bluuebunny/crossref_metadata_2025 huggingface dataset:
“O Sweet Cautery”: John of the Cross and the Healing of the Natural World
Authors: Frohlich Mary
Published: November 2016

Contrary to what may appear in a superficial understanding of his spirituality, John of the Cross strongly affirms the goodness of creation and its capacity to mediate the presence of God. He specifically identifies the web of mutual interactions among creatures as a primary manifestation of divine love, and he affirms that the more a person participates in God, the more he or she participates fully and joyfully in this community of creatures. Activation of creation's full capacity to mediate divinity, however, depends on the full fruition of the human person in God. Experientially, this involves a lengthy process of a back-and-forth rhythm between the glimpse of God in creation and the complete renunciation of dependence on creaturely knowledge in favor of faith. John's writings invite us to participate in the healing of the natural world by pursuing this contemplative rhythm all the way to its fruitional climax.
Interrater Reliability of Surveillance for Ventilator-Associated Events and Pneumonia
Authors: Kerlin Meeta Prasad , Trick William E. , Anderson Deverick J. , Babcock Hilary M. , Lautenbach Ebbing , Gueret Renaud , Klompas Michael
Published: November 2016

OBJECTIVE

To compare interrater reliabilities for ventilator-associated event (VAE) surveillance, traditional ventilator-associated pneumonia (VAP) surveillance, and clinical diagnosis of VAP by intensivists.

DESIGN

A retrospective study nested within a prospective multicenter quality improvement study.

SETTING

Intensive care units (ICUs) within 5 hospitals of the Centers for Disease Control and Prevention Epicenters.

PATIENTS

Patients who underwent mechanical ventilation.

METHODS

We selected 150 charts for review, including all VAEs and traditionally defined VAPs identified during the primary study and randomly selected charts of patients without VAEs or VAPs. Each chart was independently reviewed by 2 research assistants (RAs) for VAEs, 2 hospital infection preventionists (IPs) for traditionally defined VAP, and 2 intensivists for any episodes of pulmonary deterioration. We calculated interrater agreement using κ estimates.

RESULTS

The 150 selected episodes spanned 2,500 ventilator days. In total, 93–96 VAEs were identified by RAs; 31–49 VAPs were identified by IPs, and 29–35 VAPs were diagnosed by intensivists. Interrater reliability between RAs for VAEs was high (κ, 0.71; 95% CI, 0.59–0.81). Agreement between IPs using traditional VAP criteria was slight (κ, 0.12; 95% CI, −0.05–0.29). Agreement between intensivists was slight regarding episodes of pulmonary deterioration (κ 0.22; 95% CI, 0.05–0.39) and was fair regarding whether episodes of deterioration were attributable to clinically defined VAP (κ, 0.34; 95% CI, 0.17–0.51). The clinical correlation between VAE surveillance and intensivists’ clinical assessments was poor.

CONCLUSIONS

Prospective surveillance using VAE criteria is more reliable than traditional VAP surveillance and clinical VAP diagnosis; the correlation between VAEs and clinically recognized pulmonary deterioration is poor.

Infect Control Hosp Epidemiol 2017;38:172–178
The ANU WiFeS SuperNovA Programme (AWSNAP)
Authors: Childress Michael J. , Tucker Brad E. , Yuan Fang , Scalzo Richard , Ruiter Ashley , Seitenzahl Ivo , Zhang Bonnie , Schmidt Brian , Anguiano Borja , Aniyan Suryashree , Bayliss Daniel D. R. , Bento Joao , Bessell Michael , Bian Fuyan , Davies Rebecca , Dopita Michael , Fogarty Lisa , Fraser-McKelvie Amelia , Freeman Ken , Kuruwita Rajika , Medling Anne M. , Murphy Simon J. , Murphy Simon J. , Owers Matthew , Panther Fiona , Sweet Sarah M. , Thomas Adam D. , Zhou George
Published: November 2016

This paper presents the first major data release and survey description for the ANU WiFeS SuperNovA Programme. ANU WiFeS SuperNovA Programme is an ongoing supernova spectroscopy campaign utilising the Wide Field Spectrograph on the Australian National University 2.3-m telescope. The first and primary data release of this programme (AWSNAP-DR1) releases 357 spectra of 175 unique objects collected over 82 equivalent full nights of observing from 2012 July to 2015 August. These spectra have been made publicly available via the WISEREP supernova spectroscopy repository.

We analyse the ANU WiFeS SuperNovA Programme sample of Type Ia supernova spectra, including measurements of narrow sodium absorption features afforded by the high spectral resolution of the Wide Field Spectrograph instrument. In some cases, we were able to use the integral-field nature of the Wide Field Spectrograph instrument to measure the rotation velocity of the SN host galaxy near the SN location in order to obtain precision sodium absorption velocities. We also present an extensive time series of SN 2012dn, including a near-nebular spectrum which both confirms its ‘super-Chandrasekhar’ status and enables measurement of the sub-solar host metallicity at the SN site.
Arms versus Democratic Allies
Authors: Digiuseppe Matthew , Poast Paul
Published: November 2016

