bluuebunny/crossref_metadata_2025_split huggingface dataset:
Amazonian run-of-river dam reservoir impacts underestimated: Evidence from a Before-After Control-Impact study of freshwater turtle nesting areas
Authors: Bárcenas-García Andrea , Michalski Fernanda , Gibbs James P. , Norris Darren 
Published: July 2021

AbstractConstruction of hydropower dams is associated with negative impacts on biodiversity, yet there remains a lack of robust scientific evidence documenting the magnitude of these impacts particularly across highly biodiverse tropical waterways. Hydropower expansion is an increasing threat to the Endangered yellow-spotted river turtle (Podocnemis unifilis) across its tropical South American range.Yellow-spotted river turtle nesting areas were monitored as an indicator of dry season river level changes following run-of-river dam reservoir filling. A Before-After-Control-Impact (BACI) study design was used with multi-year field campaigns monitoring turtle nesting areas upstream of the dam.The cause and extent of changes in nesting areas were established using Generalized Additive Models. Nesting area density was evaluated in relation to: time (before versus after), treatment (control versus impact), time treatment interaction (BACI), distance to the dam and precipitation. The extent of changes was examined by comparing the proportion of nesting areas remaining during four years after reservoir filling.Dam construction generated an immediate and apparently permanent dry season river level rise that extended more than 20 km beyond impact assessment limits. On average the density of nesting areas declined 69% (from 0.48 to 0.15 per km) across 33 km of river directly impacted by the dam. This loss was reflected in a significant BACI interaction. Nesting area density was not explained by seasonal precipitation.Standardized monitoring of freshwater turtle nesting areas provided an effective means to quantify impacts of hydropower developments across biodiverse yet rapidly changing waterways. The negative impacts documented in this study should be preventable by mitigation actions including habitat creation and dry season flow regulation. Such measures would also likely benefit multiple species elsewhere in tropical rivers increasingly impacted by run-of-river dams.
Exogenous pigments shield microorganisms from spaceflight-induced changes
Authors: Sharma S. , Smith R. S. H. , Lee N. A. , Wilson S. L. , Smith M. M. , Oxman N. 
Published: July 2021

AbstractResearch has indicated that pigments commonly produced by microorganisms may be protective against the environmental stresses inherent to spaceflight. However, few studies have directly tested the protective capabilities of microbial pigments applied externally as shielding materials. In this study, liquid cultures of Bacillus subtilis were shielded by various pigment solutions, and solid media cultures of Bacillus subtilis were co-inoculated with the highly pigmented microorganisms Aspergillus niger and Neurospora crassa. These experiments were conducted in a compact, automated payload aboard the International Space Station (ISS) interior for 30 days. Post-flight phenotypic analyses of liquid cultures showed that solutions of carotenoid pigments were effective at minimizing detrimental effects of spaceflight. Elevated growth rate was observed for solid cultures, and distinct morphology changes were identified in both liquid and solid samples and quantified as markers of spaceflight-induced stress. These findings collectively progress our understanding of microbial pigments for the development of space-related applications.
Detection and quantification of the vacuolar H+-ATPase using the Legionella effector protein SidK
Authors: Maxson Michelle E. , Abbas Yazan M. , Wu Jing Ze , Grinstein Sergio , Rubinstein John L. 
Published: July 2021

ABSTRACTAcidification of secretory and endocytic organelles is required for proper receptor recycling, membrane traffic, protein degradation, and solute transport. Proton-pumping vacuolar ATPases (V-ATPases) are responsible for this luminal acidification, which increases progressively as secretory and endocytic vesicles mature. An increasing density of V-ATPase complexes is thought to account for the gradual decrease in pH, but available reagents have not been sufficiently sensitive nor specific to test this hypothesis. We introduce a new probe to localize and quantify V-ATPases in eukaryotic cells. The probe is derived from SidK, a Legionella pneumophila effector protein that binds to the V-ATPase A subunit. We generated plasmids encoding fluorescent chimeras of SidK1-278, and labeled recombinant SidK1-278 with AlexaFluor-568 to visualize and quantify V-ATPases with high specificity in live and fixed cells, respectively. We show that V-ATPases are acquired progressively during phagosome maturation, that they distribute in discrete membrane subdomains, and that their density in lysosomes depends on the subcellular localization of the lysosome.
Carbon nanotube biocompatibility in plants is determined by their surface chemistry
Authors: González-Grandío Eduardo , Demirer Gözde S. , Jackson Christopher T. , Yang Darwin , Landry Markita P. 
Published: July 2021

