bluuebunny/crossref_metadata_2025 huggingface dataset:
Missing millions: undercounting urbanization in India
Authors: Onda Kyle , Sinha Parmanand , Gaughan Andrea E. , Stevens Forrest R. , Kaza Nikhil
Published: December 2019

The measurement and characterization of urbanization crucially depends upon defining what counts as urban. The government of India estimates that only 31% of the population is urban. We show that this is an artifact of the definition of urbanity and an underestimate of the level of urbanization in India. We use a random forest-based model to create a high-resolution (~ 100 m) population grid from district-level data available from the Indian Census for 2001 and 2011, a novel application of such methods to create temporally consistent population grids. We then apply a community-detection clustering algorithm to construct urban agglomerations for the entire country. Compared with the 2011 official statistics, we estimate 12% more of urban population, but find fewer mid-size cities. We also identify urban agglomerations that span jurisdictional boundaries across large portions of Kerala and the Gangetic Plain.
Evaluating the potential of surface-modified silica nanoparticles using internal olefin sulfonate for enhanced oil recovery
Authors: Ahmed Afaque , Saaid Ismail Mohd , Ahmed Abdelazim Abbas , Pilus Rashidah M. , Baig Mirza Khurram
Published: December 2019

Recently, nanoparticles have proven to enhance oil recovery on the core-flood scale in challenging high-pressure high-temperature reservoirs. Nanomaterials generally appear to improve oil production through wettability alteration and reduction in interfacial tension between oil and water phases. Besides, they are environmentally friendly and cost-effective enhanced oil recovery techniques. Studying the rheological properties of nanoparticles is critical for field applications. The instability of nanoparticle dispersion due to aggregation is considered as an unfavorable phenomenon in nanofluid flooding while conducting an EOR process. In this study, wettability behavior and rheological properties of surface-treated silica nanoparticles using internal olefins sulfonates (IOS20–24 and IOS19–23), anionic surfactants were investigated. Surface modification effect on the stability of the colloidal solution in porous media and oil recovery was inspected. The rheology of pure and surface-treated silica nanoparticles was investigated using a HPHT rheometer. Morphology and particle size distributions of pure and coated silica nanoparticles were studied using a field emission scanning electron microscope. A series of core-flood runs was conducted to evaluate the oil recovery factor. The coated silica nanoparticles were found to alter rheological properties and exhibited a shear-thinning behavior as the stability of the coated silica nanoparticles could be improved considerably. At low shear rates, the viscosity slightly increases, and the opposite happens at higher shear rates. Furthermore, the surface-modified silica nanoparticles were found to alter the wettability of the aqueous phase into strongly water-wet by changing the contact angle from 80° to 3° measured against glass slides representing sandstone rocks. Oil–water IFT results showed that the surface treatment by surfactant lowered the oil–water IFT by 30%. Also, the viscosity of brine increased from 0.001 to 0.008 Pa s by introducing SiO2 nanoparticles to the aqueous phase for better displacement efficiency during chemical-assisted EOR. The core-flood experiments revealed that the ultimate oil recovery is increased by approximately 13% with a surfactant-coated silica nanofluid flood after the conventional waterflooding that proves the potential of smart nanofluids for enhancing oil recovery. The experimental results imply that the use of surfactant-coated nanoparticles in tertiary oil recovery could facilitate the displacement efficiency, alter the wettability toward more water-wet and avoid viscous fingering for stable flood front and additional oil recovery.
Beyond the risks to food availability – linking climatic hazard vulnerability with the food access of delta-dwelling households
Authors: Islam Md Mofakkarul , Al Mamun Md Abdullah
Published: December 2019

Although climate-driven hazards have been widely implicated as a key threat to food security in the delta regions of the developing world, the empirical basis of this assertion has centred predominantly on the food availability dimension of food security. Little is known if climatic hazards could affect the food access of delta-resident households and who is likely to be at risk and why. We explored these questions by using the data from a sample of households resident within the Ganges-Brahmaputra-Meghna (GBM) delta in Bangladesh. We used an index-based analytical approach by drawing on the vulnerability and food security literature. We computed separate vulnerability indices for flood, cyclone, and riverbank erosion and assessed their effects on household food access through regression modelling. All three vulnerability types demonstrated significant negative effects on food access; however, only flood vulnerability could significantly reduce a household’s food access below an acceptable threshold. Households that were less dependent on natural resources for their livelihoods – including unskilled day labourers and grocery shop owners – were significantly more likely to have unacceptable level of food access due to floods. Adaptive capacity, measured as a function of household asset endowments, proved more important in explaining food access than the exposure-sensitivity to flood itself. Accordingly, we argue that improving food security in climatic hazard-prone areas of developing country deltas would require moving beyond agriculture or natural resources focus and promoting hazard-specific, all-inclusive and livelihood-focused asset-building interventions. We provide an example of a framework for such interventions and reflect on our analytical approach.
Sui Generis Geographical Indications for the Protection of Non-Agricultural Products in the EU: Can the Quality Schemes Fulfil the Task?
Authors: Zappalaglio Andrea , Guerrieri Flavia , Carls Suelen
Published: December 2019

