bluuebunny/crossref_metadata_2025_split huggingface dataset:
Whole-genome sequencing of parvoviruses from wild and domestic animals in Brazil provides new insights into parvovirus distribution and diversity
Authors: Souza William Marciel de , Dennis Tristan Philip Wesley , Fumagalli Marcílio Jorge , de Araujo Jansen , Sabino-Santos Gilberto , Maia Felipe Gonçalves Motta , Acrani Gustavo Olszanski , Carrasco Adriano de Oliveira Torres , Romeiro Marilia Farignoli , Modha Sejal , Vieira Luiz Carlos , Ometto Tatiana Lopes , Queiroz Luzia Helena , Durigon Edison Luiz , Nunes Márcio Roberto Teixeira , Figueiredo Luiz Tadeu Moraes , Gifford Robert James 
Published: February 2018

Abstract:Parvoviruses (family Parvoviridae) are small, single-stranded DNA viruses. Many parvoviral pathogens of medical, veterinary and ecological importance have been identified. In this study, we used high-throughput sequencing (HTS) to investigate the diversity of parvoviruses infecting wild and domestic animals in Brazil. We identified 21 parvovirus sequences (including twelve nearly complete genomes and nine partial genomes) in samples derived from rodents, bats, opossums, birds and cattle in Pernambuco, São Paulo, Paraná and Rio Grande do Sul states. These sequences were investigated using phylogenetic and distance-based approaches, and were thereby classified into eight parvovirus species (six of which have not been described previously), representing six distinct genera in the subfamily Parvovirinae. Our findings extend the known biogeographic range of previously characterized parvovirus species, and the known host range of three parvovirus genera (Dependovirus, Aveparvovirus, and Tetraparvovirus). Moreover, our investigation provides a window into the ecological dynamics of parvovirus infections in vertebrates, revealing that many parvovirus genera contain well-defined sub-lineages that circulate widely throughout the world within particular taxonomic groups of hosts.
Information sharing for a coordination game in fluctuating environments
Authors: Paarporn Keith , Eksin Ceyhun , Weitz Joshua S. 
Published: February 2018

AbstractCollective action dilemmas pervade the social and biological sciences - from human decision-making to bacterial quorum sensing. In these scenarios, individuals sense cues from the environment to adopt a suitable phenotype or change in behavior. However, when cues include signals from other individuals, then the appropriate behavior of each individual is linked. Here, we develop a framework to quantify the influence of information sharing on individual behavior in the context of two player coordination games. In this framework, the environment stochastically switches between two states, and the state determines which one of two actions players must coordinate on. Given a stochastically switching environment, we then consider two versions of the game that differ in the way players acquire information. In the first model, players independently sense private environmental cues, but do not communicate with each other. We find there are two types of strategies that emerge as Nash equilibria and fitness maximizers - players prefer to commit to one particular action when private information is poor, or prefer to employ phenotypic plasticity when it is good. The second model adds an additional layer of communication, where players share social cues as well. When the quality of social information is high, we find the socially optimal strategy is a novel “majority logic” strategy that bases decision-making on social cues. Our game-theoretic approach offers a principled way of investigating the role of communication in group decision-making under uncertain conditions.
Comparative assessment of strategies to identify similar ligand-binding pockets in proteins
Authors: Govindaraj Rajiv Gandhi , Brylinski Michal 
Published: February 2018

AbstractBackgroundDetecting similar ligand-binding sites in globally unrelated proteins has a wide range of applications in modern drug discovery, including drug repurposing, the prediction of side effects, and drug-target interactions. Although a number of techniques to compare binding pockets have been developed, this problem still poses significant challenges.ResultsWe evaluate the performance of three algorithms to calculate similarities between ligand-binding sites, APoc, SiteEngine, and G-LoSA. Our assessment considers not only the capabilities to identify similar pockets and to construct accurate local alignments, but also the dependence of these alignments on the sequence order. We point out certain drawbacks of previously compiled datasets, such as the inclusion of structurally similar proteins, leading to an overestimated performance. To address these issues, a rigorous procedure to prepare unbiased, high-quality benchmarking sets is proposed. Further, we conduct a comparative assessment of techniques directly aligning binding pockets to indirect strategies employing structure-based virtual screening with AutoDock Vina and rDock.ConclusionsThorough benchmarks reveal that G-LoSA offers a fairly robust overall performance, whereas the accuracy of APoc and SiteEngine is satisfactory only against easy datasets. Moreover, combining various algorithms into a meta-predictor improves the performance of existing methods to detect similar binding sites in unrelated proteins by 5-10%. All data reported in this paper are freely available at https://osf.io/6ngbs/.
Echo State Networks Ensemble for SSVEP Dynamical Online Detection
Authors: Ibanez-Soria D , Soria-Frisch A. , Garcia-Ojalvo J , Ruffini G 
Published: February 2018