AbstractAgriculture faces significant global challenges including climate change and an increasing food demand due to a growing population. Addressing these challenges will require the adoption of transformative innovations into biotechnology practice, such as nanotechnology. Recently, nanomaterials have emerged as unmatched tools for their use as biosensors, or as biomolecule delivery vehicles. Despite their increasingly prolific use, plant-nanomaterial interactions remain poorly characterized, drawing into question the breadth of their utility and their broader environmental compatibility. Herein, we characterize Arabidopsis thaliana transcriptional response to single walled carbon nanotubes (SWNTs) with two different surface chemistries commonly used for biosensing and nucleic acid delivery: oligonucleotide adsorbed-pristine SWNTs, and polyethyleneimine-SWNTs loaded with plasmid DNA (PEI-SWNTs), both introduced by leaf infiltration. We observed that SWNTs elicit a mild stress response almost undistinguishable from the infiltration process, indicating that these nanomaterials are well-tolerated by the plant. However, PEI-SWNTs induce a much larger transcriptional reprogramming that involves stress, immunity, and senescence responses. PEI-SWNT-induced transcriptional profile is very similar to that of mutant plants displaying a constitutive immune response or treated with stress-priming agrochemicals. We selected molecular markers from our transcriptomic analysis and identified PEI as the main cause of this reaction. We show that PEI-SWNT response is concentration-dependent and, when persistent over time, leads to cell death. We probed a panel of PEI variant-functionalized SWNTs across two plant species and identified biocompatible SWNT surface functionalizations. Our results highlight the importance of nanoparticle surface chemistry on their biocompatibility and will facilitate the use of functionalized nanomaterials for agricultural improvement.Significance statementNanomaterials can be used in agriculture as biosensors to monitor plant health, as fertilizers or growth regulators, and as delivery vehicles for genome engineering reagents to improve crops. However, the interactions between nanoparticles and plant cells are not well understood. Here, we characterize the plant transcriptomic response to single-walled carbon nanotubes (SWNTs) commonly used for sensing and nucleic acid delivery. While SWNTs themselves are well tolerated by plants, SWNTs surface-functionalized with positively charged polymers become toxic and produce cell death. We identify molecular markers of this toxic response to create biocompatible SWNT formulations. These results highlight the significance of nanoparticle surface chemistry, perhaps more than the nanoparticles themselves, on downstream interactions of nanoparticles with the environment.
miRSCAPE - Inferring miRNA expression in single-cell clusters
Authors: Olgun Gulden , Gopalan Vishaka , Hannenhalli Sridhar 
Published: July 2021

AbstractMicro-RNAs (miRNA) are critical in development, homeostasis, and diseases, including cancer. However, our understanding of miRNA function at cellular resolution is thwarted by the inability of the standard single cell RNA-seq protocols to capture miRNAs. Here we introduce a machine learning tool -- miRSCAPE -- to infer miRNA expression in a sample from its RNA-seq profile. We establish miRSCAPE’s accuracy separately in 10 tissues comprising ~10,000 tumor and normal bulk samples and demonstrate that miRSCAPE accurately infers cell type-specific miRNA activities (predicted vs observed fold-difference correlation ~ 0.81) in two independent datasets where miRNA profiles of specific cell types are available (HEK-GBM, Kidney-Breast-Skin). When trained on human hematopoietic cancers, miRSCAPE can identify active miRNAs in 8 hematopoietic cell lines in mouse with a reasonable accuracy (auROC = 0.67). Finally, we apply miRSCAPE to infer miRNA activities in scRNA clusters in Pancreatic and Lung cancers, as well as in 56 cell types in the Human Cell Landscape (HCL). Across the board, miRSCAPE recapitulates and provides a refined view of known miRNA biology. miRSCAPE is freely available and promises to substantially expand our understanding of gene regulatory networks at cellular resolution.
Coherent mapping of position and head direction across auditory and visual cortex
Authors: Mertens Paul EC , Marchesi Pietro , Oude Lohuis Matthijs , Krijger Quincy , Pennartz Cyriel MA , Lansink Carien S 
Published: July 2021

AbstractNeurons in primary visual cortex (V1) may not only signal current visual input but also relevant contextual information such as reward expectancy and the subject’s spatial position. Such location-specific representations need not be restricted to V1 but could participate in a coherent mapping throughout sensory cortices. Here we show that spiking activity in primary auditory cortex (A1) and lateral, secondary visual cortex (V2L) of freely moving rats coherently represents a location-specific mapping in a sensory detection task performed on a figure-8 maze. Single-unit activity of both areas showed extensive similarities in terms of spatial distribution, reliability and position coding. Importantly, reconstructions of subject position on the basis of spiking activity displayed decoding errors that were correlated between areas in magnitude and direction. In addition to position, we found that head direction, but not locomotor speed or head angular velocity, was an important determinant of activity in A1 and V2L. Finally, pairs of units within and across areas showed significant correlations in instantaneous variability of firing rates (noise correlations). These were dependent on the spatial tuning of cells as well as the spatial position of the animal. We conclude that sensory cortices participate in coherent, multimodal representations of the subject’s sensory-specific location. These may provide a common reference frame for distributed cortical sensory and motor processes and may support crossmodal predictive processing.
Creation, dissemination and mitigation: toward a disinformation behavior framework and model
Authors: Agarwal Naresh Kumar , Alsaeedi Farraj 
Published: July 2021

