bluuebunny/crossref_metadata_2025_split huggingface dataset:
Searching for topological Fermi arcs via quasiparticle interference on a type-II Weyl semimetal MoTe2
Authors: Iaia Davide , Chang Guoqing , Chang Tay-Rong , Hu Jin , Mao Zhiqiang , Lin Hsin , Yan Shichao , Madhavan Vidya 
Published: August 2018

AbstractWeyl semimetals display a novel topological phase of matter where the Weyl nodes emerge in pairs of opposite chirality and can be seen as either a source or a sink of Berry curvature. The exotic effects in Weyl semimetals, such as surface Fermi arcs and the chiral anomaly, make them a new playground for exploring novel functionalities. Further exploiting their potential applications requires clear understanding of their topological electronic properties. Here we report a Fourier transform scanning tunneling spectroscopy (FT-STS) study on a type-II Weyl semimetal candidate MoTe2 whose Weyl points are predicated to be located above Fermi level. Although its electronic structure below the Fermi level has been identified by angle resolved photo emission spectroscopy, by comparing our experimental data with first-principles calculations, we are able to identify the origins of multiple scattering channels both below and above Fermi level. Our calculations also show the existence of both trivial and topological arc-like states above the Fermi energy. In the FT-STS experiments, we have observed strong signals from intra-arc scatterings as well as from the scattering between the arc-like surface states and the projected bulk states. A detailed comparison between our experimental observations and calculated results reveals the trivial and non-trivial scattering channels are difficult to distinguish in this compound. Interestingly, we find that the broken inversion symmetry changes the terminating states on the two inequivalent surfaces, which in turn changes the relative strength of the scattering channels observed in the FT-STS images on the two surfaces.
Multi-scale, whole-system models of liver metabolic adaptation to fat and sugar in non-alcoholic fatty liver disease
Authors: Maldonado Elaina M. , Fisher Ciarán P. , Mazzatti Dawn J. , Barber Amy L. , Tindall Marcus J. , Plant Nicholas J. , Kierzek Andrzej M. , Moore J. Bernadette 
Published: August 2018

AbstractNon-alcoholic fatty liver disease (NAFLD) is a serious public health issue associated with high fat, high sugar diets. However, the molecular mechanisms mediating NAFLD pathogenesis are only partially understood. Here we adopt an iterative multi-scale, systems biology approach coupled to in vitro experimentation to investigate the roles of sugar and fat metabolism in NAFLD pathogenesis. The use of fructose as a sweetening agent is controversial; to explore this, we developed a predictive model of human monosaccharide transport, signalling and metabolism. The resulting quantitative model comprising a kinetic model describing monosaccharide transport and insulin signalling integrated with a hepatocyte-specific genome-scale metabolic network (GSMN). Differential kinetics for the utilisation of glucose and fructose were predicted, but the resultant triacylglycerol production was predicted to be similar for monosaccharides; these predictions were verified by in vitro data. The role of physiological adaptation to lipid overload was explored through the comprehensive reconstruction of the peroxisome proliferator activated receptor alpha (PPARα) regulome integrated with a hepatocyte-specific GSMN. The resulting qualitative model reproduced metabolic responses to increased fatty acid levels and mimicked lipid loading in vitro. The model predicted that activation of PPARα by lipids produces a biphasic response, which initially exacerbates steatosis. Our data support the evidence that it is the quantity of sugar rather than the type that is critical in driving the steatotic response. Furthermore, we predict PPARα-mediated adaptations to hepatic lipid overload, shedding light on potential challenges for the use of PPARα agonists to treat NAFLD.
The rubber hand illusion induced by visual-thermal stimulation
Authors: Trojan Jörg , Fuchs Xaver , Speth Sophie-Louise , Diers Martin 
Published: August 2018

