bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interfacial photochemistry at the ocean surface is a global source of organic vapors and aerosols
Authors: Brüggemann Martin , Hayeck Nathalie , George Christian 
Published: May 2018

AbstractThe surface of the oceans acts as a global sink and source for trace gases and aerosol particles. Recent studies suggest that photochemical reactions at this air/water interface produce organic vapors, enhancing particle formation in the atmosphere. However, current model calculations neglect this abiotic source of reactive compounds and account only for biological emissions. Here we show that interfacial photochemistry serves as a major abiotic source of volatile organic compounds (VOCs) on a global scale, capable to compete with emissions from marine biology. Our results indicate global emissions of 23.2–91.9 TgC yr–1 of organic vapors from the oceans into the marine atmosphere and a potential contribution to organic aerosol mass of more than 60% over the remote ocean. Moreover, we provide global distributions of VOC formation potentials, which can be used as simple tools for field studies to estimate photochemical VOC emissions depending on location and season.
Amorphous topological superconductivity in a Shiba glass
Authors: Pöyhönen Kim , Sahlberg Isac , Westström Alex , Ojanen Teemu 
Published: May 2018

AbstractTopological states of matter support quantised nondissipative responses and exotic quantum particles that cannot be accessed in common materials. The exceptional properties and application potential of topological materials have triggered a large-scale search for new realisations. Breaking away from the popular trend focusing almost exclusively on crystalline symmetries, we introduce the Shiba glass as a platform for amorphous topological quantum matter. This system consists of an ensemble of randomly distributed magnetic atoms on a superconducting surface. We show that subgap Yu–Shiba–Rusinov states on the magnetic moments form a topological superconducting phase at critical density despite a complete absence of spatial order. Experimental signatures of the amorphous topological state can be obtained by scanning tunnelling microscopy measurements probing the topological edge mode. Our discovery demonstrates the physical feasibility of amorphous topological quantum matter, presenting a concrete route to fabricating new topological systems from nontopological materials with random dopants.
Superfluid motion and drag-force cancellation in a fluid of light
Authors: Michel Claire , Boughdad Omar , Albert Mathias , Larré Pierre-Élie , Bellec Matthieu 
Published: May 2018

AbstractQuantum fluids of light merge many-body physics and nonlinear optics, revealing quantum hydrodynamic features of light when it propagates in nonlinear media. One of the most outstanding evidence of light behaving as an interacting fluid is its ability to carry itself as a superfluid. Here, we report a direct experimental detection of the transition to superfluidity in the flow of a fluid of light past an obstacle in a bulk nonlinear crystal. In this cavityless all-optical system, we extract a direct optical analog of the drag force exerted by the fluid of light and measure the associated displacement of the obstacle. Both quantities drop to zero in the superfluid regime characterized by a suppression of long-range radiation from the obstacle. The experimental capability to shape both the flow and the potential landscape paves the way for simulation of quantum transport in complex systems.
A fluorescence anisotropy assay to discover and characterize ligands targeting the maytansine site of tubulin
Authors: Menchon Grégory , Prota Andrea E. , Lucena-Agell Daniel , Bucher Pascal , Jansen Rolf , Irschik Herbert , Müller Rolf , Paterson Ian , Díaz J. Fernando , Altmann Karl-Heinz , Steinmetz Michel O. 
Published: May 2018

AbstractMicrotubule-targeting agents (MTAs) like taxol and vinblastine are among the most successful chemotherapeutic drugs against cancer. Here, we describe a fluorescence anisotropy-based assay that specifically probes for ligands targeting the recently discovered maytansine site of tubulin. Using this assay, we have determined the dissociation constants of known maytansine site ligands, including the pharmacologically active degradation product of the clinical antibody-drug conjugate trastuzumab emtansine. In addition, we discovered that the two natural products spongistatin-1 and disorazole Z with established cellular potency bind to the maytansine site on β-tubulin. The high-resolution crystal structures of spongistatin-1 and disorazole Z in complex with tubulin allowed the definition of an additional sub-site adjacent to the pocket shared by all maytansine-site ligands, which could be exploitable as a distinct, separate target site for small molecules. Our study provides a basis for the discovery and development of next-generation MTAs for the treatment of cancer.
Quantum Monte Carlo simulations of a giant {Ni21Gd20} cage with a S = 91 spin ground state
Authors: Chen Wei-Peng , Singleton Jared , Qin Lei , Camón Agustín , Engelhardt Larry , Luis Fernando , Winpenny Richard E. P. , Zheng Yan-Zhen 
Published: May 2018

