bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cluster-based network proximities for arbitrary nodal subsets
Authors: Berenhaut Kenneth S. , Barr Peter S. , Kogel Alyssa M. , Melvin Ryan L. 
Published: September 2018

AbstractThe concept of a cluster or community in a network context has been of considerable interest in a variety of settings in recent years. In this paper, employing random walks and geodesic distance, we introduce a unified measure of cluster-based proximity between nodes, relative to a given subset of interest. The inherent simplicity and informativeness of the approach could make it of value to researchers in a variety of scientific fields. Applicability is demonstrated via application to clustering for a number of existent data sets (including multipartite networks). We view community detection (i.e. when the full set of network nodes is considered) as simply the limiting instance of clustering (for arbitrary subsets). This perspective should add to the dialogue on what constitutes a cluster or community within a network. In regards to health-relevant attributes in social networks, identification of clusters of individuals with similar attributes can support targeting of collective interventions. The method performs well in comparisons with other approaches, based on comparative measures such as NMI and ARI.
Experimental Adaptation of the Yellow Fever Virus to the Mosquito Aedes albopictus and Potential risk of urban epidemics in Brazil, South America
Authors: Amraoui Fadila , Pain Adrien , Piorkowski Géraldine , Vazeille Marie , Couto-Lima Dinair , de Lamballerie Xavier , Lourenço-de-Oliveira Ricardo , Failloux Anna-Bella 
Published: September 2018

AbstractDespite the availability of an efficient vaccine, Yellow fever (YF), a viral disease transmitted by mosquitoes, is still a threat. In Brazil, the yellow fever virus (YFV) has been restricted to a jungle cycle for more than 70 years. However, YFV has recently invaded populated cities in the Southeast such as Rio de Janeiro where the opportunistic mosquito Aedes albopictus is well established. Using in vivo passages of YFV in Ae. albopictus, we have selected viral strains presenting substitutions in NS1 gene. We did 10 passages of YFV-74018 on two distinct Ae. albopictus populations: (i) Manaus collected from a YFV-endemic area in Amazonia and (ii) PNMNI from a YFV-free area in the state of Rio de Janeiro. Full viral genomes were deep sequenced at each passage. We obtained two YFV strains presenting a non-synonymous substitution in the NS1 gene. Interestingly, they intervened at two different positions in NS1 gene according to the mosquito population: I2772T in Ae. albopictus Manaus and S3303N in Ae. albopictus PNMNI. Both substitutions reached fixation at the passage 10. Our data suggest that YFV has the potential for adaption to Ae. albopictus thereby posing a threat to most cities in South America where this mosquito is present.
The effects of fruit bagging on residue behavior and dietary risk for four pesticides in apple
Authors: Xu Guofeng , Nie Jiyun , Wu Yonglong , Yan Zhen , Ye Mengliang 
Published: September 2018

AbstractIn this study, the effects of fruit bagging on residue behavior and dietary risk for four pesticides (abamectin, imidacloprid, carbendazim and difenoconazole) in apple were investigated. The dissipation behavior of four pesticides were assessed after spraying on three occasions with the first spray at 2 months before harvest and the subsequent sprays at 10-day intervals at recommended doses of 5.4, 45, 135 and 975 g. a.i.ha−1, respectively. The dissipation experiment results demonstrated that apple fruit bagging reduced the initial deposits of four pesticides from 72.2% to 95.3%, prolonged the half-lives from 50.4% to 81.1%. The ultimate residues of abamectin, imidacloprid, carbendazim, and difenoconazole in bagged apple were far below the residues of unbagged apple. The dietary risks of four pesticides were assessed according to the ultimate residues and acceptable daily intakes (ADIs). The hazard quotient (HQ) were 0.013% to 43.415% for different pesticides. Fruit bagging reduced the HQ of four pesticides from 29.7% to 94.8%. Fruit bagging reduced the dietary risk of four pesticides in apple.
Types of naming errors in chronic post-stroke aphasia are dissociated by dual stream axonal loss
Authors: McKinnon Emilie T. , Fridriksson Julius , Basilakos Alexandra , Hickok Gregory , Hillis Argye E. , Spampinato M. Vittoria , Gleichgerrcht Ezequiel , Rorden Chris , Jensen Jens H. , Helpern Joseph A. , Bonilha Leonardo 
Published: September 2018