In theory, states can gain security by acquiring internal arms or external allies. Yet the empirical literature offers mixed findings: some studies find arms and allies to be substitutes, while others find them to be complements. This article contends that these conflicting findings are due to scholars failing to consider how regime type influences the choice between arms and allies. Since democracies are highly credible allies, states that form alliances with democracies can confidently reduce their internal arms. This is not the case when states form alliances with non-democracies. This study evaluates the argument using data on military expenditures and defense pacts from 1950 to 2001. Taking steps to account for the potentially endogenous relationship between arms and allies, it finds that democratic alliances are associated with lower levels of military spending.
SPOUSAL INFLUENCES ON HEALTH AND WELL-BEING OF OLDER KUWAITI MEN AND WOMEN
Authors: Al-Kandari Yagoub Y. , Crews Douglas E.
Published: November 2016

The aim of the study was to determine the associations of the self-perceptions of health and social support among Kuwaitis who were 60 years old and older, who either were or were not currently living with a spouse. A sample of 1427 was selected (472 men and 955 women). Social Affairs nurses completed all interviews in the participants’ homes. A single questionnaire was designed; SPSS (version 21) was used for data entry and analysis. Participants living with their spouse reported significantly greater social support, more frequent contact with others and greater strength of social relationships than those without a spouse. Significant differences between those with and without a spouse were observed for all physically assessed and self-reported aspects of health. Of 60 items included in the somatic symptoms, participants with a spouse reported fewer poor health symptoms than those without a spouse. More children living in the same household, along with greater frequency of contact, strength of contact and social support significantly and independently predicted positive somatic symptoms in the total sample as well as in both sexes. Participants with a spouse reported fewer poor health symptoms than did those without a spouse. Having a spouse is a significant benefit to many aspects of elder Kuwaitis’ daily lives, including their health and well-being.
Motility, morphology and phylogeny of the plasmodial worm, Ceratomyxa vermiformis n. sp. (Cnidaria: Myxozoa: Myxosporea)
Authors: ADRIANO E. A. , OKAMURA B.
Published: November 2016

The Myxozoa demonstrate extensive morphological simplification and miniaturization relative to their free-living cnidarian ancestors. This is particularly pronounced in the highly derived myxosporeans, which develop as plasmodia and pseudoplasmodia. To date, motility in these stages has been linked with membrane deformation (e.g. as pseudopodia and mobile folds). Here we illustrate a motile, elongate plasmodium that undergoes coordinated undulatory locomotion, revealing remarkable convergence to a functional worm at the cellular level. Ultrastructural and confocal analyses of these plasmodia identify a highly differentiated external layer containing an actin-rich network, long tubular mitochondria, abundant microtubules, a secreted glycocalyx layer, and an internal region where sporogony occurs and which contains homogeneously distributed granular/fibrillar material. We consider how some of these features may support motility. We also describe the species based on spore morphology and SSU rDNA sequence data, undertake molecular phylogenetic analysis to place it within an early-diverging clade of the ceratomyxids, and evaluate the resultant implications for classification (validity of the genus Meglitschia) and for inferring early host environments (freshwater) of ceratomyxids.
The Ukraine crisis moves north. Is Arctic conflict spill-over driven by material interests?
Authors: Rahbek-Clemmensen Jon
Published: November 2016

The Ukraine crisis has led to tensions between Russia and the western states and the Arctic is one of the affected regions. Regional cooperation, institutions, and international law are essential for Arctic governance, and the crisis may thus have wide-ranging consequences for high north politics. The present article develops an interest-based model of Arctic conflict spill-over and examines its strength, based on a case-study of the first 18 months of the Ukraine crisis. Three hypotheses for Arctic conflict spill-over are developed: Arctic conflict spill-over will be less severe than spill-over in other regions, the western states will be more assertive than Russia, and the smaller Arctic states will be less assertive than the larger states. A review of the crisis confirms the bulk of these hypotheses with some exceptions, thus demonstrating that an interests-based model holds some merit, while also showing that a complete understanding of Arctic conflict spill-over necessitates a broader approach. The article concludes that conflict spillover is unlikely, but not impossible, in the Arctic.
Performance characteristics and clinical utility of diagnostic criteria proposals in bereaved treatment-seeking patients
Authors: Mauro C. , Shear M. K. , Reynolds C. F. , Simon N. M. , Zisook S. , Skritskaya N. , Wang Y. , Lebowitz B. , Duan N. , First M. B. , Ghesquiere A. , Gribbin C. , Glickman K.
Published: November 2016

Background

Persistent complex bereavement disorder (PCBD) is a protracted form of grief included in DSM Section 3 indicating a need for more research. Two other criteria sets [prolonged grief disorder (PGD) and complicated grief (CG) disorder] are also currently in use by researchers. This study evaluates rates of diagnosis of each proposed criteria set in a clinical sample of bereaved individuals participating in clinical research.

Method

Two groups in which persistent grief was judged to be present or absent completed an assessment instrument that included items needed to diagnose PCBD as well as PGD and CG. One group included grief treatment-seeking participants in our multicenter National Institute of Mental Health (NIMH)-sponsored study who scored ⩾30 on the Inventory of Complicated Grief (ICG) and the other comprised bereaved adults enrolled in clinical research studies who scored <20 on the ICG. Rates of diagnosis were determined for proposed PCBD, PGD and CG criteria.