BackgroundRecent years have witnessed an increased interest in the use of steady state visual evoked potentials (SSVEPs) in brain computer interfaces (BCI), SSVEP is considered a stationary brain process that appears when gazing at a stimulation light source.New MethodsThe complex nature of brain processes advocates for non-linear EEG analysis techniques. In this work we explore the use of an Echo State Networks (ESN) based architecture for dynamical SSVEP detection.ResultsWhen simulating a 6-degrees of freedom BCI system, an information transfer rate of 49bits/min was achieved. Detection accuracy proved to be similar for observation windows ranging from 0.5 to 4 seconds.Comparison with existing methodsSSVEP detection performance has been compared to standard canonical correlation analysis (CCA). CCA achieved a maximum information transfer rate of 21 bits/minute. In this case detection accuracy increased along with the observation window lengthConclusionsAccording to here presented results ESN outperforms standard canonical correlation and has proved to require shorter observation time windows. However ESN and CCA approaches delivered diverse classification accuracies at subject level for various stimulation frequencies, proving to be complementary methods. A possible explanation of these results may be the occurrence of evoked responses of different nature, which are then detected by different approaches. While reservoir computing methods are able to detect complex dynamical patterns and/or complex synchronization among EEG channels, CCA exclusively captures stationary patterns. Therefore, the ESN-based approach may be used to extend the definition of steady-state response, considered so far a stationary process.HighlightsWe present a novel SSVEP dynamical detection approach based on ESN.This is the first time ESNs are applied to SSVEP based BCI systems.We provide experimental validation of proposed methodology.Experimental results indicate non-stationarity in SSVEP patterns.
Transposable elements generate regulatory novelty in a tissue-specific fashion
Authors: Trizzino Marco , Kapusta Aurélie , Brown Christopher D. 
Published: February 2018

AbstractBackgroundTransposable elements (TE) are an important source of evolutionary novelty in gene regulation. However, the mechanisms by which TEs contribute to gene expression are largely uncharacterized.ResultsHere, we leverage Roadmap and GTEx data to investigate the association of TEs with active and repressed chromatin in 24 tissues. We find 112 human TE types enriched in active regions of the genome across tissues. SINEs and DNA transposons are the most frequently enriched classes, while LTRs are often enriched in a tissue-specific manner. We report across-tissue variability in TE enrichment in active regions. Genes with consistent expression across tissues are less likely to be associated with TE insertions. TE presence in repressed regions similarly follows tissue-specific patterns. Moreover, different TE classes correlate with different repressive marks: Long Terminal Repeat Retrotransposons (LTRs) and Long Interspersed Nuclear Elements (LINEs) are overrepresented in regions marked by H3K9me3, while the other TEs are more likely to overlap regions with H3K27me3. Young TEs are typically enriched in repressed regions and depleted in active regions. We detect multiple instances of TEs that are enriched in tissue-specific active regulatory regions. Such TEs contain binding sites for transcription factors that are master regulators for the given tissue. These TEs are enriched in intronic enhancers, and their tissue-specific enrichment correlates with tissue-specific variations in the expression of the nearest genes.ConclusionsWe provide an integrated overview of the contribution of TEs to human gene regulation. Expanding previous analyses, we demonstrate that TEs can potentially contribute to the turnover of regulatory sequences in a tissue-specific fashion.
Characteristics of borrowers likely to benefit from loan modifications
Authors: Dodson Charles B. , Ahrendsen Bruce L. 
Published: February 2018

Purpose
The purpose of this paper is to identify the characteristics of borrowers likely to benefit from loan modifications (restructuring) which includes concessions provided to the borrower from the lender.

Design/methodology/approach
Data were drawn from the US Department of Agriculture Farm Service Agency (FSA) for borrowers who had received an operating loan modification during 2005-2010. A logistic regression model is estimated to identify the characteristics associated with the likelihood of a borrower paying the modified loan as agreed or receiving a subsequent loan modification within seven years. Explanatory variables included financial condition, type and year of loan modification, farm type, organizational type, borrower demographics, and region.