AbstractThe types of errors during speech production can vary across individuals with chronic post-stroke aphasia, possibly due to the location and extent of brain damage. In this study, we evaluated the relationship between semantic vs. phonemic errors during confrontational naming, and their relationship with the degree of damage to ventral and dorsal white matter pathways extending beyond the necrotic stroke lesion. Based on the dual stream model of language processing, we tested the hypothesis that semantic errors would be associated with ventral stream damage, whereas phonemic errors would be associated with dorsal stream damage, but not vice-versa. Multi-shell diffusion MRI was used to obtain kurtosis-based white matter tractography from 32 chronic stroke survivors. Using diffusion microstructural tissue modeling, we estimated axonal loss along the length of the inferior and superior longitudinal fasciculi (ILF and SLF), representing the main pathways in the ventral and dorsal streams, respectively. The frequency of semantic paraphasias was strongly associated with ILF axonal loss, whereas phonemic paraphasias were strongly associated with SLF axonal loss, but not vice versa. This dissociation between semantic and phonological processing is in agreement with the dual stream model of language processing and corroborates the concept that, during speech production, knowledge association (semantics) depends on the integrity of ventral, whereas form encoding (phonological encoding) is more localized to dorsal pathways. These findings also demonstrate the importance of the residual integrity of specific white matter pathways beyond regional gray matter damage for speech production.
Apoptotic efficacy of multifaceted biosynthesized silver nanoparticles on human adenocarcinoma cells
Authors: Plackal Adimuriyil George Blassan , Kumar Neeraj , Abrahamse Heidi , Ray Suprakas Sinha 
Published: September 2018

AbstractMetallic nanoparticles (NPs) especially silver (Ag) NPs have shown immense potential in medical applications due to their distinctive physio-chemical and biological properties. This article reports the conjugation of Ag NPs with Rubus fairholmianus extract. The modification of Ag NPs was confirmed using various physico-chemical characterization techniques. The cytotoxic effect of Rubus-conjugated Ag NPs (RAgNPs) was studied by LDH assay and proliferation by ATP assay. The apoptotic inducing ability of the NPs were investigated by Annexin V/PI staining, caspase 3/7 analysis, cytochrome c release, intracellular ROS analysis, Hoechst staining and mitochondrial membrane potential analysis using flow cytometry. The expression of apoptotic proteins caspase 3, Bax and P53 were analyzed using ELISA and caspase 3, Bax using western blotting. Cells treated with 10 µg/mL RAgNPs showed an increased number of cell death by microscopic analysis compared to untreated control cells. The RAgNPs induced a statistically significant dose-dependent decrease in proliferation (p < 0.001 for 5 and 10 µg/mL) and increased cytotoxicity in MCF-7 cells. A 1.83 fold increase in cytotoxicity was observed in cells treated with 10 µg/mL (p < 0.05) compared to the untreated cells. Nuclear damage and intracellular ROS production were observed upon treatment with all tested concentrations of RAgNPs and the highest concentrations (5 and 10 µg/mL) showed significant (p < 0.05, p < 0.01) expression of caspase 3, Bax and P53 proteins. The data strongly suggest that RAgNPs induces cell death in MCF-7 cells through the mitochondrial-mediated intrinsic apoptosis pathway. The present investigation supports the potential of RAgNPs in anticancer drug development.
Anxa4 mediated airway progenitor cell migration promotes distal epithelial cell fate specification
Authors: Jiang Kewu , Tang Zan , Li Juan , Wang Fengchao , Tang Nan 
Published: September 2018