Results

PCBD criteria diagnosed 70 [95% confidence interval (CI) 64.2–75.8] % of the grief treatment-seeking group, PGD criteria identified 59.6 (95% CI 53.4–65.8) % of these individuals and CG criteria identified 99.6 (95% CI 98.8–100.0) %. None of the three proposed criteria identified any cases in the bereaved comparison group.

Conclusions

Both proposed DSM-5 criteria for PCBD and criteria for PGD appear to be too restrictive as they failed to identify substantial numbers of treatment-seeking individuals with clinically significant levels of grief-related distress and impairment. Use of CG criteria or a similar algorithm appears to be warranted.
Wisdom and Folly in the city: exploring urban contexts in the book of Proverbs
Authors: Dell Katharine J.
Published: November 2016

Proverbs 1–9 is often said to have a city background that contrasts with the agricultural imagery dominant in the maxims sections. However, this is an oversimplification. There are also maxims in the main Proverbs collection that concern the city, and the city background revealed within Proverbs 1–9 links up with the portrayal of the ‘capable wife’ in Proverbs 31:10–33. Having established the presence of city references throughout Proverbs, this article explores how the portrayal of Woman Wisdom and Woman Folly in particular gives fascinating insight into the heart of happenings in the Israelite city.
The ministry of women among early Calvinistic Baptists
Authors: Birch Ian
Published: November 2016

Although there is considerable documentation of women preachers during the English Civil War period and the Interregnum, it is clear that such activities were not encouraged among English Calvinistic Baptists, and most especially among Particular Baptists. Yet there was a tension in even the most restrictive Baptist teaching on this subject. For since Baptists had opened the door to congregational participation in the public ministry of the church, they were faced with the problem of partially closing that door in order to restrict the ministry of women to that ofdiakonia, and good works. Nevertheless, a small number of women have been identified as both prophets and Particular Baptists, and the nature and context of their ministry illustrates the role of women in early Baptist communities.
Gender and Refugee Integration: a Quantitative Analysis of Integration and Social Policy Outcomes
Authors: CHEUNG SIN YI , PHILLIMORE JENNY
Published: November 2016

The population of refugees in the UK is expanding and will expand further given the UK Government's response to the European refugee crisis. This paper breaks new ground by undertaking a gender analysis of integration outcomes across a range of areas, namely social networks, language proficiency, health, education, employment and housing, that are highly relevant for social policy. Using the UK's only longitudinal survey on refugees, we conduct secondary data analysis to examine the factors associated with integration outcomes. We find significant gender differences in language, self-reported health, ability to budget for household expenses and access to formal social networks and quality housing, with women generally faring worse than men and some inequalities enduring or intensifying over time. We call for the recording of refugee outcomes in institutional monitoring data to enable inequalities to be identified and addressed. The findings also enable the identification of social policy areas in which a gender sensitive approach might be necessary.
Solved paradoxes and old hats? The research needed on differentiated selves
Authors: Dar-Nimrod Ilan , Gonsalkorale Karen
Published: November 2016

The idea that differentiated selves almost always improve group outcomes is overly simplistic. We argue that it is essential to distinguish between two distinct elements of differentiated selves – identifiability and specialization – and to identify conditions under which they influence group outcomes. Adopting a group-by-situation perspective, in which group and situation variables are considered jointly, is recommended to generate novel hypotheses.
Differentiation of selves: Differentiating a fuzzy concept
Authors: Mojzisch Andreas , Schultze Thomas , Hüffmeier Joachim , Schulz-Hardt Stefan
Published: November 2016

Notwithstanding the appeal of the “one size fits all” approach that Baumeister et al. propose, we argue that there is no panacea for improving group performance. The concept of “differentiation of selves” constitutes an umbrella term for similar seeming but actually different constructs. Even the same type of “differentiation of selves” can be beneficial for some and harmful for other tasks.
Disputing deindividuation: Why negative group behaviours derive from group norms, not group immersion
Authors: Reicher Stephen David , Spears Russell , Postmes Tom , Kende Anna
Published: November 2016

Strong social identity does not lead to lack of accountability and “bad” behavior in groups and crowds but rather causes group behavior to be driven by group norms. The solution to problematic group behavior is therefore not to individualize the group but rather to change group norms, as underlined by the relational dynamics widely studied in the SIDE tradition.
Differentiated selves can surely be good for the group, but let's get clear about why
Authors: Talaifar Sanaz , Swann William B.
Published: November 2016

We applaud the goal of reconciling the self and group literatures and agree that a differentiated self may sometimes improve group outcomes. Nevertheless, greater precision regarding the underlying mechanisms is needed. Specifically, differentiated selves improve outcomes by overriding selfishness when they allow for personal regulation (being personally recognized and valued) rather than social regulation (specialization of labor).
Roles and ranks: The importance of hierarchy for group functioning
Authors: Zlatev Julian J. , Halevy Nir , Tiedens Larissa Z.
Published: November 2016

Baumeister et al. propose that role differentiation is critical for group functioning. We propose that effective groups require rank differentiation in addition to role differentiation. We suggest that rank differentiation supports division of labor by incentivizing group members, satisfying fundamental human needs, and organizing and integrating the contributions of differentiated group members.
The development and testing of the dementia friendly communities environment assessment tool (DFC EAT)
Authors: Fleming Richard , Bennett Kirsty , Preece Terri , Phillipson Lyn
Published: November 2016

Background:

There is a growing recognition of the need to make the built environment in towns and cities more enabling for people with dementia. This study reports the development of a reliable tool to assess the support provided to people with dementia by public and commercial buildings such as council offices, supermarkets, banks, and medical centers as they approach, use, and leave them.

