bluuebunny/crossref_metadata_2025_split huggingface dataset:
TNFα deficiency results in increased IL-1β in an early onset of spontaneous murine colitis
Authors: De Santis S , Kunde D , Galleggiante V , Liso M , Scandiffio L , Serino G , Pinto A , Campiglia P , Sorrentino R , Cavalcanti E , Santino A , Caruso M L , Eri R , Chieppa M 
Published: August 2017

AbstractInflammatory bowel disease (Crohn’s disease (CD) and ulcerative colitis (UC)) is a multifactorial disease resulting from immune dysregulation in the gut. The underlying colitis is characterized by high levels of inflammatory cytokines, including TNFα. Biological intervention for IBD patients using anti-TNFα antibodies is often an effective therapeutic solution. However, TNFα neutralization fails to induce remission in a subgroup of IBD patients, primarily in UC patients. There is a dearth of suitable animal models representing TNFα non-responders. Here we have combined one of the best UC models currently available, namely Winnie and the TNFαKO mouse to generate a TNFα-deficient Winnie to study early onset colitis. The induced TNFα deficiency with underlying colitis does not influence general health (viability and body weight) or clinical parameters (colon weight, colon length and histological colitis) when compared with the Winnie genotype alone. The molecular characterization resulted in identification of Il1β as the major elevated cytokine during early phases of colitis. Further, in vitro functional assay using bone marrow-derived dendritic cells confirmed IL-1β as the major cytokine released in the absence of TNFα. This study has generated a successful model of colitis that remains TNFα non-responsive and has demonstrated that IL-1β expression is a major pathway for the progression of colitis in this system. These data also suggest that IL-1β can be a potential target for clinical intervention of UC patients who fail to respond to TNFα neutralization.
A reversible phospho-switch mediated by ULK1 regulates the activity of autophagy protease ATG4B
Authors: Pengo N. , Agrotis A. , Prak K. , Jones J. , Ketteler R. 
Published: August 2017

AbstractUpon induction of autophagy, the ubiquitin-like protein LC3 is conjugated to phosphatidylethanolamine (PE) on the inner and outer membrane of autophagosomes to allow cargo selection and autophagosome formation. LC3 undergoes two processing steps, the proteolytic cleavage of pro-LC3 and the de-lipidation of LC3-PE from autophagosomes, both executed by the same cysteine protease ATG4. How ATG4 activity is regulated to co-ordinate these events is currently unknown. Here we find that ULK1, a protein kinase activated at the autophagosome formation site, phosphorylates human ATG4B on serine 316. Phosphorylation at this residue results in inhibition of its catalytic activity in vitro and in vivo. On the other hand, phosphatase PP2A-PP2R3B can remove this inhibitory phosphorylation. We propose that the opposing activities of ULK1-mediated phosphorylation and PP2A-mediated dephosphorylation provide a phospho-switch that regulates the cellular activity of ATG4B to control LC3 processing.
The bHLH transcription factor CgbHLH001 is a potential interaction partner of CDPK in halophyte Chenopodium glaucum
Authors: Wang Juan , Cheng Gang , Wang Cui , He Zhuanzhuan , Lan Xinxin , Zhang Shiyue , Lan Haiyan 
Published: August 2017

AbstractPlants have evolved different abilities to adapt to the ever-fluctuating environments for sessility. Calcium-dependent protein kinase (CDPK) is believed to play a pivotal role in abiotic stress signaling. So far, study on the specific substrates that CDPK recognized in response to adversity is limited. In the present study, we revealed a potential interaction between CDPK and a bHLH transcription factor under salt stress in Chenopodium glaucum. First, we identified a CgCDPK, which was up-regulated under salt and drought stress; then by Y2H screening, CgCDPK was detected to be involved in interaction with a bHLH TF (named as CgbHLH001), which also positively respond to salt and drought stress. Further computational prediction and experiments including GST-pulldown and BiFC assays revealed that potential interaction existed between CgCDPK and CgbHLH001, and they might interact on the plasma membrane. In addition, CgCDPK-overexpressed transgenic tobacco line could significantly accumulate transcripts of NtbHLH (a homolog of CgbHLH001 in N. tabacum), which provided another evidence of correlation between CgCDPK and CgbHLH001. Our results suggest that CgbHLH001 can interact with CgCDPK in signal transduction pathway in response to abiotic stress, which should provide new evidence for further understanding of the substrate specificity of plant CDPK signaling pathway.
Reputation management promotes strategic adjustment of service quality in cleaner wrasse
Authors: Binning Sandra A. , Rey Olivia , Wismer Sharon , Triki Zegni , Glauser Gaétan , Soares Marta C. , Bshary Redouan 
Published: August 2017