AbstractGenetic studies have shown that FGF10/FGFR2 signaling is required for airway branching morphogenesis and FGF10 functions as a chemoattractant factor for distal epithelial cells during lung development. However, the detail downstream cellular and molecular mechanisms have not been fully characterized. Using live imaging of ex vivo cultured lungs, we found that tip airway epithelial progenitor cells migrate faster than cleft cells during airway bud formation and this migration process is controlled by FGFR2-mediated ERK1/2 signaling. Additionally, we found that airway progenitor cells that migrate faster tend to become distal airway progenitor cells. We identified that Anxa4 is a downstream target of ERK1/2 signaling. Anxa4−/− airway epithelial cells exhibit a “lag-behind” behavior and tend to stay at the stalk airways. Moreover, we found that Anxa4-overexpressing cells tend to migrate to the bud tips. Finally, we demonstrated that Anxa4 functions redundantly with Anxa1 and Anxa6 in regulating endoderm budding process. Our study demonstrates that ERK1/2/Anxa4 signaling plays a role in promoting the migration of airway epithelial progenitor cells to distal airway tips and ensuring their distal cell fate.
Omega-3 from Flaxseed Oil Protects Obese Mice Against Diabetic Retinopathy Through GPR120 Receptor
Authors: Dátilo Marcella Neves , Sant’Ana Marcella Ramos , Formigari Guilherme Pedron , Rodrigues Patrícia Brito , de Moura Leandro Pereira , da Silva Adelino Sanchez Ramos , Ropelle Eduardo Rochete , Pauli José Rodrigo , Cintra Dennys Esper 
Published: September 2018

AbstractThe chronic and low-grade inflammation induced by obesity seem to be the “first hit” to retinopathy associated to diabetes type 2. Herein, we hypothesized that omega-3 fatty acids from flaxseed oil enriched diet disrupt the pro-inflammatory status in the retina, protecting against retinopathy development. For eight weeks under a high-fat diet (HF), several physiological parameters were monitored to follow the metabolic homeostasis disruption. After this period, mice were treated with a HF substituted in part of lard by flaxseed oil (FS) for another eight weeks. Food behavior, weight gain, glucose and insulin sensitivity, electroretinography, RT-qPCR and western blots were carried out. The HF was able to induce a pro-inflammatory background in the retina, changing IL1β and TNFα. VEGF, a master piece of retinopathy, had early onset increased also induced by HF. The FS-diet was able to decrease inflammation and retinopathy and improved retinal electro stimuli compared to HF group. GPR120 and GPR40 (G Protein-Coupled Receptors 120 and 40), an omega-3 fatty acid receptors, were detected in the retina for the first time. FS-diet modulated the gene expression and protein content of these receptors. Thus, unsaturated fatty acids protect the retina from diabetes type 2 mice model from disease progression.
Age-Structured Population Modeling of HPV-related Cervical Cancer in Texas and US
Authors: Peng Ho-Lan , Tam Samantha , Xu Li , Dahlstrom Kristina R. , Wu Chi-Fang , Fu Shuangshuang , Zhong Chengxue , Chan Wenyaw , Sturgis Erich M. , Ramondetta Lois , Rong Libin , Lairson David R. , Miao Hongyu 
Published: September 2018

AbstractHuman papillomavirus (HPV)–related cervical cancer is a major public health threat to women, with >10,000 new cases diagnosed annually in the United States between 2008 and 2012. Since HPV vaccines can protect against ~80% of HPV-associated cervical cancers, the economic and epidemiological impacts of HPV vaccination have been extensively investigated, particularly at the national level. However, vaccination policies are state-specific, and state-level models are required for state-specific policy decisions. This study adapted an age-structured population model to describe the dynamics of HPV-related cervical cancer in Texas, with model parameters calibrated for Texas. The Year 2000 parameter set was the start point, and the model’s predictions from 2001–2010 were well matched with the real incidence numbers in 23 age groups, suggesting the validity of the model. Application of the model to the Year 2010 parameter set predicted that, over the next 10 decades, incidence would decrease rapidly within the first decade and more slowly thereafter. Sensitivity analysis determined the impact of selected parameters (e.g., vaccine coverage rate) on future disease incidence. When compared with the US parameter sets, the Texas population was more sensitive to changes in HPV transmission and vaccination (e.g., ~8% difference in the predicted disease decline).
Persister Cells – a Plausible Outcome of Neutral Coevolutionary Drift
Authors: Khlebodarova T. M. , Likhoshvai V. A. 
Published: September 2018