This paper analyses the suitability of the extension of the EU quality schemes – Protected Designations of Origin (PDOs) and Protected Geographical Indications (PGIs) – to the protection of non-agricultural products. In particular, the work develops an original investigation on the nature of these goods and assesses whether it is compatible with the scope of protection of the EUsui generisGI system, which is determined by the different origin link that characterises the two abovementioned quality schemes. The research, by applying a mixed comparative/empirical methodology and building upon a previously unpublished dataset, develops an analysis divided into three parts, reaching the following conclusions. First, ifsui generisGIs were chosen as the means to protect non-agricultural products, the French legislation on thesui generisprotection of handcrafts should be considered as the best practice. Second, the empirical analysis shows that, since non-agricultural goods are characterised by a loose link to a specific place, predominantly based on the on the product’s history and on its distinctive traditional method of production, PGIs seem to be fit for the purpose. Indeed, the analysis of a sample of non-terroiragricultural products protected by PGIs will highlight this parallelism. Third, evidence shows that PDOs could be useful only in a small number of cases while the rationale of Traditional Specialities Guaranteed (TSGs), despite not being origin labels, can be useful to define products that cannot be linked to a specific area by physical or natural elements. Therefore, the EU legislator should take these elements into consideration if it decides to extend the EU GI regime to non-agricultural products.
Hydrogen produced in rat colon improves in vivo reduction–oxidation balance due to induced regeneration of α-tocopherol
Authors: Ishida Yosuke , Hino Shingo , Morita Tatsuya , Ikeda Saiko , Nishimura Naomichi
Published: December 2019

We investigated whether non-digestible saccharide fermentation-derived hydrogen molecules (H2) in rat colon could improve the in vivo reduction–oxidation (redox) balance via regeneration of α-tocopherol, by assessing their effect on hydroxyl radicals, the α-tocopherol concentration and the redox balance. In Expt 1, a Fenton reaction with phenylalanine (0 or 1·37 mmol/l of H2) was conducted. In Expt 2, rats received intraperitoneally maize oil containing phorone (400 mg/kg) 7 d after drinking ad libitum water containing 0 or 4 % fructo-oligosaccharides (FOS) (groups CP and FP, respectively). In Expt 3, rats unable to synthesise ascorbic acid drank ad libitum for 14 d water with 240 mg ascorbic acid/l (group AC), 20 mg of ascorbic acid/l (group DC) or 20 mg of ascorbic acid/l and 4 % FOS (group DCF). In the Fenton reaction, H2 reduced tyrosine produced from phenylalanine to 72 % when platinum was added and to 92 % when platinum was excluded. In Expt 2, liver glutathione was depleted by administration of phorone to rats. However, compared with CP, no change in the m-tyrosine concentration in the liver of FP was detected. In Expt 3, net H2 excretion was higher in DCF than in the other rats after 3 d of the experiment. Furthermore, the concentrations of H2 and α-tocopherol and the redox glutathione ratio in perirenal adipose tissue of rats were significantly higher in DCF than in DC. To summarise, in rat colon, fermentation-derived H2 further shifted the redox balance towards a more reducing status in perirenal adipose tissue through increased regeneration of α-tocopherol.
Serological and molecular surveys of influenza A viruses in Antarctic and sub-Antarctic wild birds
Authors: Gittins Oliver , Grau-Roma Llorenç , Valle Rosa , Abad Francesc Xavier , Nofrarías Miquel , Ryan Peter G. , González-Solís Jacob , Majó Natàlia
Published: December 2019

To evaluate how avian influenza virus (AIV) circulates among the avifauna of the Antarctic and sub-Antarctic islands, we surveyed 14 species of birds from Marion, Livingston and Gough islands. A competitive enzyme-linked immunosorbent assay was carried out on the sera of 147 birds. Quantitative reverse transcription polymerase chain reaction was used to detect the AIV genome from 113 oropharyngeal and 122 cloacal swabs from these birds. The overall seroprevalence to AIV infection was 4.8%, with the only positive results coming from brown skuas (Catharacta antarctica) (4 out of 18, 22%) and southern giant petrels (Macronectes giganteus) (3 out of 24, 13%). Avian influenza virus antibodies were detected in birds sampled from Marion and Gough islands, with a higher seroprevalence on Marion Island (P = 0.014) and a risk ratio of 11.29 (95% confidence interval: 1.40–91.28) compared to Gough Island. The AIV genome was not detected in any of the birds sampled. These results confirm that AIV strains are uncommon among Antarctic and sub-Antarctic predatory seabirds, but they may suggest that scavenging seabirds are the main avian reservoirs and spreaders of this virus in the Southern Ocean. Further studies are necessary to determine the precise role of these species in the epidemiology of AIV.
Impacts of Water Vapor on Saharan Air Layer Radiative Heating
Authors: Gutleben Manuel , Groß Silke , Wirth Martin , Emde Claudia , Mayer Bernhard
Published: December 2019

Airborne lidar observations of long‐range transported Saharan air layers in the western North Atlantic trades indicate increased amounts of water vapor within the dust layers compared to the surrounding dry free atmosphere. This study investigates the impact of such enhanced water vapor concentrations on radiative heating. Therefore, spatially high resolved airborne high spectral resolution and differential absorption lidar measurements are used for the parametrization of aerosol optical properties and water vapor concentrations in radiative transfer calculations. Heating rates that are calculated under consideration of the measured water vapor distribution strongly differ from heating rates that are derived under assumption of an atmospheric reference water vapor profile which is steadily decreasing with altitude. Results highlight that water vapor represents a major radiative driver for dust layer vertical mixing and the maintenance of bounding inversions at the top and bottom of the dust layer.
Micro‐FTIR Spectroscopy of Lunar Pyroclastic and Impact Glasses as a New Diagnostic Tool to Discern Them
Authors: Zeng Xiaojia , Li Xiongyao , Martin Dayl , Tang Hong , Yu Wen , Liu Jianzhong , Wang Shijie
Published: December 2019