AbstractAdjusting one’s behaviour in response to eavesdropping bystanders is considered a sophisticated social strategy, yet the underlying mechanisms are not well studied. Cleaner wrasse, Labroides dimidiatus, cooperate by eating ectoparasites off “client” fishes, or cheat (i.e. bite) and eat client mucus. Image scoring by bystander clients generally causes cleaners from socially-complex (i.e. high cleaner and client abundance; high client species richness) habitats to increase levels of cooperation. However, some individuals may periodically provide tactile stimulation to small resident clients, which attract bystanders close that are bitten, a form of tactical deception. Cortisol injection can reproduce this pattern. Here, we tested whether cleaners from socially-complex versus simple habitats respond differently to cortisol injections in terms of their cleaning interactions with clients. We found that only cleaners from the socially-complex habitat respond to cortisol injection with strategies functioning as tactical deception: i.e. increased tactile stimulation to small clients and increased cheating of large clients relative to small ones. At the socially-simple site, where reputation management is less important, cortisol-treated fish increased their overall levels of cheating, especially of small clients. Thus, strategic adjustments to cooperative behaviour and tactical deception are likely context-dependent, forming part of general reputation management abilities in cleaner wrasse.
The 3-D structure of the Somma-Vesuvius volcanic complex (Italy) inferred from new and historic gravimetric data
Authors: Linde Niklas , Ricci Tullio , Baron Ludovic , Shakas Alexis , Berrino Giovanna 
Published: August 2017

AbstractExisting 3-D density models of the Somma-Vesuvius volcanic complex (SVVC), Italy, largely disagree. Despite the scientific and socioeconomic importance of Vesuvius, there is no reliable 3-D density model of the SVVC. A considerable uncertainty prevails concerning the presence (or absence) of a dense body underlying the Vesuvius crater (1944 eruption) that is implied from extensive seismic investigations. We have acquired relative gravity measurements at 297 stations, including measurements in difficult-to-access areas (e.g., the first-ever measurements in the crater). In agreement with seismic investigations, the simultaneous inversion of these and historic data resolves a high-density body that extends from the surface of the Vesuvius crater down to depths that exceed 2 km. A 1.5-km radius horseshoe-shaped dense feature (open in the southwestern sector) enforces the existing model of groundwater circulation within the SVVC. Based on its volcano-tectonic evolution, we interpret volcanic structures that have never been imaged before.
Seal Whiskers Vibrate Over Broad Frequencies During Hydrodynamic Tracking
Authors: Murphy Christin T. , Reichmuth Colleen , Eberhardt William C. , Calhoun Benton H. , Mann David A. 
Published: August 2017

AbstractAlthough it is known that seals can use their whiskers (vibrissae) to extract relevant information from complex underwater flow fields, the underlying functioning of the system and the signals received by the sensors are poorly understood. Here we show that the vibrations of seal whiskers may provide information about hydrodynamic events and enable the sophisticated wake-tracking abilities of these animals. We developed a miniature accelerometer tag to study seal whisker movement in situ. We tested the ability of the tag to measure vibration in excised whiskers in a flume in response to laminar flow and disturbed flow. We then trained a seal to wear the tag and follow an underwater hydrodynamic trail to measure the whisker signals available to the seal. The results showed that whiskers vibrated at frequencies of 100–300 Hz, with a dynamic response. These measurements are the first to capture the incoming signals received by the vibrissae of a live seal and show that there are prominent signals at frequencies where the seal tactogram shows good sensitivity. Tapping into the mechanoreceptive interface between the animal and the environment may help to decipher the functional basis of this extraordinary hydrodynamic detection ability.
The trap bag concept of afterglow luminescence
Authors: Huang Yih-Ping , Lin Jeng-Wen 
Published: August 2017

