endometria and causes adverse pregnancy outcomes, even at doses lower than those of BPA for which no observed adverse effect have been reported. Female mice given water containing BHPF released from plastic bottles, have detectable levels of BHPF in serum, low uterine weights and show decreased expressions of oestrogen-responsive genes. We also detect BHPF in the plasma of 7/100 individuals, who regularly drink water from plastic bottles. Our data suggest that BPA substitutes should be tested for anti-oestrogenic activity and call for further study of the toxicological effects of BHPF on human health.
Perfect X-ray focusing via fitting corrective glasses to aberrated optics
Authors: Seiboth Frank , Schropp Andreas , Scholz Maria , Wittwer Felix , Rödel Christian , Wünsche Martin , Ullsperger Tobias , Nolte Stefan , Rahomäki Jussi , Parfeniukas Karolis , Giakoumidis Stylianos , Vogt Ulrich , Wagner Ulrich , Rau Christoph , Boesenberg Ulrike , Garrevoet Jan , Falkenberg Gerald , Galtier Eric C. , Ja Lee Hae , Nagler Bob , Schroer Christian G. 
Published: March 2017

AbstractDue to their short wavelength, X-rays can in principle be focused down to a few nanometres and below. At the same time, it is this short wavelength that puts stringent requirements on X-ray optics and their metrology. Both are limited by today’s technology. In this work, we present accurate at wavelength measurements of residual aberrations of a refractive X-ray lens using ptychography to manufacture a corrective phase plate. Together with the fitted phase plate the optics shows diffraction-limited performance, generating a nearly Gaussian beam profile with a Strehl ratio above 0.8. This scheme can be applied to any other focusing optics, thus solving the X-ray optical problem at synchrotron radiation sources and X-ray free-electron lasers.
A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle
Authors: Linke Christian , Chasapi Anastasia , González-Novo Alberto , Al Sawad Istabrak , Tognetti Silvia , Klipp Edda , Loog Mart , Krobitsch Sylvia , Posas Francesc , Xenarios Ioannis , Barberis Matteo 
Published: March 2017

AbstractPrecise timing of cell division is achieved by coupling waves of cyclin-dependent kinase (Cdk) activity with a transcriptional oscillator throughout cell cycle progression. Although details of transcription of cyclin genes are known, it is unclear which is the transcriptional cascade that modulates their expression in a timely fashion. Here, we demonstrate that a Clb/Cdk1-mediated regulation of the Fkh2 transcription factor synchronizes the temporal mitotic CLB expression in budding yeast. A simplified kinetic model of the cyclin/Cdk network predicts a linear cascade where a Clb/Cdk1-mediated regulation of an activator molecule drives CLB3 and CLB2 expression. Experimental validation highlights Fkh2 as modulator of CLB3 transcript levels, besides its role in regulating CLB2 expression. A Boolean model based on the minimal number of interactions needed to capture the information flow of the Clb/Cdk1 network supports the role of an activator molecule in the sequential activation, and oscillatory behavior, of mitotic Clb cyclins. This work illustrates how transcription and phosphorylation networks can be coupled by a Clb/Cdk1-mediated regulation that synchronizes them.
Improved prediction of PARP inhibitor response and identification of synergizing agents through use of a novel gene expression signature generation algorithm
Authors: McGrail Daniel J. , Lin Curtis Chun-Jen , Garnett Jeannine , Liu Qingxin , Mo Wei , Dai Hui , Lu Yiling , Yu Qinghua , Ju Zhenlin , Yin Jun , Vellano Christopher P. , Hennessy Bryan , Mills Gordon B. , Lin Shiaw-Yih 
Published: March 2017

