bluuebunny/crossref_metadata_2025_split huggingface dataset:
Relationships of H. pylori infection and its related gastroduodenal morbidity with metabolic syndrome: a large cross-sectional study
Authors: Refaeli Rotem , Chodick Gabriel , Haj Saeda , Goren Sophy , Shalev Varda , Muhsen Khitam 
Published: February 2018

AbstractThe few published studies on the relationship between Helicobacter pylori infection and metabolic homeostasis were relatively small and yielded inconsistent results. We examined the prevalence of metabolic syndrome in relation to H. pylori infection and its symptoms in a large and unselected population. Coded data from the computerised database of a large health maintenance organisation in Israel were accessed for 147,936 individuals 25–95 years of age who performed the urea breath test during 2002–2012. The classification of metabolic syndrome followed a modified definition of the international diabetes federation. Prevalences of H. pylori infection and metabolic syndrome were 52.0% and 11.4% respectively. H. pylori infected patients had increased likelihood of metabolic syndrome: adjusted odds ratio (aOR) 1.15 (95% confidence intervals (CI) 1.10–1.19), as did patients with gastric ulcer: aOR 1.15 (95% CI 1.03–1.28) vs patients without these conditions. Duodenal ulcer was associated with metabolic syndrome only in persons aged 25–34 years: aOR 1.59 (95% CI 1.19-2.13), but not in older persons (P = 0.001 for heterogeneity). In conclusion, the likelihood of metabolic syndrome appeared significantly increased in relation to H. pylori infection and gastric and duodenal ulcers. These findings suggest that H. pylori long-term gastric inflammation might play a role in metabolic homeostasis.
Single-cell RNA sequencing reveals developmental heterogeneity of blastomeres during major genome activation in bovine embryos
Authors: Lavagi Ilaria , Krebs Stefan , Simmet Kilian , Beck Andrea , Zakhartchenko Valeri , Wolf Eckhard , Blum Helmut 
Published: February 2018

AbstractEmbryonic development is initially controlled by maternal RNAs and proteins stored in the oocyte, until gene products gradually generated by the embryo itself take over. Major embryonic genome activation (EGA) in bovine embryos occurs at the eight- to 16-cell stage. Morphological observations, such as size of blastomeres and distribution of microvilli, suggested heterogeneity among individual cells already at this developmental stage. To address cell heterogeneity on the transcriptome level, we performed single-cell RNA sequencing of 161 blastomeres from 14 in vitro produced bovine embryos at Day 2 (n = 6) and Day 3 (n = 8) post fertilization. Complementary DNA libraries were prepared using the Single-Cell RNA-Barcoding and Sequencing protocol and sequenced. Non-supervised clustering of single-cell transcriptome profiles identified six clusters with specific sets of genes. Most embryos were comprised of cells from at least two different clusters. Sorting cells according to their transcriptome profiles resulted in a non-branched pseudo-time line, arguing against major lineage inclination events at this developmental stage. In summary, our study revealed heterogeneity of transcriptome profiles among single cells in bovine Day 2 and Day 3 embryos, suggesting asynchronous blastomere development during the phase of major EGA.
A state-space modelling approach to wildlife monitoring with application to flying-fox abundance
Authors: Westcott David A. , Caley Peter , Heersink Daniel K. , McKeown Adam 
Published: February 2018

AbstractMonitoring flying-foxes is challenging as their extreme mobility produces highly dynamic population processes, considerable logistic difficulty, and variability in estimated population size. We report on methods for inferring population trend for the population of the spectacled flying-fox (Pteropus conspicillatus) in Australia. Monthly monitoring is conducted at all known roost sites across the species’ range in the Wet Tropics Region. The proportion of animals in camps varies seasonally and stochastic environmental events appear to be influential. We develop a state-space model that incorporates these processes and enables inference on total population trends and uses early warning analysis to identify the causes of population dynamics. The model suggests that population growth rate is stable in the absence of cyclones, however, cyclones appear to impact on both survival and reproduction. The population recovered after two cyclones but declined after a third. The modelling estimates a population decline over 15 years of c. 75% (mean r = − 0.12yr−1 and belief of negative trend is c. 83%) suggesting that conservation action is warranted. Our work shows that a state-space modelling approach is a significant improvement on inference from raw counts from surveys and demonstrates that this approach is a workable alternative to other methods.
Interactions mediated by a public good transiently increase cooperativity in growing Pseudomonas putida metapopulations
Authors: Becker Felix , Wienand Karl , Lechner Matthias , Frey Erwin , Jung Heinrich 
Published: February 2018