AbstractThe detailed analysis of magnetic interactions in a giant molecule is difficult both because the synthesis of such compounds is challenging and the number of energy levels increases exponentially with the magnitude and number of spins. Here, we isolated a {Ni21Gd20} nanocage with a large number of energy levels (≈5 × 1030) and used quantum Monte Carlo (QMC) simulations to perform a detailed analysis of magnetic interactions. Based on magnetization measurements above 2 K, the QMC simulations predicted very weak ferromagnetic interactions that would give a record S = 91 spin ground state. Low-temperature measurements confirm the spin ground state but suggest a more complex picture due to the single ion anisotropy; this has also been modeled using the QMC approach. The high spin and large number of low-lying states lead to a large low-field magnetic entropy (14.1 J kg−1 K−1 for ΔH = 1 T at 1.1 K) for this material.
Image-based modeling of gas adsorption and deformation in porous media
Authors: Bakhshian Sahar , Shi Zhuofan , Sahimi Muhammad , Tsotsis Theodore T. , Jessen Kristian 
Published: May 2018

AbstractUnderstanding adsorption of CO2in porous formations is crucial to its sequestration in geological formations. We describe a model for adsorption of CO2and the deformation that it induces in a sandstone formation over wide ranges of temperature and pressure. The model couples the thermodynamics of sorption with elastic deformation of the solid. Finite-element computations are then used in order to compute CO2adsorption isotherms along with the induced strain in the formation. We also compute the Darcy permeability of the porous medium using the lattice-Boltzmann method. All the computations are carried out with a three-dimensional image of a core sample from Mt. Simon sandstone, the target porous formation for a pilot CO2sequestration project that is currently being carried out by Illinois State Geological Survey. Thus, no assumptions are made regarding the shape and sizes of the pore throats and pore bodies. The computed CO2sorption isotherm at 195 K is in excellent agreement with our experimental data. The computed permeability is also in good agreement with the measurement. As a further test we also compute the sorption isotherm of N2in the same formation at 77.3 K, and show that it is also in good agreement with our experimental data. The model is capable of predicting adsorption of CO2(or any other gas for that matter) in porous formations at high pressures and temperatures. Thus, it is used to study the effect of hydrostatic pressure on adsorption and deformation of the porous formation under various conditions. We find that the effect of the confining pressure is more prominent at higher temperatures. Also computed is the depth-dependence of the capacity of the formation for CO2adsorption, along with the induced volumetric strain.
Serum metabolite profile associated with incident type 2 diabetes in Koreans: findings from the Korean Genome and Epidemiology Study
Authors: Yang Soo Jin , Kwak So-Young , Jo Garam , Song Tae-Jin , Shin Min-Jeong 
Published: May 2018

AbstractThe identification of metabolic alterations in type 2 diabetes (T2D) is useful for elucidating the pathophysiology of the disease and in classifying high-risk individuals. In this study, we prospectively examined the associations between serum metabolites and T2D risk in a Korean community-based cohort (the Ansan–Ansung cohort). Data were obtained from 1,939 participants with available metabolic profiles and without diabetes, cardiovascular disease, or cancer at baseline. The acylcarnitine, amino acid, amine, and phospholipid levels in fasting serum samples were analyzed by targeted metabolomics. During the 8-year follow-up period, we identified 282 cases of incident T2D. Of all metabolites measured, 22 were significantly associated with T2D risk. Specifically, serum levels of alanine, arginine, isoleucine, proline, tyrosine, valine, hexose and five phosphatidylcholine diacyls were positively associated with T2D risk, whereas lyso-phosphatidylcholine acyl C17:0 and C18:2 and other glycerophospholipids were negatively associated with T2D risk. The associated metabolites were further correlated with T2D-relevant risk factors such as insulin resistance and triglyceride indices. In addition, a healthier diet (as measured by the modified recommended food score) was independently associated with T2D risk. Alterations of metabolites such as amino acids and choline-containing phospholipids appear to be associated with T2D risk in Korean adults.
Isospecific adenine DNA methyltransferases show distinct preferences towards DNA substrates
Authors: Wons Ewa , Mruk Iwona , Kaczorowski Tadeusz 
Published: May 2018