Methods:

A three-step process was carried out to develop and establish the reliability of the tool: (1) a review of principles and available tools informed the development and modification of an environmental audit tool of proven utility, (2) the draft tool was subjected to an iterative process of evaluation by a team of people with expertise in design and town planning, people with dementia and their carers, (3) inter-rater reliability and internal consistency were assessed on a sample of 60 public and commercial buildings.

Results:

The review of available tools led to the drafting of a tool that was refined through iterative, experience-based evaluation resulting in a tool that has high inter-rater reliability and internal validity. The data gathered enabled a sample of banks, libraries, shops, medical facilities, supermarkets and council offices to be compared.

Conclusions:

The new tool aids the collection of reliable information on the strengths and weaknesses of public and commercial buildings. This information is likely to be of use in the refurbishment of these buildings to improve their support of people with dementia as they use them in their daily life.
FACTORIZATION OF OPERATORS THROUGH SUBSPACES OF -SPACES
Authors: CALABUIG J. M. , RODRÍGUEZ J. , SÁNCHEZ-PÉREZ E. A.
Published: November 2016

We analyze domination properties and factorization of operators in Banach spaces through subspaces of$L^{1}$-spaces. Using vector measure integration and extending classical arguments based on scalar integral bounds, we provide characterizations of operators factoring through subspaces of$L^{1}$-spaces of finite measures. Some special cases involving positivity and compactness of the operators are considered.
Overlapping Political Conflicts and Legislative Gridlock: Reforming Financial Supervisory Governance in South Korea
Authors: HEO INHYE
Published: November 2016

Literature discussing the factors in government and parliament that cause of gridlock is limited in examining cases that occur in contexts where the democratic principle of ‘inclusion’ expands. This paper analyzes the legislative gridlock revealed in the process of the South Korean government's efforts to pass the Bill of Financial Consumer Protection, beginning in July 2012, from the perspective of overlapping political conflicts among multi-scalar actors. Research shows that the government's desire to reform financial supervisory governance created two cleavages among the multi-scalar actors because of their long-held political interest in the Bill. The conflict intensified as the cleavages overlapped and were presented as one big issue in the history of Korea's financial supervision, which directly facilitated the gridlock. This paper identifies academic implications to advance the study of gridlock and its policy implications, including the need to develop an inter-scalar mediator, which has negative effects on the quality of democracy.
Written Type and Token Frequency Measures of Fifty Spanish Derivational Morphemes
Authors: Lázaro Miguel , Acha Joana , Illera Víctor , Sainz Javier S.
Published: November 2016

Several databases of written language exist in Spanish that manage important information on the lexical and sublexical characteristics of words. However, there is no database with information on the productivity and frequency of use of derivational suffixes: sublexical units with an essential role in the formation of orthographic representations and lexical access. This work examines these two measures, known as type and token frequencies, for a series of 50 derivational suffixes and their corresponding orthographic endings. Derivational suffixes are differentiated from orthographic endings by eliminating pseudoaffixed words from the list of orthographic endings (cerveza[beer] is a simple word despite its ending in -eza). We provide separate data for child and adult populations, using two databases commonly accessed by psycholinguists conducting research in Spanish. We describe the filtering process used to obtain descriptive data that will provide information for future research on token and type frequencies of morphemes. This database is an important development for researchers focusing on the role of morphology in lexical acquisition and access.
Aldo-keto reductases are biomarkers of NRF2 activity and are co-ordinately overexpressed in non-small cell lung cancer
Authors: MacLeod A Kenneth , Acosta-Jimenez Lourdes , Coates Philip J , McMahon Michael , Carey Frank A , Honda Tadashi , Henderson Colin J , Wolf C Roland
Published: November 2016

Background:

Although the nuclear factor-erythroid 2-related factor 2 (NRF2) pathway is one of the most frequently dysregulated in cancer, it is not clear whether mutational status is a good predictor of NRF2 activity. Here we utilise four members of the aldo-keto reductase (AKR) superfamily as biomarkers to address this question.

Methods:

Twenty-three cell lines of diverse origin and NRF2-pathway mutational status were used to determine the relationship between AKR expression and NRF2 activity. AKR expression was evaluated in lung cancer biopsies and Cancer Genome Atlas (TCGA) and Oncomine data sets.

Results:

AKRs were expressed at a high basal level in cell lines carrying mutations in the NRF2 pathway. In non-mutant cell lines, co-ordinate induction of AKRs was consistently observed following activation of NRF2. Immunohistochemical analysis of lung tumour biopsies and interrogation of TCGA data revealed that AKRs are enriched in both squamous cell carcinomas (SCCs) and adenocarcinomas that contain somatic alterations in the NRF2 pathway but, in the case of SCC, AKRs were also enriched in most other tumours.