Lunar glasses are characterized by complex origin (i.e., volcanism or impact), compositional diversity (e.g., picritic, basaltic, or feldspathic), and visible/near‐infrared spectra similarity. This makes it is problematic to distinguish different types of lunar glasses in laboratory and remote data. In this study, we present micro‐FTIR (Fourier Transform Infrared) spectroscopy spectra (550–1450 cm–1) of a suite of lunar volcanic origin glasses (i.e., pyroclastic glasses) and impact‐generated glasses (i.e., mare and highland impact glasses), identified in lunar breccia meteorite Northwest Africa 7948. The results show that lunar pyroclastic glasses, mare impact glasses, and highland impact glasses exhibit different FTIR spectral characteristics: (1) the Christiansen Feature positions of pyroclastic glasses are generally at a longer wavelength (i.e., >~8.3 μm equivalent to <~1,205 cm–1) than the spectra of mare and highland impact‐generated glasses (i.e., <~8.3 μm equivalent to >~1,205 cm–1); (2) a relatively strong minor peak was distinctly observed at longer wavelength (~13.5–16.5 μm equivalent to ~600–750 cm–1) for highland impact glasses. Therefore, new supplementary FTIR diagnostic criteria were proposed to discern different types of lunar glasses. Our studies demonstrated that midinfrared spectra could provide an effective tool to non‐destructively and quickly distinguish lunar glasses in laboratory (e.g., for the future Chang'E‐5 returned soils).
The effects of wildfire severity and pyrodiversity on bat occupancy and diversity in fire-suppressed forests
Authors: Steel Z. L. , Campos B. , Frick W. F. , Burnett R. , Safford H. D.
Published: December 2019

Wildfire is an important ecological process that influences species’ occurrence and biodiversity generally. Its effect on bats is understudied, creating challenges for habitat management and species conservation as threats to the taxa worsen globally and within fire-prone ecosystems. We conducted acoustic surveys of wildfire areas during 2014–2017 in conifer forests of California’s Sierra Nevada Mountains. We tested effects of burn severity and its variation, or pyrodiversity, on occupancy and diversity for the 17-species bat community while accounting for imperfect detection. Occupancy rates increased with severity for at least 6 species and with pyrodiversity for at least 3. Two other species responded negatively to pyrodiversity. Individual species models predicted maximum occupancy rates across burn severity levels but only one species occurred most often in undisturbed areas. Species richness increased from approximately 8 species in unburned forests to 11 in pyrodiverse areas with moderate- to high-severity. Greater accessibility of foraging habitats, as well as increased habitat heterogeneity may explain positive responses to wildfire. Many bat species appear well adapted to wildfire, while a century of fire suppression and forest densification likely reduced habitat quality for the community generally. Relative to other taxa, bats may be somewhat resilient to increases in fire severity and size; trends which are expected to continue with accelerating climate change.
Structure, optical and magnetic properties of new Bi0.5Na0.5TiO3- SrMnO3−δ solid solution materials
Authors: Dung Dang Duc , Hung Nguyen The , Odkhuu Dorj
Published: December 2019

The new Bi0.5Na0.5TiO3-SrMnO3−δ solid solution materials were fabricated via sol–gel method. The random incorporation of Sr and Mn cations into host lattice of Bi0.5Na0.5TiO3 resulted in structural distortion and influenced on the reduction of the optical band gap from 3.07 eV to 1.81 eV for pure Bi0.5Na0.5TiO3 and 9 mol% SrMnO3−δ solid solution into Bi0.5Na0.5TiO3. The magnetic properties of Bi0.5Na0.5TiO3 materials at room temperature were tuned via compensation of diamagnetic material with weak-ferromagnetism to ferromagnetism with low SrMnO3−δ content and combination of paramagnetism/antiferromagnetism-like and ferromagnetism with higher SrMnO3−δ content solid solution in Bi0.5Na0.5TiO3. The tunable magnetic and optical properties of lead-free ferroelectric materials was promising for their application to green electronic devices.
Magnetic resonance imaging with optical preamplification and detection
Authors: Simonsen A. , Sánchez-Heredia J. D. , Saarinen S. A. , Ardenkjær-Larsen J. H. , Schliesser A. , Polzik E. S.
Published: December 2019

Magnetic resonance (MR) imaging relies on conventional electronics that is increasingly challenged by the push for stronger magnetic fields and higher channel count. These problems can be avoided by utilizing optical technologies. As a replacement for the standard low-noise preamplifier, we have implemented a new transduction principle that upconverts an MR signal to the optical domain and imaged a phantom in a clinical 3 T scanner with signal-to-noise comparable to classical induction detection.
Exploring the Pharmacological Mechanism of Quercetin-Resveratrol Combination for Polycystic Ovary Syndrome: A Systematic Pharmacological Strategy-Based Research
Authors: Yang Kailin , Zeng Liuting , Bao Tingting , Long Zhiyong , Jin Bing
Published: December 2019

