bluuebunny/crossref_metadata_2025_split huggingface dataset:
A multiscale model of the effect of Ir thickness on the static and dynamic properties of Fe/Ir/Fe films
Authors: Cuadrado Ramón , Oroszlány László , Szunyogh László , Hrkac Gino , Chantrell Roy W. , Ostler Thomas A. 
Published: February 2018

AbstractThe complex magnetic properties of Fe/Ir/Fe sandwiches are studied using a hierarchical multi-scale model. The approach uses first principles calculations and thermodynamic models to reveal the equilibrium spinwave, magnetization and dynamic demagnetisation properties. Finite temperature calculations show a complex spinwave dispersion and an initially counter-intuitive, increasing exchange stiffness with temperature (a key quantity for device applications) due to the effects of frustration at the interface, which then decreases due to magnon softening. Finally, the demagnetisation process in these structures is shown to be much slower at the interface as compared with the bulk, a key insight to interpret ultrafast laser-induced demagnetization processes in layered or interface materials.
The use of SWATH to analyse the dynamic changes of bacterial proteome of carbapanemase-producing Escherichia coli under antibiotic pressure
Authors: Sidjabat Hanna E. , Gien Jolene , Kvaskoff David , Ashman Keith , Vaswani Kanchan , Reed Sarah , McGeary Ross P. , Paterson David L. , Bordin Amanda , Schenk Gerhard 
Published: February 2018

AbstractAntibiotic resistance associated with the clinically significant carbapenemases KPC, NDM and OXA-48 in Enterobacteriaceae is emerging as worldwide. In Australia, IMP-producing Enterobacteriaceae are the most prevalent carbapenemase-producing Enterobacteriaceae (CPE). Genomic characteristics of such CPE are well described, but the corresponding proteome is poorly characterised. We have thus developed a method to analyse dynamic changes in the proteome of CPE under antibiotic pressure. Specifically, we have investigated the effect of meropenem at sub-lethal concentrations to develop a better understanding of how antibiotic pressure leads to resistance. Escherichia coli strains producing either NDM-, IMP- or KPC-type carbapenemases were included in this study, and their proteomes were analysed in growth conditions with or without meropenem. The most significant difference in the bacterial proteomes upon the addition of meropenem was triggered amongst NDM-producers and to a lower extent amongst KPC-producers. In particular, HU DNA-binding proteins, the GroEL/GroES chaperonin complex and GrpE proteins were overexpressed. These proteins may thus contribute to the better adaptability of NDM- and KPC-producers to meropenem. A significant meropenem-induced increase in the expression of the outer membrane protein A was only observed in IMP-producers, thus demonstrating that carbapenemase-mediated resistance relies on far more complex mechanisms than simple inactivation of the antibiotic.
Individualistic values are related to an increase in the outbreaks of infectious diseases and zoonotic diseases
Authors: Morand Serge , Walther Bruno A. 
Published: February 2018

AbstractCollectivist versus individualistic values are important attributes of intercultural variation. Collectivist values favour in-group members over out-group members and may have evolved to protect in-group members against pathogen transmission. As predicted by the pathogen stress theory of cultural values, more collectivist countries are associated with a higher historical pathogen burden. However, if lifestyles of collectivist countries indeed function as a social defence which decreases pathogen transmission, then these countries should also have experienced fewer disease outbreaks in recent times. We tested this novel hypothesis by correlating the values of collectivism-individualism for 66 countries against their historical pathogen burden, recent number of infectious disease outbreaks and zoonotic disease outbreaks and emerging infectious disease events, and four potentially confounding variables. We confirmed the previously established negative relationship between individualism and historical pathogen burden with new data. While we did not find a correlation for emerging infectious disease events, we found significant positive correlations between individualism and the number of infectious disease outbreaks and zoonotic disease outbreaks. Therefore, one possible cost for individualistic cultures may be their higher susceptibility to disease outbreaks. We support further studies into the exact protective behaviours and mechanisms of collectivist societies which may inhibit disease outbreaks.
Human milk oligosaccharides protect against the development of autoimmune diabetes in NOD-mice
Authors: Xiao Ling , van’t Land Belinda , Engen Phillip A. , Naqib Ankur , Green Stefan J. , Nato Angie , Leusink-Muis Thea , Garssen Johan , Keshavarzian Ali , Stahl Bernd , Folkerts Gert 
Published: February 2018