Conclusions:

An AKR biomarker panel can be used to determine NRF2 status in tumours. Hyperactivation of the NRF2 pathway is far more prevalent in lung SCC than previously predicted by genomic analyses.
The HECT domain ubiquitin ligase HUWE1 targets unassembled soluble proteins for degradation
Authors: Xu Yue , Anderson D Eric , Ye Yihong
Published: November 2016

In eukaryotes, many proteins function in multi-subunit complexes that require proper assembly. To maintain complex stoichiometry, cells use the endoplasmic reticulum-associated degradation system to degrade unassembled membrane subunits, but how unassembled soluble proteins are eliminated is undefined. Here we show that degradation of unassembled soluble proteins (referred to as unassembled soluble protein degradation, USPD) requires the ubiquitin selective chaperone p97, its co-factor nuclear protein localization protein 4 (Npl4), and the proteasome. At the ubiquitin ligase level, the previously identified protein quality control ligase UBR1 (ubiquitin protein ligase E3 component n-recognin 1) and the related enzymes only process a subset of unassembled soluble proteins. We identify the homologous to the E6-AP carboxyl terminus (homologous to the E6-AP carboxyl terminus) domain-containing protein HUWE1 as a ubiquitin ligase for substrates bearing unshielded, hydrophobic segments. We used a stable isotope labeling with amino acids-based proteomic approach to identify endogenous HUWE1 substrates. Interestingly, many HUWE1 substrates form multi-protein complexes that function in the nucleus although HUWE1 itself is cytoplasmically localized. Inhibition of nuclear entry enhances HUWE1-mediated ubiquitination and degradation, suggesting that USPD occurs primarily in the cytoplasm. Altogether, these findings establish a new branch of the cytosolic protein quality control network, which removes surplus polypeptides to control protein homeostasis and nuclear complex assembly.
Membrane vesicles in sea water: heterogeneous DNA content and implications for viral abundance estimates
Authors: Biller Steven J , McDaniel Lauren D , Breitbart Mya , Rogers Everett , Paul John H , Chisholm Sallie W
Published: November 2016

Diverse microbes release membrane-bound extracellular vesicles from their outer surfaces into the surrounding environment. Vesicles are found in numerous habitats including the oceans, where they likely have a variety of functional roles in microbial ecosystems. Extracellular vesicles are known to contain a range of biomolecules including DNA, but the frequency with which DNA is packaged in vesicles is unknown. Here, we examine the quantity and distribution of DNA associated with vesicles released from five different bacteria. The average quantity of double-stranded DNA and size distribution of DNA fragments released within vesicles varies among different taxa. Although some vesicles contain sufficient DNA to be visible following staining with the SYBR fluorescent DNA dyes typically used to enumerate viruses, this represents only a small proportion (<0.01–1%) of vesicles. Thus DNA is packaged heterogeneously within vesicle populations, and it appears that vesicles are likely to be a minor component of SYBR-visible particles in natural sea water compared with viruses. Consistent with this hypothesis, chloroform treatment of coastal and offshore seawater samples reveals that vesicles increase epifluorescence-based particle (viral) counts by less than an order of magnitude and their impact is variable in space and time.
Catch me if you can: dispersal and foraging ofBdellovibrio bacteriovorus109J along mycelia
Authors: Otto Sally , Bruni Estelle P , Harms Hauke , Wick Lukas Y
Published: November 2016

To cope with heterogeneous environments and resource distributions, filamentous fungi have evolved a spatially extensive growth enabling their hyphae to penetrate air–water interfaces and pass through air-filled pores. Such mycelia are also known to act as dispersal networks for the mobilisation of bacteria (‘fungal highways’) and connection of microbial microhabitats. Hitherto, however, nothing is known about the effect of mycelia-based dispersal on interactions between bacterial predators and their prey and concomitant effects on biomass formation. We here hypothesise that mycelia enable the contact between predators and their prey and shape a prey’s population. We investigated the impact of predation by Bdellovibrio bacteriovorus 109J on the growth of its potential prey Pseudomonas fluorescens LP6a in the presence of mycelia. Our data give evidence that hyphae increase the accessibility of the prey to B. bacteriovorus 109J and, hence, allow for efficient foraging and shaping of prey populations not seen in the absence of mycelia. To test our hypothesis tailored microbial landscapes were used for better reduction of emerging properties in complex systems. Our data suggest that mycelia have substantial influence on prey–predator relationship and hereby may promote the structure of prey and predator populations and, hence, may be a determinant for biomass formation in heterogeneous environments.
Promotion of behavior and neuronal function by reactive oxygen species in C. elegans
Authors: Li Guang , Gong Jianke , Lei Haoyun , Liu Jianfeng , Xu X. Z. Shawn
Published: November 2016

