bluuebunny/crossref_metadata_2025_split huggingface dataset:
Alpha-synuclein-induced mitochondrial dysfunction is mediated via a sirtuin 3-dependent pathway
Authors: Park Jae-Hyeon , Delenclos Marion , Faroqi Ayman H. , DeMeo Natasha N. , McLean Pamela J. 
Published: June 2018

AbstractThe sirtuins are highly conserved nicotinamide adenine dinucleotide (NAD+)-dependent enzymes that play a broad role in cellular metabolism and aging. Mitochondrial sirtuin 3 (SIRT3) is downregulated in aging and age-associated diseases such as cancer and neuro-degeneration and plays a major role in maintaining mitochondrial function and preventing oxidative stress. Mitochondria dysfunction is central to the pathogenesis of Parkinson disease with mutations in mitochondrial-associated proteins such as PINK1 and parkin causing familial Parkinson disease. Here, we demonstrate that the presence of alpha-synuclein (αsyn) oligomers in mitochondria induce a corresponding decrease in mitochondrial SIRT3 activity and decreased mitochondrial biogenesis. We show that SIRT3 downregulation in the presence of αsyn accumulation is accompanied by increased phosphorylation of AMP-activated protein kinase (AMPK) and cAMP-response element binding protein (CREB), as well as increased phosphorylation of dynamin-related protein 1 (DRP1) and decreased levels of optic atrophy 1 (OPA1), which is indicative of impaired mitochondrial dynamics. Treatment with the AMPK agonist 5-aminoimidazole-4-carboxamide-1-β-d-ribofuranoside (AICAR) restores SIRT3 expression and activity and improves mitochondrial function by decreasing αsyn oligomer formation. The accumulation of αsyn oligomers in mitochondria corresponds with SIRT3 down-regulation not only in an experimental cellular model, but also in vivo in a rodent model of Parkinson disease, and importantly, in human post mortem brains with neuropathologically confirmed Lewy body disease (LBD). Taken together our findings suggest that pharmacologically increasing SIRT3 levels will counteract αsyn-induced mitochondrial dysfunction by normalizing mitochondrial bioenergetics. These data support a protective role for SIRT3 in Parkinson disease-associated pathways and reveals significant mechanistic insight into the interplay of SIRT3 and αsyn.
The Genetic Basis for the Cooperative Bioactivation of Plant Lignans by a Human Gut Bacterial Consortium
Authors: Bess Elizabeth N. , Bisanz Jordan E. , Spanogiannopoulos Peter , Ang Qi Yan , Bustion Annamarie , Kitamura Seiya , Alba Diana L. , Wolan Dennis W. , Koliwad Suneil K. , Turnbaugh Peter J. 
Published: June 2018

AbstractPlant-derived lignans, consumed daily by most individuals, are inversely associated with breast cancer; however, their bioactivity is only exerted following gut bacterial conversion to enterolignans. Here, we dissect a four-species bacterial consortium sufficient for all four chemical reactions in this pathway. Comparative genomics and heterologous expression experiments identified the first enzyme in the pathway. Transcriptional profiling (RNAseq) independently identified the same gene and linked a single genomic locus to each of the remaining biotransformations. Remarkably, we detected the complete bacterial lignan metabolism pathway in the majority of human gut microbiomes. Together, these results are an important step towards a molecular genetic understanding of the gut bacterial bioactivation of lignans and other plant secondary metabolites to downstream metabolites relevant to human disease.One Sentence SummaryBesset al.provide a first step towards elucidating the molecular genetic basis for the cooperative gut bacterial bioactivation of plant lignans, consumed daily by most individuals, to phytoestrogenic enterolignans.
An analog to digital converter creates nuclear localization pulses in yeast calcium signaling
Authors: Hsu Ian S , Strome Bob , Plotnikov Sergey , Moses Alan M 
Published: June 2018