Resveratrol and quercetin have effects on polycystic ovary syndrome (PCOS). Hence, resveratrol combined with quercetin may have better effects on it. However, because of the limitations in animal and human experiments, the pharmacological and molecular mechanism of quercetin-resveratrol combination (QRC) remains to be clarified. In this research, a systematic pharmacological approach comprising multiple compound target collection, multiple potential target prediction, and network analysis was used for comparing the characteristic of resveratrol, quercetin and QRC, and exploring the mechanism of QRC. After that, four networks were constructed and analyzed: (1) compound-compound target network; (2) compound-potential target network; (3) QRC-PCOS PPI network; (4) QRC-PCOS-other human proteins (protein-protein interaction) PPI network. Through GO and pathway enrichment analysis, it can be found that three compounds focus on different biological processes and pathways; and it seems that QRC combines the characteristics of resveratrol and quercetin. The in-depth study of QRC further showed  more PCOS-related biological processes and pathways. Hence, this research not only offers clues to the researcher who is interested in comparing the differences among resveratrol, quercetin and QRC, but also provides hints for the researcher who wants to explore QRC’s various synergies and its pharmacological and molecular mechanism.
Pseudomonas aeruginosa uses multiple receptors for adherence to laminin during infection of the respiratory tract and skin wounds
Authors: Paulsson Magnus , Su Yu-Ching , Ringwood Tamara , Uddén Fabian , Riesbeck Kristian
Published: December 2019

Pseudomonas aeruginosa efficiently adheres to human tissues, including the lungs and skin, causing infections that are difficult to treat. Laminin is a main component of the extracellular matrix, and in this study we defined bacterial laminin receptors on P. aeruginosa. Persistent clinical P. aeruginosa isolates from patients with cystic fibrosis, wounds or catheter-related urinary tract infections bound more laminin compared to blood isolates. Laminin receptors in the outer membrane were revealed by 2D-immunblotting, and the specificities of interactions were confirmed with ELISA and biolayer interferometry. Four new high-affinity laminin receptors were identified in the outer membrane; EstA, OprD, OprG and PA3923. Mutated bacteria devoid of these receptors adhered poorly to immobilized laminin. All bacterial receptors bound to the heparin-binding domains on LG4 and LG5 of the laminin alpha chain as assessed with truncated laminin fragments, transmission electron microscopy and inhibition by heparin. In conclusion, P. aeruginosa binds laminin via multiple surface receptors, and isolates from lungs of cystic fibrosis patients bound significantly more laminin compared to bacteria isolated from the skin and urine. Since laminin is abundant in both the lungs and skin, we suggest that laminin binding is an important mechanism in P. aeruginosa pathogenesis.
Landscape-scale terrestrial factors are also vital in shaping Odonata assemblages of watercourses
Authors: Nagy H. Beáta , László Zoltán , Szabó Flóra , Szőcs Lilla , Dévai György , Tóthmérész Béla
Published: December 2019

Habitat loss and fragmentation causes a decline in insect populations. Odonata (both dragonflies and damselflies) are especially threatened by the destruction of both aquatic and terrestrial environment. Moreover, effects of large-scale habitat heterogeneity on Odonata assemblages are poorly studied. In a two years study along East-European lowland watercourses both aquatic and terrestrial environment were studied to reveal the importance of local (e.g. water depth, macrovegetation cover, etc.) and landscape-scale (e.g. farmland patch size, forest patch proportion, etc.) variables to Odonata (as well as to dragonflies and damselflies separately) through increasing spatial sampling scales. The specimens were sampled using 500 m long transects from May to September. Results, both on local and landscape scales emphasized the importance of terrestrial environment on Odonata. Local variables influence damselflies, while dragonflies are more sensitive to landscape variables. Damselfly’s diversity decreased with increasing macrovegetation cover, while dragonfly’s diversity decreased with the increasing degree of land use intensification, but increased with the length of watercourses. It is thus vital to stress the importance of partial watercourse clearing, and moderate maintenance of traditional farm management based on small parcel farming near watercourses to maintain diverse and healthy Odonata assemblages.
Nuclear spin-hyperpolarization generated in a flavoprotein under illumination: experimental field-dependence and theoretical level crossing analysis
Authors: Ding Yonghong , Kiryutin Alexey S. , Yurkovskaya Alexandra V. , Sosnovsky Denis V. , Sagdeev Renad Z. , Bannister Saskia , Kottke Tilman , Kar Rajiv K. , Schapiro Igor , Ivanov Konstantin L. , Matysik Jörg
Published: December 2019

The solid-state photo-chemically induced dynamic nuclear polarization (photo-CIDNP) effect generates non-equilibrium nuclear spin polarization in frozen electron-transfer proteins upon illumination and radical-pair formation. The effect can be observed in various natural photosynthetic reaction center proteins using magic-angle spinning (MAS) nuclear magnetic resonance (NMR) spectroscopy, and in a flavin-binding light-oxygen-voltage (LOV) domain of the blue-light receptor phototropin. In the latter system, a functionally instrumental cysteine has been mutated to interrupt the natural cysteine-involving photochemistry allowing for an electron transfer from a more distant tryptophan to the excited flavin mononucleotide chromophore. We explored the solid-state photo-CIDNP effect and its mechanisms in phototropin-LOV1-C57S from the green alga Chlamydomonas reinhardtii by using field-cycling solution NMR. We observed the 13C and, to our knowledge, for the first time, 15N photo-CIDNP signals from phototropin-LOV1-C57S. Additionally, the 1H photo-CIDNP signals of residual water in the deuterated buffer of the protein were detected. The relative strengths of the photo-CIDNP effect from the three types of nuclei, 1H, 13C and 15N were measured in dependence of the magnetic field, showing their maximum polarizations at different magnetic fields. Theoretical level crossing analysis demonstrates that anisotropic mechanisms play the dominant role at high magnetic fields.
Elevated CO2 regulates the Wnt signaling pathway in mammals, Drosophila melanogaster and Caenorhabditis elegans
Authors: Shigemura Masahiko , Lecuona Emilia , Angulo Martín , Dada Laura A. , Edwards Melanie B. , Welch Lynn C. , Casalino-Matsuda S. Marina , Sporn Peter H. S. , Vadász István , Helenius Iiro Taneli , Nader Gustavo A. , Gruenbaum Yosef , Sharabi Kfir , Cummins Eoin , Taylor Cormac , Bharat Ankit , Gottardi Cara J. , Beitel Greg J. , Kaminski Naftali , Budinger G. R. Scott , Berdnikovs Sergejs , Sznajder Jacob I.
Published: December 2019

