bluuebunny/crossref_metadata_2025_split huggingface dataset:
The influence of gender on attitudes towards the EU among the Polish ‘winners of European integration’
Authors: Favero Adrian 
Published: December 2019

AbstractThis paper investigates the role of gender in shaping attitudes towards the European Union (EU) among young people living in Polish cities – the so-called ‘winners of European integration’. Previously, little attention has been given to gender as an influence on views on the EU. Most studies apply the gender-based perspective on Western Europe, while Central and Eastern European countries remain understudied. Based on theories on public opinion, I employ a mixed-methods approach, conducting a survey among 815 MA students living in Polish cities, followed by 27 semi-structured interviews. This analysis of gender-related attitudes towards the EU offers nuanced insights into transitions within post-communist societies. My findings posit that the sampled well-educated women are more likely to support EU integration than men. Education, gender-based individual cost-benefit analyses, and the perceptions of national politics are possible explanations for the positive attitudes towards the EU among the sampled women.
Gut microbiota structure differs between honeybees in winter and summer
Authors: Kešnerová Lucie , Emery Olivier , Troilo Michaël , Liberti Joanito , Erkosar Berra , Engel Philipp 
Published: December 2019

Abstract
Adult honeybees harbor a specialized gut microbiota of relatively low complexity. While seasonal differences in community composition have been reported, previous studies have focused on compositional changes rather than differences in absolute bacterial loads. Moreover, little is known about the gut microbiota of winter bees, which live much longer than bees during the foraging season, and which are critical for colony survival. We quantified seven core members of the bee gut microbiota in a single colony over 2 years and characterized the community composition in 14 colonies during summer and winter. Our data show that total bacterial loads substantially differ between foragers, nurses, and winter bees. Long-lived winter bees had the highest bacterial loads and the lowest community α-diversity, with a characteristic shift toward high levels of Bartonella and Commensalibacter, and a reduction of opportunistic colonizers. Using gnotobiotic bee experiments, we show that diet is a major contributor to the observed differences in bacterial loads. Overall, our study reveals that the gut microbiota of winter bees is remarkably different from foragers and nurses. Considering the importance of winter bees for colony survival, future work should focus on the role of the gut microbiota in winter bee health and disease.
Primary cilia mediate mitochondrial stress responses to promote dopamine neuron survival in a Parkinson’s disease model
Authors: Bae Ji-Eun , Kang Gil Myung , Min Se Hee , Jo Doo Sin , Jung Yong-Keun , Kim Keetae , Kim Min-Seon , Cho Dong-Hyung 
Published: December 2019

AbstractA primary cilium is an antenna-like structure on the cell surface that plays a crucial role in sensory perception and signal transduction. Mitochondria, the ‘powerhouse’ of the cell, control cell survival, and death. The cellular ability to remove dysfunctional mitochondria through mitophagy is important for cell survival. We show here that mitochondrial stress, caused by respiratory complex inhibitors and excessive fission, robustly stimulates ciliogenesis in different types of cells including neuronal cells. Mitochondrial stress-induced ciliogenesis is mediated by mitochondrial reactive oxygen species generation, subsequent activation of AMP-activated protein kinase and autophagy. Conversely, abrogation of ciliogenesis compromises mitochondrial stress-induced autophagy, leading to enhanced cell death. In mice, treatment with mitochondrial toxin, MPTP elicits ciliary elongation and autophagy in the substantia nigra dopamine neurons. Blockade of cilia formation in these neurons attenuates MPTP-induced autophagy but facilitates dopamine neuronal loss and motor disability. Our findings demonstrate the important role of primary cilia in cellular pro-survival responses during mitochondrial stress.
The intragraft vascularized bone marrow component plays a critical role in tolerance induction after reconstructive transplantation
Authors: Lin Cheng-Hung , Anggelia Madonna R. , Cheng Hui-Yun , Wang Aline Yen Ling , Chuang Wen-Yu , Lin Chih-Hung , Lee W. P. Andrew , Wei Fu-Chan , Brandacher Gerald 
Published: December 2019