AbstractThis article explains the behavior of afterglow luminescence using the trap bag concept, in which a constant phosphor dose contains a presumed bag with the ability to capture or release electrons through its opening. Luminescence is emitted as the bag releases the captured electrons. The electron-holding capacity is determined by the irradiation conditions, the width of the opening, and the electron activation; these factors are inherent properties of the long persistent luminescence (PLUM) dose and are affected by the thermal status. During the afterglow stage, higher temperatures may result in a wider opening and increased activation of electrons released from the bag, thus creating a higher light intensity and leading to the quicker exhaustion of the electrons within. In contrast, the opposite phenomenon will occur at lower temperatures. This article provides a detailed explanation of the trap bag concept at various thermal statuses and provides a method for delaying the afterglow peak profile through temperature change. Experimental tests were performed to confirm the proposed concept.
Measuring and modelling the response of Klebsiella pneumoniae KPC prey to Bdellovibrio bacteriovorus predation, in human serum and defined buffer
Authors: Baker Michelle , Negus David , Raghunathan Dhaarini , Radford Paul , Moore Chris , Clark Gemma , Diggle Mathew , Tyson Jess , Twycross Jamie , Sockett R. Elizabeth 
Published: August 2017

AbstractIn worldwide conditions of increasingly antibiotic-resistant hospital infections, it is important to research alternative therapies. Bdellovibrio bacteriovorus bacteria naturally prey on Gram-negative pathogens, including antibiotic-resistant strains and so B. bacteriovorus have been proposed as “living antibiotics” to combat antimicrobially-resistant pathogens. Predator-prey interactions are complex and can be altered by environmental components. To be effective B. bacteriovorus predation needs to work in human body fluids such as serum where predation dynamics may differ to that studied in laboratory media. Here we combine mathematical modelling and lab experimentation to investigate the predation of an important carbapenem-resistant human pathogen, Klebsiella pneumoniae, by B. bacteriovorus in human serum versus buffer. We show experimentally that B. bacteriovorus is able to reduce prey numbers in each environment, on different timescales. Our mathematical model captures the underlying dynamics of the experimentation, including an initial predation-delay at the predator-prey-serum interface. Our research shows differences between predation in buffer and serum and highlights both the potential and limitations of B. bacteriovorus acting therapeutically against K. pneumoniae in serum, informing future research into the medicinal behaviours and dosing of this living antibacterial.
Biogeographic distributions of neotropical trees reflect their directly measured drought tolerances
Authors: Esquivel-Muelbert Adriane , Galbraith David , Dexter Kyle G. , Baker Timothy R. , Lewis Simon L. , Meir Patrick , Rowland Lucy , Costa Antonio Carlos Lola da , Nepstad Daniel , Phillips Oliver L. 
Published: August 2017

AbstractHigh levels of species diversity hamper current understanding of how tropical forests may respond to environmental change. In the tropics, water availability is a leading driver of the diversity and distribution of tree species, suggesting that many tropical taxa may be physiologically incapable of tolerating dry conditions, and that their distributions along moisture gradients can be used to predict their drought tolerance. While this hypothesis has been explored at local and regional scales, large continental-scale tests are lacking. We investigate whether the relationship between drought-induced mortality and distributions holds continentally by relating experimental and observational data of drought-induced mortality across the Neotropics to the large-scale bioclimatic distributions of 115 tree genera. Across the different experiments, genera affiliated to wetter climatic regimes show higher drought-induced mortality than dry-affiliated ones, even after controlling for phylogenetic relationships. This pattern is stronger for adult trees than for saplings or seedlings, suggesting that the environmental filters exerted by drought impact adult tree survival most strongly. Overall, our analysis of experimental, observational, and bioclimatic data across neotropical forests suggests that increasing moisture-stress is indeed likely to drive significant changes in floristic composition.
Nitric Oxide regulates mouth development in amphioxus
Authors: Annona Giovanni , Caccavale Filomena , Pascual-Anaya Juan , Kuratani Shigeru , De Luca Pasquale , Palumbo Anna , D’Aniello Salvatore 
Published: August 2017

