bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transcriptomic profiling of tissue environments critical for post-embryonic patterning and morphogenesis of zebrafish skin
Authors: Aman Andrew J. , Saunders Lauren M. , Carr August A. , Srivatsan Sanjay R. , Eberhard Colten D. , Carrington Blake , Watkins-Chow Dawn , Pavan William J. , Trapnell Cole , Parichy David M. 
Published: May 2021

AbstractPigment patterns and skin appendages are prominent features of vertebrate skin. In zebrafish, regularly patterned pigment stripes and an array of calcified scales form simultaneously in the skin during post-embryonic development. Understanding mechanisms that regulate stripe patterning and scale morphogenesis may lead to discovery of fundamental mechanisms that govern development of animal form. To learn about cell types and signaling interactions that govern skin patterning and morphogenesis we generated and analyzed single cell transcriptomes of skin from wild-type fish as well as fish having genetic or transgenically induced defects in squamation or pigmentation. These data reveal a previously undescribed population of epidermal cells that express transcripts encoding enamel matrix proteins, suggest hormonal control of epithelial-mesenchymal signaling, clarify the signaling network that governs scale papillae development, and identify a critical role for the hypodermis in supporting pigment cell development. Additionally, these comprehensive single-cell transcriptomic data representing skin phenotypes of biomedical relevance should provide a useful resource for accelerating discovery of mechanisms that govern skin development and homeostasis.
ABA homeostasis and long-distance translocation is redundantly regulated by ABCG ABA importers
Authors: Zhang Yuqin , Vasuki Himabindu , Liu Jie , Bar Hamutal , Lazary Shani , Egbaria Aiman , Ripper Dagmar , Charrier Laurence , Aharoni Asaph , Ragni Laura , Strader Lucia , Sade Nir , Weinstain Roy , Geisler Markus , Shani Eilon 
Published: May 2021

AbstractThe effects of abscisic acid (ABA) on plant growth, development and response to the environment depend on local ABA concentrations. Here, we exploited a genome-scale amiRNA screen, targeting theArabidopsistransportome, to show that ABA homeostasis is regulated by two previously unknown ABA transporters. ABCG17 and ABCG18 are localized to the plasma membranes of leaf mesophyll and stem cortex cells to redundantly promote ABA import, leading to conjugated inactive ABA sinks, thus restricting stomatal closure.ABCG17andABCG18double knockdown revealed that the transporters encoded by these genes not only limit stomatal aperture size, conductance and transpiration while increasing water-use efficiency but also control ABA translocation from the shoot to the root to regulate lateral root emergence. The proposed ABCG17- and ABCG18-dependent ABA glucosyl ester shoot sink mechanism is restrained under abiotic stress conditions to further activate the ABA responses.
Total Biosynthesis of Triacsin Featuring an N-hydroxytriazene Pharmacophore
Authors: Del Rio Flores Antonio , Twigg Frederick F. , Du Yongle , Cai Wenlong , Aguirre Daniel Q. , Sato Michio , Dror Moriel J. , Narayanamoorthy Maanasa , Geng Jiaxin , Zill Nicholas A. , Zhang Wenjun 
Published: May 2021

AbstractTriacsins are an intriguing class of specialized metabolites possessing a conserved N-hydroxytriazene moiety not found in any other known natural products. Triacsins are notable as potent acyl-CoA synthetase inhibitors in lipid metabolism, yet their biosynthesis has remained elusive. Through extensive mutagenesis and biochemical studies, we here report all enzymes required to construct and install the N-hydroxytriazene pharmacophore of triacsins. Two distinct ATP-dependent enzymes were revealed to catalyze the two consecutive N-N bond formation reactions, including a glycine-utilizing hydrazine-forming enzyme, Tri28, and a nitrous acid-utilizing N-nitrosating enzyme, Tri17. This study paves the way for future mechanistic interrogation and biocatalytic application of enzymes for N-N bond formation.
ThruTracker: Open-Source Software for 2-D and 3-D Animal Video Tracking
Authors: Corcoran Aaron J. , Schirmacher Michael R. , Black Eric , Hedrick Tyson L. 
Published: May 2021