AbstractSeveral examples of transcription factors that show stochastic, unsynchronized pulses of nuclear localization have been described. Here we show that under constant calcium stress, nuclear localization pulses of the transcription factor Crz1 follow stochastic variations in cytoplasmic calcium concentration. We find that the size of the stochastic calcium pulses is positively correlated with the number of subsequent Crz1 pulses. Based on our observations, we propose a simple stochastic model of how the signaling pathway converts a constant external calcium concentration into a digital number of Crz1 pulses in the nucleus, due to the time delay from nuclear transport and the stochastic decoherence of individual Crz1 molecule dynamics. We find support for several additional predictions of the model and conclude that stochastic input to nuclear transport may produce digital responses to analog signals in other signaling systems.
Nuclear actin is required for transcription during Drosophila oogenesis
Authors: Sokolova Maria , Moore Henna M. , Prajapati Bina , Dopie Joseph , Meriläinen Leena , Honkanen Mikko , Matos Rita Cerejeira , Poukkula Minna , Hietakangas Ville , Vartiainen Maria K. 
Published: June 2018

AbstractActin influences gene expression at multiple levels. It regulates the activity of specific transcription factors, such as myocardin-related transcription factor (MRTF), is a component of many chromatin remodelers and linked to transcription by all three RNA polymerases (Pol). However, the molecular mechanisms by which actin participates in the gene-specific vs. general transcription have remained unclear. Here we use chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) in Drosophila ovaries to demonstrate that binding of actin to the Act5C gene is not dependent on the Mrtf transcription cofactor. At the genome-wide level, actin interacts with essentially all transcribed genes and co-occupies most gene promoters together with Pol II. On highly expressed genes, actin and Pol II can be found also on the gene bodies. Manipulation of nuclear transport factors for actin leads to decreased expression of egg shell genes, demonstrating the in vivo relevance of balanced nucleo-cytoplasmic shuttling of actin for transcription.
Peak p-values and false discovery rate inference in neuroimaging
Authors: Schwartzman Armin , Telschow Fabian 
Published: June 2018

AbstractPeaks are a mainstay of neuroimage analysis for reporting localization results. The current peak detection procedure in SPM12 requires a pre-threshold for approximating p-values and a false discovery rate (FDR) nominal level for inference. However, the pre-threshold is an undesirable feature, while the FDR level is meaningless if the signal is assumed to be nonzero everywhere. This article provides: 1) a peak height distribution for smooth Gaussian error fields that does not require a screening pre-threshold; 2) a signal-plus-noise model where FDR of peaks can be controlled and properly interpreted. Matlab code for calculation of p-values using the exact peak height distribution is available as an SPM extension.
Rarity of microbial species: In search of reliable associations
Authors: Cougoul Arnaud , Bailly Xavier , Vourc’h Gwenaëel , Gasqui Patrick 
Published: June 2018

AbstractThe role of microbial interactions on the properties of microbiota is a topic of key interest in microbial ecology. Microbiota contain hundreds to thousands of operational taxonomic units (OTUs), most of which are rare. This feature of community structure can lead to methodological difficulties: simulations have shown that methods for detecting pairwise associations between OTUs (which presumably reflect interactions) yield problematic results. The performance of association detection tools is impaired for a high proportion of zeros in OTU table. Here, we explored the statistical testability of such associations given occurrence and read abundance data. The goal was to understand the impact of OTU rarity on the testability of correlation coefficients. We found that a large proportion of pairwise associations, especially negative associations, cannot be reliably tested. This constraint could hamper the identification of candidate biological agents that could be used to control rare pathogens. Consequently, identifying testable associations could serve as an objective method for trimming datasets (in lieu of current empirical approaches). This trimming strategy could significantly reduce the computation time and improve inference of association networks. When OTU prevalence is low, association measures for occurrence and read abundance data are correlated, raising questions about the information actually being captured.
MEIOB and SPATA22 resemble RPA subunits and interact with the RPA complex to promote meiotic recombination
Authors: Ribeiro Jonathan , Dupaigne Pauline , Duquenne Clotilde , Veaute Xavier , Petrillo Cynthia , Saintomé Carole , Faklaris Orestis , Busso Didier , Guerois Raphaël , Keeney Scott , Jain Devanshi , Martini Emmanuelle , Livera Gabriel 
Published: June 2018

