bluuebunny/crossref_metadata_2025_split huggingface dataset:
SuperDCA for genome-wide epistasis analysis
Authors: Puranen Santeri , Pesonen Maiju , Pensar Johan , Xu Ying Ying , Lees John A. , Bentley Stephen D. , Croucher Nicholas J. , Corander Jukka , Aurell Erik 
Published: August 2017

AbstractThe potential for genome-wide modeling of epistasis has recently surfaced given the possibility of sequencing densely sampled populations and the emerging families of statistical interaction models. Direct coupling analysis (DCA) has earlier been shown to yield valuable predictions for single protein structures, and has recently been extended to genome-wide analysis of bacteria, identifying novel interactions in the co-evolution between resistance, virulence and core genome elements. However, earlier computational DCA methods have not been scalable to enable model fitting simultaneously to 104-105polymorphisms, representing the amount of core genomic variation observed in analyses of many bacterial species. Here we introduce a novel inference method (SuperDCA) which employs a new scoring principle, efficient parallelization, optimization and filtering on phylogenetic information to achieve scalability for up to 105polymorphisms. Using two large population samples ofStreptococcus pneumoniae, we demonstrate the ability of SuperDCA to make additional significant biological findings about this major human pathogen. We also show that our method can uncover signals of selection that are not detectable by genome-wide association analysis, even though our analysis does not require phenotypic measurements. SuperDCA thus holds considerable potential in building understanding about numerous organisms at a systems biological level.Author SummaryRecent work has demonstrated the emerging potential in statistical genome-wide modeling to uncover co-selection and epistatic interactions between polymorphisms in bacterial chromosomes from densely sampled population data. Here we develop the Potts model based approach further into a fully mature computational method which can be applied to most existing bacterial population genomic data sets in a straightforward manner. Our advances are relying on more efficient parameter scoring, highly optimized and parallelized open source C++ code, which does not rely on the computation-intensive polymorphism subsampling approximations used earlier. By analyzing the two largest available population samples ofStreptococcus pneumoniae(the pneumococcus), we highlight several biological discoveries related to the survival of the pneumococcus and co-evolution of penicillin-binding loci, which were not uncovered by the earlier analyses. Our method holds considerable potential for building understanding about numerous organisms at a systems biological level.
Inhibition of granulocyte ROS production by opioids prevents regeneration
Authors: Labit Elodie , Rabiller Lise , Guissard Christophe , Andre Mireille , Rampon Christine , Barreau Corinne , Cousin Béatrice , Carriere Audrey , Raffin Margaux , Mithieux Gilles , Eddine Mohamad Ala , Pipy Bernard , Lorsignol Anne , Vriz Sophie , Dromard Cecile , Casteilla Louis 
Published: August 2017

SUMMARYInhibition of regeneration and induction of healing are classic outcomes of tissue repair in adult mammals. Here, by using gain and loss of function experiments, we demonstrate that both endogenous and exogenous opioids prevent tissue regeneration in adults, by inhibiting the early reactive oxygen species (ROS) production occurring after lesion and required for regeneration. These effects can be overcome and regeneration induced by the use of an opioid antagonist. These results, obtained in both gold-standard adult zebrafish and a newly-developed model of regeneration in adult mammals, demonstrate that this mechanism can be considered as a general paradigm in vertebrates. In addition, we show that opioids act via signaling through peripheral mu-receptors expressed on granulocytes. This work clearly demonstrates the deleterious role of opioids on tissue regeneration through the control of ROS production in vertebrates and thus questions about opioid-based analgesia in perioperative care.
Ancient symbiosis confers desiccation resistance to stored grain pest beetles
Authors: Engl Tobias , Eberl Nadia , Gorse Carla , Krüger Theresa , Schmidt Thorsten H. P. , Plarre Rudy , Adler Cornel , Kaltenpoth Martin 
Published: August 2017

