bluuebunny/crossref_metadata_2025_split huggingface dataset:
Improving the chromosome-level genome assembly of the Siamese fighting fish (Betta splendens) in a university Master’s course
Authors: Prost Stefan , Petersen Malte , Grethlein Martin , Hahn Sarah Joy , Kuschik-Maczollek Nina , Olesiuk Martyna Ewa , Reschke Jan-Olaf , Schmey Tamara Elke , Zimmer Caroline , Gupta Deepak K. , Schell Tilman , Coimbra Raphael , De Raad Jordi , Lammers Fritjof , Winter Sven , Janke Axel 
Published: March 2020

AbstractBackgroundEver decreasing costs along with advances in sequencing and library preparation technologies enable even small research groups to generate chromosome-level assemblies today. Here we report the generation of an improved chromosome-level assembly for the Siamese fighting fish (Betta splendens) that was carried out during a practical university Master’s course. The Siamese fighting fish is a popular aquarium fish and an emerging model species for research on aggressive behaviour. We updated the current genome assembly by generating a new long-read nanopore-based assembly with subsequent scaffolding to chromosome-level using previously published HiC data.FindingsThe use of nanopore-based long-read data sequenced on a MinION platform (Oxford Nanopore Technologies) allowed us to generate a baseline assembly of only 1,276 contigs with a contig N50 of 2.1 Mbp, and a total length of 441 Mbp. Scaffolding using previously published HiC data resulted in 109 scaffolds with a scaffold N50 of 20.7 Mbp. More than 99% of the assembly is comprised in 21 scaffolds. The assembly showed the presence of 95.8% complete BUSCO genes from the Actinopterygii dataset indicating a high quality of the assembly.ConclusionWe present an improved full chromosome-level assembly of the Siamese fighting fish generated during a university Master’s course. The use of ~35× long-read nanopore data drastically improved the baseline assembly in terms of continuity. We show that relatively in-expensive high-throughput sequencing technologies such as the long-read MinION sequencing platform can be used in educational settings allowing the students to gain practical skills in modern genomics and generate high quality results that benefit downstream research projects.
Coastal development and human recreation disturbance limit Australian Pied OystercatcherHaematopus longirostrispopulation sizes on E Australian beaches
Authors: Totterman Stephen 
Published: March 2020

SUMMARYAustralian Pied OystercatchersHaematopus longirostrisand their habitat were surveyed on 72 beaches and 674 km of coastline, from Fraser Island, Queensland to near the New South Wales–Victoria state border, in 2015–2018. A grand total of 232 individual birds (the sum of mean beach counts) and 41 oystercatcher territories were counted. Regression models for mean oystercatcher count density indicated a positive response to the abundance of the surf clamDonax deltoides, a positive New South Wales Far North Coast regional effect and a negative response to the proportion of urban beach. Models for oystercatcher territory density indicated a positive Far North Coast effect and a negative response to pedestrian access density. This report upgrades the coastal development and human recreation disturbance threats for the species.
Assembly Mechanism of Mucin and von Willebrand Factor Polymers
Authors: Javitt Gabriel , Khmelnitsky Lev , Albert Lis , Elad Nadav , Ilani Tal , Diskin Ron , Fass Deborah 
Published: March 2020

SUMMARYThe respiratory and intestinal tracts are exposed to physical and biological hazards accompanying the intake of air and food. Likewise, the vasculature is threatened by inflammation and trauma. Mucin glycoproteins and the related von Willebrand factor (VWF) guard the vulnerable cell layers in these diverse systems. Colon mucins additionally house and feed the gut microbiome. Here we present an integrated structural analysis of multimerized intestinal mucin MUC2. Our findings reveal the shared mechanism by which complex macromolecules responsible for blood clotting, mucociliary clearance, and the intestinal mucosal barrier form protective polymers and hydrogels. Specifically, cryo-electron microscopy and crystal structures show how disulfide-rich bridges and pH-tunable interfaces control successive assembly steps in the endoplasmic reticulum and Golgi. Remarkably, a densely O-glycosylated mucin domain performs a specific organizational role in MUC2. The mucin assembly mechanism and its adaptation for hemostasis provide the foundation for rational manipulation of barrier function and coagulation.
X-chromosome dosage compensation dynamics in human early embryos
Authors: Huang Kevin , Zeng Qiao , Feng Yun , Hu Youjin , An Qin , Li Taibo , Qin Lian-Ju , Liu Jia-yin , Xue Zhigang , Fan Guoping 
Published: March 2020