AbstractHomologous recombination is a conserved DNA repair process mandatory for chromosome segregation during meiosis. RPA, a ubiquitous complex essential to recombination, is thought to play a similar role during mitotic and meiotic recombination. MEIOB, a meiosis-specific factor with unknown molecular function, ressembles a RPA subunit. Here we usein vivoapproaches to show that in mouse spermatocytes, DMC1 and RAD51 appear to be normally loaded in the absence of MEIOB but are prematurely lost from unrepaired recombination sites. This loss correlates with an accumulation of the BLM helicase on meiotic chromosomes. We also show that MEIOB alters the immunodetection of RPA subunits at meiotic recombination sites. Using electron microscopy and purified proteins, we demonstrate that the MEIOB-SPATA22 complex associates with and modifies the conformation of RPA-coated ssDNA. Finally, we identify structural homology between MEIOB, SPATA22 and RPA subunits, and show that MEIOB and SPATA22 interact through C-terminal OB-fold containing domains (OBCDs) like RPA subunits. Moreover, MEIOB and SPATA22 cooperate to interact with RPA through their OBCDs. Our results suggest that MEIOB, SPATA22 and RPA work together to ensure proper processing of meiotic recombination intermediates.
Dynamic supply chain capabilities
Authors: Aslam Haris , Blome Constantin , Roscoe Samuel , Azhar Tashfeen M. 
Published: June 2018

PurposeThis paper positions market sensing, supply chain agility and supply chain adaptability as a coherent cluster of dynamic supply chain capabilities. The purpose of this paper is to understand how dynamic supply chain capabilities interrelate and their effect on supply chain ambidexterity.Design/methodology/approachBased on a survey of Pakistani manufacturing firms, a theoretically-derived model was tested in a structural equation model.FindingsThe results of the study show that a market-sensing capability is an antecedent of supply chain agility and supply chain adaptability. Furthermore, supply chain agility, directly, and supply chain adaptability, indirectly, affect supply chain ambidexterity. Supply chain agility, therefore, mediates the relationship between supply chain adaptability and supply chain ambidexterity.Originality/valueThe contribution of this study lies in: first, identifying dynamic capability clusters relevant for achieving supply chain ambidexterity; second, evaluating performance implications of dynamic capabilities in the supply chain, specifically supply chain agility and adaptability; and third, proposing a unique measurement of supply chain ambidexterity in the light supply chain theory, and empirically evaluating the relationship between dynamic capabilities and supply chain ambidexterity.
Teaching decision-making for sustainable infrastructure: a wind energy case study module
Authors: McWhirter Nathan Daniel , Shealy Tripp 
Published: June 2018

Purpose
This paper aims to introduce a case-based module teaching sustainable engineering, linking the Envision rating system with behavioral decision science. Three complete modules are publicly available in a repository for any instructor to adapt, use and review.

Design/methodology/approach
A case study was written about the Tucannon River Wind Farm, a project-certified Gold by the Institute for Sustainable Infrastructure’s Envision™ rating system. The case was used as the basis for an in-class PowerPoint module to achieve student learning outcomes related to sustainability.

Findings
Before and after surveys showed significant (p < 0.05) learning increases. Word clouds show changes in student perceptions of sustainable design. Rubric scoring of writing assignments and concept maps yielded valuable insights and improvements and demonstrated the overall validity of the module approach.

Research limitations/implications
Modules lasting only one or two class days must be well-integrated into courses and curricula to promote greater learning value. Concept mapping may be a useful addition but involves a learning curve for both instructors and students.

Practical implications
By offering instructors access to a set of case-based modules, it becomes more practical for them to teach about sustainable infrastructure and decision-making.