AbstractDevelopment of Type 1 diabetes (T1D) is influenced by non-genetic factors, such as optimal microbiome development during early life that “programs” the immune system. Exclusive and prolonged breastfeeding is an independent protective factor against the development of T1D, likely via bioactive components. Human Milk Oligosaccharides (HMOS) are microbiota modulators, known to regulate immune responses directly. Here we show that early life provision (only for a period of six weeks) of 1% authentic HMOS (consisting of both long-chain, as well as short-chain structures), delayed and suppressed T1D development in non-obese diabetic mice and reduced development of severe pancreatic insulitis in later life. These protective effects were associated with i) beneficial alterations in fecal microbiota composition, ii) anti-inflammatory microbiota-generating metabolite (i.e. short chain fatty acids (SCFAs)) changes in fecal, as well as cecum content, and iii) induction of anti-diabetogenic cytokine profiles. Moreover, in vitro HMOS combined with SCFAs induced development of tolerogenic dendritic cells (tDCs), priming of functional regulatory T cells, which support the protective effects detected in vivo. In conclusion, HMOS present in human milk are therefore thought to be vital in the protection of children at risk for T1D, supporting immune and gut microbiota development in early life.
Hypoxia-induced exosome secretion promotes survival of African-American and Caucasian prostate cancer cells
Authors: Panigrahi Gati K. , Praharaj Prakash P. , Peak Taylor C. , Long Jessica , Singh Ravi , Rhim Johng S. , Abd Elmageed Zakaria Y. , Deep Gagan 
Published: February 2018

AbstractAfrican American men in the United States have higher mortality due to prostate cancer (PCa) compared to other races. One reason for this disparity is the lack of in-depth understanding of the PCa biology in African Americans. For example, hypoxia in prostate tumor microenvironment is associated with adverse prognosis; still, no hypoxia-related studies have been reported in African Americans. Here, we compared African-American and Caucasian PCa cells for exosome secretion under normoxic (21% O2) and hypoxic (1% O2) conditions. All cell lines showed higher exosome secretion under hypoxia but it was clearly more prominent in African-American PCa cells. Further, under hypoxia, Rab5 (a biomarker for early endosome) was clustered in perinuclear region; and CD63 (a biomarker for exosomes and multivesicular endosomes) showed greater co-localization with actin cytoskeleton especially in African American PCa cells. Importantly, exosome biogenesis inhibitors GW4869 (10–20 µM) or DMA (10–20 µg/ml) significantly decreased cell viability and clonogenicity in PCa cells. Interestingly, we also observed higher level of lactic acid loaded in exosomes secreted under hypoxia. Overall, under chronic hypoxia, PCa cells secrete more exosomes as a survival mechanism to remove metabolic waste.
Landscape of the spliced leader trans-splicing mechanism in Schistosoma mansoni
Authors: Boroni Mariana , Sammeth Michael , Gava Sandra Grossi , Jorge Natasha Andressa Nogueira , Macedo Andréa Mara , Machado Carlos Renato , Mourão Marina Moraes , Franco Glória Regina 
Published: February 2018

AbstractSpliced leader dependent trans-splicing (SLTS) has been described as an important RNA regulatory process that occurs in different organisms, including the trematode Schistosoma mansoni. We identified more than seven thousand putative SLTS sites in the parasite, comprising genes with a wide spectrum of functional classes, which underlines the SLTS as a ubiquitous mechanism in the parasite. Also, SLTS gene expression levels span several orders of magnitude, showing that SLTS frequency is not determined by the expression level of the target gene, but by the presence of particular gene features facilitating or hindering the trans-splicing mechanism. Our in-depth investigation of SLTS events demonstrates widespread alternative trans-splicing (ATS) acceptor sites occurring in different regions along the entire gene body, highlighting another important role of SLTS generating alternative RNA isoforms in the parasite, besides the polycistron resolution. Particularly for introns where SLTS directly competes for the same acceptor substrate with cis-splicing, we identified for the first time additional and important features that might determine the type of splicing. Our study substantially extends the current knowledge of RNA processing by SLTS in S. mansoni, and provide basis for future studies on the trans-splicing mechanism in other eukaryotes.
Boat noise impacts risk assessment in a coral reef fish but effects depend on engine type
Authors: McCormick Mark I. , Allan Bridie J. M. , Harding Harry , Simpson Stephen D. 
Published: February 2018

