bluuebunny/crossref_metadata_2025_split huggingface dataset:
A deterministic detector for vector vortex states
Authors: Ndagano Bienvenu , Nape Isaac , Perez-Garcia Benjamin , Scholes Stirling , Hernandez-Aranda Raul I. , Konrad Thomas , Lavery Martin P. J. , Forbes Andrew 
Published: October 2017

AbstractEncoding information in high-dimensional degrees of freedom of photons has led to new avenues in various quantum protocols such as communication and information processing. Yet to fully benefit from the increase in dimension requires a deterministic detection system, e.g., to reduce dimension dependent photon loss in quantum key distribution. Recently, there has been a growing interest in using vector vortex modes, spatial modes of light with entangled degrees of freedom, as a basis for encoding information. However, there is at present no method to detect these non-separable states in a deterministic manner, negating the benefit of the larger state space. Here we present a method to deterministically detect single photon states in a four dimensional space spanned by vector vortex modes with entangled polarisation and orbital angular momentum degrees of freedom. We demonstrate our detection system with vector vortex modes from the |$${\boldsymbol{\ell }}$$
ℓ
| = 1 and |$${\boldsymbol{\ell }}$$
ℓ
| = 10 subspaces using classical and weak coherent states and find excellent detection fidelities for both pure and superposition vector states. This work opens the possibility to increase the dimensionality of the state-space used for encoding information while maintaining deterministic detection and will be invaluable for long distance classical and quantum communication.
Role of the luxS gene in bacteriocin biosynthesis by Lactobacillus plantarum KLDS1.0391: A proteomic analysis
Authors: Jia Fang-Fang , Pang Xue-Hui , Zhu De-Quan , Zhu Zong-Tao , Sun Si-Rui , Meng Xiang-Chen 
Published: October 2017

AbstractCertain probiotic species of lactic acid bacteria, especially Lactobacillus plantarum, regulate bacteriocin synthesis through quorum sensing (QS) systems. In this study, we aimed to investigate the luxS-mediated molecular mechanisms of QS during bacteriocin synthesis by L. plantarum KLDS1.0391. In the absence of luxS, the ‘spot-on-the-lawn’ method showed that the bacteriocin production by L. plantarum KLDS1.0391 significantly decreased upon co-cultivation with L. helveticus KLDS1.9207 (P < 0.01) but did not change significantly when mono-cultivated. Furthermore, liquid chromatography-electrospray ionization tandem mass spectrometry analysis showed that, as a response to luxS deletion, L. plantarum KLDS1.0391 altered the expression level of proteins involved in carbohydrate metabolism, amino acid metabolism, fatty acid synthesis and metabolism, and the two-component regulatory system. In particular, the sensor histidine kinase AgrC (from the two-component system, LytTR family) was expressed differently between the luxS mutant and the wild-type strain during co-cultivation, whereas no significant differences in proteins related to bacteriocin biosynthesis were found upon mono-cultivation. In summary, we found that the production of bacteriocin was regulated by carbohydrate metabolism, amino acid metabolism, fatty acid synthesis and metabolism, and the two-component regulatory system. Furthermore, our results demonstrate the role of luxS-mediated molecular mechanisms in bacteriocin production.
Seawater transfer alters the intestinal microbiota profiles of Atlantic salmon (Salmo salar L.)
Authors: Dehler Carola E. , Secombes Christopher J. , Martin Samuel A. M. 
Published: October 2017

AbstractAtlantic salmon undergo dramatic physiological changes as they migrate from freshwater to the marine environment. Osmoregulatory adaptation is the most crucial change, necessitating functional adaptations of the gills, kidney and intestine. Additionally, novel pathogens, microbes and dietary items are encountered in the saltwater environment, which suggests major changes in the intestinal microbiota following movement to saltwater. Here we compared the intestinal microbiota harboured in the distal digesta of Atlantic salmon freshwater fish (FW) kept in a commercial Scottish freshwater hatchery with that of their full-siblings after seawater acclimatisation (SW) by a 16S rRNA (V3-V4) high-throughput sequencing approach. Alpha- and beta-diversity were found significantly higher in FW compared to SW, both in terms of richness and diversity. Metastats analysis identified a higher number of Operational Taxonomic Units (OTUs) unique to FW compared to SW, with an additional 238 OTUs found at significantly different abundance. A core microbiota of 19 OTUs was identified in 100% of all fish, which indicates that certain microbes are maintained to fulfil minimal functions within the gut. Furthermore we show that the uniqueness of the respective microbial profiles can be correlated with significant differences in KEGG pathways including lipid and amino acid metabolism.
Computational reconstruction reveals a candidate magnetic biocompass to be likely irrelevant for magnetoreception
Authors: Friis Ida , Sjulstok Emil , Solov’yov Ilia A. 
Published: October 2017