Carbon dioxide (CO2) is sensed by cells and can trigger signals to modify gene expression in different tissues leading to changes in organismal functions. Despite accumulating evidence that several pathways in various organisms are responsive to CO2 elevation (hypercapnia), it has yet to be elucidated how hypercapnia activates genes and signaling pathways, or whether they interact, are integrated, or are conserved across species. Here, we performed a large-scale transcriptomic study to explore the interaction/integration/conservation of hypercapnia-induced genomic responses in mammals (mice and humans) as well as invertebrates (Caenorhabditis elegans and Drosophila melanogaster). We found that hypercapnia activated genes that regulate Wnt signaling in mouse lungs and skeletal muscles in vivo and in several cell lines of different tissue origin. Hypercapnia-responsive Wnt pathway homologues were similarly observed in secondary analysis of available transcriptomic datasets of hypercapnia in a human bronchial cell line, flies and nematodes. Our data suggest the evolutionarily conserved role of high CO2 in regulating Wnt pathway genes.
Computing the statistical significance of optimized communities in networks
Authors: Palowitch John
Published: December 2019

In scientific problems involving systems that can be modeled as a network (or “graph”), it is often of interest to find network communities - strongly connected node subsets - for unsupervised learning, feature discovery, anomaly detection, or scientific study. The vast majority of community detection methods proceed via optimization of a quality function, which is possible even on random networks without communities. Therefore there is usually not an easy way to tell if a community is “significant”, in this context meaning more internally connected than would be expected under a random graph model without communities. This paper generalizes existing null models and statistical tests for this purpose to bipartite graphs, and introduces a new significance scoring algorithm called Fast Optimized Community Significance (FOCS) that is highly scalable and agnostic to the type of graph. Compared with existing methods on unipartite graphs, FOCS is more numerically stable and better balances the trade-off between detection power and false positives. On a large-scale bipartite graph derived from the Internet Movie Database (IMDB), the significance scores provided by FOCS correlate strongly with meaningful actor/director collaborations on serial cinematic projects.
Micromechanical Response of Crystalline Phases in Alternate Cementitious Materials using 3-Dimensional X-ray Techniques
Authors: Nair Sriramya D. , Nygren Kelly E. , Pagan Darren C.
Published: December 2019

Cementitious materials are complex composites that exhibit significant spatial heterogeneity in their chemical composition and micromechanical response. Modern 3-dimensional characterization techniques using X-rays from synchrotron light sources, such as micro-computed tomography (μCT) and far-field high-energy diffraction microscopy (ff-HEDM), are now capable of probing this micromechanical heterogeneity. In this work, the above mentioned techniques are used to understand the varying micromechanical response of crystalline phases (cubic iron oxide and α-quartz) inherently present within an alkali-activated fly ash (AAF) during in-situ confined compression. A subset of the crystals probed using ff-HEDM are registered with the tomographic reconstructions and tracked through the applied loads, highlighting the combination of μCT and ff-HEDM as a means to examine both elastic strain in the crystalline particles (and by extension local stress response) and plastic strain in the matrix. In this study, significant differences in the load carrying behaviors of the crystalline phases were observed wherein the cubic iron oxide crystals laterally expanded during the confined compression test, while the α-quartz particles laterally contracted and at the final load step, shed load likely due to failure in the surrounding matrix. Finally, the two characterization techniques are discussed in terms of both advantages and associated challenges for analysis of multi-phase cementitious materials.
Curcumin to Promote the Synthesis of Silver NPs and their Self-Assembly with a Thermoresponsive Polymer in Core-Shell Nanohybrids
Authors: Soto-Quintero Albanelly , Guarrotxena Nekane , García Olga , Quijada-Garrido Isabel
Published: December 2019

This work presents a simple one-pot protocol to achieve core-doped shell nanohybrids comprising silver nanoparticles, curcumin and thermoresponsive polymeric shell taking advantage of the reducing properties of phenolic curcumin substance and its ability to decorate metallic surfaces. Silver nanoparticles were synthesized, via sodium citrate and silver nitrate addition into a boiling aqueous solution of curcumin, monomers and surfactant. Curcumin and sodium citrate promoted silver nucleation, acting as reducing and stabilizing agents. These curcumin-capped AgNPs enabled, after adding the radical polymerization initiator, the assembling of the growing polymer chains around the hydrophobic AgNP surface. The resultant core-doped shell nanohybrids exhibit plasmonic, luminescent and volume thermoresponsive properties, with improved possibilities to be used as successful therapeutic platforms. In fact, the possibility to nanoconfine the synergistic antioxidant, antiviral, antibacterial features of silver and curcumin in one bioavailable hybrid paves the way to promising applications in the biomedical field.
Phenotypic and molecular assessment of genetic structure and diversity in a panel of winged yam (Dioscorea alata) clones and cultivars
Authors: Agre Paterne , Asibe Flora , Darkwa Kwabena , Edemodu Alex , Bauchet Guillaume , Asiedu Robert , Adebola Patrick , Asfaw Asrat
Published: December 2019