AbstractBacterial communities have rich social lives. A well-established interaction involves the exchange of a public good in Pseudomonas populations, where the iron-scavenging compound pyoverdine, synthesized by some cells, is shared with the rest. Pyoverdine thus mediates interactions between producers and non-producers and can constitute a public good. This interaction is often used to test game theoretical predictions on the “social dilemma” of producers. Such an approach, however, underestimates the impact of specific properties of the public good, for example consequences of its accumulation in the environment. Here, we experimentally quantify costs and benefits of pyoverdine production in a specific environment, and build a model of population dynamics that explicitly accounts for the changing significance of accumulating pyoverdine as chemical mediator of social interactions. The model predicts that, in an ensemble of growing populations (metapopulation) with different initial producer fractions (and consequently pyoverdine contents), the global producer fraction initially increases. Because the benefit of pyoverdine declines at saturating concentrations, the increase need only be transient. Confirmed by experiments on metapopulations, our results show how a changing benefit of a public good can shape social interactions in a bacterial population.
The early effects of external and internal strategies on working memory updating training
Authors: Laine Matti , Fellman Daniel , Waris Otto , Nyman Thomas J. 
Published: February 2018

AbstractThe mechanisms underlying working memory training remain unclear, but one possibility is that the typically limited transfer effects of this training reflect adoption of successful task-specific strategies. Our pre-registered randomized controlled trial (N = 116) studied the early effects of externally given vs. internally generated strategies in an updating task (n-back) over a 5-day period with a single 30-minute training session. Three groups were employed: n-back training with strategy instruction (n = 40), n-back training without strategy instruction (n = 37), and passive controls (n = 39). We found that both external and internal strategy use was associated with significantly higher posttest performance on the trained n-back task, and that training with n-back strategy instruction yielded positive transfer on untrained n-back tasks, resembling the transfer pattern typically seen after the ordinary uninstructed 4–6-week working memory training. In the uninstructed participants, the level of detail and type of internally generated n-back strategies at posttest was significantly related to their posttest n-back performance. Our results support the view that adoption of task-specific strategies plays an important role in working memory training outcomes, and that strategy-based effects are apparent right at the start of training.
Patient-derived conditionally reprogrammed cells maintain intra-tumor genetic heterogeneity
Authors: Correa Bruna R. S. , Hu Joanna , Penalva Luiz O. F. , Schlegel Richard , Rimm David L. , Galante Pedro A. F. , Agarwal Seema 
Published: February 2018

AbstractPreclinical in vitro models provide an essential tool to study cancer cell biology as well as aid in translational research, including drug target identification and drug discovery efforts. For any model to be clinically relevant, it needs to recapitulate the biology and cell heterogeneity of the primary tumor. We recently developed and described a conditional reprogramming (CR) cell technology that addresses many of these needs and avoids the deficiencies of most current cancer cell lines, which are usually clonal in origin. Here, we used the CR cell method to generate a collection of patient-derived cell cultures from non-small cell lung cancers (NSCLC). Whole exome sequencing and copy number variations are used for the first time to address the capability of CR cells to keep their tumor-derived heterogeneity. Our results indicated that these primary cultures largely maintained the molecular characteristics of the original tumors. Using a mutant-allele tumor heterogeneity (MATH) score, we showed that CR cells are able to keep and maintain most of the intra-tumoral heterogeneity, suggesting oligoclonality of these cultures. CR cultures therefore represent a pre-clinical lung cancer model for future basic and translational studies.
Ecrg4 peptide is the ligand of multiple scavenger receptors
Authors: Moriguchi Tetsuo , Takeda Shuji , Iwashita Shinzo , Enomoto Kei , Sawamura Tatsuya , Koshimizu Uichi , Kondo Toru 
Published: February 2018