AbstractTracking animal movement patterns using videography is an important tool in many biological disciplines ranging from biomechanics to conservation. Reduced costs of technology such as thermal videography and unmanned aerial vehicles has made video-based animal tracking more accessible, however existing software for processing acquired video limits the application of these methods.Here, we present a novel software program for high-throughput 2-D and 3-D animal tracking. ThruTracker provides tools to allow video tracking under a variety of conditions with minimal technical expertise or coding background and without the need for paid licenses. Notable capabilities include calibrating the intrinsic properties of thermal cameras; tracking and counting hundreds of animals at a time; and the ability to make 3-D calibrations without dedicated calibration objects. Automated 2-D and 3-D workflows are integrated to allow for analysis of largescale datasets.We tested ThruTracker with two case studies. The 2-D workflow is demonstrated by counting bats emerging from bridges and caves using thermal Videography. Tests show that ThruTracker has a similar accuracy compared to humans under a variety of conditions. The 3-D workflow is shown for making accurate calibrations for tracking bats and birds at wind turbines using only the wind turbine itself as a calibration object.ThruTracker is a robust software program for tracking moving animals in 2-D and 3-D. Major applications include counting animals such as bats, birds, and fish that form large aggregations, and documenting movement trajectories over medium spatial scales (∼100,000 m3). When combined with emerging technologies, we expect videographic techniques to continue to see widespread adoption for an increasing range of biological applications.
Have China's exports improved the export technology level of the other BRICS countries? An empirical analysis based on data from SITC
Authors: Jiang Feng , Chen Chaofan , Lan Qingxin , Zhu Zhaoyi 
Published: May 2021

PurposeThe purpose of this paper is to analyze whether China's exports can effectively improve the global competitiveness of other BRICS countries' exports from the perspective of intra-BRICS export trade.Design/methodology/approachThis paper extends the multinational trade model and analyzes the mechanism of the technological upgrading effect from the perspective of dynamic general equilibrium theory. In addition, this paper uses the export panel data of 217 products with three-digit SITC codes from China to other BRICS member countries from 2000 to 2016 and constructs a dynamic empirical model for parameter estimation.FindingsThe results show that China's exports to other BRICS member countries can effectively promote the technological improvement of other BRICS member countries' export products. In particular, the formal establishment of the BRICS organization in 2010 has significantly improved the efficiency of China's export technology optimization.Originality/valueIn the background of the prevalence of anti-globalization and the proliferation of protectionism, this paper proves that the deepening of trade cooperation between other BRICS members with China can help optimize their own international trade competitiveness and allow China's development dividend to benefit more countries and people.
Cooperative advertising and quantity discount in manufacturer-retailer supply chains
Authors: Zaheri Amin , Rafiee Majid , Kayvanfar Vahid 
Published: May 2021

Purpose
This paper aims to study the impact of existence and lack of discount on the relationships between one manufacturer and one retailer under the cooperative and the non-cooperative games and the members’ profits are compared.

Design/methodology/approach
In the first approach, the manufacturer’s price function is constant, and in the second approach, this price function is a decreasing function with respect to lot size. These approaches are modeled through three games structure, including two Stackelberg games and one cooperative game.

Findings
Some numerical instances comprising sensitivity analysis are provided, and then the members’ profits in different scenarios are compared. This paper reveals that in the presented models, whether the members are inclined to change their profits.

Practical implications
This paper presents a tool of decision-making for the type of relationships of members in two different circumstances, and an approach is also presented to maximize the members’ profit.