AbstractThe role of the vascularized bone marrow component as a continuous source of donor-derived hematopoietic stem cells that facilitate tolerance induction of vascularized composite allografts is not completely understood. In this study, vascularized composite tissue allograft transplantation outcomes between recipients receiving either conventional bone marrow transplantation (CBMT) or vascularized bone marrow (VBM) transplantation from Balb/c (H2d) to C57BL/6 (H2b) mice were compared. Either high- or low-dose CBMT (1.5 × 108or 3 × 107bone marrow cells, respectively) was applied. In addition, recipients were treated with costimulation blockade (1 mg anti-CD154 and 0.5 mg CTLA4Ig on postoperative days 0 and 2, respectively) and short-term rapamycin (3 mg/kg/day for the first posttransplant week and then every other day for another 3 weeks). Similar to high-dose conventional bone marrow transplantation, 5/6 animals in the vascularized bone marrow group demonstrated long-term allograft survival (>120 days). In contrast, significantly shorter median survival was noted in the low-dose CBMT group (~64 days). Consistently high chimerism levels were observed in the VBM transplantation group. Notably, low levels of circulating CD4+and CD8+T cells and a higher ratio of Treg to Teff cells were maintained in VBM transplantation and high-dose CBMT recipients (>30 days) but not in low-dose VBM transplant recipients. Donor-specific hyporesponsiveness was shown in tolerant recipients in vitro. Removal of the vascularized bone marrow component after secondary donor-specific skin transplantation did not affect either primary allograft or secondary skin graft survival.
Biogenic carbonate mercury and marine temperature records reveal global influence of Late Cretaceous Deccan Traps
Authors: Meyer Kyle W. , Petersen Sierra V. , Lohmann Kyger C , Blum Joel D. , Washburn Spencer J. , Johnson Marcus W. , Gleason James D. , Kurz Aaron Y. , Winkelstern Ian Z. 
Published: December 2019

AbstractThe climate and environmental significance of the Deccan Traps large igneous province of west-central India has been the subject of debate in paleontological communities. Nearly one million years of semi-continuous Deccan eruptive activity spanned the Cretaceous-Paleogene boundary, which is renowned for the extinction of most dinosaur groups. Whereas the Chicxulub impactor is acknowledged as the principal cause of these extinctions, the Deccan Traps eruptions are believed to have contributed to extinction patterns and/or enhanced ecological pressures on biota during this interval of geologic time. We present the first coupled records of biogenic carbonate clumped isotope paleothermometry and mercury concentrations as measured from a broad geographic distribution of marine mollusk fossils. These fossils preserve evidence of simultaneous increases in coastal marine temperatures and mercury concentrations at a global scale, which appear attributable to volcanic CO2 and mercury emissions. These early findings warrant further investigation with additional records of combined Late Cretaceous temperatures and mercury concentrations of biogenic carbonate.
RETRACTED ARTICLE: Colloidal silver diphosphide (AgP2) nanocrystals as low overpotential catalysts for CO2 reduction to tunable syngas
Authors: Li Hui , Wen Peng , Itanze Dominique S. , Hood Zachary D. , Ma Xiao , Kim Michael , Adhikari Shiba , Lu Chang , Dun Chaochao , Chi Miaofang , Qiu Yejun , Geyer Scott M. 
Published: December 2019

AbstractProduction of syngas with tunable CO/H2 ratio from renewable resources is an ideal way to provide a carbon-neutral feedstock for liquid fuel production. Ag is a benchmark electrocatalysts for CO2-to-CO conversion but high overpotential limits the efficiency. We synthesize AgP2 nanocrystals (NCs) with a greater than 3-fold reduction in overpotential for electrochemical CO2-to-CO reduction compared to Ag and greatly enhanced stability. Density functional theory calculations reveal a significant energy barrier decrease in the formate intermediate formation step. In situ X-ray absorption spectroscopy (XAS) shows that a maximum Faradaic efficiency is achieved at an average silver valence state of +1.08 in AgP2 NCs. A photocathode consisting of a n+p-Si wafer coated with ultrathin Al2O3 and AgP2 NCs achieves an onset potential of 0.2 V vs. RHE for CO production and a partial photocurrent density for CO at −0.11 V vs. RHE (j−0.11, CO) of −3.2 mA cm−2.
A unified form of low-energy nodal electronic interactions in hole-doped cuprate superconductors
Authors: Reber T. J. , Zhou X. , Plumb N. C. , Parham S. , Waugh J. A. , Cao Y. , Sun Z. , Li H. , Wang Q. , Wen J. S. , Xu Z. J. , Gu G. , Yoshida Y. , Eisaki H. , Arnold G. B. , Dessau D. S. 
Published: December 2019