AbstractBirds use the magnetic field of the Earth to navigate during their annual migratory travel. The possible mechanism to explain the biophysics of this compass sense involves electron transfers within the photoreceptive protein cryptochrome. The magnetoreceptive functioning of cryptochromes is supposedly facilitated through an iron rich polymer complex which couples to multiple cryptochromes. The present investigation aims to independently reconstruct this complex and describe its interaction with Drosophila melanogaster cryptochromes. The polymer complex consists of ISCA1 protein monomers with internally bound iron sulphur clusters and simultaneously binds ten cryptochromes. Through molecular dynamics we have analysed the stability of the ISCA1-cryptochrome complex and characterized the interaction at the binding sites between individual cryptochrome and ISCA1. It is found that the cryptochrome binding to the ISCA1 polymer is not uniform and that the binding affinity depends on its placement along the ISCA1 polymer. This finding supports the claim that the individual ISCA1 monomer acts as possible intracellular interaction partner of cryptochrome, but the proposed existence of an elongated ISCA1 polymer with multiple attached cryptochromes appears to be questionable.
Structural, physicochemical and dynamic features conserved within the aerolysin pore-forming toxin family
Authors: Cirauqui Nuria , Abriata Luciano A. , van der Goot F. Gisou , Dal Peraro Matteo 
Published: October 2017

AbstractAerolysin is the founding member of a major class of β-pore-forming toxins (β-PFTs) found throughout all kingdoms of life. PFTs are cytotoxic proteins produced as soluble monomers, which oligomerize at the membrane of target host cells forming pores that may lead to osmotic lysis and cell death. Besides their role in microbial infection, they have become interesting for their potential as biotechnological sensors and delivery systems. Using an approach that integrates bioinformatics with molecular modeling and simulation, we looked for conserved features across this large toxin family. The cell surface-binding domains present high variability within the family to provide membrane receptor specificity. On the contrary, the novel concentric double β-barrel structure found in aerolysin is highly conserved in terms of sequence, structure and conformational dynamics, which likely contribute to preserve a common transition mechanism from the prepore to the mature pore within the family.Our results point to the key role of several amino acids in the conformational changes needed for oligomerization and further pore formation, such as Y221, W227, P248, Q263 and L277, which we propose are involved in the release of the stem loop and the two adjacent β-strands to form the transmembrane β-barrel.
Quantum coherence of the Heisenberg spin models with Dzyaloshinsky-Moriya interactions
Authors: Radhakrishnan Chandrashekar , Parthasarathy Manikandan , Jambulingam Segar , Byrnes Tim 
Published: October 2017

AbstractWe study quantum coherence in a spin chain with both symmetric exchange and antisymmetric Dzyaloshinsky-Moriya couplings. Quantum coherence is quantified using the recently introduced quantum Jensen-Shannon divergence, which has the property that it is easily calculable and has several desirable mathematical properties. We calculate exactly the coherence for arbitrary number of spins at zero temperature in various limiting cases. The σ
z
σ
z
interaction tunes the amount of coherence in the system, and the antisymmetric coupling changes the nature of the coherence. We also investigate the effect of non-zero temperature by looking at a two-spin system and find similar behavior, with temperature dampening the coherence. The characteristic behavior of coherence resembles that of entanglement and is opposite to that of discord. The distribution of the coherence on the spins is investigated and found that it arises entirely due to the correlations between the spins.
Simulating Moral Actions: An Investigation of Personal Force in Virtual Moral Dilemmas
Authors: Francis K. B. , Terbeck S. , Briazu R. A. , Haines A. , Gummerum M. , Ganis G. , Howard I. S. 
Published: October 2017