AbstractIn the rubber hand illusion (RHI), synchronous touch of a real hand and an artificial hand leads to the feeling of the artificial hand belonging to one’s own body. This study examined whether the RHI can be induced using visual–thermal instead of visual–tactile stimulus patterns and to which extent the congruency between temperature and colour of the visual stimulus influences the RHI. In a within-subject design, we presented cold vs. warm thermal stimuli to the participants’ hidden hand combined with red vs. blue visual stimuli presented synchronously vs. asynchronously at a fake hand. The RHI could be induced using visual–thermal stimuli, yielding RHI vividness ratings comparable to the visual-tactile variant. Congruent (warm–red, cold–blue) synchronous stimulus patterns led to higher RHI vividness than incongruent (warm–blue, cold–red) synchronous combinations; in the asynchronous conditions, an inverse effect was present. Temperature ratings mainly depended on the actual stimulus temperature and were higher with synchronous vs. asynchronous patterns; they were also slightly higher with red vs. blue light, but there were no interactions with temperature or synchrony. In conclusion, we demonstrated that the RHI can be induced via visual-thermal stimuli, opening new perspectives in research on multi-sensory integration and body representations.
EPO does not promote interaction between the erythropoietin and beta-common receptors
Authors: Cheung Tung Shing Karen S. , Broughton Sophie E. , Nero Tracy L. , Gillinder Kevin , Ilsley Melissa D. , Ramshaw Hayley , Lopez Angel F. , Griffin Michael D. W. , Parker Michael W. , Perkins Andrew C. , Dhagat Urmi 
Published: August 2018

AbstractA direct interaction between the erythropoietin (EPOR) and the beta-common (βc) receptors to form an Innate Repair Receptor (IRR) is controversial. On one hand, studies have shown a functional link between EPOR and βc receptor in tissue protection while others have shown no involvement of the βc receptor in tissue repair. To date there is no biophysical evidence to confirm a direct association of the two receptors either in vitro or in vivo. We investigated the existence of an interaction between the extracellular regions of EPOR and the βc receptor in silico and in vitro (either in the presence or absence of EPO or EPO-derived peptide ARA290). Although a possible interaction between EPOR and βc was suggested by our computational and genomic studies, our in vitro biophysical analysis demonstrates that the extracellular regions of the two receptors do not specifically associate. We also explored the involvement of the βc receptor gene (Csf2rb) under anaemic stress conditions and found no requirement for the βc receptor in mice. In light of these studies, we conclude that the extracellular regions of the EPOR and the βc receptor do not directly interact and that the IRR is not involved in anaemic stress.
Scenario planning with linked land-sea models inform where forest conservation actions will promote coral reef resilience
Authors: Delevaux J. M. S. , Jupiter S. D. , Stamoulis K. A. , Bremer L. L. , Wenger A. S. , Dacks R. , Garrod P. , Falinski K. A. , Ticktin T. 
Published: August 2018

AbstractWe developed a linked land-sea modeling framework based on remote sensing and empirical data, which couples sediment export and coral reef models at fine spatial resolution. This spatially-explicit (60 × 60 m) framework simultaneously tracks changes in multiple benthic and fish indicators as a function of land-use and climate change scenarios. We applied this framework in Kubulau District, Fiji, to investigate the effects of logging, agriculture expansion, and restoration on coral reef resilience. Under the deforestation scenario, models projected a 4.5-fold sediment increase (>7,000 t. yr−1) coupled with a significant decrease in benthic habitat quality across 1,940 ha and a reef fish biomass loss of 60.6 t. Under the restoration scenario, models projected a small (<30 t. yr−1) decrease in exported sediments, resulting in a significant increase in benthic habitat quality across 577 ha and a fish biomass gain of 5.7 t. The decrease in benthic habitat quality and loss of fish biomass were greater when combining climate change and deforestation scenarios. We evaluated where land-use change and bleaching scenarios would impact sediment runoff and downstream coral reefs to identify priority areas on land, where conservation or restoration could promote coral reef resilience in the face of climate change.
Cognitive effects of transcranial direct current stimulation combined with working memory training in fibromyalgia: a randomized clinical trial
Authors: Santos Vinicius Souza dos Souza dos , Zortea Maxciel , Alves Rael Lopes , Naziazeno Cátia Cilene dos Santos , Saldanha Júlia Schirmer , Carvalho Sandra da Conceição Ribeiro de , Leite António Jorge da Costa , Torres Iraci Lucena da Silva , Souza Andressa de , Calvetti Prisla Ücker , Fregni Felipe , Caumo Wolnei 
Published: August 2018