AbstractDespite rapid advancement in generation of large-scale microarray gene expression datasets, robust multigene expression signatures that are capable of guiding the use of specific therapies have not been routinely implemented into clinical care. We have developed an iterative resampling analysis to predict sensitivity algorithm to generate gene expression sensitivity profiles that predict patient responses to specific therapies. The resultant signatures have a robust capacity to accurately predict drug sensitivity as well as the identification of synergistic combinations. Here, we apply this approach to predict response to PARP inhibitors, and show it can greatly outperforms current clinical biomarkers, including BRCA1/2 mutation status, accurately identifying PARP inhibitor-sensitive cancer cell lines, primary patient-derived tumor cells, and patient-derived xenografts. These signatures were also capable of predicting patient response, as shown by applying a cisplatin sensitivity signature to ovarian cancer patients. We additionally demonstrate how these drug-sensitivity signatures can be applied to identify novel synergizing agents to improve drug efficacy. Tailoring therapeutic interventions to improve patient prognosis is of utmost importance, and our drug sensitivity prediction signatures may prove highly beneficial for patient management.
Influence of different geographical factors on carbon sink functions in the Pearl River Delta
Authors: Xu Qian , Dong Yuxiang , Yang Ren 
Published: March 2017

AbstractThis study analyzed carbon fixation across different land use types in the Pearl River Delta to identify the influence of different geographical factors on carbon fixation ability. The methodology was based on interpreting land use data from TM imagery, MODIS13Q1 data, and climate data, using the improved CASA and GeogDetector models. The results show that: (1) From 2000 to 2013, the total carbon sink increased slightly, from 15.58 × 106 t to 17.52 × 106 t, being spatially low at the center and increasing outwards; (2) Proxy variables (topography and landform characteristics), influencing urbanization, significantly affect the carbon sink function of the Pearl River Delta region. The proportion of urban and other construction land showed increasing effect on the regional carbon sink each year. However, the spatial structure of land in the study area changed from complex to simple, with enhanced stability; consequently, the influence of landscape characteristics (landscape dominance and landscape perimeter area fractal dimension) on the regional carbon sink gradually decreased; (3) The influence of the same factors differed with different land use types. Slope and altitude were found to have the greatest influence on the carbon sink of cultivated land, while landscape perimeter area fractal dimension more significantly affected the forest carbon sink.
Specialized adaptations for springtail predation in Mesozoic beetles
Authors: Yin Zi-Wei , Cai Chen-Yang , Huang Di-Ying , Li Li-Zhen 
Published: March 2017

AbstractInsects exhibit a variety of morphological specializations specific to particular behaviors, and these permit the reconstruction of palaeobiological traits. Despite the critical importance of predator-prey strategies in insect evolution, the appearance of particular aspects of predation are often difficult to determine from the fossil record of hexapods. Here we report the discovery of highly specialized, mid-Cretaceous ant-like stone beetles (Staphylinidae: Scydmaeninae) displaying morphological modifications unknown among living scydmaenids and associated with predation on springtails (Collembola), a widespread and abundant group of significantly greater geological age.Cascomastigus monstrabilisgen. et sp. nov. exhibits an extremely large body size, elongate clubbed maxillary palpi, toothed mandibles, and more importantly, slender and highly modified antennae that functioned as an antennal setal trap. Such an antennal modification is analogous to that of the modern ground beetle genusLoricera(Carabidae: Loricerinae), a group possessing a specialized antennal setal trap exclusively for the capture of springtails. The presence of an identical antennal setal trap inC. monstrabilisdemonstrates a unique and dramatic form of obligate predation among the late Mesozoic insects.
NKG2D modulates aggravation of liver inflammation by activating NK cells in HBV infection
Authors: Wang Yadong , Wang Wei , Shen Chuan , Wang Yong , Jiao Mingjing , Yu Weiyan , Yin Hongzhu , Shang Xiaobo , Liang Qianfei , Zhao Caiyan 
Published: March 2017