PurposeThis paper seeks to disambiguate the phenomenon by clarifying terms, highlighting current efforts, including the importance of critical thought and awareness, and a test for genuine serendipity.Design/methodology/approachThe authors review the literature, primarily from a library and information science perspective, and arrive at a theoretical framework and model.FindingsThe authors find various initiatives to fight fake news. Building upon Karlova and Fisher's (2013) model as well as research on critical thinking and serendipity, the primary contribution of the paper is a disinformation behavior framework and model. The model includes both the problem of disinformation from a creator and user perspective, as well as the solutions to fight it.Research limitations/implicationsThe framework will guide practitioners and researchers in library and information science and beyond, as well as other stakeholders in both understanding the phenomenon, and leading the fight against it.Originality/valueThe spreading of false information has become an alarming phenomenon in the last few years, leading to the popularity of terms such as misinformation, disinformation, infodemic and fake news. While information professionals have been called upon to lead the fight against fake news, in the lack of a comprehensive understanding of the phenomenon, current efforts have been isolated and inadequate. Most models of information behavior deal with information, and not misinformation or disinformation per se.
Application of semantic Web ontologies for the improvement of information exchange in existing buildings
Authors: Sadeghineko Farhad , Kumar Bimal 
Published: July 2021

Purpose
Facilitating the information exchange and interoperability between stakeholders during the life-cycle of an asset can be one of the fundamental necessities for developing an enhanced information exchange framework. Such a framework can also improve the successful accomplishment of building projects. This paper aims to use Semantic Web technologies for facilitating information exchange within existing building projects.

Design/methodology/approach
In real-world building projects, the construction industry’s information supply chain may initiate from near scratch when new building projects are started resulting in diverse data structures represented in unstructured data sources, like Excel spreadsheets and documents. Large-scale data generated throughout a building's life-cycle requires exchanging and processing during an asset's Operation and Maintenance (O&M) phase. Building information modelling (BIM) processes and related technologies can address some of the challenges and limitations of information exchange and interoperability within new building projects. However, the use of BIM in existing and retrofit assets has been hampered by the challenges surrounding the limitations of existing technologies.

Findings
The aim of this paper is twofold. Firstly, it briefly outlines the framework previously developed for generating semantically enriched 3D retrofit models. Secondly, a framework is proposed focussing on facilitating the information exchange and interoperability for existing buildings. Semantic Web technologies and standards, such as Web Ontology Language and existing AEC domain ontologies are used to enhance and improve the proposed framework.

Originality/value
The proposed framework is evaluated by implementing an example application and the Resource Description Framework data produced by the previously developed framework. The proposed approach makes a valuable contribution to the asset/facilities management (AM/FM) domain. It should be of interest to various FM practices for existing assets, such as the building information/knowledge management for design, construction and O&M stages of an asset’s life-cycle.
Housing policies with case studies
Authors: Shahraki Abdol Aziz 
Published: July 2021

Purpose
This paper aims to suggest a practical model for the production of new homes according to demands. After understanding the inhabitants’ priorities and preferences, the authors will present a programming model for building projects. The authors will meet the goal with knowledge-based development ideas and the experiences of skilled engineers and scholars.

Design/methodology/approach
The research methods are theoretical studies, a case study strategy, a market analysis, linear planning and classic procedures. All the research methods are problem-oriented. The authors have studied theories related to housing policies and performed field studies with a case study. The case study considers the preferences of applicants and programs building productions according to the ideas and needs.

Findings
The outcome of this research is a home-building program. The program stands on the particular requirements of responded people and regional characteristics. The authors can simulate this model anywhere in the world where there is a housing crisis.

Originality/value
This paper is originally based on my studies and practices.
Natural resources and wealth inequality: a cross-country analysis
Authors: Tadadjeu Sosson , Njangang Henri , Asongu Simplice , Nounamo Yann 
Published: July 2021

PurposeThis study investigates the impact of natural resources on wealth inequality as a first attempt on a panel of 45 developed and developing countries.Design/methodology/approachUsing the generalized method of moments (GMM), the results provide strong evidence that natural resources increase wealth inequality within a linear empirical framework.FindingsThese results are robust to the use of alternative natural resources and wealth inequality measures. Additionally, a nonlinear analysis provides evidence of an inverted U shaped relationship between natural resources and wealth inequality. The net effect of enhancing natural resources on wealth inequality is positive and building on the corresponding conditional negative effect, the attendant natural resource thresholds for inclusive development are provided. It follows that while natural resources increase wealth inequality, some critical levels of natural resources are needed for natural resources to reduce wealth inequality.Originality/valueTo the best of knowledge, this is the first study to assess how enhancing natural resources affect wealth inequality.
Exploring the next generation socialisation to entrepreneurship in family businesses: insights from the Moroccan community
Authors: Ibouder Widad , Fayolle Alain Jean-Claude , Louitri Abdenbi 
Published: July 2021