AbstractEsophageal cancer-related gene 4 (Ecrg4) encodes a hormone-like peptide that is believed to be involved in a variety of physiological phenomena, including tumour suppression. Recent progress in the study of Ecrg4 has shown that Ecrg4 is a proinflammatory factor and induces the expression of several cytokines and chemokines in macrophages/microglia. However, the detailed molecular mechanisms of Ecrg4 signalling, especially the Ecrg4 receptors, remain poorly understood. Here, using retrovirus-mediated expression cloning, we identified lectin-like oxidised low-density lipoprotein receptor-1 (LOX-1) as a membrane protein that binds amino acid residues 71–132 of Ecrg4 (Ecrg4(71–132)). Moreover, in addition to LOX-1, several scavenger receptors, such as Scarf1, Cd36 and Stabilin-1, facilitated the efficient internalisation of Ecrg4(71–132) into cells. A broad competitive inhibitor of scavenger receptors, polyinosinic acid, reduced both the binding of Ecrg4(71–132) and the activation of NF-κB in microglia. This activation was dependent on MyD88, an adaptor protein that recruits signalling proteins to Toll-like receptors (TLRs), with the consequent induction of various immune responses. These data suggest that multiple scavenger receptors recognise Ecrg4(71–132) and transduce its signals, together with TLRs, in microglia.
Duck plague virus Glycoprotein J is functional but slightly impaired in viral replication and cell-to-cell spread
Authors: You Yu , Liu Tian , Wang Mingshu , Cheng Anchun , Jia Renyong , Yang Qiao , Wu Ying , Zhu Dekang , Chen Shun , Liu Mafeng , Zhao XinXin , Zhang Shaqiu , Liu Yunya , Yu Yanling , Zhang Ling 
Published: February 2018

AbstractTo analyse the function of the duck plague virus (DPV) glycoprotein J homologue (gJ), two different mutated viruses, a gJ deleted mutant ΔgJ and a gJR rescue mutant gJR with US5 restored were generated. All recombinant viruses were constructed by using two-step of RED recombination system implemented on the duck plague virus Chinese virulent strain (DPV CHv) genome cloned into a bacterial artificial chromosome. DPV-mutants were characterized on non-complementing DEF cells compared with parental virus. Viral replication kinetics of intracellular and extracellular viruses revealed that the ΔgJ virus produce a 10-fold reduction of viral titers than the gJR and parental virus, which especially the production of extracellular infectivity was affected. In addition, the ΔgJ virus produced viral plaques on DEF cells that was on average approximately 11% smaller than those produced by the gJR and parental viruses. Electron microscopy confirmed that although DPV CHv without gJ could efficiently carry out viral replication, virion assembly and envelopment within infected cells, the ΔgJ virus produced and accumulated high levels of anuclear particles in the nuclear and cytoplasm. These results show that the gJ slightly impaired in viral replication, virion assembly and cell-to-cell spread, and is not essential in virion envelopment.
Charge Berezinskii-Kosterlitz-Thouless transition in superconducting NbTiN films
Authors: Mironov Alexey Yu. , Silevitch Daniel M. , Proslier Thomas , Postolova Svetlana V. , Burdastyh Maria V. , Gutakovskii Anton K. , Rosenbaum Thomas F. , Vinokur Valerii V. , Baturina Tatyana I. 
Published: February 2018

AbstractThree decades after the prediction of charge-vortex duality in the critical vicinity of the two-dimensional superconductor-insulator transition (SIT), one of the fundamental implications of this duality—the charge Berezinskii-Kosterlitz-Thouless (BKT) transition that should occur on the insulating side of the SIT—has remained unobserved. The dual picture of the process points to the existence of a superinsulating state endowed with zero conductance at finite temperature. Here, we report the observation of the charge BKT transition on the insulating side of the SIT in 10 nm thick NbTiN films, identified by the BKT critical behavior of the temperature and magnetic field dependent resistance, and map out the magnetic-field dependence of the critical temperature of the charge BKT transition. Finally, we ascertain the effects of the finite electrostatic screening length and its divergence at the magnetic field-tuned approach to the superconductor-insulator transition.
Black Sea outflow response to Holocene meltwater events
Authors: Herrle Jens O. , Bollmann Jörg , Gebühr Christina , Schulz Hartmut , Sheward Rosie M. , Giesenberg Annika 
Published: February 2018