Social implications
The module exemplifies a project owner and an engineering firm strongly committed to social and environmental sustainability. Envision’s Quality of Life and Leadership categories emphasize community well-being, involvement and collaboration.

Originality/value
This module offers a unique transdisciplinary focus meeting several needs in engineering education on sustainability, complex problems and decision-making.
Entry market choices and post-entry growth patterns among born globals in consumer goods sectors
Authors: Jin Byoungho , Chung Jae-Eun , Yang Heesoon , Jeong So Won 
Published: June 2018

PurposeContrary to the mainstream born global (BG) perspective, some previous studies report the incremental expansion of BGs. In addition, the reasons behind BGs initiating specific steps, if any, and BGs’ entry market choices are still unknown or rather contrasting. This study views that such contrasting findings may be attributed to the contexts in which BGs operate. Within the context of consumer goods BGs, the purpose of this paper is to examine the entry market choices and post-entry growth patterns, and investigate the underlying reasons.Design/methodology/approachThis study adopted in-depth historiographic case research from seven Korean BGs in the consumer goods sector that demonstrated success in internationalization. Multiple sources were used to gather data from each case. A total of 14 interviews, approximately two one-on-one interviews per firm, were the major means of data collection.FindingsThe findings revealed that first entry market choices among BGs functioned largely as attempts at emergent opportunities. However, after the first wave of entry into countries with available selling opportunities, entry market choice became a simultaneous pursuit of strategic markets and emergent selling opportunities. BGs focusing on image-oriented consumer goods appeared more strategic when entering the world’s leading markets to gain brand reputation. The analyses of internationalization processes revealed three patterns, which collectively implied that each move to the next stage came from a strategic decision to solve the problems related to survival and strategic visions for growth.Originality/valueOne contribution of this paper is the provision of empirical evidence for entry market choices among consumer goods BGs. The findings suggest that BGs’ entry market choices may not be a simple matter of simultaneous expansion to the world’s lead market. Instead, they may comprise more strategic decision. While previous studies have suggested such evolutionary or path-dependent internationalization processes, this study is among the first to reveal specific growth patterns and the possible reasons behind them.
Households’ financial vulnerability in Southern Europe
Authors: Terraneo Marco 
Published: June 2018

PurposeThe purpose of this paper is to analyze whether and to what extent households living in southern Europe, i.e. Greece, Portugal, Spain and Italy, experience similar conditions of financial vulnerability, considering that in comparative research these countries are often grouped together because of the substantial instability of their economies and the similarity of social and welfare model.Design/methodology/approachThe authors use data from Household Finance and Consumption Survey, a quite novel data set that covers the whole balance sheet of a sample of households. The authors compute four indicators of debt burden and in order to study households’ risk of default the authors apply two-part model, which is a valuable alternative to the application of conventional regression models with zero-inflated data.FindingsAnalysis reveals that the burden of debts and the risk of default are very different among the four countries, in particular Spain and Portugal have the highest proportion of financially vulnerable households.Originality/valueThe study is one a few that have directly compared objectives indicators of households’ financial vulnerability in all Southern European countries. Moreover, the authors employ a two-part model, a valuable alternative to the application of conventional logit or linear regression models. In the first part of the model the authors estimate the probability that households suffer financial vulnerability; in the second part, the authors estimate households’ level of vulnerability only for vulnerable families.
Retirement preparation of men and women in their positive savings periods
Authors: Lee Yun Doo , Hassan M. Kabir , Lawrence Shari 
Published: June 2018