AbstractAdvances in Virtual Reality (VR) technologies allow the investigation of simulated moral actions in visually immersive environments. Using a robotic manipulandum and an interactive sculpture, we now also incorporate realistic haptic feedback into virtual moral simulations. In two experiments, we found that participants responded with greater utilitarian actions in virtual and haptic environments when compared to traditional questionnaire assessments of moral judgments. In experiment one, when incorporating a robotic manipulandum, we found that the physical power of simulated utilitarian responses (calculated as the product of force and speed) was predicted by individual levels of psychopathy. In experiment two, which integrated an interactive and life-like sculpture of a human into a VR simulation, greater utilitarian actions continued to be observed. Together, these results support a disparity between simulated moral action and moral judgment. Overall this research combines state-of-the-art virtual reality, robotic movement simulations, and realistic human sculptures, to enhance moral paradigms that are often contextually impoverished. As such, this combination provides a better assessment of simulated moral action, and illustrates the embodied nature of morally-relevant actions.
Calcineurin/P-ERK/Egr-1 Pathway is Involved in Fear Memory Impairment after Isoflurane Exposure in Mice
Authors: Yang Xiaoxuan , Li Guohui , Xue Qingsheng , Luo Yan , Wang Sensen , Xia Yimeng , Zhuang Lei , Yu Buwei 
Published: October 2017

AbstractIsoflurane exposure adversely influences subsequent fear memory formation in mice. Calcineurin (CaN), a phosphatase, prevents the establishment of emotional memory by dephosphorylating substrates and inhibiting the expression of learning and memory related genes. We investigated whether isoflurane impairment of fear memory formation was associated with altered CaN activity and downstream phosphorylated-extracellular signal-regulated kinases (p-ERK) and early growth response gene-1 (Egr-1) expression in hippocampus and amygdala. We also tested whether memory performance can be rescued by the CaN inhibitor FK506. Adult C57BL/6 mice were injected FK506 or vehicle after being exposed to 1.3% isoflurane or air for 1 h. After a 1 h- recovery, mice underwent classical fear conditioning (FC) training. Fear memory were tested 30 min, 48 h and 7 days after training. The activity of CaN, and expression of p-ERK and Egr-1 in hippocampus and amygdala were analyzed. Isoflurane exposure reduced mice freezing time in contextual and tone FC tests 30 min and 48 h after training. Hippocampus and amygdala from isoflurane-exposed mice had enhanced CaN activity, reduced p-ERK/ERK and Egr-1 expression. All these changes in isoflurane-exposed mice were attenuated by FK506 treatment. These results indicate calcineurin/p-ERK/Egr-1 Pathway is involved in fear memory impairment after isoflurane exposure in mice.
Peripheral CD19hi B cells exhibit activated phenotype and functionality in promoting IgG and IgM production in human autoimmune diseases
Authors: Liu Zhicui , Zeng Weihong , Huang Xiangyang , Wang Shujun , Zheng Jie , Pan Meng , Wang Ying 
Published: October 2017

AbstractSystemic Lupus Erythematosus (SLE) and pemphigus are two representative autoimmune diseases driven by pathogenic autoantibody systemically and organ-specifically, respectively. Given the involvement of antibody in the pathogenesis, B cells are inclined to differentiate and function in an abnormal activation model. Here we defined a unique CD19hi B cell population existing in the periphery of SLE and pemphigus patients as well as in human tonsils. CD19hi B cells could be induced in vitro after co-culturing fully activated CD4+ T cells with autologous B cells. They expressed high levels of HLA-DR, IgG, IgM and multiple ligands of costimulatory molecules with the capacity to produce extra IgG and IgM. Transcirptome assay revealed that genes involved in B-cell activation and differentiation were up-regulated in CD19hi B cells. Antibody blockade experiments showed that the interactions between costimulatory molecules contributed to CD19hi B-cell generation and IgG/IgM production. What is more, frequencies of peripheral CD19hi B cells from SLE and pemphigus patients were correlated with serum total IgG and IgM, but not with autoantigen-specific antibodies and disease severity. Therefore, our investigation demonstrates that CD19hi B cells might contain B cell precursors for terminal differentiation and contribute to total IgG/IgM production in human autoimmune diseases.
Uptake of glucose-conjugated MGMT inhibitors in cancer cells: role of flippases and type IV P-type ATPases
Authors: Tomaszowski Karl-Heinz , Hellmann Nadja , Ponath Viviane , Takatsu Hiroyuki , Shin Hye-Won , Kaina Bernd 
Published: October 2017