AbstractHepatitis B virus (HBV) infection is thought to be an immune-mediated liver disease. The mechanisms underlying natural killer (NK) cell group 2D receptor (NKG2D) that activates NK cells and participates in anti-HBV immunity and immunopathology has not been thoroughly elucidated. Peripheral NKG2D+ and IFN-γ+ NK cells frequencies and intrahepatic NKG2D and IFN-γ mRNA and protein expressions were determined in HBV-infected patients. Levels of NKG2D and IFN-γ mRNA and protein in NK cells, co-cultured with HBV-replicating HepG2 cells with or without NKG2D blockade, were analyzed. Serum and supernatant IFN-γ, TNF-α, perforin and granzyme B were measured. In results, peripheral NKG2D+ and IFN-γ+ NK cells frequencies, intrahepatic NKG2D and IFN-γ mRNA and protein levels, and serum IFN-γ, TNF-α, perforin and granzyme B levels were all highest in HBV-related acute-on-chronic liver failure group, followed by chronic hepatitis B and chronic HBV carrier groups. In vitro, NKG2D and IFN-γ mRNA and protein levels were higher in NK cells with IFN-α stimulation than without stimulation. Supernatant IFN-γ, TNF-α, perforin and granzyme B levels were increased under co-culture or IFN-α stimulating conditions, but were partially blocked by NKG2DmAb. In conclusion, NKG2D regulates immune inflammation and anti-viral response partly through activation of NK cells during HBV infection.
Knocking down the obstacles to functional genomics data sharing
Authors: Simpson Kaylene J. , Smith Jennifer A. 
Published: March 2017

AbstractThis week, Scientific Data published a collection of eight papers that describe datasets from high-throughput functional genomics screens, primarily utilizing RNA interference (RNAi). The publications explore host-pathogen dependencies, innate immune response, disease pathways, and cell morphology and motility at the genome-level. All data, including raw images from the high content screens, are publically available in PubChem BioAssay, figshare, Harvard Dataverse or the Image Data Resource (IDR). Detailed data descriptors enable use of these data for analysis algorithm design, machine learning, data comparisons, as well as generating new scientific hypotheses.
Genome-wide barcoded transposon screen for cancer drug sensitivity in haploid mouse embryonic stem cells
Authors: Pettitt Stephen J. , Krastev Dragomir B. , Pemberton Helen N. , Fontebasso Yari , Frankum Jessica , Rehman Farah L. , Brough Rachel , Song Feifei , Bajrami Ilirjana , Rafiq Rumana , Wallberg Fredrik , Kozarewa Iwanka , Fenwick Kerry , Armisen-Garrido Javier , Swain Amanda , Gulati Aditi , Campbell James , Ashworth Alan , Lord Christopher J. 
Published: March 2017

AbstractWe describe a screen for cellular response to drugs that makes use of haploid embryonic stem cells. We generated ten libraries of mutants with piggyBac gene trap transposon integrations, totalling approximately 100,000 mutant clones. Random barcode sequences were inserted into the transposon vector to allow the number of cells bearing each insertion to be measured by amplifying and sequencing the barcodes. These barcodes were associated with their integration sites by inverse PCR. We exposed these libraries to commonly used cancer drugs and profiled changes in barcode abundance by Ion Torrent sequencing in order to identify mutations that conferred sensitivity. Drugs tested included conventional chemotherapeutics as well as targeted inhibitors of topoisomerases, poly(ADP-ribose) polymerase (PARP), Hsp90 and WEE1.
The Effect of Information and Severity on Perception of Speakers With Adductor Spasmodic Dysphonia
Authors: Eadie Tanya L. , Rajabzadeh Reyhaneh , Isetti Derek D. , Nevdahl Martin T. , Baylor Carolyn R. 
Published: March 2017

Purpose
The purpose of this study was to examine the effect of severity of adductor spasmodic dysphonia (ADSD) and information about it on unfamiliar listeners' attitudes about speakers' personal characteristics, perceived vocal effort, and listener comfort on the basis of ratings of speech recordings.

Method
Fifteen women with ADSD and 5 controls provided speech samples. Forty-five unfamiliar listeners were randomized into 3 groups. Listeners in Group 1 received no information, listeners in Group 2 were told that some speakers had voice disorders or had no voice concerns, and listeners in Group 3 were provided diagnostic labels for each speaker and information about ADSD. Listeners then rated speech samples for attitudes, perceived vocal effort, and listener comfort.

Results
Speakers with ADSD were judged significantly worse than controls for attitudes related to “social desirability” and “intellect.” There was no effect of severity on “personality” attributes. However, provision of a diagnostic label resulted in significantly more favorable personality ratings than when no label was provided. Perceived vocal effort and comfort became significantly more negative as ADSD severity increased. Finally, most listener ratings were unaffected by provision of additional information about ADSD.