AbstractIn mammals, female cells are obliged to inactivate one of two X chromosomes to achieve dosage parity with the single X chromosome in male cells, and it is also thought that the single active X chromosome is increased 2-fold to achieve dosage balance with two sets of autosomes (X:A ratio = 1, or Ohno’s hypothesis). However, the ontogeny of X-chromosome inactivation and augmentation of the single active X remains unclear during human embryogenesis. Here, we perform single-cell RNA-seq analysis to examine the timing of X:A balancing and X-inactivation (XCI) in pre- and peri-implantation human embryos up to fourteen days in culture. We find that X-chromosome gene expression in both male and female preimplantation embryos is approximately balanced with autosomes (X:A ratio = 1) after embryonic genome activation (EGA) and persists through fourteen daysin vitro. Cross-species analysis of preimplantation embryo also show balanced X:A ratio within the first few days of development. By single-cell mRNA SNP profiling, we find XCI beginning in day 6-7 blastocyst embryos, but does not affect X:A dosage balance. XCI is most evident in trophoectoderm (TE) cells, but can also be observed in a small number of inner cell mass (ICM)-derived cells including primitive endoderm (PE) and epiblast (EPI) cells. Analysis between individual XaXa and XaXi sister cells from the same embryo reveals random XCI and persistently balanced X:A ratio, including sister cells transitioning between XaXa and XaXi states. We therefore conclude that the male X-chromosome undergoes X chromosome augmentation prior to the simultaneous X-chromosome inactivation and augmentation in females. Together, our data demonstrate an evolutionally conserved model of X chromosome dosage compensation in humans and other mammalian species.
A Single Membrane Protein Required for Atrial Secretory Granule Formation
Authors: Bäck Nils , Luxmi Raj , Powers Kathryn G. , Mains Richard E. , Eipper Betty A. 
Published: March 2020

AbstractThe discovery of atrial secretory granules and the natriuretic peptides stored in them identified the atrium as an endocrine organ. Although neither atrial nor brain natriuretic peptide (ANP, BNP) is amidated, the major membrane protein in atrial granules is Peptidylglycine α-Amidating Monooxygenase (PAM), an enzyme essential for amidated peptide biosynthesis. Mice lacking cardiomyocyte PAM (PamMyh6-cKO/cKO) are viable, but a gene dosage-dependent drop in atrial ANP and BNP content occurred. Ultrastructural analysis of adultPamMyh6-cKO/cKOatria revealed a 20-fold drop in the volume fraction of secretory granules and a decrease in peripherally localized Golgi complexes. When primary cultures ofPam0-Cre-cKO/cKOatrial myocytes (PAM floxed, no Cre recombinase) were transduced with Cre-GFP lentivirus, PAM protein levels dropped, followed by a decline in proANP levels. Expression of exogenous PAM inPamMyh6-cKO/cKOatrial myocytes produced a dose-dependent increase in proANP content. Strikingly, rescue of proANP content did not require the monooxygenase activity of PAM. Unlike many prohormones, atrial proANP is stored intact and its basal secretion is stimulated by drugs that inhibit Golgi-localized Arf activators. Increased basal secretion of proANP was a major contributor to its reduced levels inPamMyh6-cKO/cKOmyocytes; the inability of these drugs to inhibit basal proANP secretion byPamMyh6-cKO/cKOmyocytes revealed a role for COPI-mediated recycling of PAM to the endoplasmic reticulum. Analysis of atrial coated vesicles and the ability PAM to make fluorescently-tagged proANP accumulate in thecis-Golgi region of cells lacking secretory granules revealed a non-catalytic role for PAM in soluble cargo trafficking early in the secretory pathway.SignificanceTransmission electron microscopy of atrial cardiomyocytes revealed dense granules resembling those in endocrine cells and neurons, leading to the discovery of the natriuretic peptides stored in these granules. Subsequent studies revealed features unique to atrial granules, including high level expression of Peptidylglycine α-Amidating Monooxygenase (PAM), an enzyme required for the synthesis of many neuropeptides, but not for the synthesis of natriuretic peptides. The discovery that atrial myocytes lacking PAM are unable to produce granules and that PAM lacking its monooxygenase activity can rescue granule formation provides new information about the proANP secretory pathway. A better understanding of the unique features of atrial cell biology should provide insight into atrial fibrillation, the most common cardiac arrhythmia, atrial amyloidosis and heart failure.
Asymmetric forks: dilemmas, paradoxes and moral imagination in food sustainability
Authors: Cortese Damiano , Murdock Alex 
Published: March 2020