AbstractUsing angle resolved photoemission spectroscopy measurements of Bi2Sr2CaCu2O8+δ over a wide range of doping levels, we present a universal form for the non-Fermi liquid electronic interactions in the nodal direction in the exotic normal state phase. It is described by a continuously varying power law exponent versus energy and temperature (hence named a Power Law Liquid or PLL), which with doping varies smoothly from a quadratic Fermi Liquid in the overdoped regime, to a linear Marginal Fermi Liquid at optimal doping, to a non-quasiparticle non-Fermi Liquid in the underdoped regime. The coupling strength is essentially constant across all regimes and is consistent with Planckian dissipation. Using the extracted PLL parameters we reproduce the experimental optics and resistivity over a wide range of doping and normal-state temperature values, including the T* pseudogap temperature scale observed in the resistivity curves. This breaks the direct link to the pseudogapping of antinodal spectral weight observed at similar temperature scales and gives an alternative direction for searches of the microscopic mechanism.
T4SS-dependent TLR5 activation by Helicobacter pylori infection
Authors: Pachathundikandi Suneesh Kumar , Tegtmeyer Nicole , Arnold Isabelle Catherine , Lind Judith , Neddermann Matthias , Falkeis-Veits Christina , Chattopadhyay Sujay , Brönstrup Mark , Tegge Werner , Hong Minsun , Sticht Heinrich , Vieth Michael , Müller Anne , Backert Steffen 
Published: December 2019

AbstractToll-like receptor TLR5 recognizes a conserved domain, termed D1, that is present in flagellins of several pathogenic bacteria but not in Helicobacter pylori. Highly virulent H. pylori strains possess a type IV secretion system (T4SS) for delivery of virulence factors into gastric epithelial cells. Here, we show that one of the H. pylori T4SS components, protein CagL, can act as a flagellin-independent TLR5 activator. CagL contains a D1-like motif that mediates adherence to TLR5+ epithelial cells, TLR5 activation, and downstream signaling in vitro. TLR5 expression is associated with H. pylori infection and gastric lesions in human biopsies. Using Tlr5-knockout and wild-type mice, we show that TLR5 is important for efficient control of H. pylori infection. Our results indicate that CagL, by activating TLR5, may modulate immune responses to H. pylori.
ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery
Authors: Saei Amir Ata , Beusch Christian Michel , Chernobrovkin Alexey , Sabatier Pierre , Zhang Bo , Tokat Ülkü Güler , Stergiou Eleni , Gaetani Massimiliano , Végvári Ákos , Zubarev Roman A. 
Published: December 2019

AbstractDeconvolution of targets and action mechanisms of anticancer compounds is fundamental in drug development. Here, we report on ProTargetMiner as a publicly available expandable proteome signature library of anticancer molecules in cancer cell lines. Based on 287 A549 adenocarcinoma proteomes affected by 56 compounds, the main dataset contains 7,328 proteins and 1,307,859 refined protein-drug pairs. These proteomic signatures cluster by compound targets and action mechanisms. The targets and mechanistic proteins are deconvoluted by partial least square modeling, provided through the website http://protargetminer.genexplain.com. For 9 molecules representing the most diverse mechanisms and the common cancer cell lines MCF-7, RKO and A549, deep proteome datasets are obtained. Combining data from the three cell lines highlights common drug targets and cell-specific differences. The database can be easily extended and merged with new compound signatures. ProTargetMiner serves as a chemical proteomics resource for the cancer research community, and can become a valuable tool in drug discovery.
Genome-wide analysis identifies molecular systems and 149 genetic loci associated with income
Authors: Hill W. David , Davies Neil M. , Ritchie Stuart J. , Skene Nathan G. , Bryois Julien , Bell Steven , Di Angelantonio Emanuele , Roberts David J. , Xueyi Shen , Davies Gail , Liewald David C. M. , Porteous David J. , Hayward Caroline , Butterworth Adam S. , McIntosh Andrew M. , Gale Catharine R. , Deary Ian J. 
Published: December 2019

AbstractSocioeconomic position (SEP) is a multi-dimensional construct reflecting (and influencing) multiple socio-cultural, physical, and environmental factors. In a sample of 286,301 participants from UK Biobank, we identify 30 (29 previously unreported) independent-loci associated with income. Using a method to meta-analyze data from genetically-correlated traits, we identify an additional 120 income-associated loci. These loci show clear evidence of functionality, with transcriptional differences identified across multiple cortical tissues, and links to GABAergic and serotonergic neurotransmission. By combining our genome wide association study on income with data from eQTL studies and chromatin interactions, 24 genes are prioritized for follow up, 18 of which were previously associated with intelligence. We identify intelligence as one of the likely causal, partly-heritable phenotypes that might bridge the gap between molecular genetic inheritance and phenotypic consequence in terms of income differences. These results indicate that, in modern era Great Britain, genetic effects contribute towards some of the observed socioeconomic inequalities.
Task complexity interacts with state-space uncertainty in the arbitration between model-based and model-free learning
Authors: Kim Dongjae , Park Geon Yeong , O′Doherty John P. , Lee Sang Wan 
Published: December 2019