AbstractHere, we report results on systematic analysis of DNA substrate preferences of three N6-adenine β-class DNA methyltransferases that are part of the type II restriction-modification systems. The studied enzymes were: M.EcoVIII, M.HindIII and M.LlaCI, which although found in phylogenetically distant bacteria (γ-proteobacteria and low-GC Gram-positive bacteria), recognize the same palindromic specific sequence 5′-AAGCTT-3′ and catalyze formation of N6-methyladenine at the first A-residue. As expected overall the enzymes share the most analyzed features, but they show also some distinct differences in substrate recognition. Therefore DNA methylation reactions were carried out not only under standard, but also under relaxed conditions using DMSO or glycerol. We found that all of these enzymes preferred DNA containing a hemimethylated target site, but differ in modification of ssDNA, especially more pronounced for M.EcoVIII under relaxed conditions. In these conditions they also have shown varied preferences toward secondary sites, which differ by one nucleotide from specific sequence. They preferred sequences with substitutions at the 1st (A1 → G/C) and at the 2nd position (A2 → C), while sites with substitutions at the 3rd position (G3 → A/C) were modified less efficiently. Kinetic parameters of the methylation reaction carried out by M.EcoVIII were determined. Methylation efficiency (kcat/Km) of secondary sites was 4.5–10 times lower when compared to the unmethylated specific sequences, whilst efficiency observed for the hemimethylated substrate was almost 4.5 times greater. We also observed a distinct effect of analyzed enzymes on unspecific interaction with DNA phosphate backbone. We concluded that for all three enzymes the most critical is the phosphodiester bond between G3-C4 nucleotides at the center of the target site.
Fabrication and In Vitro Characterization of a Tissue Engineered PCL-PLLA Heart Valve
Authors: Hasan Anwarul , Soliman Sherif , El Hajj Fatima , Tseng Yuan-Tsan , Yalcin Huseyin C. , Marei Hany Elsayed 
Published: May 2018

AbstractHeart valve diseases are among the leading causes of cardiac failure around the globe. Nearly 90,000 heart valve replacements occur in the USA annually. Currently, available options for heart valve replacement include bioprosthetic and mechanical valves, both of which have severe limitations. Bioprosthetic valves can last for only 10–20 years while patients with mechanical valves always require blood-thinning medications throughout the remainder of the patient’s life. Tissue engineering has emerged as a promising solution for the development of a viable, biocompatible and durable heart valve; however, a human implantable tissue engineered heart valve is yet to be achieved. In this study, a tri-leaflet heart valve structure is developed using electrospun polycaprolactone (PCL) and poly L-lactic acid (PLLA) scaffolds, and a set of in vitro testing protocol has been developed for routine manufacturing of tissue engineered heart valves. Stress-strain curves were obtained for mechanical characterization of different valves. The performances of the developed valves were hemodynamically tested using a pulse duplicator, and an echocardiography machine. Results confirmed the superiority of the PCL-PLLA heart valve compared to pure PCL or pure PLLA. The developed in vitro test protocol involving pulse duplicator and echocardiography tests have enormous potential for routine application in tissue engineering of heart valves.
C-terminal intrinsically disordered region-dependent organization of the mycobacterial genome by a histone-like protein
Authors: Savitskaya Anna , Nishiyama Akihito , Yamaguchi Takehiro , Tateishi Yoshitaka , Ozeki Yuriko , Nameta Masaaki , Kon Tomohiro , Kaboso Shaban A. , Ohara Naoya , Peryanova Olga V. , Matsumoto Sohkichi 
Published: May 2018