Originality/value
In this paper, the relationships between one manufacturer and one retailer are studied under six different circumstances, where pricing, cooperative advertising and inventory cost are considered simultaneously. Also, a different model is presented to make a balance in individual profits and gain more profit for each member compared to the cooperative and non-cooperative game.
Analysis of YouTube video contents on Koha and DSpace, and sentiment analysis of viewers' comments
Authors: Deori Maya , Kumar Vinit , Verma Manoj Kumar 
Published: May 2021

PurposeThe purpose of the study is to evaluate certain characteristics of the videos of the software Koha and DSpace posted on YouTube. Since YouTube has the potential to provide the content creator to share their knowledge and experience through their content which has become much more beneficial to the information seeker. Nowadays, people search for queries or tutorial videos on YouTube very often to earn a better understanding of the term. Sentiment analysis of the viewers' opinion of the videos is another purpose of this study.Design/methodology/approachDataset for evaluating the characteristic of the videos of Koha and DSpace was extracted by using Webometric Analyst by creating YouTube API. Once retrieval of data was completed, a manual verification was enhanced to filter out spam videos unrelated to the scope. After the confirmation of authentic relatable videos, seeking the video's id as query, the comments per video were extracted using Webometric Analyst. For opinion mining, the Parallel Dots API web service was used in Google Sheets as an addon function. The sentiment, multilingual sentiment, emotion, intention and word frequency of the viewers' opinion was examined with the help of certain default functionalities.FindingsWebometric Analyst extracted a total of 461 and 397 videos of Koha and DSpace, respectively, uploaded on the YouTube platform. The findings of the study indicate that the growth rate of videos on Koha is decreasing, while the number of videos uploaded on DSpace is gradually increased in the last 10 years. The highest number of videos posted in 1–20 min duration category with mostly high definition (HD) with standard YouTube license and prominently in the English language. The sentiment analysis of the total extracted comments on Koha and DSpace videos found to be 2043 and 862 comments, respectively, among whom “Positive” comments are mostly found and with “Happy” emotion can be highly detected with most supportive “Feedback” intention on both Koha and DSpace videos. The top word frequency signifies that the users of both the software are using the comments section of the videos on YouTube to ask and provide troubleshooting help to each other.Research limitations/implicationsThe present study has some limitations too; the dataset for the study includes only those videos whose title, description or keywords sections had the query terms “Koha” or “DSpace” there are chances that some videos would have been left out from the dataset related to these software.Originality/valueThis is the first paper to evaluate the characteristics and sentiment of both the videos Koha and DSpace. Through this, the popularity, likeness and dislike and the impact of the contents of the videos uploaded will be disclosed, and creators can make an improvement by referring this, and the seekers will adapt to the use of correct and authentic information.
Effect of nozzle diameter on mechanical and geometric performance of 3D printed carbon fibre-reinforced composites manufactured by fused filament fabrication
Authors: Chacón Jesús Miguel , Caminero Miguel Ángel , Núñez Pedro José , García-Plaza Eustaquio , Bécar Jean Paul 
Published: May 2021

PurposeFused filament fabrication (FFF) is one of the most popular additive manufacturing (AM) technologies due to its ability to build thermoplastic parts with complex geometries at low cost. The FFF technique has been mainly used for rapid prototyping owing to the poor mechanical and geometrical properties of pure thermoplastic parts. However, both the development of new fibre-reinforced filaments with improved mechanical properties, and more accurate composite 3D printers have broadened the scope of FFF applications to functional components. FFF is a complex process with a large number of parameters influencing product quality and mechanical properties, and the effects of the combined parameters are usually difficult to evaluate. An array of parameter combinations has been analysed for improving the mechanical performance of thermoplastic parts such as layer thickness, build orientation, raster angle, raster width, air gap, infill density and pattern, fibre volume fraction, fibre layer location, fibre orientation and feed rate. This study aims to assess the effects of nozzle diameter on the mechanical performance and the geometric properties of 3D printed short carbon fibre-reinforced composites processed by the FFF technique.Design methodology approachTensile and three-point bending tests were performed to characterise the mechanical response of the 3D printed composite samples. The dimensional accuracy, the flatness error and surface roughness of the printed specimens were also evaluated. Moreover, manufacturing costs, which are related to printing time, were evaluated. Finally, scanning electron microscopy images of the printed samples were analysed to estimate the porosity as a function of the nozzle diameter and to justify the effect of nozzle diameter on dimensional accuracy and surface roughness.FindingsThe effect of nozzle diameter on the mechanical and geometric quality of 3D printed composite samples was significant. In addition, large nozzle diameters tended to increase mechanical performance and enhance surface roughness, with a reduction in manufacturing costs. In contrast, 3D printed composite samples with small nozzle diameter exhibited higher geometric accuracy. However, the effect of nozzle diameter on the flatness error and surface roughness was of slight significance. Finally, some print guidelines are included.Originality valueThe effect of nozzle diameter, which is directly related to product quality and manufacturing costs, has not been extensively studied. The presented study provides more information regarding the dependence of the mechanical, microstructural and geometric properties of short carbon fibre-reinforced nylon composite components on nozzle diameter.
Sustainability strategy of Indonesian and Malaysian palm oil industry: a qualitative analysis
Authors: Wardhani Ratna , Rahadian Yan 
Published: May 2021