A better understanding of the structure and extent of genetic variability in a breeding population of a crop is essential for translating genetic diversity to genetic gain. We assessed the nature and pattern of genetic variability and differentiation in a panel of 100 winged-yam (Dioscorea alata) accessions using 24 phenotypic traits and 6,918 single nucleotide polymorphism (SNP) markers. Multivariate analysis for phenotypic variability indicated that all phenotypic traits assessed were useful in discriminating the yam clones and cultivars. Cluster analysis based on phenotypic data distinguished two significant groups, while a corresponding analysis with SNP markers indicated three genetic groups. However, joint analysis for the phenotypic and genotypic data provided three clusters that could be useful for the identification of heterotic groups in the D. alata breeding program. Our analysis for phenotypic and molecular level diversity provided valuable information about overall diversity and variation in economically important traits useful for establishing crossing panels with contrasting traits of interest. The selection and hybridization of parental lines from the different heterotic groups identified would facilitate maximizing diversity and exploiting population heterosis in the D. alata breeding program.
Escherichia coli and Salmonella Enteritidis dual-species biofilms: interspecies interactions and antibiofilm efficacy of phages
Authors: Milho Catarina , Silva Maria Daniela , Alves Diana , Oliveira Hugo , Sousa Clara , Pastrana Lorenzo M. , Azeredo Joana , Sillankorva Sanna
Published: December 2019

Escherichia coli and Salmonella Enteritidis are foodborne pathogens forming challenging biofilms that contribute to their virulence, antimicrobial resistance, and survival on surfaces. Interspecies interactions occur between species in mixed biofilms promoting different outcomes to each species. Here we describe the interactions between E. coli and S. Enteritidis strains, and their control using specific phages. Single-species biofilms presented more cells compared to dual-species biofilms. The spatial organization of strains, observed by confocal microscopy, revealed similar arrangements in both single- and dual-species biofilms. The EPS matrix composition, assessed by Fourier-transform infrared spectroscopy, disclosed that the spectra extracted from the different dual-species biofilms can either be a combination of both species EPS matrix components or that the EPS matrix of one species predominates. Phages damaged more the single-species biofilms than the mixed biofilms, showing also that the killing efficacy was greatly dependent on the phage growth characteristics, bacterial growth parameters, and bacterial spatial distribution in biofilms. This combination of methodologies provides new knowledge of species-species and phage-host interactions in biofilms of these two major foodborne pathogens.
Sodium valproate and 5-aza-2′-deoxycytidine differentially modulate DNA demethylation in G1 phase-arrested and proliferative HeLa cells
Authors: Rocha Marina Amorim , Veronezi Giovana Maria Breda , Felisbino Marina Barreto , Gatti Maria Silvia Viccari , Tamashiro Wirla M. S. C. , Mello Maria Luiza Silveira
Published: December 2019

Sodium valproate/valproic acid (VPA), a histone deacetylase inhibitor, and 5-aza-2-deoxycytidine (5-aza-CdR), a DNA methyltransferase 1 (DNMT1) inhibitor, induce DNA demethylation in several cell types. In HeLa cells, although VPA leads to decreased DNA 5-methylcytosine (5mC) levels, the demethylation pathway involved in this effect is not fully understood. We investigated this process using flow cytometry, ELISA, immunocytochemistry, Western blotting and RT-qPCR in G1 phase-arrested and proliferative HeLa cells compared to the presumably passive demethylation promoted by 5-aza-CdR. The results revealed that VPA acts predominantly on active DNA demethylation because it induced TET2 gene and protein overexpression, decreased 5mC abundance, and increased 5-hydroxy-methylcytosine (5hmC) abundance, in both G1-arrested and proliferative cells. However, because VPA caused decreased DNMT1 gene expression levels, it may also act on the passive demethylation pathway. 5-aza-CdR attenuated DNMT1 gene expression levels but increased TET2 and 5hmC abundance in replicating cells, although it did not affect the gene expression of TETs at any stage of the cell cycle. Therefore, 5-aza-CdR may also function in the active pathway. Because VPA reduces DNA methylation levels in non-replicating HeLa cells, it could be tested as a candidate for the therapeutic reversal of DNA methylation in cells in which cell division is arrested.
β-catenin activation down-regulates cell-cell junction-related genes and induces epithelial-to-mesenchymal transition in colorectal cancers
Authors: Kim Won Kyu , Kwon Yujin , Jang Mi , Park Minhee , Kim Jiyoon , Cho Suyeon , Jang Dong Geon , Lee Wook-Bin , Jung Sang Hoon , Choi Hye Jin , Min Byung Soh , Il Kim Tae , Hong Sung Pil , Paik Young-Ki , Kim Hoguen
Published: December 2019