AbstractThe phenomenon of bacterial persistence – a non-inherited antibiotic tolerance in a minute fraction of the bacterial population, was observed more than 70 years ago. Nowadays, it is suggested that “persister cells” undergo an alternative scenario of the cell cycle; however, pathways involved in its emergence are still not identified. We present a mathematically grounded scenario of such possibility. We have determined that population drift in the space of multiple neutrally coupled mutations, which we called “neutrally coupled co-evolution” (NCCE), leads to increased dynamic complexity of bacterial populations via appearance of cells capable of carrying out a single cell cycle in two or more alternative ways and that universal properties of the coupled transcription-translation system underlie this phenotypic multiplicity. According to our hypothesis, modern persister cells have derived from such cells and regulatory mechanisms that govern the consolidation of this phenomenon represented the trigger. We assume that the described type of neutrally coupled co-evolution could play an important role in the origin of extremophiles, both in bacteria and archaea.
Impedance Spectroscopy as a Novel Approach to Probe the Phase Transition and Microstructures Existing in CS:PEO Based Blend Electrolytes
Authors: Aziz Shujahadeen B. , Faraj M. G. , Abdullah Omed Gh. 
Published: September 2018

AbstractIn this work the role of phase transition of PEO from crystalline to amorphous phases on DC conductivity enhancement in chitosan-based polymer electrolyte was discussed. Silver ion-conducting polymer electrolytes based on chitosan (CS) incorporated with silver nitrate (AgNt) is prepared via solution cast technique. Various amounts of polyethylene oxide (PEO) are added to the CS:AgNt system to prepare blend polymer electrolytes. Ultraviolet-visible (UV-vis) spectrophotometry is used to confirm that the blended samples containing AgNt salt exhibit a broad absorption peak. From optical micrograph images it is apparent that small white specs appear on the surface of the samples. The SEM results clearly show the aggregated silver nanoparticles. The enlargement of the crystalline area was observed from the morphological emergence and impedance plots. The phase separation in SEM images was observed at high PEO concentration. The XRD consequences support the morphological manifestation. In this study a new approach is offered to explore the microstructures existing in the blend electrolytes. The width of the semicircle linked to crystalline phase in impedance spectra was found to be increased with the increase of PEO concentration. A slow increase of DC conductivity was observed at low temperatures while above 333 K an immediate change in DC conductivity was obtained. The rapid rise of DC conductivity at high temperatures is correlated with the DSC results and impedance studies at high temperatures.
CRISPR-Cas9 ribonucleoprotein-mediated co-editing and counterselection in the rice blast fungus
Authors: Foster Andrew J. , Martin-Urdiroz Magdalena , Yan Xia , Wright Harriet Sabrina , Soanes Darren M. , Talbot Nicholas J. 
Published: September 2018

AbstractThe rice blast fungus Magnaporthe oryzae is the most serious pathogen of cultivated rice and a significant threat to global food security. To accelerate targeted mutation and specific genome editing in this species, we have developed a rapid plasmid-free CRISPR-Cas9-based genome editing method. We show that stable expression of Cas9 is highly toxic to M. oryzae. However efficient gene editing can be achieved by transient introduction of purified Cas9 pre-complexed to RNA guides to form ribonucleoproteins (RNPs). When used in combination with oligonucleotide or PCR-generated donor DNAs, generation of strains with specific base pair edits, in-locus gene replacements, or multiple gene edits, is very rapid and straightforward. We demonstrate a co-editing strategy for the creation of single nucleotide changes at specific loci. Additionally, we report a novel counterselection strategy which allows creation of precisely edited fungal strains that contain no foreign DNA and are completely isogenic to the wild type. Together, these developments represent a scalable improvement in the precision and speed of genetic manipulation in M. oryzae and are likely to be broadly applicable to other fungal species.
Optical observations of NEA 3200 Phaethon (1983 TB) during the 2017 apparition
Authors: Kim M.-J. , Lee H.-J. , Lee S.-M. , Kim D.-H. , Yoshida F. , Bartczak P. , Dudziński G. , Park J. , Choi Y.-J. , Moon H.-K. , Yim H.-S. , Choi J. , Choi E.-J. , Yoon J.-N. , Serebryanskiy A. , Krugov M. , Reva I. , Ergashev K. E. , Burkhonov O. , Ehgamberdiev S. A. , Turayev Y. , Lin Z.-Y. , Arai T. , Ohtsuka K. , Ito T. , Urakawa S. , Ishiguro M. 
Published: September 2018