Reactive oxygen species (ROS) are well known to elicit a plethora of detrimental effects on cellular functions by causing damages to proteins, lipids and nucleic acids. Neurons are particularly vulnerable to ROS, and nearly all forms of neurodegenerative diseases are associated with oxidative stress. Here, we report the surprising finding that exposing C. elegans to low doses of H2O2 promotes, rather than compromises, sensory behavior and the function of sensory neurons such as ASH. This beneficial effect of H2O2 is mediated by an evolutionarily conserved peroxiredoxin-p38/MAPK signaling cascade. We further show that p38/MAPK signals to AKT and the TRPV channel OSM-9, a sensory channel in ASH neurons. AKT phosphorylates OSM-9, and such phosphorylation is required for H2O2-induced potentiation of sensory behavior and ASH neuron function. Our results uncover a beneficial effect of ROS on neurons, revealing unexpected complexity of the action of oxidative stressors in the nervous system.
Erratum: Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma
Authors: Zhao Ling-Hao , Liu Xiao , Yan He-Xin , Li Wei-Yang , Zeng Xi , Yang Yuan , Zhao Jie , Liu Shi-Ping , Zhuang Xue-Han , Lin Chuan , Qin Chen-Jie , Zhao Yi , Pan Ze-Ya , Huang Gang , Liu Hui , Zhang Jin , Wang Ruo-Yu , Yang Yun , Wen Wen , Lv Gui-Shuai , Zhang Hui-Lu , Wu Han , Huang Shuai , Wang Ming-Da , Tang Liang , Cao Hong-Zhi , Wang Ling , Lee Tin-Lap , Jiang Hui , Tan Ye-Xiong , Yuan Sheng-Xian , Hou Guo-Jun , Tao Qi-Fei , Xu Qin-Guo , Zhang Xiu-Qing , Wu Meng-Chao , Xu Xun , Wang Jun , Yang Huan-Ming , Zhou Wei-Ping , Wang Hong-Yang
Published: November 2016

Nature Communications 7: Article number: 12992 (2016); Published: 5 October 2016; Updated: 8 November 2016 The original version of this Article contained an error in the spelling of the author Tin-Lap Lee, which was incorrectly given as T.P. Lee. This has now been corrected in both the PDF and HTML versions of the Article.
Biological function of a polysaccharide degrading enzyme in the periplasm
Authors: Wang Yajie , Moradali M. Fata , Goudarztalejerdi Ali , Sims Ian M. , Rehm Bernd H. A.
Published: November 2016

Carbohydrate polymers are industrially and medically important. For instance, a polysaccharide, alginate (from seaweed), is widely used in food, textile and pharmaceutical industries. Certain bacteria also produce alginate through membrane spanning multi-protein complexes. Using Pseudomonas aeruginosa as a model organism, we investigated the biological function of an alginate degrading enzyme, AlgL, in alginate production and biofilm formation. We showed that AlgL negatively impacts alginate production through its enzymatic activity. We also demonstrated that deletion of AlgL does not interfere with polymer length control, epimerization degree or stability of the biosynthesis complex, arguing that AlgL is a free periplasmic protein dispensable for alginate production. This was further supported by our protein-stability and interaction experiments. Interestingly, over-production of AlgL interfered with polymer length control, suggesting that AlgL could be loosely associated with the biosynthesis complex. In addition, chromosomal expression of algL enhanced alginate O-acetylation; both attachment and dispersal stages of the bacterial biofilm lifecycle were sensitive to the level of O-acetylation. Since this modification also protects the pathogen against host defences and enhances other virulence factors, chromosomal expression of algL could be important for the pathogenicity of this organism. Overall, this work improves our understanding of bacterial alginate production and provides new knowledge for alginate production and disease control.
Nesfatin-1 promotes brown adipocyte phenotype
Authors: Wang Yuexin , Li Ziru , Zhang Xinyu , Xiang Xinxin , Li Yin , Mulholland Michael W. , Zhang Weizhen
Published: November 2016

Nesfatin-1, an 82 amino acid gastric peptide, is involved in regulation of food uptake and in multiple metabolic activities. Whether nesfatin-1 modulates the differentiation and lipid metabolism of brown adipocytes remains unknown. In the present study, we found that nesfatin-1 mRNA and protein were detectable in isolated brown adipocytes and gradually decreased during differentiation (95% CI 0.6057 to 1.034, p = 0.0001). The decrease in nesfatin-1 was associated with a significant reduction in p-S6. Exposure to nesfatin-1 promoted differentiation of brown adipocytes as revealed by a significant increase in UCP1 mRNA (p = 0.03) and lipolysis-related ATGL mRNA (p = 0.04). Nesfatin-1 attenuated phosphorylation of S6K and S6 during brown adipocyte differentiation. Activation of mTOR by leucine or deletion of TSC1 decreased expression of brown adipocyte-related genes UCP1, UCP3, PGC1α and PRDM16, as well as COX8B and ATP5B. Both leucine and TSC1 deletion blocked nesfatin-1-induced up-regulation of UCP1, PGC1α, COX8B and ATP5B in differentiated brown adipocytes. In conclusion, nesfatin-1 promotes the differentiation of brown adipocytes likely through the mTOR dependent mechanism.
Transcriptome analysis uncovers key regulatory and metabolic aspects of soybean embryonic axes during germination
Authors: Bellieny-Rabelo Daniel , de Oliveira Eduardo Alves Gamosa , Ribeiro Elane da Silva , Costa Evenilton Pessoa , Oliveira Antônia Elenir Amâncio , Venancio Thiago Motta
Published: November 2016