AbstractIt has previously been shown that the relative reliability of model-based and model-free reinforcement-learning (RL) systems plays a role in the allocation of behavioral control between them. However, the role of task complexity in the arbitration between these two strategies remains largely unknown. Here, using a combination of novel task design, computational modelling, and model-based fMRI analysis, we examined the role of task complexity alongside state-space uncertainty in the arbitration process. Participants tended to increase model-based RL control in response to increasing task complexity. However, they resorted to model-free RL when both uncertainty and task complexity were high, suggesting that these two variables interact during the arbitration process. Computational fMRI revealed that task complexity interacts with neural representations of the reliability of the two systems in the inferior prefrontal cortex.
A bacterial gene-drive system efficiently edits and inactivates a high copy number antibiotic resistance locus
Authors: Valderrama J. Andrés , Kulkarni Surashree S. , Nizet Victor , Bier Ethan 
Published: December 2019

AbstractGene-drive systems in diploid organisms bias the inheritance of one allele over another. CRISPR-based gene-drive expresses a guide RNA (gRNA) into the genome at the site where the gRNA directs Cas9-mediated cleavage. In the presence of Cas9, the gRNA cassette and any linked cargo sequences are copied via homology-directed repair (HDR) onto the homologous chromosome. Here, we develop an analogous CRISPR-based gene-drive system for the bacterium Escherichia coli that efficiently copies a gRNA cassette and adjacent cargo flanked with sequences homologous to the targeted gRNA/Cas9 cleavage site. This “pro-active” genetic system (Pro-AG) functionally inactivates an antibiotic resistance marker on a high copy number plasmid with ~ 100-fold greater efficiency than control CRISPR-based methods, suggesting an amplifying positive feedback loop due to increasing gRNA dosage. Pro-AG can likewise effectively edit large plasmids or single-copy genomic targets or introduce functional genes, foreshadowing potential applications to biotechnology or biomedicine.
Chaperone biomarkers of lifespan and penetrance track the dosages of many other proteins
Authors: Burnaevskiy Nikolay , Sands Bryan , Yun Soo , Tedesco Patricia M. , Johnson Thomas E. , Kaeberlein Matt , Brent Roger , Mendenhall Alexander 
Published: December 2019

AbstractMany traits vary among isogenic individuals in homogeneous environments. In microbes, plants and animals, variation in the protein chaperone system affects many such traits. In the animal model C. elegans, the expression level of hsp-16.2 chaperone biomarkers correlates with or predicts the penetrance of mutations and lifespan after heat shock. But the physiological mechanisms causing cells to express different amounts of the biomarker were unknown. Here, we used an in vivo microscopy approach to dissect different contributions to cell-to-cell variation in hsp-16.2 expression in the intestines of young adult animals, which generate the most lifespan predicting signal. While we detected both cell autonomous intrinsic noise and signaling noise, we found both contributions were relatively unimportant. The major contributor to cell-to-cell variation in biomarker expression was general differences in protein dosage. The hsp-16.2 biomarker reveals states of high or low effective dosage for many genes.
PSPC1-interchanged interactions with PTK6 and β-catenin synergize oncogenic subcellular translocations and tumor progression
Authors: Lang Yaw-Dong , Chen Hsin-Yi , Ho Chun-Ming , Shih Jou-Ho , Hsu En-Chi , Shen Roger , Lee Yu-Ching , Chen Jyun-Wei , Wu Cheng-Yen , Yeh Hsi-Wen , Chen Ruey-Hwa , Jou Yuh-Shan 
Published: December 2019