Purpose
Global palm oil production is growing rapidly, especially in Southeast Asia, with Indonesia and Malaysia as the biggest producers. Despite significant contributions to these countries’ economies, environmental and social aspects continue to be debated within this industry. The sustainability strategy is very important for the palm oil industry. This study aims to explore the sustainability strategy using six elements, namely, stakeholder engagement, governance and leadership, sustainability view and the economic, environmental and social strategies of Indonesian and Malaysian palm oil companies.

Design/methodology/approach
This study observes 21 Indonesian palm oil companies and 44 Malaysian palm oil companies from 2014 to 2018 with a total observation of 280 firm years. The methodology used in this study is a qualitative content analysis of six themes based on the sustainability strategy elements, which was further developed into 40 indicators. Content analysis is carried out on information published in annual reports and sustainability reports.

Findings
The study results indicate that stakeholder engagement, governance and leadership and strategic view of the palm oil companies in Indonesia and Malaysia are still likely to be weak. Palm oil companies have not demonstrated their focus on implementing economic, environmental and social strategies. Although the results indicate that there is a greater emphasis on environmental and social strategies than on economic issues, attention to both issues is still very low.

Practical implications
Palm oil companies need to integrate sustainability strategies in their business models and communicate them well to stakeholders to increase their competitive advantage in the palm oil industry. The government also needs to issue stricter rules and incentives to encourage companies to implement sustainability strategies.

Social implications
The study results provide implications for the communities around palm oil plantations to provide better social control so that companies can implement sustainability strategies in their business processes.

Originality/value
This study highlights the importance of sustainability practices integrated into palm oil companies’ business models, which have not been well implemented in the palm oil industry in the world’s largest producing countries.
Consistent pattern of higher lability of leaves from high latitudes for both native Phragmites australis and exotic Spartina alterniflora
Authors: Zhang Youzheng , Pennings Steven C. , Liu Zixia , Li Bo , Wu Jihua 
Published: May 2021

Abstract

Global variation in litter decomposition rates is driven by climate, decomposer taxa and litter quality. Most large‐scale studies of litter quality have made comparisons across species, rather than within a species sourced from different latitudes. Here, we aim to explore latitudinal variation in leaf litter decomposition rate and litter quality within a species.

We investigated whether the typical interspecific pattern of increased litter lability at higher latitudes also holds within plant species, by comparing leaf litter decomposition rates and litter traits from stands of native Phragmites australis and exotic Spartina alterniflora in Chinese coastal wetlands spanning 20° of latitude using parallel greenhouse and field transplant experiments.

We found that leaf litter from high‐latitude plants decomposed 46.6 ± 5.1% faster than that from low‐latitude conspecifics, with similar patterns in both plant species in both decomposition experiments. Higher lability of leaves from high latitudes was associated with lower levels of plant defensive compounds (phenolics and tannins) and higher levels of nutrients (Ca, Mg and Na). Litter from the exotic S. alterniflora decomposed faster than litter from the native P. australis, being consistent with lower defences and higher nutrient concentrations in S. alterniflora litter.