AbstractThe architecture of the genome influences the functions of DNA from bacteria to eukaryotes. Intrinsically disordered regions (IDR) of eukaryotic histones have pivotal roles in various processes of gene expression. IDR is rare in bacteria, but interestingly, mycobacteria produce a unique histone-like protein, MDP1 that contains a long C-terminal IDR. Here we analyzed the role of IDR in MDP1 function. By employing Mycobacterium smegmatis that inducibly expresses MDP1 or its IDR-deficient mutant, we observed that MDP1 induces IDR-dependent DNA compaction. MDP1-IDR is also responsible for the induction of growth arrest and tolerance to isoniazid, a front line tuberculosis drug that kills growing but not growth-retardated mycobacteria. We demonstrated that MDP1-deficiency and conditional knock out of MDP1 cause spreading of the M. smegmatis genome in the stationary phase. This study thus demonstrates for the first time a C-terminal region-dependent organization of the genome architecture by MDP1, implying the significance of IDR in the function of bacterial histone-like protein.
The effect of PTC124 on choroideremia fibroblasts and iPSC-derived RPE raises considerations for therapy
Authors: Torriano Simona , Erkilic Nejla , Baux David , Cereso Nicolas , De Luca Valerie , Meunier Isabelle , Moosajee Mariya , Roux Anne-Francoise , Hamel Christian P. , Kalatzis Vasiliki 
Published: May 2018

AbstractInherited retinal dystrophies (IRDs) are caused by mutations in over 200 genes, resulting in a range of therapeutic options. Translational read-through inducing drugs (TRIDs) offer the possibility of treating multiple IRDs regardless of the causative gene. TRIDs promote ribosomal misreading of premature stop codons, which results in the incorporation of a near-cognate amino acid to produce a full-length protein. The IRD choroideremia (CHM) is a pertinent candidate for TRID therapy, as nonsense variants cause 30% of cases. Recently, treatment of the UAA nonsense-carrying CHM zebrafish model with the TRID PTC124 corrected the underlying biochemical defect and improved retinal phenotype. To be clinically relevant, we studied PTC124 efficiency in UAA nonsense-carrying human fibroblasts and induced pluripotent stem cell-derived retinal pigment epithelium, as well as in a UAA-mutated CHM overexpression system. We showed that PTC124 treatment induces a non-significant trend for functional rescue, which could not be improved by nonsense-mediated decay inhibition. Furthermore, it does not produce a detectable CHM-encoded protein even when coupled with a proteasome inhibitor. We suggest that drug efficiency may depend upon on the target amino acid and its evolutionary conservation, and argue that patient cells should be screened in vitro prior to inclusion in a clinical trial.
Possible Obesogenic Effects of Bisphenols Accumulation in the Human Brain
Authors: Charisiadis Pantelis , Andrianou Xanthi D. , van der Meer Thomas P. , den Dunnen Wilfred F. A. , Swaab Dick F. , Wolffenbuttel Bruce H. R. , Makris Konstantinos C. , van Vliet-Ostaptchouk Jana V. 
Published: May 2018

AbstractEvidence of bisphenols’ obesogenic effects on humans is mixed and inconsistent. We aimed to explore the presence of bisphenol A (BPA), bisphenol F (BPF) and chlorinated BPA (ClBPA), collectively called the bisphenols, in different brain regions and their association with obesity usingpost-mortemhypothalamic and white matter brain material from twelve pairs of obese (body mass index (BMI) >30 kg/m2) and normal-weight individuals (BMI <25 kg/m2). Mean ratios of hypothalamus:white matter for BPA, BPF and ClBPA were 1.5, 0.92, 0.95, respectively, suggesting no preferential accumulation of the bisphenols in the grey matter (hypothalamic) or white matter-enriched brain areas. We observed differences in hypothalamic concentrations among the bisphenols, with highest median level detected for ClBPA (median: 2.4 ng/g), followed by BPF (2.2 ng/g) and BPA (1.2 ng/g); similar ranking was observed for the white matter samples (median for: ClBPA-2.5 ng/g, BPF-2.3 ng/g, and BPA-1.0 ng/g). Furthermore, all bisphenol concentrations, except for white-matter BPF were associated with obesity (p < 0.05). This is the first study reporting the presence of bisphenols in two distinct regions of the human brain. Bisphenols accumulation in the white matter-enriched brain tissue could signify that they are able to cross the blood-brain barrier.
Combining amplicon sequencing and metabolomics in cirrhotic patients highlights distinctive microbiota features involved in bacterial translocation, systemic inflammation and hepatic encephalopathy
Authors: Iebba Valerio , Guerrieri Francesca , Di Gregorio Vincenza , Levrero Massimo , Gagliardi Antonella , Santangelo Floriana , Sobolev Anatoly P. , Circi Simone , Giannelli Valerio , Mannina Luisa , Schippa Serena , Merli Manuela 
Published: May 2018