AbstractHepatocellular carcinoma (HCC) is one of the most lethal cancers worldwide due to metastasis. Paraspeckle component 1 (PSPC1) upregulation has been identified as an HCC pro-metastatic activator associated with poor patient prognosis, but with a lack of targeting strategy. Here, we report that PSPC1, a nuclear substrate of PTK6, sequesters PTK6 in the nucleus and loses its metastasis driving capability. Conversely, PSPC1 upregulation or PSPC1-Y523F mutation promotes epithelial-mesenchymal transition, stemness, and metastasis via cytoplasmic translocation of active PTK6 and nuclear translocation of β-catenin, which interacts with PSPC1 to augment Wnt3a autocrine signaling. The aberrant nucleocytoplasmic shuttling of active PTK6/β-catenin is reversed by expressing the PSPC1 C-terminal interacting domain (PSPC1-CT131), thereby suppressing PSPC1/PTK6/β-catenin-activated metastasis to prolong the survival of HCC orthotopic mice. Thus, PSPC1 is the contextual determinant of the oncogenic switch of PTK6/β-catenin subcellular localizations, and PSPC1-CT131 functions as a dual inhibitor of PSPC1 and PTK6 with potential for improving cancer therapy.
Offline ventral subiculum-ventral striatum serial communication is required for spatial memory consolidation
Authors: Torromino G. , Autore L. , Khalil V. , Mastrorilli V. , Griguoli M. , Pignataro A. , Centofante E. , Biasini G. M. , De Turris V. , Ammassari-Teule M. , Rinaldi A. , Mele A. 
Published: December 2019

AbstractThe hippocampal formation is considered essential for spatial navigation. In particular, subicular projections have been suggested to carry spatial information from the hippocampus to the ventral striatum. However, possible cross-structural communication between these two brain regions in memory formation has thus far been unknown. By selectively silencing the subiculum–ventral striatum pathway we found that its activity after learning is crucial for spatial memory consolidation and learning-induced plasticity. These results provide new insight into the neural circuits underlying memory consolidation and establish a critical role for off-line cross-regional communication between hippocampus and ventral striatum to promote the storage of complex information.
Recurrent PTPRT/JAK2 mutations in lung adenocarcinoma among African Americans
Authors: Mitchell Khadijah A. , Nichols Noah , Tang Wei , Walling Jennifer , Stevenson Holly , Pineda Marbin , Stefanescu Roxana , Edelman Daniel C. , Girvin Andrew T. , Zingone Adriana , Sinha Sanju , Bowman Elise , Rossi Emily L. , Arauz Rony F. , Jack Zhu Yuelin , Lack Justin , Weingartner Elizabeth , Waterfall Joshua J. , Pine Sharon R. , Simmons John , Meltzer Paul , Ryan Bríd M. 
Published: December 2019

AbstractReducing or eliminating persistent disparities in lung cancer incidence and survival has been challenging because our current understanding of lung cancer biology is derived primarily from populations of European descent. Here we show results from a targeted sequencing panel using NCI-MD Case Control Study patient samples and reveal a significantly higher prevalence of PTPRT and JAK2 mutations in lung adenocarcinomas among African Americans compared with European Americans. This increase in mutation frequency was validated with independent WES data from the NCI-MD Case Control Study and TCGA. We find that patients carrying these mutations have a concomitant increase in IL-6/STAT3 signaling and miR-21 expression. Together, these findings suggest the identification of these potentially actionable mutations could have clinical significance for targeted therapy and the enrollment of minority populations in clinical trials.
Comparative dataset of experimental and computational attributes of UV/vis absorption spectra
Authors: Beard Edward J. , Sivaraman Ganesh , Vázquez-Mayagoitia Álvaro , Vishwanath Venkatram , Cole Jacqueline M. 
Published: December 2019

AbstractThe ability to auto-generate databases of optical properties holds great prospects in data-driven materials discovery for optoelectronic applications. We present a cognate set of experimental and computational data that describes key features of optical absorption spectra. This includes an auto-generated database of 18,309 records of experimentally determined UV/vis absorption maxima,λmax, and associated extinction coefficients,ϵ, where present. This database was produced using the text-mining toolkit, ChemDataExtractor, on 402,034 scientific documents. High-throughput electronic-structure calculations using fast (simplified Tamm-Dancoff approach) and traditional (time-dependent) density functional theory were executed to predictλmaxand oscillation strengths,f(related to ϵ) for a subset of validated compounds. Paired quantities of these computational and experimental data show strong correlations inλmax,fandϵ, laying the path for reliablein silicocalculations of additional optical properties. The total dataset of 8,488 unique compounds and a subset of 5,380 compounds with experimental and computational data, are available in MongoDB, CSV and JSON formats. These can be queried using Python, R, Java, and MATLAB, for data-driven optoelectronic materials discovery.