PurposeThe paper suggests moral imagination as an approach to picture sustainable scenarios in the food industry, which are based on knowledge sharing among stakeholders and knowledge management. This can lead to a wider awareness, consequently a deeper understanding and finally more sustainable behaviors and choices in the food sector.Design/methodology/approachThe research paper analyzes the relevant literature on sustainability, stakeholder theory, knowledge management and moral imagination. It proposes a moral imagination process and provides some cases to clarify its applicability.FindingsInter-stakeholder shared knowledge and consequent knowledge management can lead to the projection of more aware sustainable scenarios over time, overcoming a short-sighted or partial vision. The process of moral imagination can be an approach and tool for coping with sustainability-related critical issues, challenges and dilemmas in the food sector.Research limitations/implicationsThe article is a research paper, but the suggested process of moral imagination intends to provoke further reasoning and contributions to moral imagination and the stakeholders' role, responsibility and awareness related to sustainability in the food industry.Practical implicationsEven if theoretical, the paper can have well replicable managerial implications and applications in the design of sustainable scenarios in the food sector overcoming the asymmetries and bias. In particular, it is very useful conceiving the choices and outlining the behaviors upon which the firm's actions are based.Originality/valueThe article considers the broad spectrum of sustainability and its wide global reflection as well as the role of all stakeholders without a solely strategic focus and implications.
Attention to ideas! Exploring idea survival in internal crowdsourcing
Authors: Di Vincenzo Fausto , Mascia Daniele , Björk Jennie , Magnusson Mats 
Published: March 2020

PurposeThis paper analyzes how the distribution and structure of employees' attention influence idea survival in an organizational internal crowdsourcing session.Design/methodology/approachData from an online internal crowdsourcing session carried out within a multinational company with headquarters in Sweden were used to explore how idea attention influenced idea survival.FindingsOur findings indicate that the positive relationship between attention allocation and idea survival is mediated by idea appreciation, i.e. positive comments and suggestions that employees provide in response to ideas. In addition, we find that competition for attention negatively moderates the relationship between idea attention and positive comments. Finally, our results indicate that ideas are more likely to survive if they are submitted earlier in the crowdsourcing process and when the elapsed time since previously posted ideas in the session is longer.Practical implicationsThis study provides organizers of internal crowdsourcing sessions with new insights about factors influencing idea survival and about potential systematic biases in idea selection due to timing and competition between ideas.Originality/valueThis paper contributes to the literature highlighting the relevance of attention-based theory in the context of crowd-based creativity and innovation management.
Post M&A innovation in family firms
Authors: Issah Abdul-Basit 
Published: March 2020