Findings
Loans requiring more complex loan modifications and borrowers with previous loan restructuring, larger farms, little equity in loan collateral, little or no capital, and/or little to no liquidity are less likely to perform following loan restructuring, which could suggest a possible futility in providing concessions to these types of borrowers. Many of these borrowers ended up having a subsequent restructure within a short period of time. Most of the regional variability in loan performance appears to have been a result of land values and commodity prices and not jurisdictional laws.

Originality/value
FSA has followed a policy of providing loan modifications to the borrowers experiencing repayment problems for more than 25 years. Though farm financial conditions have remained relatively strong through 2016, a continuation of the low farm incomes and declining farm real estate values could increase farm loan repayment problems in upcoming years and increase interest in farm loan modifications from both lenders and policymakers. FSA’s experience provides a rich data source to examine and provide a better understanding of the costs and benefits associated with loan modifications.
Strengths, innovation, and opportunities in a burgeoning industry: an exploratory study
Authors: Duarte Alonso Abel , Sakellarios Nikolaos , Alexander Nevil , O’Brien Seamus 
Published: February 2018

Purpose
The purpose of this paper is to examine key areas related to the craft brewing industry from the perspective of operators of micro and small craft breweries, and propose a framework based on the resourced-based theory of the firm and the theory of innovation. The areas investigated include participants’ perceived strengths of their craft brewery, involvement in innovative practices, opportunities for the craft brewing firm, and potential differences related to these areas based on the demographic characteristics of participants and their breweries.

Design/methodology/approach
Given its growing significance and economic contribution, the US craft brewery industry was chosen for this study. An online questionnaire was designed to gather data from craft brewery operators across the nation.

Findings
Product and service quality, knowledge, reputation, and expertise were revealed as key strengths, while creating new recipes and using social media tools were the most considered ways of innovating. Furthermore, opportunities were perceived through craft beer tourism, increased consumption, and quality improvements. Statistically significant differences emerged, particularly based on production levels, staff numbers, and involvement/no involvement in exports. Various associations between the findings and the adopted theoretical frameworks were revealed.

Originality/value
In terms of originality, the proposed refinement based on the adopted theoretical frameworks and findings facilitates understanding of the significance of resources and innovation, particularly for firms operating in a growing industry. Regarding value, the findings have important implications for the industry, for instance, in the marketing of craft brewing, as well as in the development of new craft brewing products.
Do statistics need foresight?
Authors: Kastrinos Nikos 
Published: February 2018

Purpose
The purpose of this paper is to explore the relationship between foresight and official statistics in the context of sustainability and big-data. The aim is to draw ideas, guidance and lessons on how foresight could help national and international statistical offices deal with an increasingly turbulent and demanding environment.

Design/methodology/approach
The paper analyzes the challenges and opportunities posed by big data and sustainability for official statistics.

Findings
Drawing on the analysis of the BOHEMIA study – a foresight study launched by the European Commission to support its future policy for research and innovation – the paper proposes elements that could form a foresight programme for statistical offices.

Originality/value
Statistical offices and foresight have been worlds apart. The need to engage with each other is a recent and interesting phenomenon.
Role of “perceived risks” in adopting mobile government (m-government) services in India
Authors: Saxena Stuti 
Published: February 2018

Purpose
This paper aims to investigate the role of “perceived risks” in adopting mobile government (m-government) services in India.

Design/methodology/approach
Conceding that “privacy risks” are one of the major factors that influence the adoption of e-services, the impact of “perceived risks” alongside “social efficacy,” “influence” of significant others and “attitude” on the adoption of m-government services in India has been underlined here. Specifically, the study has been conducted with 311 actual m-government users and constructs have been derived from existing theories like Technology Acceptance Model (TAM), Unified Theory of Acceptance and Use of Technology (UTAUT) and Theory of Planned Behavior (TPB). Multiple regression analysis has been conducted to analyze the data focused on constructs as: Perceived Risks (PR), Influence (I), Self-efficacy (SE), Attitude (ATT) and Behavioral Intention to Adopt m-government services (BI).

Findings
Results show that while the respondents perceive that adoption of m-government services is risk-free and safe, there is no impact of the interpersonal relationships on m-government adoption. There is more inclination to adopt m-government services conceding that the respondents perceive that they have the self-efficacy to operate such services. M-government services are being tapped regularly by the respondents and there is more inclination to adopt m-government services among the public sector employees and self-employed respondents in comparison with the ones who are students or unemployed. In terms of age, those in the age group of 31–50 are more inclined to adopt m-government services in comparison with the rest.