Our results show that individual species follow the same pattern of increasing litter lability at higher latitudes previously reported in cross‐species geographical comparisons. Moreover, this pattern can develop rapidly (<4 decades) in an introduced species, raising the question of whether it is caused by phenotypic plasticity or adaptation.

A free Plain Language Summary can be found within the Supporting Information of this article.
The influence of roots on mycorrhizal fungi, saprotrophic microbes and carbon dynamics in a low‐phosphorus Eucalyptus forest under elevated CO2
Authors: Castañeda‐Gómez Laura , Powell Jeff R. , Ellsworth David S. , Pendall Elise , Carrillo Yolima 
Published: May 2021

Abstract

Elevated atmospheric carbon dioxide (eCO2) can impact soil organic matter (SOM) dynamics by changing the rates of carbon (C) losses and gains. In the rhizosphere, these changes are usually assumed to be the result of root‐mediated eCO2 impacts on saprotrophic microbes via altered below‐ground C allocation. This C allocation can also impact mycorrhizal fungi and their role in SOM dynamics. However, direct field quantifications of the influence of roots on both mycorrhizal fungi and saprotrophs together with SOM dynamics in forests exposed to eCO2 are rare. This is especially true in phosphorus (P)‐limited systems, even though ecosystem responses to eCO2 are known to depend on P availability.

We assessed root mediation of eCO2 impacts on saprotrophs, mycorrhizal fungi, and C dynamics of root litter and mineral soil C (SOM‐C) in a mature, P‐limited Eucalyptus woodland exposed to eCO2. We used a novel nested‐mesh‐bag method to manipulate roots access to the substrates in a 1‐year field incubation. We used an isotopic approach to trace C dynamics and performed a comprehensive microbial community analysis, along with nutrients and enzymatic activity measurements.

Roots increased microbial biomass, fungal:bacterial ratio, plant‐derived C gains and substrate C losses while decreasing P availability and specific enzymatic activity. eCO2 increased bacterial relative abundance in root litter and protozoa in SOM‐C, but it did not enhance root impacts or mycorrhizal fungi biomass.

Our combination of in‐situ approaches allowed us to demonstrate that while roots have multiple impacts on soil microbial communities and C dynamics, they are not the main drivers of responses to eCO2 in this P‐limited forest. Other factors beyond enhanced root‐derived below‐ground C inputs such as seasonality of nutrient and water availability, and shifts in plant communities may be more important in modulating eCO2 impacts on soil dynamics in P‐limited systems.

​A free Plain Language Summary can be found within the Supporting Information of this article.
Potential role for the tumor suppressor CYLD in brain and notochord development
Authors: Li Te , Wang Yiyan , Li Dengwen , Zhou Jun , Zhang Bo , He Xianfei 
Published: May 2021

AbstractBackgroundThe cylindromatosis (CYLD) tumor suppressor is a microtubule‐associated deubiquitinase that plays a critical role in the regulation of cell signaling and contributes to a variety of physiological and pathological processes. However, the functions of CYLD in zebrafish are less well known, particularly with regard to their development and physiology. In this context, we investigated the loss of function of CYLD in zebrafish via transcription activator‐like effector nuclease (TALEN)‐based gene deletion.MethodsSemi‐quantitative RT‐PCR was used to quantify CYLD mRNA expression in zebrafish embryos at various developmental stages. We also performed whole‐mount in situ hybridization to further assess the dynamic expression and distribution of CYLD in the entire zebrafish embryos at different stages. In addition, we deleted CYLD in zebrafish with TALENs to investigate its potential impact on embryonic development.ResultsThe expression of CYLD mRNA varied during early embryonic development. The CYLD mRNA localized to the brain and notochord of developing zebrafish embryos. Homozygous deletion of CYLD resulted in embryonic death before 8 h post‐fertilization.ConclusionsCYLD appears to play an important role in central nervous system development in zebrafish. Although severe embryonic death restricted analysis of homozygous mutants, further research into the role of CYLD in central nervous system development is warranted.