PurposeThe paper empirically investigates how family firms appropriate acquired resources to become more innovative in the context of merger waves. It draws on resource-based view and the theory of first mover (dis)advantages to examine the implications of the timing of acquisitions on innovation in family firms.Design/methodology/approachThe paper uses a panel data set of Standard & Poor's (S&P) 500 manufacturing firms followed over a period of 31 years.FindingsThe study finds empirical support for the predictions that family firms are more able to utilize acquired resources better than nonfamily firms. Furthermore, targets acquired during the upswing of a merger wave are more valuable to family firms and associated with more innovation than for nonfamily firms.Originality/valueThe paper establishes that resources acquired during the upswing of a merger wave are more valuable, provide better resource synergies and impact innovation positively in family firms than nonfamily firms. Second, the paper makes an empirical contribution that family firms absorb external resources markedly differently and more efficiently than nonfamily firms. Third, the paper enhances a better understanding of the influence of family ownership on the relationship between acquisitions and innovation outputs.
Consequences and determinants of IFRS convergence in India
Authors: Tawiah Vincent , Boolaky Pran 
Published: March 2020

Purpose
The purpose of this paper is to provide evidence of how convergence to International Financial Reporting Standards (IFRS) impacts accounting values and the determinants of variation in equity adjustments among Indian companies.

Design/methodology/approach
Using a sample of 323 listed companies, the authors empirically test whether there is a significant difference between converged IFRS (Ind.AS) and Indian Generally Accepted Accounting Principles (GAAP) (AS) reported figures and ratios and why companies adjust differently.

Findings
This paper reveals that fair valuation under Ind.AS causes a significant decrease in goodwill. A substantial decrease in both current and long-term liabilities because of non-recognition of proposed dividend, discounting of long-term provision per Ind.AS was also found. The variations in equity adjustment were significantly influenced by capital structure, level of family control and auditor type.

Practical implications
This paper provides insights to users who are interested in historical data, that Ind.AS brings significant changes in the accounting values and ratios and the impact differs among companies based on capital structure, ownership and auditor type.

Originality/value
This paper contributes to the literature of IFRS convergence in India by providing rational analysis of the differences between IFRS, Indian converged GAAP and Indian local GAAP among companies and its impact on accounting values.
Rave and hardstyle festival attendance motivations: a case study of Defqon.1 weekend festival
Authors: Muhs Christina , Osinaike Adesola , Thomas Lorna 
Published: March 2020

PurposeThis paper explores the factors motivating people to attend the Dutch hardstyle festival, Defqon.1. This paper delivers new insights to festival attendance by including social and cultural factors in the motivational dimensions and considering a niche electronic music festival.Design/methodology/approachThis research utilised qualitative methods to identify and gain detailed information about attendee's visitor motives. Eleven semi-structured in-depth interviews which focus on the influence of intangible features of visitor motivations were conducted.FindingsThe research result revealed an increased influence of social factors and decreased the effect of all other visitor motives. The subcultural ties amongst members of the hardstyle scene were identified as stronger than the ones of different electronic music scenes. The study concluded that social factors, such as friendships gain significant importance for stimulating return visits.Originality/valueContemporary music festivals, especially electronic events have not comprehensively been researched. Also, the effects of social and cultural factors on festival attendance have previously been neglected in research. Studies on popular electronic music genres, such as rave and hardcore, are from a sociological viewpoint. These studies revealed motivations of members of the subculture to be a part of the scene and to attend events.
Standardizing inpatient colonoscopy preparations improves quality and provider satisfaction
Authors: Sullivan Brian , Zhang Cecelia , Wegermann Kara , Lee Tzu-Hao , Leiman David A. 
Published: March 2020

PurposeInpatient colonoscopy bowel preparation quality is frequently suboptimal. This quality improvement (QI) intervention is focused on regimenting this process to impact important outcomes.Design/methodology/approachDefine, Measure, Analyze, Improve and Control (DMAIC) methodology was employed, including generating a root-cause analysis to identify factors associated with inpatient bowel quality. These findings motivated the creation of a standardized electronic health record (EHR)-based order set with consistent instructions and anticipatory guidance for administering providers.FindingsThere were 264 inpatient colonoscopies evaluated, including 198 procedures pre-intervention and 66 post-intervention. The intervention significantly improved the adequacy of right colon bowel preparations (75.0 percent vs 86.9 percent,p = 0.04) but not overall preparation quality (73.7 percent vs 80.3 percent,p = 0.22). The intervention led to numerical improvement in the proportion of procedures in which the preparation quality interfered with making a diagnosis (10 percent–6 percent,p = 0.29) or resulted in an aborted procedure (3.5 percent–1.5 percent,p = 0.39). After the intervention, provider satisfaction with the ordering process significantly increased (23.3 percent vs 61.1 percent,p < 0.001).Practical implicationsThe QI intervention significantly reduced the number of inpatient colonoscopies with inadequate preparation in the right colon, while also modestly improving the diagnostic yield and proportion of aborted procedures. Importantly, the standardized EHR order set substantially improved provider satisfaction, which should justify broader use of such tools.Originality/valueNovel clinical outcomes such as ability to answer diagnostic questions were improved using this intervention. The results align with strategic goals to enhance provider experience and continuously improve quality of patient care.
Contrasting emotional labor and burnout in civilian and sworn law enforcement personnel
Authors: Adams Ian T. , Mastracci Sharon H. 
Published: March 2020