AbstractThe DNA repair proteinO6-methylguanine-DNA-methyltransferase (MGMT) is a key determinant of cancer resistance. The MGMT inhibitorsO6-benzylguanine (O6BG) andO6-(4-bromothenyl)guanine (O6BTG) failed to enhance the therapeutic response due to toxic side effects when applied in combination with alkylating chemotherapeutics, indicating a need of inhibitor targeting. We assessed MGMT targeting that relies on conjugating the inhibitors O6BG and O6BTG to ß-D-glucose, resulting in O6BG-Glu and O6BTG-Glu, respectively. This targeting strategy was selected by taking advantage of high demand of glucose in cancers. Contrary to our expectation, the uptake of O6BG-Glu and O6BTG-Glu was not dependent on glucose transporters. Instead, it seems that after membrane binding the conjugates are taken up via flippases, which normally transport phospholipids. This membrane binding is the consequence of the amphiphilic character of the conjugates, which at higher concentrations lead to the formation of micelle-like particles in aqueous solution. The unusual uptake mechanism of the conjugates highlights the importance of proper linker selection for a successful ligand-based drug delivery strategy. We also demonstrate that proteins of the P4-Type ATPase family are involved in the transport of the glucose conjugates. The findings are not only important for MGMT inhibitor targeting, but also for other amphiphilic drugs.
Association of muscle lipidomic profile with high-fat diet-induced insulin resistance across five mouse strains
Authors: Montgomery Magdalene K. , Brown Simon H. J. , Mitchell Todd W. , Coster Adelle C. F. , Cooney Gregory J. , Turner Nigel 
Published: October 2017

AbstractDifferent mouse strains exhibit variation in their inherent propensities to develop metabolic disease. We recently showed that C57BL6, 129X1, DBA/2 and FVB/N mice are all susceptible to high-fat diet-induced glucose intolerance, while BALB/c mice are relatively protected, despite changes in many factors linked with insulin resistance. One parameter strongly linked with insulin resistance is ectopic lipid accumulation, especially metabolically active ceramides and diacylglycerols (DAG). This study examined diet-induced changes in the skeletal muscle lipidome across these five mouse strains. High-fat feeding increased total muscle triacylglycerol (TAG) content, with elevations in similar triacylglycerol species observed for all strains. There were also generally consistent changes across strains in the abundance of different phospholipid (PL) classes and the fatty acid profile of phospholipid molecular species, with the exception being a strain-specific difference in phospholipid species containing two polyunsaturated fatty acyl chains in BALB/c mice (i.e. a diet-induced decrease in the other four strains, but no change in BALB/c mice). In contrast to TAG and PL, the high-fat diet had a minor influence on DAG and ceramide species across all strains. These results suggest that widespread alterations in muscle lipids are unlikely a major contributors to the favourable metabolic profile of BALB/c mice and rather there is a relatively conserved high-fat diet response in muscle of most mouse strains.
Chemotherapeutic efficacies of a clofazimine and diminazene aceturate combination against piroplasm parasites and their AT-rich DNA-binding activity on Babesia bovis
Authors: Tuvshintulga Bumduuren , AbouLaila Mahmoud , Sivakumar Thillaiampalam , Tayebwa Dickson Stuart , Gantuya Sambuu , Naranbaatar Khandsuren , Ishiyama Aki , Iwatsuki Masato , Otoguro Kazuhiko , Ōmura Satoshi , Terkawi Mohamad Alaa , Guswanto Azirwan , Rizk Mohamed Abdo , Yokoyama Naoaki , Igarashi Ikuo 
Published: October 2017

AbstractRecently, we reported that clofazimine (CF) has an anti-piroplasm activity, but it could not completely eliminate parasites in the host. The currently available anti-piroplasm drug, diminazene aceturate (DA), has sometimes been reported to have toxic side effects. In the present study, we evaluated the combination treatment with CF and DA against piroplasms both in vitro and in vivo. Additionally, mRNA level and DNA amounts were analyzed in CF‒ and DA‒treated Babesia bovis by a qPCR. The CF–DA combination had additive effects on Babesia bovis, B. bigemina, and B. caballi and synergistic effects on Theileria equi. The CF–DA combination chemotherapies against B. microti in mice were more potent than their monotherapies. In the CF‒ and DA‒treated B. bovis, CF dose-dependently down-regulated mRNA level and DNA amounts of extranuclear genes (AT-rich featured), whereas DA down-regulated only DNA amounts of extranuclear genes, but those of nuclear genes were slightly down- or up-regulated by CF and DA. In conclusion, the CF–DA combination has a higher efficiency against piroplasms than CF or DA monotherapies. CF and DA might have an AT-rich DNA-binding activity. All results suggest that the CF–DA combination chemotherapy will be a better choice to treat piroplasmosis instead of DA monotherapy.
Mantle hydration along outer-rise faults inferred from serpentinite permeability
Authors: Hatakeyama Kohei , Katayama Ikuo , Hirauchi Ken-ichi , Michibayashi Katsuyoshi 
Published: October 2017