Context. The near-Earth asteroid 3200 Phaethon (1983 TB) is an attractive object not only from a scientific viewpoint but also because of JAXA’s DESTINY+ target. The rotational lightcurve and spin properties were investigated based on the data obtained in the ground-based observation campaign of Phaethon.
Aims. We aim to refine the lightcurves and shape model of Phaethon using all available lightcurve datasets obtained via optical observation, as well as our time-series observation data from the 2017 apparition.
Methods. Using eight 12-m telescopes and an optical imager, we acquired the optical lightcurves and derived the spin parameters of Phaethon. We applied the lightcurve inversion method and SAGE algorithm to deduce the convex and non-convex shape model and pole orientations.
Results. We analysed the optical lightcurve of Phaethon and derived a synodic and a sidereal rotational periods of 3.6039 h, with an axis ratio of a∕b = 1.07. The ecliptic longitude (λp) and latitude (βp) of the pole orientation were determined as (308°, −52°) and (322°, −40°) via two independent methods. A non-convex model from the SAGE method, which exhibits a concavity feature, is also presented.
The chemical composition of the oldest nearby open cluster Ruprecht 147
Authors: Bragaglia Angela , Fu Xiaoting , Mucciarelli Alessio , Andreuzzi Gloria , Donati Paolo 
Published: September 2018

Context. Ruprecht 147 (NGC 6774) is the closest old open cluster, with a distance of less than 300 pc and an age of about 2.5 Gyr. It is therefore well suited for testing stellar evolution models and for obtaining precise and detailed chemical abundance information.
Aims. We combined photometric and astrometric information coming from literature and the Gaia mission with very high-resolution optical spectra of stars in different evolutionary stages to derive the cluster distance, age, and detailed chemical composition.
Methods. We obtained spectra of six red giants using HARPS-N at the Telescopio Nazionale Galileo (TNG). We also used European Southern Observatory (ESO) archive spectra of 22 main sequence (MS) stars, observed with HARPS at the 3.6 m telescope. The very high resolution (115 000) and the large wavelength coverage (about 380–680 nm) of the twin instruments permitted us to derive atmospheric parameters, metallicity, and detailed chemical abundances of 23 species from all nucleosynthetic channels. We employed both equivalent widths and spectrum synthesis. We also re-derived the cluster distance and age using Gaia parallaxes, proper motions, and photometry in conjunction with the PARSEC stellar evolutionary models.
Results. We fully analysed those stars with radial velocity and proper motion/parallax in agreement with the cluster mean values. We also discarded one binary not previously recognised, and six stars near the MS turn-off because of their high rotation velocity. Our final sample consists of 21 stars (six giants and 15 MS stars). We measured metallicity (the cluster average [Fe/H] is +0.08, rms = 0.07) and abundances of light, α, Fe-peak, and neutron-capture elements. The Li abundance follows the expectations, showing a tight relation between temperature and abundance on the MS, at variance with M 67, and we did not detect any Li-rich giant.
Conclusions. We confirm that Rup 147 is the oldest nearby open cluster. This makes it very valuable to test detailed features of stellar evolutionary models.
Mécanismes d’échappement des filovirus à l’immunité innée
Authors: Martin Baptiste , Decroly Étienne 
Published: September 2018

Le virus Ébola est un pathogène émergent important en Afrique où il a été responsable de plusieurs épidémies de fièvres hémorragiques associées à un taux de mortalité extrêmement élevée (jusqu’à 90 %). La pathogenèse des filovirus est, entre autres, liée à une réponse antivirale inadaptée. Cette famille de virus a en effet développé des stratégies d’échappement aux mécanismes précoces de l’immunité innée. Il en résulte une réplication virale massive qui induit une réponse immunitaire inappropriée à l’origine d’une réaction inflammatoire aiguë associée au syndrome hémorragique. Dans cette revue, nous décrivons les mécanismes utilisés par les filovirus, tels que le virus Ébola, pour échapper à la réponse immunitaire innée.
Une anthropologie biologique de la disparition de l’homme de Néandertal : données récentes
Authors: Charlier Philippe , Coppens Yves , Héry-Arnaud Geneviève , Hassin Jacques 
Published: September 2018

Quelles ont pu être les causes de la disparition de l’homme de Néandertal ? On tentera ici de faire une synthèse entre l’un des questionnements fondamentaux de l’anthropologie biologique relatifs à l’évolution humaine (hypothèses sur les causes de l’extinction des Néandertaliens) et des concepts bio-médicaux évolutionnistes, dont certains ont été récemment reformulés grâce aux progrès de la paléogénomique (héritages ancestraux du système immunitaire humain actuel, paléo-microbiologie, relation hôte-pathogène, etc.).