AbstractDuring the Holocene, North American ice sheet collapse and rapid sea-level rise reconnected the Black Sea with the global ocean. Rapid meltwater releases into the North Atlantic and associated climate change arguably slowed the pace of Neolithisation across southeastern Europe, originally hypothesized as a catastrophic flooding that fueled culturally-widespread deluge myths. However, we currently lack an independent record linking the timing of meltwater events, sea-level rise and environmental change with the timing of Neolithisation in southeastern Europe. Here, we present a sea surface salinity record from the Northern Aegean Sea indicative of two meltwater events at ~8.4 and ~7.6 kiloyears that can be directly linked to rapid declines in the establishment of Neolithic sites in southeast Europe. The meltwater events point to an increased outflow of low salinity water from the Black Sea driven by rapid sea level rise >1.4 m following freshwater outbursts from Lake Agassiz and the final decay of the Laurentide ice sheet. Our results shed new light on the link between catastrophic sea-level rise and the Neolithisation of southeastern Europe, and present a historical example of how coastal populations could have been impacted by future rapid sea-level rise.
Plant-made Salmonella bacteriocins salmocins for control of Salmonella pathovars
Authors: Schneider Tobias , Hahn-Löbmann Simone , Stephan Anett , Schulz Steve , Giritch Anatoli , Naumann Marcel , Kleinschmidt Martin , Tusé Daniel , Gleba Yuri 
Published: February 2018

AbstractSalmonella enterica causes an estimated 1 million illnesses in the United States each year, resulting in 19,000 hospitalizations and 380 deaths, and is one of the four major global causes of diarrhoeal diseases. No effective treatments are available to the food industry. Much attention has been given to colicins, natural non-antibiotic proteins of the bacteriocin class, to control the related pathogen Escherichia coli. We searched Salmonella genomic databases for colicin analogues and cloned and expressed in plants five such proteins, which we call salmocins. Among those, SalE1a and SalE1b were found to possess broad antimicrobial activity against all 99 major Salmonella pathovars. Each of the two salmocins also showed remarkably high potency (>106 AU/µg recombinant protein, or >103 higher than colicins) against major pathogenic target strains. Treatment of poultry meat matrices contaminated with seven key pathogenic serovars confirmed salmocin efficacy as a food safety intervention against Salmonella.
Digital biomarkers of cognitive function
Authors: Dagum Paul 
Published: February 2018

AbstractTo identify digital biomarkers associated with cognitive function, we analyzed human–computer interaction from 7 days of smartphone use in 27 subjects (ages 18–34) who received a gold standard neuropsychological assessment. For several neuropsychological constructs (working memory, memory, executive function, language, and intelligence), we found a family of digital biomarkers that predicted test scores with high correlations (p < 10−4). These preliminary results suggest that passive measures from smartphone use could be a continuous ecological surrogate for laboratory-based neuropsychological assessment.
A Pilot Study to Investigate the Relationship Between Interaural Differences in Temporal Bone Anatomy and Normal Variations in Caloric Asymmetry
Authors: Carpenter David , Kaylie David , Piker Erin , Frank-Ito Dennis 
Published: February 2018

Purpose
This study assesses interaural differences in temporal bone anatomy in subjects with normal caloric findings.

Method
Eligible patients included those referred to the Duke University Medical Center otology clinic complaining of dizziness, with a head computed tomography scan and caloric stimulation results within normal ranges (inter-ear difference ≤ 10% or < 25% unilateral weakness). Three-dimensional reconstructions of computed tomography scans in 11 patients were used to calculate the surface area and volume of lateral semicircular canals (LSCCs), mastoid airspaces, mastoid bones, and internal auditory canal diameter and circumference. Percent differences in interaural temporal bone anatomy (i.e., left-to-right asymmetry) were analyzed and correlated with warm caloric inter-ear difference (WCD) and clinically indicated caloric predictor asymmetry.