PurposeIn Morocco, due to the high rate of failure in generational transfers, many family businesses are threatened with disappearance. This paper aims to focus on entrepreneurship and seeks to understand how the family business maintains its entrepreneurial orientation through the family’s entrepreneurial socialisation of the next generation, which aims to prepare them for the role of family entrepreneur. The study aims both to describe the socialisation process and to understand the context necessary to place the young community in an entrepreneurial dynamic.Design/methodology/approachUsing an exploratory approach, this paper favours the single case study; data were collected from five participants from both generations, then this study matches the interviews from the founding generation with those from the next generation; in addition to a triad at the employee level.FindingsThe analysis shows that the early participation alongside the founding generation in entrepreneurial processes, initiates a sense of entrepreneurship in the next generation and the confidence gradually builds up through the achievements of the latter; which, in turn, increases the possibility to set up innovative projects by giving the necessary autonomy to carry them out.Practical implicationsThe document underlines the importance of establishing a culture of transmission to promote entrepreneurship amongst the young community to engage it in exploring and seeking new opportunities for development and innovation.Originality/valueStudying the transmission of the entrepreneurial spirit through the prism of socialisation provides an understanding of the context necessary to place the next generation in an entrepreneurial dynamic.
Value relevance of earnings and book values during IFRS convergence period in India
Authors: Srivastava Anubha , Muharam Harjum 
Published: July 2021

PurposeThe authors aim to examine the association between earnings and book values with stock prices in India during the IFRS convergence period because, in India, the literature is yet to investigate more about IFRS convergence and its impact on the financial reporting environment. Hence, the purpose of this study is to assess the influence of IFRS conversion on the value relevance of accounting information throughout the IFRS conversion period.Design/methodology/approachThe current paper endeavors to investigate the earnings and book values affiliation with stock prices in India during the IFRS convergence period by employing a price valuation model (Ohlson’s Model). The study assembled a total of 3,440 firm-year observations from the National Stock Exchange in India over five years, which signifies the IFRS conversion period (2015–2019).FindingsThe research findings displayed that accounting information such as earnings, book value has value relevance throughout the IFRS enforcement period; however, the value relevance has been increasing for earnings and showing a descending association for book value. The significant explanatory power of earnings reveals that market participants give more weightage to earnings than book values. Overall, the findings of the study will facilitate improved decision making for both, capital market participants and regulators, by highlighting the key areas for improvement in the Indian capital market.Research limitations/implicationsThis study also extends a discussion on the subject in those economies where regulations are weak and the market is imperfect with asymmetrical information.Practical implicationsThe research outcome provides for empirical shreds of evidence regarding the value relevance of accounting information during IFRS enforcement in India, where IFRS is a recent emergence.Social implicationsThis paper examines the value relevance of accounting information during IFRS convergence period in India which will felicitate improved decision making for both, market regulators and investors.Originality/valueThis research is the first factual documentation regarding value relevance of earnings and book value during the IFRS enforcement process in India with the most recent data and contributes to the limited study conducted in developing nations like India.
Will foundry become a competitor of manufacturer in ODM supply chain?
Authors: Xie Kaiyu , Xia Panpan , Wu Jie 
Published: July 2021

Purpose
This paper aims to study whether the upstream foundry in the original design manufacturer (ODM) supply chain will violate the commission contract and engage in the production of pirated products. Based on the conclusion, this study hopes to explain the phenomenon of pirated products in reality and provide management enlightenment for related companies.

Design/methodology/approach
To understand when will foundry violates the processing contract, this paper constructs a five-stage decision-making model, this study derives a model to get three situations and draw data images to describe the characteristics of decision-making by the foundry. Finally, this paper also considers some external supervision.

Findings
The results show that processing fee and other parameters (special cost, common cost, weakening factor and product difference) jointly determine the possibility of piracy by the foundry. Moreover, the external supervision mechanism has a significant effect on the piracy behavior of the foundry.

Research limitations/implications
The research provides some support for real business activities, which actually involve many participants and mechanisms. Thus, it could be interesting to explore more multi-stage and complex business methods in reality.

Practical implications
The analysis highlights less-concerned moral hazard behaviors in the ODM supply chain. By recreating the complex interactions of participants, the conclusion shed light on how should different roles deal with their risks and take actions in a real business environment.

Originality/value
The biggest contribution of this study is to discuss the issue of moral hazard in the ODM supply chain. Piracy initiated by foundries may be a new type of supply chain risk and should be paid attention to.