AbstractHuman noise pollution has increased markedly since the start of industrialization and there is international concern about how this may impact wildlife. Here we determined whether real motorboat noise affected the behavior, space use and escape response of a juvenile damselfish (Pomacentrus wardi) in the wild, and explored whether fish respond effectively to chemical and visual threats in the presence of two common types of motorboat noise. Noise from 30 hp 2-stroke outboard motors reduced boldness and activity of fish on habitat patches compared to ambient reef-sound controls. Fish also no longer responded to alarm odours with an antipredator response, instead increasing activity and space use, and fewer fish responded appropriately to a looming threat. In contrast, while there was a minor influence of noise from a 30 hp 4-stroke outboard on space use, there was no influence on their ability to respond to alarm odours, and no impact on their escape response. Evidence suggests that anthropogenic noise impacts the way juvenile fish assess risk, which will reduce individual fitness and survival, however, not all engine types cause major effects. This finding may give managers options by which they can reduce the impact of motorboat noise on inshore fish communities.
The DREADD agonist clozapine N-oxide (CNO) is reverse-metabolized to clozapine and produces clozapine-like interoceptive stimulus effects in rats and mice
Authors: Manvich Daniel F. , Webster Kevin A. , Foster Stephanie L. , Farrell Martilias S. , Ritchie James C. , Porter Joseph H. , Weinshenker David 
Published: February 2018

AbstractClozapine-N-oxide (CNO) has long been the ligand of choice for selectively activating Designer Receptors Exclusively Activated by Designer Drugs (DREADDs). However, recent studies have challenged the long-held assertion that CNO is otherwise pharmacologically inert. The present study aimed to 1) determine whether CNO is reverse-metabolized to its parent compound clozapine in mice (as has recently been reported in rats), and 2) determine whether CNO exerts clozapine-like interoceptive stimulus effects in rats and/or mice. Following administration of 10.0 mg/kg CNO, pharmacokinetic analyses replicated recent reports of back-conversion to clozapine in rats and revealed that this phenomenon also occurs in mice. In rats and mice trained to discriminate 1.25 mg/kg clozapine from vehicle, CNO (1.0–20.0 mg/kg) produced partial substitution for the clozapine stimulus on average, with full substitution being detected in some individual animals of both species at doses frequently used to activate DREADDs. The present demonstration that CNO is converted to clozapine and exerts clozapine-like behavioral effects in both mice and rats further emphasizes the need for appropriate control groups in studies employing DREADDs, and highlights the utility of the drug discrimination procedure as a tool with which to screen the off-target effects of novel DREADD agonists.
Depressive symptoms and their association with social determinants and chronic diseases in middle-aged and elderly Chinese people
Authors: Liu Qiaolan , Cai Hui , Yang Lawrence H. , Xiang Yong-Bing , Yang Gong , Li Honglan , Gao Yu-Tang , Zheng Wei , Susser Ezra , Shu Xiao-Ou 
Published: February 2018

AbstractDepression is one of the most prevalent mental disorders worldwide. Little information is available regarding association of depressive symptoms (DS) with cancer and chronic diseases among middle-aged and elderly Chinese in a population-based setting. In this study we evaluated the prevalence and examined correlates of DS in two population-based cohort studies. Included in the analyses were 103,595 people with a mean age of 61.8 years at the DS assessment. The prevalence of DS was 2.4% in men and 5.6% in women. We found elderly participants, those with lower BMI, or chronic diseases were more likely to experience DS. Having a history of stroke (odds ratio (OR) = 2.2 in men and 1.8 in women), cancer (OR = 3.3 in men and 1.9 in women), or Parkinson’s disease (OR = 3.1 in men and 2.7 in women) was associated with high DS. In women, high income and high education levels were inversely related to DS. Being a single woman, long-term or heavy female smoker was associated with high prevalence of DS. High BMI was correlated with low prevalence of depression in men. Our data suggests a low prevalence of DS among middle-aged and elderly people in Shanghai, China. Age, education, income, marital status, smoking, BMI, and certain health conditions were associated with DS.
Loss of mRNA surveillance pathways results in widespread protein aggregation
Authors: Jamar Nur Hidayah , Kritsiligkou Paraskevi , Grant Chris M. 
Published: February 2018