AbstractThe development of the mouth in animals has fascinated researchers for decades, and a recent study proposed the modern view of recurrent evolution of protostomy and deuterostomy. Here we expanded our knowledge about conserved traits of mouth formation in chordates, testing the hypothesis that nitric oxide (NO) is a potential regulator of this process. In the present work we show for the first time that NO is an essential cell signaling molecule for cephalochordate mouth formation, as previously shown for vertebrates, indicating its conserved ancestral role in chordates. The experimental decrease of NO during early amphioxus Branchiostoma lanceolatum development impaired the formation of the mouth and gill slits, demonstrating that it is a prerequisite in pharyngeal morphogenesis. Our results represent the first step in the understanding of NO physiology in non-vertebrate chordates, opening new evolutionary perspectives into the ancestral importance of NO homeostasis and acquisition of novel biological roles during evolution.
A biomechanical approach to understand the ecomorphological relationship between primate mandibles and diet
Authors: Marcé-Nogué Jordi , Püschel Thomas A. , Kaiser Thomas M. 
Published: August 2017

AbstractThe relationship between primate mandibular form and diet has been previously analysed by applying a wide array of techniques and approaches. Nonetheless, most of these studies compared few species and/or infrequently aimed to elucidate function based on an explicit biomechanical framework. In this study, we generated and analysed 31 Finite Element planar models of different primate jaws under different loading scenarios (incisive, canine, premolar and molar bites) to test the hypothesis that there are significant differences in mandibular biomechanical performance due to food categories and/or food hardness. The obtained stress values show that in primates, hard food eaters have stiffer mandibles when compared to those that rely on softer diets. In addition, we find that folivores species have the weakest jaws, whilst omnivores have the strongest mandibles within the order Primates. These results are highly relevant because they show that there is a strong association between mandibular biomechanical performance, mandibular form, food hardness and diet categories and that these associations can be studied using biomechanical techniques rather than focusing solely on morphology.
Physical implementation of oblivious transfer using optical correlated randomness
Authors: Ito Tomohiro , Koizumi Hayato , Suzuki Nobumitsu , Kakesu Izumi , Iwakawa Kento , Uchida Atsushi , Koshiba Takeshi , Muramatsu Jun , Yoshimura Kazuyuki , Inubushi Masanobu , Davis Peter 
Published: August 2017

AbstractWe demonstrate physical implementation of information-theoretic secure oblivious transfer based on bounded observability using optical correlated randomness in semiconductor lasers driven by common random light broadcast over optical fibers. We demonstrate that the scheme can achieve one-out-of-two oblivious transfer with effective key generation rate of 110 kb/s. The results show that this scheme is a promising approach to achieve information-theoretic secure oblivious transfer over long distances for future applications of secure computation such as privacy-preserving database mining, auctions and electronic-voting.
Spatial Regression and Prediction of Water Quality in a Watershed with Complex Pollution Sources
Authors: Yang Xiaoying , Liu Qun , Luo Xingzhang , Zheng Zheng 
Published: August 2017

AbstractFast economic development, burgeoning population growth, and rapid urbanization have led to complex pollution sources contributing to water quality deterioration simultaneously in many developing countries including China. This paper explored the use of spatial regression to evaluate the impacts of watershed characteristics on ambient total nitrogen (TN) concentration in a heavily polluted watershed and make predictions across the region. Regression results have confirmed the substantial impact on TN concentration by a variety of point and non-point pollution sources. In addition, spatial regression has yielded better performance than ordinary regression in predicting TN concentrations. Due to its best performance in cross-validation, the river distance based spatial regression model was used to predict TN concentrations across the watershed. The prediction results have revealed a distinct pattern in the spatial distribution of TN concentrations and identified three critical sub-regions in priority for reducing TN loads. Our study results have indicated that spatial regression could potentially serve as an effective tool to facilitate water pollution control in watersheds under diverse physical and socio-economical conditions.
Absolute measurement of gene transcripts with Selfie-digital PCR
Authors: Podlesniy Petar , Trullas Ramon 
Published: August 2017