AbstractMicrobial symbionts of insects provide a range of ecological traits to their hosts that are beneficial in the context of biotic interactions. However, little is known about insect symbiont-mediated adaptation to the abiotic environment, e.g. temperature and humidity. Here we report on an ancient (~400 Mya) clade of intracellular, bacteriome-located Bacteroidetes symbionts that are associated withgrain and wood pest beetles of the phylogenetically distant families Silvanidae and Bostrichidae. In the saw-toothed grain beetle Oryzaephilus surinamensis, we demonstrate that the symbionts affect cuticle thickness, melanization and hydrocarbon profile, enhancing desiccation resistance and thereby strongly improving fitness under dry conditions. Together with earlier observations on symbiont contributions to cuticle biosynthesis in weevils, our findings indicate that convergent acquisitions of bacterial mutualists represented key adaptations enabling diverse pest beetle groups to survive and proliferate under the low ambient humidities that characterize dry grain storage facilities.
What role does employment play in dual recovery? A qualitative meta-synthesis of cross-cutting studies treating substance use treatment, psychiatry and unemployment services
Authors: Hansen Jeppe Oute , Bjerge Bagga 
Published: August 2017

Purpose
The role of employment in dual recovery from mental illness and substance use is scarcely addressed in previous studies and a deeper understanding of this issue is needed. The purpose of this paper is to cast further light on the conditions that either facilitate or block the road to employment for dually diagnosed people (DDP) and how these conditions could either promote or hinder recovery.

Design/methodology/approach
Drawing on the principles laid out by health researchers Sandelowski and Barroso (2007), the study is designed as a qualitative meta-synthesis comprising a systematic literature search, a critical assessment of the identified studies and an integrative synthesis of the articles’ findings.

Findings
The synthesis outlines that the findings from the seven identified studies show a recovery process in which unemployed, DDP are becoming employed people – or where there is an attempt to restore their status as working persons – and how this process is driven or hindered by personal, interpersonal and systemic facilitators or barriers.

Research limitations/implications
The synthesis adds nuances to the understanding of employment in dual recovery processes and suggests that unconnected means of, and goals for, intervention among these individuals and systems might reduce the chances of DDP obtaining and maintaining a job.

Originality/value
The paper calls for more advanced research and policy on the multiple – and often contradictory – aspects of gaining and maintaining employment as part of dually diagnosed persons’ recovery.
Drivers420.com: Organizing drivers recruitment for transporters
Authors: Singh Ghura Amarpreet 
Published: August 2017

Subject area
Entrepreneurship, new venture management, new venture planning.

Study level/applicability
The case involves various issues within entrepreneurship and the new venture management field such as business model, SWOT analysis, Pros and Cons analysis and challenges faced during the idea commercialization phase. Thus, this case can be used for covering multiple perspectives related to entrepreneurship and new venture planning. This case is useful for discussion in a session on opportunity recognition at ideation stage. This case is also ideal to teach the “Business Model Canvas”, which is fast gaining centre-stage for modern enterprises. The case also covers issues within strategic management such as what actually constitutes a strategy.

Case overview
The case is based on a field study and primary data collected by interviewing the co-founder of the portal www.drivers420.com. This case describes a situation in which Malkit Singh Bal (Bal) Partner of Bal Road lines shares with Mr Amarpreet Singh (Singh), who was about to be hired as a consultant for Bal Roadlines, information regarding the rise in fraud and crime carried out by fleet drivers and asks him to help him find a solution to the problem.

Expected learning outcomes
Prepare a “Business Model Canvas” for the successful operation of business by identifying intended customer segment, value proposition, cost structures and revenue streams. Conduct “Pros and Cons” analysis for starting a business. Conduct “SWOT” analysis for starting a business. Understand what actually constitutes a strategy and understand the five elements constituting strategy.

Supplementary materials
Teaching Notes are available for educators only. Please contact your library to gain login details or email support@emeraldinsight.com to request teaching notes.

Subject code
CSS 3: Entrepreneurship.
Utility of Open Government Data for PhD students in India
Authors: Saxena Stuti 
Published: August 2017

Purpose
The purpose of this paper is to investigate the utility of Open Government Data (OGD) from the perspective of the PhD students in India.

Design/methodology/approach
Semi-structured interviews are conducted with 68 PhD students in India to solicit their perspectives regarding the utility of OGD for them. Convenience and snowball sampling was used for contacting the PhD students and the study was conducted among students of North India who are from public and private universities.

Findings
While some PhD students tap OGD for their research work, others use OGD as informational tools for broadening their general knowledge. There are also some PhD students who do not use OGD at all. There are challenges associated with OGD usage by the PhD students. For instance, the outdated and incomplete data available on the government websites prevent their optimum use. Likewise, information available on the government websites needs to be revised on a regular basis for proper utilization in research.