Results

A multivariate model predicting WCD from 9 interaural anatomic variables demonstrated a Pearson's coefficient of 0.999. A similarly constructed model of the clinically indicated caloric predictor demonstrated a Pearson's coefficient of 0.999. The univariate correlation was strongest for WCD versus Proctor internal auditory canal diameter (
r
= 0.476;
p
= .139) and WCD versus lateral semicircular canal surface-area-to-volume ratio (
r
= −0.474;
p
= .141).

Conclusions
This pilot study provides multivariate models that predict caloric asymmetry in subjects without vestibular pathologic findings per caloric testing, based on interaural differences across variables of the temporal bone anatomy.

Supplemental Material

https://doi.org/10.23641/asha.5895988
MOND simulation suggests an origin for some peculiarities in the Local Group
Authors: Bílek M. , Thies I. , Kroupa P. , Famaey B. 
Published: February 2018

Context. The Milky Way (MW) and Andromeda (M 31) galaxies possess rotating planes of satellites. The formation of these planes has not been explained satisfactorily so far. It has been suggested that the MW and M 31 satellites are ancient tidal dwarf galaxies; this might explain their configuration. This suggestion gained support by an analytic backward-calculation of the relative MW–M 31 orbit in the MOND modified dynamics paradigm. The result implied that the galaxies experienced a close flyby 7–11 Gyr ago.
Aims. Here we explore the Local Group history in MOND in more detail using a simplified first-ever self-consistent simulation. We describe the features induced by the encounter in the simulation and identify possible real counterparts of these features.
Methods. The initial conditions were set to eventually roughly reproduce the observed MW and M 31 masses, effective radii, separation, relative velocity, and disk inclinations. We used the publicly available adaptive-mesh-refinement code Phantom of RAMSES.
Results. Matter was transferred from the MW to M 31 along a tidal tail in the simulation. The encounter induced the formation of several structures resembling the peculiarities of the Local Group. Most notably are that 1) a rotating planar structure formed around M 31 from the transferred material. It had a size similar to the observed satellite plane and was oriented edge-on to the simulated MW, just as the real plane. 2) The same structure also resembled the tidal features observed around M 31 by its size and morphology. 3) A warp in the MW developed with an amplitude and orientation similar to that observed. 4) A cloud of particles formed around the simulated MW, with the extent of the actual MW satellite system. The encounter did not end by merging in a Hubble time. The simulated stellar disks also thickened as a result of the encounter.
Conclusions. The simulation demonstrated that MOND might explain many peculiarities of the Local Group; this needs to be verified with additional simulations. The simulation moreover showed that tidal features observed in galaxies, usually interpreted as merger remnants, could have been formed by matter exchange during non-merging galactic flybys in some cases.
Lithium Treatment in Children and Adolescents
Authors: Duffy Anne , Grof Paul 
Published: February 2018

Abstract
Introduction There is a resurgence of interest in lithium treatment of bipolar disorders in part related to its unique anti-suicidal and neuroprotective effects.
Methods This is a narrative review of key studies pertaining to the effectiveness and tolerability of lithium treatment in pediatric populations.
Results Evidence supports that lithium is an effective and generally well-tolerated acute treatment for pediatric mania compared to placebo. Lithium may be less effective than risperidone for treating chronic mixed/manic symptoms in young children but comparable to anticonvulsants. However, in comparison, risperidone was associated with higher weight gain and prolactin levels. There is a lack of evidence inform maintenance treatment in children who benefit from lithium. Other indications that require further study include treatment of refractory or recurrent major depression in children at confirmed familial risk of bipolar disorder, as well as the treatment of acute suicidal ideation/behavior and refractory aggression.
Discussion There is inadequate data about the full variety of benefit and tolerability of lithium treatment in pediatric patients. However, given the potential for protection against suicide and neurotoxic effects of illness, further studies should be a priority.