AbstractRecent geophysical surveys indicate that hydration (serpentinization) of oceanic mantle is related to outer-rise faulting prior to subduction. The serpentinization of oceanic mantle influences the generation of intermediate-depth earthquakes and subduction water flux, thereby promoting arc volcanism. Since the chemical reactions that produce serpentinite are geologically rapid at low temperatures, the flux of water delivery to the reaction front appears to control the lateral extent of serpentinization. In this study, we measured the permeability of low-temperature serpentinites composed of lizardite and chrysotile, and calculated the lateral extent of serpentinization along an outer-rise fault based on Darcy’s law. The experimental results indicate that serpentinization extends to a region several hundred meters wide in the direction normal to the outer-rise fault in the uppermost oceanic mantle. We calculated the global water flux carried by serpentinized oceanic mantle ranging from 1.7 × 1011 to 2.4 × 1012 kg/year, which is comparable or even higher than the water flux of hydrated oceanic crust.
Survival Motor Neuron Protein is Released from Cells in Exosomes: A Potential Biomarker for Spinal Muscular Atrophy
Authors: Nash Leslie A. , McFall Emily R. , Perozzo Amanda M. , Turner Maddison , Poulin Kathy L. , De Repentigny Yves , Burns Joseph K. , McMillan Hugh J. , Warman Chardon Jodi , Burger Dylan , Kothary Rashmi , Parks Robin J. 
Published: October 2017

AbstractSpinal muscular atrophy (SMA) is caused by homozygous mutation of the survival motor neuron 1 (SMN1) gene. Disease severity inversely correlates to the amount of SMN protein produced from the homologous SMN2 gene. We show that SMN protein is naturally released in exosomes from all cell types examined. Fibroblasts from patients or a mouse model of SMA released exosomes containing reduced levels of SMN protein relative to normal controls. Cells overexpressing SMN protein released exosomes with dramatically elevated levels of SMN protein. We observed enhanced quantities of exosomes in the medium from SMN-depleted cells, and in serum from a mouse model of SMA and a patient with Type 3 SMA, suggesting that SMN-depletion causes a deregulation of exosome release or uptake. The quantity of SMN protein contained in the serum-derived exosomes correlated with the genotype of the animal, with progressively less protein in carrier and affected animals compared to wildtype mice. SMN protein was easily detectable in exosomes isolated from human serum, with a reduction in the amount of SMN protein in exosomes from a patient with Type 3 SMA compared to a normal control. Our results suggest that exosome-derived SMN protein may serve as an effective biomarker for SMA.
Host factors that modify Plasmodium falciparum adhesion to endothelial receptors
Authors: Mahamar Almahamoudou , Attaher Oumar , Swihart Bruce , Barry Amadou , Diarra Bacary S. , Kanoute Moussa B. , Cisse Kadidia B. , Dembele Adama B. , Keita Sekouba , Gamain Benoît , Gaoussou Santara , Issiaka Djibrilla , Dicko Alassane , Duffy Patrick E. , Fried Michal 
Published: October 2017

AbstractP. falciparum virulence is related to adhesion and sequestration of infected erythrocytes (IE) in deep vascular beds, but the endothelial receptors involved in severe malaria remain unclear. In the largest ever study of clinical isolates, we surveyed adhesion of freshly collected IE from children under 5 years of age in Mali to identify novel vascular receptors, and examined the effects of host age, hemoglobin type, blood group and severe malaria on levels of IE adhesion to a panel of endothelial receptors. Several novel molecules, including integrin α3β1, VE-cadherin, ICAM-2, junctional adhesion molecule-B (JAM-B), laminin, and cellular fibronectin, supported binding of IE from children. Severe malaria was not significantly associated with levels of IE adhesion to any of the 19 receptors. Hemoglobin AC, which reduces severe malaria risk, reduced IE binding to the receptors CD36 and integrin α5β1, while hemoglobin AS did not modify IE adhesion to any receptors. Blood groups A, AB and B significantly reduced IE binding to ICAM-1. Severe malaria risk varies with age, but age significantly impacted the level of IE binding to only a few receptors: IE binding to JAM-B decreased with age, while binding to CD36 and integrin α5β1 significantly increased with age.