Research limitations/implications
The study approached PhD students for seeking their perspectives about OGD utility and further research is required with a large number of respondents. Nevertheless, the study leaves social and practical implications because while the study leaves insights for more involvement of PhD students in tapping OGD for their research, it also leaves recommendations for the policy-makers to take a pro-active stance by providing data sets regularly and accurately for improving government efficiency in public service delivery.

Originality/value
Hitherto, conceptual and theory-driven research on OGD has been undertaken and case study-based research works have been conducted to assess the challenges and prospects of OGD implementation in Western settings. Furthermore, prior research has solicited perspectives from stakeholders like public officials, politicians or citizens to investigate the difficulties in OGD use and policy-implementation. Identifying the research gaps in extant literature with respect to the aforesaid dimensions, this is the first study where the perspectives of Indian PhD students have been recorded in terms of the utility of OGD in research and other purposes.
“A child with autism only has one childhood”: main themes and questions for research from the “Digital Bubbles” seminar series
Authors: Parsons Sarah , Yuill Nicola , Brosnan Mark , Good Judith 
Published: August 2017

Purpose
The purpose of this paper is to present an overview of the main messages and key questions for further research arising from the seven-seminar series entitled, “Innovative technologies for autism: critical reflections on digital bubbles”, funded by the Economic and Social Research Council in the UK.

Design/methodology/approach
A synthesis of the main ideas is presented, drawing on the presentations, discussions, participant feedback, and short papers from across the seminar series, which took place between November 2014-2016.

Findings
There were many positive examples where technologies were positioned and used as facilitative “bridges” between ideas, communities, understanding, and experiences. Researchers and community stakeholders also emphasised the importance of taking different perspectives and working in stronger partnerships with each other. Four overarching research questions were developed from these themes to provide a roadmap for future research, relating to: responsible innovation, technology-enabled social interaction, learning and pedagogy, and engagement.

Originality/value
The findings and methodologies produced by the Digital Bubbles seminar series, available on the project website (http://digitalbubbles.org.uk/) and in a series of short papers, provide a rich repository of state-of-the-art thinking in the field of autism and technology that is being utilised nationally and internationally in teaching and learning. This paper suggests some valuable future research directions and highlights the importance of establishing and maintaining multi-disciplinary research teams, with autistic people and their families at their core.
Library data: what is it and what changes do libraries need to make? (the Data Deluge Column)
Authors: Frederick Donna Ellen 
Published: August 2017

Purpose
In 2016, the “Data Deluge Column” explored the sometimes frustrating reality of cataloguing and metadata librarians as their discipline underwent change.

Design/methodology/approach
The column, called “Metadata specialists in transition: from MARC cataloguing to linked data and BIBFRAME”, alluded to the ongoing and significant changes in the practice of cataloguing and metadata creation, but did not delve into the nature of the changes and what they mean for libraries in general.

Findings
This instalment of the “Data Deluge Column” expands that discussion by exploring the emerging model for the data that libraries create and manage.

Originality/value
It seems that it has taken about 20 years to overcome the inertia required to begin to reinvent the practice of and environment for creating library data. Perhaps, some of this inertia is because of predictions of the current distress and pressure felt by cataloguing departments today.
Creative and innovative leadership: measurement development and validation
Authors: Khalili Ashkan 
Published: August 2017

PurposeThe purpose of this study is to develop and validate a theory-based measure presenting the creative and innovative leadership behavior construct.Design/methodology/approachThe theoretical dimensions of five leadership theories (transformational leadership, change-oriented leadership, innovation champion, leader – member exchange and authentic leadership) were synthesized. Using a quantitative approach, the population sample was composed of 514 respondents who held management and non-management positions. The validity and reliability of the instrument were evaluated.FindingsThe results indicated that the newly developed 24-item measure achieved an acceptable level of reliability and validity in measuring the creative and innovative leadership behavior construct. Eventually, the findings revealed positive and significant influence of creative and innovative leadership behavior on creativity and innovative behavior at the individual level in the workplace.Practical implicationsOrganizations should invest in the creative and innovative leadership behavior construct in their training and in the selection of leaders with the newly developed 24-item measurement scale if their purpose is to nurture and enhance creativity and innovation.Originality/valueThis study makes important theoretical contributions in different ways. The newly developed instrument contributes to the relevant literature through the development and validation of a theory-based measure. Also, this study expands knowledge about resources in the workplace that nurture and enhance creativity and innovation at the individual level.
Environmental SMOs and resource mobilization in the post-communist vs the Northwest European context
Authors: Boström Magnus 
Published: August 2017

Purpose
This paper focuses on differences in resource mobilization opportunities among environmental social movement organizations (ESMOs), with empirical focus on ESMOs from five European Union countries – two Northwest European countries (Sweden, Germany) and three post-communist countries (Poland, Croatia, and Slovenia). Whereas mass-membership mobilization is a reality in the Northwest European context, ESMOs from post-communist countries fundamentally rely on international support and project-based funding. The purpose of this paper is to demonstrate and discuss what implications this difference has for domestic capacity building among ESMOs.