AbstractCognitive dysfunction in fibromyalgia has been reported, especially memory. Anodal transcranial direct current stimulation (tDCS) over the dorsolateral prefrontal cortex (DLPFC) has been effective in enhancing this function. We tested the effects of eight sessions of tDCS and cognitive training on immediate and delayed memory, verbal fluency and working memory and its association with brain-derived neurotrophic factor (BDNF) levels. Forty females with fibromyalgia were randomized to receive eight sessions of active or sham tDCS. Anodal stimulation (2 mA) was applied over the DLPFC and online combined with a working memory training (WMT) for 20 minutes. Pre and post-treatment neurocognitive tests were administered. Data analysis on deltas considering years of education and BDNF as covariates, indicated active-tDCS + WMT significantly increased immediate memory indexed by Rey Auditory Verbal Learning Test score when compared to sham. This effect was dependent on basal BDNF levels. In addition, the model showed active stimulation increased orthographic and semantic verbal fluency scores (Controlled Oral Word Association Test) and short-term memory (Forward Digit Span). The combination of both techniques seemed to produce effects on specific cognitive functions related to short-term and long-term episodic memory and executive functions, which has clinical relevance for top-down treatment approaches in FM.
Metabolic profiles of cysteine, methionine, glutamate, glutamine, arginine, aspartate, asparagine, alanine and glutathione in Streptococcus thermophilus during pH-controlled batch fermentations
Authors: Qiao Yali , Liu Gefei , Leng Cong , Zhang Yanjiao , Lv Xuepeng , Chen Hongyu , Sun Jiahui , Feng Zhen 
Published: August 2018

AbstractElucidating the amino acid (AA) metabolism patterns of Streptococcus thermophilus has important effects on the precise design of nitrogen sources for high-cell-density culture. Transcriptomics and metabolomics were combined to reveal the cysteine, methionine, glutamate, glutamine, arginine, aspartate, asparagine and alanine metabolic pathways in S. thermophilus MN-ZLW-002, including glutathione. The changes in the synthesis, consumption and concentration of AAs and their metabolites, as well as regulatory genes with time were revealed. The metabolism of L-cysteine, L-glutamate, L-aspartate and L-alanine generated some potential functional metabolites. The metabolism of methionine and glutamate generated potential harmful metabolites. S. thermophilus MN-ZLW-002 can synthesize glutathione. Some potential functional metabolites have similar biological functions, indicating that S. thermophilus can resist environmental stresses through multiple mechanisms. The expression of some key genes in synthesis pathway of AA indicated that cysteine, methionine, asparagine, aspartate, arginine and lysine were insufficient or imbalance between nutrient components. The accumulation of large amounts of AA metabolites might be the primary cause of the overconsumption of AAs and influence the growth of S. thermophilus. The present study revealed the metabolic profiles of abovementioned AAs as well as those of regulatory genes and metabolites. These results were beneficial to the precise design of nitrogen sources and regulation of functional metabolites for the high-cell-density culture of S. thermophilus.
Contribution of BH3-domain and Transmembrane-domain to the Activity and Interaction of the Pore-forming Bcl-2 Proteins Bok, Bak, and Bax
Authors: Stehle Daniel , Grimm Melanie , Einsele-Scholz Stephanie , Ladwig Friederike , Johänning Janina , Fischer Gerd , Gillissen Bernhard , Schulze-Osthoff Klaus , Essmann Frank 
Published: August 2018

AbstractCentral to intrinsic apoptosis signaling is the release of cytochrome c from mitochondria, which depends on the pro-apoptotic effector proteins Bax, Bak or Bok. These pore-forming effector proteins share four Bcl-2 homology (BH) domains, a functionally essential and conserved sequence of hydrophobic amino acids in their BH3-domain and a C-terminal transmembrane-domain whose specific function remains rather unknown. To elucidate the molecular basis of Bok-mediated apoptosis we analyzed apoptosis induction by transmembrane-domain deficient BokΔTM compared to the respective Bax and Bak proteins and proteins in which the first leucine in the BH3-stretch was mutated to glutamic acid. We show that deletion of the C-terminal transmembrane-domain reduces the pro-apoptotic function of each protein. Mutation of the first leucine in the BH3-domain (L78E) blocks activity of Bak, while mutation of the homologue residues in Bax or Bok (L63E and L70E respectively) does not affect apoptosis induction. Unexpectedly, combined mutation of the BH3-domain and deletion of the transmembrane-domain enhances the pro-apoptotic activity of Bok(L70E)ΔTM by abolishing the interaction with anti-apoptotic proteins, especially the primary Bok-inhibitory protein Mcl-1. These results therefore suggest a specific contribution of the transmembrane-domain to the pro-apoptotic function and interaction of Bok.
SERCA is critical to control the Bowditch effect in the heart
Authors: Balcazar Darío , Regge Victoria , Santalla Manuela , Meyer Heiko , Paululat Achim , Mattiazzi Alicia , Ferrero Paola 
Published: August 2018