PurposeThis study introduces emotional labor into an analysis of multiple dimensions of burnout in sworn and civilian employees across three law enforcement agencies.Design/methodology/approachUsing data from a survey of law enforcement employees in a metropolitan police department, a full-service sheriff's department, and a state corrections agency located in the western United States (n = 1,921), we test the explanatory power of an emotional labor-based model of burnout.FindingsResults partially confirm the lone prior study to examine civilian and sworn personnel. Sworn and civilian employees experience variant levels of emotional exhaustion and depersonalization, though the underlying emotional labor correlates are significantly related to burnout for both groups. Further, we extend prior results by capturing multiple facets of burnout as well as contributing an emotional labor explanation for burnout, while controlling for individual demographic characteristics and agency type.Research limitations/implicationsLaw enforcement agencies rely upon non-sworn employees to support their missions. The experience of non-sworn law enforcement personnel is under-researched in both the emotional labor and law enforcement organizational literature. Burnout is a phenomenon that has high costs for both employees and organizations, particularly in the law enforcement context. Investigating the emotional labor experience of employees is critical for practitioners who are tasked with effectively managing both groups.Originality/valueOne previous study has investigated the emotional labor of civilians in law enforcement and used community-level predictions for burnout. This study builds on those findings by capturing two facets of burnout rather than the lone gauge of burnout used in the previous study. Furthermore, we use an emotional labor model to investigate emotional exhaustion and depersonalization reported by sworn and civilian personnel.
Inter‐hospital variation in use of obstetrical blood transfusion: a population‐based cohort study
Authors: Hutcheon JA , Chapinal N , Skoll A , Au N , Lee L 
Published: March 2020

ObjectiveTo identify the extent of hospital‐to‐hospital variation in use of obstetrical blood transfusion.DesignPopulation‐based cohort study linking provincial perinatal and blood transfusion registries.SettingBritish Columbia, Canada, 2004–2015.PopulationAll pregnant women delivering at or beyond 20 weeks’ gestation at any British Columbia hospital.MethodsMixed‐effects regression models were used to estimate hospital‐specific transfusion rates after sequentially accounting for (1) the role of random variation, (2) maternal medical and obstetrical characteristics (i.e. patient case mix) and (3) institutional and delivery factors (such as use of instrumental or caesarean delivery).Main outcome measuresHospital‐specific use of obstetrical red blood cell transfusion.ResultsAmong 44 hospitals, crude institutional transfusion rates across the study period ranged from 3.7 to 23.6 per 1000, with an average of 8.3 per 1000. After adjusting for maternal characteristics, institution and delivery risk factors, a nearly three‐fold difference in rates between the 10th and 90th percentile remained (5.4–14.5 per 1000). Twelve sites had rates significantly higher or lower than the provincial average. Women residing in remote areas were 2.5‐fold (95% CI 1.8–3.5] more likely to receive a blood transfusion than were women residing in metropolitan areas.ConclusionsMeaningful variation between hospitals in use of blood transfusion during pregnancy was not explained by differences in patient case‐mix or institutional factors, suggesting that over‐ or under‐utilisation of this resource may be occurring in obstetrical care.Tweetable abstractUse of blood transfusion in pregnant women varied broadly between hospitals in British Columbia, Canada.