Originality/value
Exploration of “perceived risks” and other factors has been less in the context of m-government studies. The present study fills the gap in two ways: first, it undertakes the investigation in a developing country conceding that empirical studies on m-government adoption are few in Indian context, and second, it throws light on the role of “adoption” of m-government services in contrast with the “use” of e-government services.
Mobile services adoption in a hospitality consumer context
Authors: Rita Paulo , Oliveira Tiago , Estorninho António , Moro Sérgio 
Published: February 2018

Purpose
This study aims to present a model drawn on both the extension of the unified theory of acceptance and use of technology (UTAUT2) and the perceived value for explaining consumer behavior toward mobile hospitality services (MHS) from two perspectives: intention to use and recommendation.

Design/methodology/approach
The partial least square (PLS) was applied to data gathered from 348 validated responses to a survey to test a number of research hypotheses.

Findings
Results found that the proposed conceptual model explains 62 per cent of the intention to use of MHS and 51 per cent of the variation in the recommendation. Perceived value plays a role in explaining both the intention to use and recommend MHS, with both constructs also helping in explaining behavior intention, to which effort expectancy, facilitating conditions and performance expectancy also contribute.

Originality/value
This research goes beyond perceived value by combining it with a cornerstone model, UTAUT2, used in technology adoption studies. The paper addresses updated MHS that include but are not limited to mobile hotel reservations.
A netnography of war heritage sites’ online narratives: user-generated content and destination marketing organizations communication at comparison
Authors: Irimiás Anna , Volo Serena 
Published: February 2018

Purpose
The aim of this paper is twofold: to provide empirical evidence of the knowledge-sharing process within virtual communities interested in war heritage sites and to compare user-generated content (UGC) in virtual communities with destinations’ official communication about war heritage sites to identify, original and consumer-oriented narratives.

Design/methodology/approach
This study uses field research to investigate selected war heritage sites and to assess the destinations’ on-site communication; in-depth interviews to learn about the destination marketing organizations’ approaches to communication; and netnography with content analysis of text and pictures to evaluate the online knowledge shared within virtual communities on the investigated war heritage sites. A comparison between users-generated content and official destination management organizations’ (DMOs) communication was carried out.

Findings
The results show that the destinations under investigation have invested significantly to develop war heritage tourism, but they still struggle to attract tourists. The comparison between DMOs communication narratives and users-generated content shows that DMOs fail to use emotional involvement and accurate historic knowledge which seems to be at the basis of UGC narratives. Indeed, history passionates posts, pictures, comments and exchanges are emotionally engaging and DMOs could benefit from the user-generated content approach to improve institutional communication on war heritage sites.

Research limitations/implications
Further studies could survey history passionates, both online and offline, as to better explore the relationship between contributing to virtual communities’ content and visitation patterns of war heritage sites. Incorporating more emotionally engaging narratives, DMOs could enhance their communication and create virtual spaces where knowledgeable tourists can share information and experiences.

Originality/value
This paper contributes to the understanding of online knowledge sharing in the context of war heritage tourism. The comparison between UGC in virtual communities and official destinations’ narratives shows the potential of spontaneous knowledge sharing versus structured online communication and how the latter could benefit UGC.
Structure-integration relationships in oil and gas supply chains
Authors: Ebrahimi Seyed Mohammad , Koh S.C.L. , Genovese Andrea , Kumar Niraj 
Published: February 2018

Purpose
Although studies have demonstrated the importance of supply chain integration (SCI) strategies in improving firm performance, very little is understood about how the organizational structure (OS) of focal firms affects the successful implementation of SCI initiatives across supply chains (SCs). Taking into consideration the importance of the oil and gas (O&G) industry, as well as the impact of uncertainties on OS and strategy choices, it is important to understand how OS and SCI affect the operational performance of O&G SCs. The paper aims to discuss this issue.

Design/methodology/approach
Taking a contingency approach and using a global sample of 181 O&G firms, this study examines the mediating role of internal, customer, and supplier integration on the relationship between three main dimensions of OS – the degree of centralization, formalization, and hierarchical relationships and operational performance, using structural equation modeling.

Findings
Findings reveal that OS dimensions negatively impact operational performance. Further testing for the mediation found that by increasing SCI, O&G SCs can mitigate the negative effect of high centralization, formalization, and hierarchical relationship on operational performance.

Research limitations/implications
Classifying OS into “structuring” and “structural,” this research provides evidence on which of the two has a stronger negative impact on operational performance. This is significant since it may be difficult for O&G companies to restructure and reform their OS.

Originality/value
This study examines the impact of OS and SCI on improving the operational performance of the O&G SCs. Theoretical and practical contributions to the field of operations management and organizational studies are also discussed.