Conclusions
Listeners' perceptions about speakers with ADSD are difficult to change. Directions for counseling and public education need future study.
Sparsity‐incorporated secure localisation for wireless sensor networks
Authors: Zhang Q. , Wan J.W , Wang D.D , Chen J.Y , Wang D.H 
Published: March 2017

To enable efficient and accurate secure localisation in wireless sensor networks, a sparsity‐incorporated localisation algorithm is proposed. Unlike most of the existing schemes, the localisation problem is solved in an L1 minimisation framework which is based on the attack sparsity and the linearisation of a distance measurement model including the bogus data from malicious anchors. The localisation errors, speed and detection rates of the scheme are analysed in the simulations. Results demonstrate that the method can simultaneously achieve target localisation and malicious anchor identification in an efficient and accurate way.
Validation of a Prediction Model for Vaginal Birth after Cesarean Delivery Reveals Unexpected Success in a Diverse American Population
Authors: Maykin Melanie , Mularz Amanda , Lee Lydia , Valderramos Stephanie 
Published: March 2017

Objective To investigate the validity of a prediction model for success of vaginal birth after cesarean delivery (VBAC) in an ethnically diverse population.
Methods We performed a retrospective cohort study of women admitted at a single academic institution for a trial of labor after cesarean from May 2007 to January 2015. Individual predicted success rates were calculated using the Maternal–Fetal Medicine Units Network prediction model. Participants were stratified into three probability-of-success groups: low (<35%), moderate (35–65%), and high (>65%). The actual versus predicted success rates were compared.
Results In total, 568 women met inclusion criteria. Successful VBAC occurred in 402 (71%), compared with a predicted success rate of 66% (p = 0.016). Actual VBAC success rates were higher than predicted by the model in the low (57 vs. 29%; p < 0.001) and moderate (61 vs. 52%; p = 0.003) groups. In the high probability group, the observed and predicted VBAC rates were the same (79%).
Conclusion When the predicted success rate was above 65%, the model was highly accurate. In contrast, for women with predicted success rates <35%, actual VBAC rates were nearly twofold higher in our population, suggesting that they should not be discouraged by a low prediction score.
Monoubiquitylation of histone H2B contributes to the bypass of DNA damage during and after DNA replication
Authors: Hung Shih-Hsun , Wong Ronald P. , Ulrich Helle D. , Kao Cheng-Fu 
Published: March 2017

Significance
DNA damage-bypass mechanisms that facilitate the resolution of replication blocks in proliferating cells during and after S phase are important for the defense against damage-induced mutations, genome instability, and cancer. Lesion bypass, mediated either by the ubiquitylation of the replication factor proliferating cell nuclear antigen or by homologous recombination, takes place in the context of chromatin. However, the implications of nucleosome dynamics and chromosome packaging in the efficiency of replication-associated damage processing are still largely unknown. Our physical, genetic, and cytological studies suggest that ubiquitylation of histone H2B facilitates the replicative bypass of fork-stalling DNA lesions by contributing to both DNA damage tolerance and homologous recombination during and after replication, thus revealing a direct link between chromatin architecture and lesion bypass.
Synaptic vesicle glycoprotein 2C (SV2C) modulates dopamine release and is disrupted in Parkinson disease
Authors: Dunn Amy R. , Stout Kristen A. , Ozawa Minagi , Lohr Kelly M. , Hoffman Carlie A. , Bernstein Alison I. , Li Yingjie , Wang Minzheng , Sgobio Carmelo , Sastry Namratha , Cai Huaibin , Caudle W. Michael , Miller Gary W. 
Published: March 2017

SignificanceHere we describe a role for the synaptic vesicle glycoprotein 2C (SV2C) in dopamine neurotransmission and Parkinson disease (PD). SV2C is expressed on the vesicles of dopamine-producing neurons, and genetic deletion of SV2C causes a reduction in synaptic release of dopamine. The reduced dopamine release is associated with a decrease in motor activity. SV2C is suspected of mediating the neuroprotective effects of nicotine, and we show an ablated neurochemical response to nicotine in SV2C-knockout mice. Last, we demonstrate that SV2C expression is specifically disrupted in mice that express mutated α-synuclein and in humans with PD. Together, these data establish SV2C as an important mediator of dopamine homeostasis and a potential contributor to PD pathogenesis.