WNT signaling activation in colorectal cancers (CRCs) occurs through APC inactivation or β-catenin mutations. Both processes promote β-catenin nuclear accumulation, which up-regulates epithelial-to-mesenchymal transition (EMT). We investigated β-catenin localization, transcriptome, and phenotypic differences of HCT116 cells containing a wild-type (HCT116-WT) or mutant β-catenin allele (HCT116-MT), or parental cells with both WT and mutant alleles (HCT116-P). We then analyzed β-catenin expression and associated phenotypes in CRC tissues. Wild-type β-catenin showed membranous localization, whereas mutant showed nuclear localization; both nuclear and non-nuclear localization were observed in HCT116-P. Microarray analysis revealed down-regulation of Claudin-7 and E-cadherin in HCT116-MT vs. HCT116-WT. Claudin-7 was also down-regulated in HCT116-P vs. HCT116-WT without E-cadherin dysregulation. We found that ZEB1 is a critical EMT factor for mutant β-catenin-mediated loss of E-cadherin and Claudin-7 in HCT116-P and HCT116-MT cells. We also demonstrated that E-cadherin binds to both WT and mutant β-catenin, and loss of E-cadherin releases β-catenin from the cell membrane and leads to its degradation. Alteration of Claudin-7, as well as both Claudin-7 and E-cadherin respectively caused tight junction (TJ) impairment in HCT116-P, and dual loss of TJs and adherens junctions (AJs) in HCT116-MT. TJ loss increased cell motility, and subsequent AJ loss further up-regulated that. Immunohistochemistry analysis of 101 CRCs revealed high (14.9%), low (52.5%), and undetectable (32.6%) β-catenin nuclear expression, and high β-catenin nuclear expression was significantly correlated with overall survival of CRC patients (P = 0.009). Our findings suggest that β-catenin activation induces EMT progression by modifying cell-cell junctions, and thereby contributes to CRC aggressiveness.
α-Hydroxybutyrate dehydrogenase is associated with atherothrombotic events following infrainguinal angioplasty and stenting
Authors: Lee Silvia , Koppensteiner Renate , Kopp Christoph W. , Gremmel Thomas
Published: December 2019

Besides clinical characteristics, easy-accessible laboratory markers could be of value to refine risk stratification in peripheral artery disease. In the current study, we investigated whether α-hydroxybutyrate dehydrogenase (HBDH) is associated with atherothrombotic events in 83 stable patients undergoing infrainguinal angioplasty and stenting. The primary endpoint was defined as the composite of the first occurrence of nonfatal myocardial infarction, nonfatal stroke or transient ischemic attack and cardiovascular death within 2 years after angioplasty and stenting, and occurred in 6 patients (7.2%). HBDH levels at baseline were significantly higher in patients who subsequently developed the primary endpoint (126 U/L [116–137 U/L] vs. 105 U/L [95–120 U/L]; p = 0.04). ROC curve analysis revealed that HBDH could distinguish between patients without and with future atherothrombotic events. A HBDH concentration ≥ 115 U/L was identified as the best threshold to predict the composite endpoint, providing a sensitivity of 83.3% and a specificity of 71.4%, and was therefore defined as high HBDH. High HBDH was seen in 28 patients (33.7%). Ischemic events occurred significantly more often in patients with high HBDH than in patients with lower HBDH levels (5 vs. 1 patients, p = 0.007). In conclusion, HBDH is associated with the occurrence of atherothrombotic events after infrainguinal angioplasty with stent implantation. Future trials are warranted to study the predictive role of HBDH for ischemic outcomes and to investigate underlying mechanisms.
The light-oxygen effect in biological cells enhanced by highly localized surface plasmon-polaritons
Authors: Khokhlova Anna , Zolotovskii Igor , Sokolovski Sergei , Saenko Yury , Rafailov Edik , Stoliarov Dmitrii , Pogodina Evgenia , Svetukhin Vyacheslav , Sibirny Vladimir , Fotiadi Andrei
Published: December 2019

Here at the first time we suggested that the surface plasmon-polariton phenomenon which it is well described in metallic nanostructures could also be used for explanation of the unexpectedly strong oxidative effects of the low-intensity laser irradiation in living matters (cells, tissues, organism). We demonstrated that the narrow-band laser emitting at 1265 nm could generate significant amount of the reactive oxygen species (ROS) in both HCT116 and CHO-K1 cell cultures. Such cellular ROS effects could be explained through the generation of highly localized plasmon-polaritons on the surface of mitochondrial crista. Our experimental conditions, the low-intensity irradiation, the narrow spectrum band (<4 nm) of the laser and comparably small size bio-structures (~10 μm) were shown to be sufficient for the plasmon-polariton generation and strong laser field confinement enabling the oxidative stress observed.
Randomized Trial of Mindfulness-Based Stress Reduction in Cardiac Patients Eligible for Cardiac Rehabilitation
Authors: Nijjar Prabhjot S. , Connett John E. , Lindquist Ruth , Brown Roland , Burt Marsha , Pergolski Aaron , Wolfe Alexandra , Balaji Priya , Chandiramani Nitya , Yu Xiaohui , Kreitzer Mary Jo , Everson-Rose Susan A.
Published: December 2019