PurposeThis study analyzes financial preparation for retirement of American men and women, using the 2013 Survey of Consumer Finances (SCF). The purpose of this paper is to research the adequacy of retirement preparation for men and women in their positive savings periods.Design/methodology/approachThis research uses probit analysis and multiple regression models to observe the statistical significance of several independent variables on retirement savings. The specific variables of analysis are socio-demographic, work related, financial assets, and attitudes about saving and investing for a sub-sample of individuals aged 35–45, 46–59, and 60–67.FindingsFor retirement preparation, income is a significant factor for both men and women aged 35–45. Excellent health is significant for both men and women aged 46–59, whereas the number of weeks worked per year was significant for men and women aged 60–67. In addition, health has significant positive effects on the amount of financial wealth invested in stocks while age has significant negative effects.Research limitations/implicationsThis research uses data from the 2013 SCF to analyze factors affecting retirement preparation for men and women in their positive savings periods. The findings from this study can aid policy makers in designing retirement saving programs that can effectively incentivize individuals for adequately prepare for retirement.Originality/valuePrevious studies have focused on the effect of factors such as age, health, marital status, work history, education, income, family/household composition, and occupation on retirement savings over an individual’s lifetime. This study focuses specifically on retirement preparation or adequacy for men and women who are in their positive savings periods.
Electronic records management research in ESARBICA: a bibliometric study
Authors: Chigariro Dickson , Khumalo Njabulo Bruce 
Published: June 2018

Purpose
This study aims to find out how the e-records management subject has been researched and tackled by researchers in the Eastern and Southern African Regional Branch of the International Council on Archives (ESARBICA).

Design/methodology/approach
This research paper applied a bibliometric survey, where a quantitative survey of the literature pertaining to the study of e-records management in the ESARBICA region, covering the period from 2000 to 2016, was conducted applying bibliometric methods. The survey aimed at providing descriptive data that cast a spotlight on the features and development of the e-records management base literature in the ESARBICA region.

Findings
The research data display a lamentable outlook in the contribution to the electronic records management body of knowledge from the ESARBICA region. Few research articles from professionals in the records and archives management are being published. These figures call for increased investments in electronic records management research by institutions in ESARBICA, as management of electronic content has become the centre of political and socio-economic development. Follow-up studies need to be done to counter limitations placed on this research paper. The findings show that there is under production of research publications in the ESARBICA region. The region only contributed 2 per cent of the total world output in the period under review and in the study of electronic records management from journals indexed by Scopus.

Research limitations/implications
A bibliometric study places researchers at the mercy of analysing incomplete information due to limitations of resources. The variance in use of terminology (key words) by authors in published research articles may entail some being left out in an analysis of articles the same subject matter. As much as due diligence was placed on using Boolean search methods to counter such limitations they are unavoidable. An interpretation of bibliometric or citation analysis research is subjective as some analysts may label results incomplete or unreliable; hence, this paper finds itself in the same predicament. Inability to access the Thompson Reuters Web of Science database left the authors with Scopus as the only option, as Google Scholar was overlooked due to difficulties of having to rely on third-party software for analysing its indexed content that are mostly inaccurate and or ambiguous.

Practical implications
The findings of this study help uncover areas in e-records management, which have been researched over the years, and identify the prominent e-records management researchers in the ESARBICA region.

Originality/value
A number of bibliometric studies have been conducted; however, none has been conducted to establish e-records management research trends in the ESRABICA region.
Successful treatment of erythematotelangiectatic rosacea with intense pulsed light: Report of 13 cases
Authors: Tsunoda Kanako , Akasaka Kiyomi , Akasaka Toshihide , Amano Hiroo 
Published: June 2018

AbstractHere, we describe the use of intense pulsed light (IPL) treatment for 13 cases of erythematotelangiectatic rosacea delivered in three sessions. For two‐step irradiation, after the whole face had been irradiated using conventional IPL equipment covering a wide area, localized IPL spot irradiation was performed for visibly dilated capillaries. The therapeutic effect was evaluated by image analysis using Image J and scored by 10 dermatologists using two IPL instruments in combination. This therapeutic approach was found to be much more effective than irradiation using a single instrument. Our findings demonstrate that IPL irradiation using the present method can deliver a sufficient therapeutic effect even with a small number of treatment sessions. Although rosacea is difficult to treat, we believe that IPL can be therapeutically useful in such cases.