AbstractThe Bowditch effect or staircase phenomenon is the increment or reduction of contractile force when heart rate increases, defined as either a positive or negative staircase. The healthy and failing human heart both show positive or negative staircase, respectively, but the causes of these distinct cardiac responses are unclear. Different experimental approaches indicate that while the level of Ca2+ in the sarcoplasmic reticulum is critical, the molecular mechanisms are unclear. Here, we demonstrate that Drosophila melanogaster shows a negative staircase which is associated to a slight but significant frequency-dependent acceleration of relaxation (FDAR) at the highest stimulation frequencies tested. We further showed that the type of staircase is oppositely modified by two distinct SERCA mutations. The dominant conditional mutation SERCAA617T induced positive staircase and arrhythmia, while SERCAE442K accentuated the negative staircase of wild type. At the stimulation frequencies tested, no significant FDAR could be appreciated in mutant flies. The present results provide evidence that two individual mutations directly modify the type of staircase occurring within the heart and suggest an important role of SERCA in regulating the Bowditch effect.
Super Water-Repellent Cellulose Acetate Mats
Authors: Mikaeili Fateh , Gouma Pelagia I. 
Published: August 2018

AbstractA single-step synthesis of super-water-repellent oil sorbents based on cellulose acetate (CA) mats is reported in this paper. Key phenomenological mechanisms involving roughness and changes in chemistry are used to describe the change in hydrophobic behavior of the CA mats. Contact angle calculations followed by Cassie’s model apparent contact angle prediction have shown roughness alone is not capable of producing the super-hydrophobicity exhibited by as-spun mats. Fourier transform infrared spectroscopy of spin coated and electrospun mats shows a significant difference in the stretching of the hydroxyl bonds of the two materials. As it is this hydroxyl group which adds to the overall polarity of surface thus hydrophilicity of the material, we propose that the electrospinning process not only creates a rougher surface but also alters the chemistry of the electrospun cellulose acetate mats which ultimately gives rise to the reported hydrophobicity. Finally, due to their water repellent nature, and oleophilicity of the as-spun mats were tested as oil sorbent mats. The as-spun mats were capable of absorbing thirty times their weight in oil demonstrating their application for oil-water remediation.
Predators Show Seasonal Predilections for Model Clay Spiders in an Urban Environment
Authors: Mason L. D. , Wardell-Johnson G. , Luxton S. J. , Bateman P. W. 
Published: August 2018

AbstractPredator-prey interactions may be altered under human-induced rapid environmental change, such as urbanisation. Extensive clearing in urban areas may leave short-range endemic species, such as mygalomorph spiders, more vulnerable to local extinction through predation in remaining remnants. Predation rates on Australian mygalomorph spiders were assessed using clay models of two size classes (5 cm, 3 cm), during two time periods in 2016 (January–February, July–August). Size and phenology of models resembled the mygalomorph genera Aname and Teyl occurring in these local urban remnants. Local predator guilds were significantly influenced by leaf-litter cover (%) and proportion of surrounding parkland. Preference for spider vs. control models was consistent across all predator types (bird, rodent, lizard and wasp), but specialist spider wasps (Pompilidae) only attacked spider models. Generalist predators (birds, lizards and rodents) were more opportunistic. Lizards and rodents exhibit similar predation behaviour, indicating there may be some inter-specific competition. Invasive generalists (e. g. rodents) or urban adapters (e. g. corvids) are more likely to represent an increased threat to spiders than are co-evolved specialists (e.g. spider wasps).
Simpler, Faster, and Sensitive Zika Virus Assay Using Smartphone Detection of Loop-mediated Isothermal Amplification on Paper Microfluidic Chips
Authors: Kaarj Kattika , Akarapipad Patarajarin , Yoon Jeong-Yeol 
Published: August 2018