Design/methodology/approach
The paper draws theoretically and empirically on literature on social movements, including environmental movements. It uses a qualitative methodology with figures, field observations, and interview data from ESMO representatives. The empirical material is based on field studies of ESMOs from the five focused countries.

Findings
The findings demonstrate strong pessimism regarding the possibilities for mass-membership mobilization in the post-communist context, and indicate a set of challenges related to the strong reliance on project funding and international sources. Issues such as short-termism, lack of independence, critical distance, and learning potential are discussed. The findings also indicate avenues for creativity and how various buffers can help to cope with challenges, and that ESMOs from the Northwest European context also face pressures relating to resource mobilization that can negatively affect their critical edge.

Originality/value
By the chosen focus and comparative approach, the paper contributes to our understanding if and how ESMOs can work as powerful and critical political actors in various contexts. The paper thus contributes theoretically and empirically to literature on social movements, and specifically environmental movements.
From bread-maker to bomb-builder
Authors: Moniz Tracy 
Published: August 2017

Purpose
The purpose of this paper is to explore the construction of gender identity in the Canadian television series Bomb Girls (2012-2013), which depicted the lives of women working at a munitions factory during the Second World War.

Design/methodology/approach
This research is guided by a postmodern feminist and historiographic approach to organization studies. The study involved a qualitative content analysis of the series to explore the construction of gender identity among female factory workers, given traditional social constructions of gender prominent in wartime.

Findings
In its (re)construction and (re)negotiation of gender identity, Bomb Girls told a story about women’s working lives during the Second World War that reflected themes of independence, resilience and transformation.

Research limitations/implications
This paper contends that Bomb Girls is a revisionist work of postmodern feminist history that subverts gender norms and retrospectively offers a nuanced and progressive narrative about the lives of Canadian women who entered the workforce during the Second World War.

Originality/value
This research contributes to historiographical approaches to management and organization studies by bringing a postmodern feminist historical lens to the study of women’s work in a popular culture representation. In doing so, this research responds to long-standing and widespread calls for an “historic turn” in the field as well as for research that addresses gender as a central analytical category.
Foliar uptake of nitrogen from ant faecal droplets: An overlooked service to ant‐plants
Authors: Pinkalski Christian , Jensen Karl‐Martin V. , Damgaard Christian , Offenberg Joachim 
Published: August 2017

Abstract

Nutrient supplies to plants from ants are well known from specialised myrmecophytic symbioses and from plants growing in soil close to ant nests. However, above‐ground nutrient pathways may play a largely unrecognised role also in less specialised ant–plant interactions—the numerous facultative relationships, where ants forage on plants.

In a laboratory experiment, weaver ants (Oecophylla smaragdina) were confined to the canopies of coffee (Coffea arabica) seedlings, excluding any ant‐to‐plant transfer of nutrients via the soil strata. When ants were fed 15N‐labelled glycine and subsequently deposited faecal droplets on the seedlings, coffee leaves showed increased levels of 15N and total nitrogen compared to control plants without ants. This was evident for both exposed leaves and leaves covered in plastic bags (i.e. not directly exposed to ants). Thus, nitrogen from ant excretions was absorbed through the coffee leaves, and subsequently, translocated within the plants and possibly leading to the observed higher shoot/root (wet weight) ratios observed on ant‐plants compared to controls.

Synthesis. These results reveal an undescribed foliar uptake of ant‐provided nutrients. If this is a general mechanism, a vast amount of ant–plant interactions involves fertilisation. Foliar fertilisation by ants may be an important steady benefit to plants, which has driven the evolution of ant–plant mutualisms in parallel with the well‐recognised but probably more fluctuating benefit from herbivore protection. Given the world‐wide abundance of plant canopies foraged by ants, this nutrient pathway may be of high ecological significance.