Soybean (Glycine max) is a major legume crop worldwide, providing a critical source of protein and oil. The release of the soybean genome fuelled several transcriptome projects comprising multiple developmental stages and environmental conditions. Nevertheless, the global transcriptional patterns of embryonic axes during germination remain unknown. Here we report the analysis of ~1.58 billion RNA-Seq reads from soybean embryonic axes at five germination stages. Our results support the early activation of processes that are critical for germination, such as glycolysis, Krebs cycle and cell wall remodelling. Strikingly, only 3 hours after imbibition there is a preferential up-regulation of protein kinases and transcription factors, particularly from the LOB domain family, implying that transcriptional and post-transcriptional regulation play major roles early after imbibition. Lipid mobilization and glyoxylate pathways are also transcriptionally active in the embryonic axes, indicating that the local catabolism of oil reserves in the embryonic axes contributes to energy production during germination. We also present evidence supporting abscisic acid inactivation and the up-regulation of gibberellin, ethylene and brassinosteroid pathways. Further, there is a remarkable differential activation of paralogous genes in these hormone signalling pathways. Taken together, our results provide insights on the regulation and biochemistry of soybean germination.
Observations on the long-lived Mossbauer effects of 93mNb
Authors: Cheng Yao , Yang Shi-Hui , Lan Michael , Lee Chih-Hao
Published: November 2016

Several observations of the Nb long-lived Mossbauer phenomena are presented, in consequence of an irradiation increased by an order of magnitude compared with previous work. These are 1) two β decays of182Ta and92mNb are enhanced, i.e.,182Ta is now 200 times faster than in previous results while92mNb is twice as fast as normal; 2) γs emitted from two β decays compete to eject electrons in a winner-takes-all rule, rather than by superposition; 3) abrupt spectral changes reveal three decay phases of182Ta; 4) the biphoton γγ of93mNb is released from the sample for the first time; 5) the γγ distribution is narrow, in contrast to the broad γγ spectrum obtained from independent nuclei; 6) Nb K-lines super-radiate along the long sample axis; 7) collective scattering of multipolar MeV γs. The manipulation of nuclear decay speeds demonstrated here highlights a potential application of this work in cleaning up the nuclear wastes.
Evidence of Magnetic Inversion in Single Ni Nanoparticles
Authors: Jiang W. , Gartland P. , Davidović D.
Published: November 2016

Superparamagnetism is an unwanted property of small magnetic particles where the magnetization of the particle flips randomly in time, due to thermal noise. There has been an increased attention in the properties of superparamagnetic particles recently, because of their potential applications in high density storage and medicine. In electron transport through single nanometer scale magnetic particles, the current can also cause the magnetization to flip randomly in time, even at low temperature. Here we show experimental evidence that when the current is then reduced towards zero in the applied magnetic field, the magnetization can reliably freeze about a higher anisotropy-energy minimum, where it tends to be inverted with respect to the magnetic field direction. Specifically, we use spin-unpolarized tunneling spectroscopy of discrete levels in single Ni particles 2–4 nm in diameter at mK-temperature, and find that the the magnetic excitation energy at the onset of current decreases when the magnetic field increases, reaching near degeneracy at nonzero magnetic field. We discuss the potential for spintronic applications such as current induced magnetization switching without any spin-polarized leads.
Electromagnetically induced transparency of a plasmonic metamaterial light absorber based on multilayered metallic nanoparticle sheets
Authors: Okamoto Koichi , Tanaka Daisuke , Degawa Ryo , Li Xinheng , Wang Pangpang , Ryuzaki Sou , Tamada Kaoru
Published: November 2016

In this study, we observed the peak splitting of absorption spectra for two-dimensional sheets of silver nanoparticles due to the electromagnetically induced transparency (EIT) effect. This unique optical phenomenon was observed for the multilayered nanosheets up to 20 layers on a metal substrate, while this phenomenon was not observed on a transparent substrate. The wavelength and intensities of the split peaks depend on the number of layers, and the experimental results were well reproduced by the calculation of the Transfer-Matrix method by employing the effective medium approximation. The Ag nanosheets used in this study can act as a plasmonic metamaterial light absorber, which has a such large oscillator strength. This phenomenon is a fundamental optical property of a thin film on a metal substrate but has never been observed because native materials do not have a large oscillator strength. This new type of EIT effect using a plasmonic metamaterial light absorber presents the potential for the development of future optic and photonic technologies.
Real time monitoring of membrane GPCR reconstitution by plasmon waveguide resonance: on the role of lipids
Authors: Calmet Pierre , De Maria Monica , Harté Etienne , Lamb Daniel , Serrano-Vega Maria , Jazayeri Ali , Tschammer Nuska , Alves Isabel D.
Published: November 2016

G-protein coupled receptors (GPCRs) are important therapeutic targets since more than 40% of the drugs on the market exert their action through these proteins. To decipher the molecular mechanisms of activation and signaling, GPCRs often need to be isolated and reconstituted from a detergent-solubilized state into a well-defined and controllable lipid model system. Several methods exist to reconstitute membrane proteins in lipid systems but usually the reconstitution success is tested at the end of the experiment and often by an additional and indirect method. Irrespective of the method used, the reconstitution process is often an intractable and time-consuming trial-and-error procedure. Herein, we present a method that allows directly monitoring the reconstitution of GPCRs in model planar lipid membranes. Plasmon waveguide resonance (PWR) allows following GPCR lipid reconstitution process without any labeling and with high sensitivity. Additionally, the method is ideal to probe the lipid effect on receptor ligand binding as demonstrated by antagonist binding to the chemokine CCR5 receptor.
Sequence basis of Barnacle Cement Nanostructure is Defined by Proteins with Silk Homology
Authors: So Christopher R. , Fears Kenan P. , Leary Dagmar H. , Scancella Jenifer M. , Wang Zheng , Liu Jinny L. , Orihuela Beatriz , Rittschof Dan , Spillmann Christopher M. , Wahl Kathryn J.
Published: November 2016