Currently, exercise-based cardiac rehabilitation (CR) is the only recommended secondary prevention strategy for cardiac patients that attempts to tackle stress and psychosocial wellbeing, but it is under-utilized and lacks a comprehensive curriculum for this purpose; hence there is a critical gap to address psychosocial needs of cardiac patients after an event. Mindfulness-based stress reduction (MBSR) has shown benefits in the general population but its role in cardiac patients is not clear. We conducted a pilot randomized controlled trial (RCT) of MBSR in CR-eligible cardiac patients during their initial year of recovery. Patients were allocated 2:1 (intervention:control) to an 8-week MBSR group intervention or usual care. Standard measures of depression, anxiety, perceived stress, health related quality of life (HRQOL), blood pressure, biomarkers (lipids, HbA1c, CRP) and 24-hour Holter monitoring were obtained at baseline, 3- and 9-months post-randomization. Sub-group analyses were performed for participants with at least mild depression (PHQ-9 ≥ 5). 47 patients [mean age 58.6 years; 38% female; 77% white] were enrolled in 2 cohorts. 87% of MBSR patients completed the intervention; study retention was >95% at each follow-up visit. At 3 months, compared to controls, MBSR patients showed improvements in depression [p = 0.01] and anxiety [p = 0.04] with a similar trend in HRQOL [p = 0.06]. The MBSR group showed greater improvement or less worsening of most CV risk factors, with an attenuation of treatment effects at 9 months. Participants with at PHQ-9 scores ≥5 at baseline showed greater improvement in psychosocial and CV outcomes, that persisted at 9 months. MBSR is a safe and well received secondary prevention strategy. This pilot RCT provides preliminary evidence of MBSR’s potential to improve short term psychosocial well-being in cardiac patients during their first year of recovery.
4,5-Disubstituted 1,2,3-triazoles: Effective Inhibition of Indoleamine 2,3-Dioxygenase 1 Enzyme Regulates T cell Activity and Mitigates Tumor Growth
Authors: Panda Subhankar , Pradhan Nirmalya , Chatterjee Soumya , Morla Sudhir , Saha Abhishek , Roy Ashalata , Kumar Sachin , Bhattacharyya Arindam , Manna Debasis
Published: December 2019

The improvement of body’s own immune system is considered one of the safest approaches to fight against cancer and several other diseases. Excessive catabolism of the essential amino acid, L-tryptophan (L-Trp) assists the cancer cells to escape normal immune obliteration. The formation of disproportionate kynurenine and other downstream metabolites suppress the T cell functions. Blocking of this immunosuppressive mechanism is considered as a promising approach against cancer, neurological disorders, autoimmunity, and other immune-mediated diseases. Overexpression of indoleamine 2,3-dioxygenase 1 (IDO1) enzyme is directly related to the induction of immunosuppressive mechanisms and represents an important therapeutic target. Several classes of small molecule-based IDO1 inhibitors have been already reported, but only few compounds are currently being evaluated in various stages of clinical trials as adjuvants or in combination with chemo- and radiotherapies. In the quest for novel structural class(s) of IDO1 inhibitors, we developed a series of 4,5-disubstituted 1,2,3-triazole derivatives. The optimization of 4,5-disubstituted 1,2,3-triazole scaffold and comprehensive biochemical and biophysical studies led to the identification of compounds, 3i, 4i, and 4k as potent and selective inhibitors of IDO1 enzyme with IC50 values at a low nanomolar level. These potent compounds also showed strong IDO1 inhibitory activities in MDA-MB-231 cells with no/negligible level of cytotoxicity. The T cell activity studies revealed that controlled regulation of IDO1 enzyme activity in the presence of these potent compounds could induce immune response against breast cancer cells. The compounds also showed excellent in vivo antitumor efficacy (of tumor growth inhibition = 79–96%) in the female Swiss albino mice. As a consequence, this study describes the first example of 4,5-disubstituted 1,2,3-triazole based IDO1 inhibitors with potential applications for immunotherapeutic studies.
Coefficients optimization of the GLASS broadband emissivity based on FTIR and MODIS data over the Taklimakan Desert
Authors: Yalkun Aynigar , Mamtimin Ali , Liu Suhong , Yang Fan , He Qing , Qi Feifei , Liu Yongqiang
Published: December 2019

In this paper, the Taklimakan Desert land surface emissivity measured by portable Fourier Transform thermal InfraRed spectroscopy (FTIR) was used to re-estimate Global LAnd Surface Satellite (GLASS) BroadBand Emissivity (BBE) and Moderate Resolution Imaging Spectroradiometer (MODIS) BBE optimal coefficients equations. In addition, the revised BBE equations of both GLASS and MODIS with the optimized coefficients were obtained. Comparing the FTIR and MODIS BBE data with the values retrieved before and after the revised GLASS BBE equation, it was found that the revised GLASS BBE equation is more accurate than the original one. First, according to the error analysis with FTIR data, the value of R2 is increased from 0.4 to 0.9, and the Root Mean Square Error (RMSE) and Bias are reduced by 1 and 3 magnitude orders, respectively. Second, with MODIS BBE data, the value of R2 is increased from 0.6 to 0.9, the RMSE and Bias are reduced by 1 and 2 magnitude orders, respectively. Finally, the Taklimakan Desert BBE was calculated using the revised GLASS BBE equation. The results showed that the BBE values are between 0.890 and 0.920 in the desert center, between 0.920 and 0.950 in the sparse vegetation areas, and between 0.950 and 0.980 in the oasis edges.
Author Correction: Genomewide Study of Epigenetic Biomarkers of Opioid Dependence in European- American Women
Authors: Montalvo-Ortiz Janitza L. , Cheng Zhongshan , Kranzler Henry R. , Zhang Huiping , Gelernter Joel
Published: December 2019

An amendment to this paper has been published and can be accessed via a link at the top of the paper.