AbstractEukaryotic cells contain translation-associated mRNA surveillance pathways which prevent the production of potentially toxic proteins from aberrant mRNA translation events. We found that loss of mRNA surveillance pathways in mutants deficient in nonsense-mediated decay (NMD), no-go decay (NGD) and nonstop decay (NSD) results in increased protein aggregation. We have isolated and identified the proteins that aggregate and our bioinformatic analyses indicates that increased aggregation of aggregation-prone proteins is a general occurrence in mRNA surveillance mutants, rather than being attributable to specific pathways. The proteins that aggregate in mRNA surveillance mutants tend to be more highly expressed, more abundant and more stable proteins compared with the wider proteome. There is also a strong correlation with the proteins that aggregate in response to nascent protein misfolding and an enrichment for proteins that are substrates of ribosome-associated Hsp70 chaperones, consistent with susceptibility for aggregation primarily occurring during translation/folding. We also identified a significant overlap between the aggregated proteins in mRNA surveillance mutants and ageing yeast cells suggesting that translation-dependent protein aggregation may be a feature of the loss of proteostasis that occurs in aged cell populations.
The combined influence of body size and density on cohesive sediment resuspension by bioturbators
Authors: Cozzoli Francesco , Bouma Tjeerd J. , Ottolander Pauline , Lluch Maria Salvador , Ysebaert Tom , Herman Peter M. J. 
Published: February 2018

AbstractWe propose an empirical framework to scale the effects of bioturbation on sediment resuspension to population bioturbation activity, approximated as population metabolic rate. Individual metabolic rates have been estimated as functions of body size and extrapolated to population level. We used experimental flumes to test this approach across different types of marine, soft-sediment bioturbators. We observed that a large part of the variance in biota-mediated sediment resuspension can be explained by a positive relationship with population metabolic rate. Other mechanisms can strongly influence the outcome, such as bioturbation of deep sediment strata, biotic interactions with hydrodynamic stress and overlapping areas of influence must be further investigated. By relating the biota-mediated changes in resuspended sediment to metabolism, we can place our observations within the broader context of the metabolic theory of ecology and to formulate general expectations about changes in biota-mediated sediment resuspension in response to changes in population structure and climate change.
Phase transitions of ordered ice in graphene nanocapillaries and carbon nanotubes
Authors: Raju Muralikrishna , van Duin Adri , Ihme Matthias 
Published: February 2018

AbstractNew phase diagrams for water confined in graphene nanocapillaries and single-walled carbon nanotubes (CNTs) are proposed, identifying ice structures, their melting points and revealing the presence of a solid-liquid critical point. For quasi-2D water in nanocapillaries, we show through molecular-dynamics simulations that AA stacking in multilayer quasi-2D ice arises from interlayer hydrogen-bonding and is stable up to three layers, thereby explaining recent experimental observations. Detailed structural and energetic analyses show that quasi-2D water can freeze discontinuously through a first-order phase transition or continuously with a critical point. The first-order transition line extends to a continuous transition line, defined by a sharp transition in diffusivity between solid-like and liquid-like regimes. For quasi-1D water, confined in CNTs, we observe the existence of a similar critical point at intermediate densities. In addition, an end point is identified on the continuous-transition line, above which the solid and liquid phases deform continuously. The solid-liquid phase transition temperatures in CNTs are shown to be substantially higher than 273 K, confirming recent Raman spectroscopy measurements. We observe ultrafast proton and hydroxyl transport in quasi-1D and -2D ice at 300 K, exceeding those of bulk water up to a factor of five, thereby providing possible applications to fuel-cells and electrolyzers.
Disturbance Regimes Drive The Diversity of Regional Floristic Pools Across Guianan Rainforest Landscapes
Authors: Guitet Stéphane , Sabatier Daniel , Brunaux Olivier , Couteron Pierre , Denis Thomas , Freycon Vincent , Gonzalez Sophie , Hérault Bruno , Jaouen Gaëlle , Molino Jean-François , Pélissier Raphaël , Richard-Hansen Cécile , Vincent Grégoire 
Published: February 2018