AbstractThe recent Zika virus (ZIKV) outbreak has prompted the need for field-ready diagnostics that are rapid, easy-to-use, handheld, and disposable while providing extreme sensitivity and specificity. To meet this demand, we developed a wax-printed paper microfluidic chip utilizing reverse transcription loop-mediated isothermal amplification (RT-LAMP). The developed simple and sensitive ZIKV assay was demonstrated using undiluted tap water, human urine, and diluted (10%) human blood plasma. Paper type, pore size, and channel dimension of various paper microfluidic chips were investigated and optimized to ensure proper filtration of direct-use biological samples (tap water, urine, and plasma) during capillary action-driven flow. Once ZIKV RNA has flowed and reached to a detection area of the paper microfluidic chip, it was excised for the addition of an RT-LAMP mixture with a pH indicator, then placed on a hot plate at 68 °C. Visible color changes from successful amplification were observed in 15 minutes and quantified by smartphone imaging. The limit of detection was as low as 1 copy/μL. The developed platform can also be used for identifying other flaviviruses, such as Chikungunya virus (CHIKV) and Dengue virus (DENV), and potentially other quickly transmitted virus pathogens, towards field-based diagnostics.
The tyrosine phosphorylated pro-survival form of Fas intensifies the EGF-induced signal in colorectal cancer cells through the nuclear EGFR/STAT3-mediated pathway
Authors: Ta Ngoc Ly , Chakrabandhu Krittalak , Huault Sébastien , Hueber Anne-Odile 
Published: August 2018

AbstractTyrosine phosphorylation of Fas (TNFRSF6/CD95) in its death domain turns off Fas-mediated apoptosis, turns on the pro-survival signal, and has implications in different cancers types. We show here that Fas in its pro-survival state, phosphorylated at Y291 (pY291-Fas), functionally interacts with the epidermal growth factor receptor (EGFR), a key cancer-driving protein and major therapeutic target. Using an evolution-guided pY291-Fas proxy, RNA interference, and site-specific phospho-protein detection, we show that pY291-Fas significantly intensifies EGFR signaling in anti-EGFR-resistant colorectal cancer cells via the Yes-1/STAT3-mediated pathway. The pY291-Fas is essential for the EGF-induced formation of the Fas-mediated nuclear EGFR/STAT3 signaling complex consisting of Fas, EGFR, Yes-1, Src, and STAT3. The pY291-Fas accumulates in the nucleus upon EGF treatment and promotes the nuclear localization of phospho-EGFR and phospho-STAT3, the expression of cyclin D1, the activation of STAT3-mediated Akt and MAPK pathways, and cell proliferation and migration. This novel cancer-promoting function of phosphorylated Fas in the nuclear EGFR signaling constitutes the foundation for developing pro-survival-Fas targeted anti-cancer therapies to overcome disease recurrence in patients with anti-EGFR resistant cancer.
ZNF542P is a pseudogene associated with LDL response to simvastatin treatment
Authors: Kim Kyungpil , Theusch Elizabeth , Kuang Yu-Lin , Dose Andrea , Mitchel Katrina , Cubitt Celia , Chen Yii-Der I. , Krauss Ronald M. , Medina Marisa W. 
Published: August 2018

AbstractStatins are the most commonly prescribed cardiovascular disease drug, but their inter-individual efficacy varies considerably. Genetic factors uncovered to date have only explained a small proportion of variation in low-density lipoprotein cholesterol (LDLC) lowering. To identify novel markers and determinants of statin response, we used whole transcriptome sequence data collected from simvastatin and control incubated lymphoblastoid cell lines (LCLs) established from participants of the Cholesterol and Pharmacogenetics (CAP) simvastatin clinical trial. We looked for genes whose statin-induced expression changes were most different between LCLs derived from individuals with high versus low plasma LDLC statin response during the CAP trial. We created a classification model of 82 “signature” gene expression changes that distinguished high versus low LDLC statin response. One of the most differentially changing genes was zinc finger protein 542 pseudogene (ZNF542P), the signature gene with changes most correlated with statin-induced change in cellular cholesterol ester, an in vitro marker of statin response. ZNF542P knock-down in a human hepatoma cell line increased intracellular cholesterol ester levels upon simvastatin treatment. Together, these findings imply a role for ZNF542P in LDLC response to simvastatin and, importantly, highlight the potential significance of noncoding RNAs as a contributing factor to variation in drug response.