Barnacles adhere by producing a mixture of cement proteins (CPs) that organize into a permanently bonded layer displayed as nanoscale fibers. These cement proteins share no homology with any other marine adhesives, and a common sequence-basis that defines how nanostructures function as adhesives remains undiscovered. Here we demonstrate that a significant unidentified portion of acorn barnacle cement is comprised of low complexity proteins; they are organized into repetitive sequence blocks and found to maintain homology to silk motifs. Proteomic analysis of aggregate bands from PAGE gels reveal an abundance of Gly/Ala/Ser/Thr repeats exemplified by a prominent, previously unidentified, 43 kDa protein in the solubilized adhesive. Low complexity regions found throughout the cement proteome, as well as multiple lysyl oxidases and peroxidases, establish homology with silk-associated materials such as fibroin, silk gum sericin, and pyriform spidroins from spider silk. Distinct primary structures defined by homologous domains shed light on how barnacles use low complexity in nanofibers to enable adhesion, and serves as a starting point for unraveling the molecular architecture of a robust and unique class of adhesive nanostructures.
Prognostic value of hematological parameters in patients with paraquat poisoning
Authors: Zhou Deng-Chuan , Zhang Hong , Luo Zhi-Ming , Zhu Qi-Xing , Zhou Cheng-Fan
Published: November 2016

Paraquat (PQ) is a non-selective contact herbicide, and acute PQ poisoning has a high mortality. The aim of the present study is to evaluate the prognostic value of hematological parameters in patients with acute PQ poisoning. We retrospectively reviewed the records of patients with acute PQ poisoning from January 2010 to December 2015 at the First Affiliated Hospital, Anhui Medical University (Hefei, China). A total of 202 patients were included in the study, and the 30-day mortality was 51.98%. Leukocyte, neutrophil counts and neutrophil-lymphocyte ratio (NLR) were significantly higher in non-survivors than in survivors. In the receiver operating characteristic (ROC) curve analysis, the NLR had an area of 0.916(95%CI, 0.877–0.954) and the optimal cut-off value was 10.57 (sensitivity, 86.70%; specificity, 83.51%; Youden’s index, 0.702). The leukocyte counts had an area of 0.849(95%CI, 0.796–0.902) and the optimal cut-off value was 13.15 × 103/mm3 (sensitivity, 77.10%; specificity, 83.50%; Youden’s index, 0.606). The neutrophil counts had an area of 0.878(95%CI, 0.830–0.925) and the optimal cut-off value was 10.10 × 103/mm3 (sensitivity, 83.80%; specificity, 79.38%; Youden’s index, 0.632). NLR, leukocyte and neutrophil counts are associated with the 30-day mortality, which may be useful and simple parameters in predicting the prognosis of PQ poisoning.
Bulk heterojunction morphology of polymer:fullerene blends revealed by ultrafast spectroscopy
Authors: Serbenta Almis , Kozlov Oleg V. , Portale Giuseppe , van Loosdrecht Paul H. M. , Pshenichnikov Maxim S.
Published: November 2016

Morphology of organic photovoltaic bulk heterojunctions (BHJs) – a nanoscale texture of the donor and acceptor phases – is one of the key factors influencing efficiency of organic solar cells. Detailed knowledge of the morphology is hampered by the fact that it is notoriously difficult to investigate by microscopic methods. Here we all-optically track the exciton harvesting dynamics in the fullerene acceptor phase from which subdivision of the fullerene domain sizes into the mixed phase (2–15 nm) and large (>50 nm) domains is readily obtained via the Monte-Carlo simulations. These results were independently confirmed by a combination of X-ray scattering, electron and atomic-force microscopies, and time-resolved photoluminescence spectroscopy. In the large domains, the excitons are lost due to the high energy disorder while in the ordered materials the excitons are harvested with high efficiency even from the domains as large as 100 nm due to the absence of low-energy traps. Therefore, optimizing of blend nanomorphology together with increasing the material order are deemed as winning strategies in the exciton harvesting optimization.
Visual perception of shape altered by inferred causal history
Authors: Spröte Patrick , Schmidt Filipp , Fleming Roland W.
Published: November 2016

One of the main functions of vision is to represent object shape. Most theories of shape perception focus exclusively on geometrical computations (e.g., curvatures, symmetries, axis structure). Here, however, we find that shape representations are also profoundly influenced by an object’s causal origins: the processes in its past that formed it. Observers placed dots on objects to report their perceived symmetry axes. When objects appeared ‘complete’—created entirely by a single generative process—responses closely approximated the object’s geometrical axes. However, when objects appeared ‘bitten’—as if parts had been removed by a distinct causal process—the responses deviated significantly from the geometrical axes, as if the bitten regions were suppressed from the computation of symmetry. This suppression of bitten regions was also found when observers were not asked about symmetry axes but about the perceived front and back of objects. The findings suggest that visual shape representations are more sophisticated than previously appreciated. Objects are not only parsed according to what features they have, but also to how or why they have those features.