AbstractDisturbances control rainforest dynamics, and, according to the intermediate disturbance hypothesis (IDH), disturbance regime is a key driver of local diversity. Variations in disturbance regimes and their consequences on regional diversity at broad spatiotemporal scales are still poorly understood. Using multidisciplinary large-scale inventories and LiDAR acquisitions, we developed a robust indicator of disturbance regimes based on the frequency of a few early successional and widely distributed pioneer species. We demonstrate at the landscape scale that tree-species diversity and disturbance regimes vary with climate and relief. Significant relationships between the disturbance indicator, tree-species diversity and soil phosphorus content agree with the hypothesis that rainforest diversity is controlled both by disturbance regimes and long-term ecosystem stability. These effects explain the broad-scale patterns of floristic diversity observed between landscapes. In fact, species-rich forests in highlands, which have benefited from long-term stability combined with a moderate and regular regime of local disturbances, contrast with less diversified forests on recently shaped lowlands, which have undergone more recent changes and irregular dynamics. These results suggest that taking the current disturbance regime into account and including geomorphological stratifications in climate-vegetation models may be an effective way to improve the prediction of changes in species diversity under climate change.
Long-term nutrient addition increased CH4 emission from a bog through direct and indirect effects
Authors: Juutinen Sari , Moore Tim R. , Bubier Jill L. , Arnkil Sini , Humphreys Elyn , Marincak Brenden , Roy Cameron , Larmola Tuula 
Published: February 2018

AbstractPeatlands are globally significant sources of atmospheric methane (CH4). While several studies have examined the effects of nutrient addition on CH4 dynamics, there are few long-term peatland fertilization experiments, which are needed to understand the aggregated effects of nutrient deposition on ecosystem functioning. We investigated responses of CH4 flux and production to long-term field treatments with three levels of N (1.6–6.4 g m−2 yr−1 as NH4NO3), potassium and phosphorus (PK, 5.0 g P and 6.3 g K m−2 yr−1 as KH2PO4), and NPK in a temperate bog. Methane fluxes were measured in the field from May to August in 2005 and 2015. In 2015 CH4 flux was higher in the NPK treatment with 16 years of 6.4 g N m−2 yr−1 than in the control (50.5 vs. 8.6 mg CH4 m−2 d−1). The increase in CH4 flux was associated with wetter conditions derived from peat subsidence. Incubation of peat samples, with and without short-term PK amendment, showed that potential CH4 production was enhanced in the PK treatments, both from field application and by amending the incubation. We suggest that changes in this bog ecosystem originate from long-term vegetation change, increased decomposition and direct nutrient effects on microbial dynamics.
Conditional knockout of NaV1.6 in adult mice ameliorates neuropathic pain
Authors: Chen Lubin , Huang Jianying , Zhao Peng , Persson Anna-Karin , Dib-Hajj Fadia B. , Cheng Xiaoyang , Tan Andrew , Waxman Stephen G. , Dib-Hajj Sulayman D. 
Published: February 2018

AbstractVoltage-gated sodium channels NaV1.7, NaV1.8 and NaV1.9 have been the focus for pain studies because their mutations are associated with human pain disorders, but the role of NaV1.6 in pain is less understood. In this study, we selectively knocked out NaV1.6 in dorsal root ganglion (DRG) neurons, using NaV1.8-Cre directed or adeno-associated virus (AAV)-Cre mediated approaches, and examined the specific contribution of NaV1.6 to the tetrodotoxin-sensitive (TTX-S) current in these neurons and its role in neuropathic pain. We report here that NaV1.6 contributes up to 60% of the TTX-S current in large, and 34% in small DRG neurons. We also show NaV1.6 accumulates at nodes of Ranvier within the neuroma following spared nerve injury (SNI). Although NaV1.8-Cre driven NaV1.6 knockout does not alter acute, inflammatory or neuropathic pain behaviors, AAV-Cre mediated NaV1.6 knockout in adult mice partially attenuates SNI-induced mechanical allodynia. Additionally, AAV-Cre mediated NaV1.6 knockout, mostly in large DRG neurons, significantly attenuates excitability of these neurons after SNI and reduces NaV1.6 accumulation at nodes of Ranvier at the neuroma. Together, NaV1.6 in NaV1.8-positive neurons does not influence pain thresholds under normal or pathological conditions, but NaV1.6 in large NaV1.8-negative DRG neurons plays an important role in neuropathic pain.