AbstractAbsolute measurement of the number of RNA transcripts per gene is necessary to compare gene transcription among different tissues or experimental conditions and to assess transcription of genes that have a variable copy number per cell such as mitochondrial DNA. Here, we present a method called Selfie-digital PCR that measures the absolute amount of an RNA transcript produced by its own coding DNA at a particular moment. Overcoming the limitations of previous approaches, Selfie-digital PCR allows for the quantification of nuclear and mitochondrial gene transcription in a strand-specific manner that is comparable among tissues and cell types that differ in gene copy number or metabolic state. Using Selfie-digital PCR, we found that, with the exception of the liver, different organs exhibit marked variations in mitochondrial DNA copy number but similar transcription of mitochondrial DNA heavy and light chains, thus suggesting a preferential role of mitochondrial DNA abundance over its transcription in organ function. Moreover, the strand-specific analysis of mitochondrial transcription afforded by Selfie-digital PCR showed that transcription of the heavy strand was significantly higher than that of the light strand in all the tissues studied.
Template-Assisted Preparation of Micrometric Suspended Membrane Lattices of Photoluminescent and Non-Photoluminescent Polymers by Capillarity-Driven Solvent Evaporation: Application to Microtagging
Authors: Polito Giovanni , Robbiano Valentina , Cozzi Chiara , Cacialli Franco , Barillaro Giuseppe 
Published: August 2017

AbstractIn this work, the bottom-up template-assisted preparation of high-density lattices (up to 11 · 106 membranes/cm2) of suspended polymer membranes with micrometric size (in the order of few μm2) and sub-micrometric thickness (in the order of hundreds of nm) is demonstrated for both photoluminescent and non-photoluminescent polymers by capillarity-driven solvent evaporation. Solvent evaporation of low concentration polymer solutions drop-cast on an array of open-ended micropipes is shown to lead to polymer membrane formation at the inlet of the micropipes thanks to capillarity. The method is proven to be robust with high-yield (>98%) over large areas (1 cm2) and of general validity for both conjugated and non-conjugated polymers, e.g. poly(9,9-di-n-octylfluorene-alt-benzothiadiazole (F8BT), poly[2-methoxy-5-(3′,7′-dimethyloctyloxy)-1,4-phenylenevinylene] (MDMO-PPV), polystyrene (PS), thus breaking a new ground on the controlled preparation of polymer micro and nanostructures. Angle dependence and thermal stability of photoluminescence emission arising from F8BT membrane lattices was thorough investigated, highlighting a non-Lambertian photoluminescence emission of membrane lattices with respect to F8BT films. The method is eventually successfully applied to the preparation of both photoluminescent and non-photoluminescent micro Quick Response (μQR) codes using different polymers, i.e. F8BT, MDMO-PPV, PS, thus providing micrometric-sized taggants suitable for anti-counterfeiting applications.
Prognostic value of high-expression of miR-17-92 cluster in various tumors: evidence from a meta-analysis
Authors: Zhang Kaiping , Zhang Li , Zhang Meng , Zhang Yin , Fan Dengxin , Jiang Jiabin , Ye Liqin , Fang Xiang , Chen Xianguo , Fan Song , Chao Min , Liang Chaozhao 
Published: August 2017

AbstractThe prognostic value of miR-17-92 cluster high-expression in various tumors remains controversial. Therefore, we conducted this meta-analysis by searching literatures in PubMed, Embase, Cochrane Library, China Biology Medicine disc, China National Knowledge Infrastructure to identify eligible studies. Eventually, we analyzed 36 articles that examined 17 tumor types from 4965 patients. Consequently, high-expression of miR-17-92 cluster in various tumors was associated with unfavorable overall survival in both univariate (HR = 2.05, 95%CI: 1.58–2.65, P<0.001) and multivariate (HR = 2.14, 95%CI: 1.75–2.61, P<0.001) analyses. Likewise, similar results were found in different subgroups of country, test method, miR-17-92 cluster component, sample source and size. Additionally, high-expression of miR-17-92 cluster was linked with poor disease-free survival (Univariate: HR = 1.96, 95%CI: 1.55–2.48, P<0.001; Multivariate: HR = 2.18, 95%CI: 1.63–2.91, P<0.001), favorable progression-free survival (Univariate: HR = 0.36, 95%CI: 0.16–0.80, P = 0.012; Multivariate: HR = 1.55, 95%CI: 0.79–3.05, ﻿P﻿ = 0.201) and poor cancer specific survival in univariate rather than multivariate analyses (Univariate: HR = 1.77, 95%CI: 1.21–2.60, P = 0.004; Multivariate: HR = 1.77, 95%CI: 0.80–3.92, P = 0.160). However, no association of miR-17-92 cluster high-expression was detected with recurrence or relapse-free survival. In summary, this meta-analysis towards high-expression of miR-17-92 cluster has indicated poor prognosis of various cancers. Notably, future studies comprising large cohort size from multicenter are required to confirm our conclusions.