AbstractIn liver cirrhosis (LC), impaired intestinal functions lead to dysbiosis and possible bacterial translocation (BT). Bacteria or their byproducts within the bloodstream can thus play a role in systemic inflammation and hepatic encephalopathy (HE). We combined 16S sequencing, NMR metabolomics and network analysis to describe the interrelationships of members of the microbiota in LC biopsies, faeces, peripheral/portal blood and faecal metabolites with clinical parameters. LC faeces and biopsies showed marked dysbiosis with a heightened proportion of Enterobacteriaceae. Our approach showed impaired faecal bacterial metabolism of short-chain fatty acids (SCFAs) and carbon/methane sources in LC, along with an enhanced stress-related response. Sixteen species, mainly belonging to the Proteobacteria phylum, were shared between LC peripheral and portal blood and were functionally linked to iron metabolism. Faecal Enterobacteriaceae and trimethylamine were positively correlated with blood proinflammatory cytokines, while Ruminococcaceae and SCFAs played a protective role. Within the peripheral blood and faeces, certain species (Stenotrophomonas pavanii, Methylobacterium extorquens) and metabolites (methanol, threonine) were positively related to HE. Cirrhotic patients thus harbour a ‘functional dysbiosis’ in the faeces and peripheral/portal blood, with specific keystone species and metabolites related to clinical markers of systemic inflammation and HE.
Stabilization of molten salt materials using metal chlorides for solar thermal storage
Authors: Dunlop T. O. , Jarvis D. J. , Voice W. E. , Sullivan J. H. 
Published: May 2018

AbstractThe effect of a variety of metal-chlorides additions on the melting behavior and thermal stability of commercially available salts was investigated. Ternary salts comprised of KNO3, NaNO2, and NaNO3 were produced with additions of a variety of chlorides (KCl, LiCl, CaCl2, ZnCl2, NaCl and MgCl2). Thermogravimetric analysis and weight loss experiments showed that the quaternary salt containing a 5 wt% addition of LiCl and KCl led to an increase in short term thermal stability compared to the ternary control salts. These additions allowed the salts to remain stable up to a temperature of 630 °C. Long term weight loss experiments showed an upper stability increase of 50 °C. A 5 wt% LiCl addition resulted in a weight loss of only 25% after 30 hours in comparison to a 61% loss for control ternary salts. Calorimetry showed that LiCl additions allow partial melting at 80 °C, in comparison to the 142 °C of ternary salts. This drop in melting point, combined with increased stability, provided a molten working range increase of almost 100 °C in total, in comparison to the control ternary salts. XRD analysis showed the oxidation effect of decomposing salts and the additional phase created with LiCl additions to allow melting point changes to occur.
Characterization of Papaya ringspot virus isolates infecting transgenic papaya ‘Huanong No.1’ in South China
Authors: Wu Zilin , Mo Cuiping , Zhang Shuguang , Li Huaping 
Published: May 2018

AbstractIn 2006, the release and cultivation of the genetically modified papaya cultivar ‘Huanong No.1’ successfully controlled the destructive papaya ringspot disease caused by Papaya ringspot virus (PRSV) in South China. However, some transgenic papaya plants from Guangdong and Hainan are found infected by PRSV. In this study, Field investigation was carried out and susceptible transgenic papaya samples were collected during 2012–2016. Twenty representative isolates were artificially inoculated into Cucurbita pepo and commercialised ‘Huanong No.1’ papaya, and results indicated that the plants showed obvious disease symptoms. Phylogenetic analysis of CP genes of 120 PRSV-infected isolates showed that PRSV can be divided into three groups. Isolates from Guangdong and Hainan belong to Group III, which is further divided into two subgroups. The isolates collected in this study have greatly diverged from the previously reported dominant strains Ys, Vb and Sm in South China, indicating that they belong to a new lineage. Further analysis showed a highly genetic differentiation between isolates, and 27.1% of the isolates were identified as recombinants on the basis of CP nucleotide sequences. These results indicate that the genetic variation of PRSV and the formation of the new virus lineage may explain the loss of transgenic papaya resistance in South China.