bluuebunny/crossref_metadata_2025_split huggingface dataset:
Resolving ancient gene transfers clarifies the early co-evolution of eukaryotes and giant viruses
Authors: Karki Sangita , Aylward Frank O. 
Published: July 2023

AbstractMembers of the phylumNucleocytoviricota, also called “giant viruses” due to their large physical dimensions and genome lengths, are a diverse group of dsDNA viruses that infect a wide range of eukaryotic hosts. Nucleocytoviruses likely evolved from smaller viruses, but the timing of their emergence and its relationship to the early evolution of eukaryotes remains unclear. Recent work has shown that the genomes of nucleocytoviruses often encode Eukaryotic Signature Proteins (ESPs) - including histones, vesicular trafficking factors, cytoskeletal components, and elements of RNA and DNA processing - that occur only rarely outside of eukaryotes. To investigate patterns of gene exchange between viruses and eukaryotes and possibly shed light on the early evolution of both, we examined the occurrence of viral-encoded ESPs (vESPs) and performed a comprehensive phylogenetic reconstruction on a subset that are widespread in nucleocytoviruses. Our results demonstrate that vESPs involved in cytoskeletal structure, ubiquitin system, and vesicular trafficking were acquired multiple times independently by nucleocytoviruses at different timepoints after the emergence of the eukaryotic supergroups. In contrast, vESPs involved in DNA and RNA processing are placed deep in their respective phylogenies, indicative of ancient gene exchange between nucleocytoviruses and eukaryotes. Examination of vESPs that could be rooted in archaea revealed that nucleocytoviruses likely acquired some of these genes prior to the emergence of the last eukaryotic common ancestor (LECA). Importantly, our findings also suggest that the eukaryotic delta DNA polymerase was acquired from nucleocytoviruses sometime during eukaryogenesis, underscoring the importance of viruses for early eukaryotic evolution. Collectively, these results suggest that gene exchange between nucleocytoviruses and eukaryotes played important roles in the evolution of both prior to the emergence of LECA.
The AAA+ protein Msp1 recognizes substrates by a hydrophobic mismatch
Authors: Fresenius Heidi L. , Gaur Deepika , Smith Baylee , Acquaviva Brian , Wohlever Matthew L. 
Published: July 2023

AbstractAn essential aspect of protein quality control is enzymatic removal of membrane proteins from the lipid bilayer. Failures in this essential cellular process are associated with neurodegenerative diseases and cancer. Msp1 is a AAA+ (ATPases Associated with diverse cellular Activities) protein that removes mistargeted proteins from the outer mitochondrial membrane (OMM). How Msp1 selectively recognizes and extracts substrates within the complex OMM ecosystem, and the role of the lipid bilayer on these processes is unknown. Here, we describe the development of fully defined, rapid, and quantitative extraction assay that retains physiological substrate selectivity. Using this new assay, we systematically modified both substrates and the lipid environment to demonstrate that Msp1 recognizes substrates by a hydrophobic mismatch between the substrate TMD and the lipid bilayer. We further demonstrate that the rate limiting step in Msp1 activity is extraction of the TMD from the lipid bilayer. Together, these results provide foundational insights into how the lipid bilayer influences AAA+ mediated membrane protein extraction.
Chromatin remodeling of histone H3 variants underlies epigenetic inheritance of DNA methylation
Authors: Lee Seung Cho , Adams Dexter W. , Ipsaro Jonathan J. , Cahn Jonathan , Lynn Jason , Kim Hyun-Soo , Berube Benjamin , Major Viktoria , Calarco Joseph P. , LeBlanc Chantal , Bhattacharjee Sonali , Ramu Umamaheswari , Grimanelli Daniel , Jacob Yannick , Voigt Philipp , Joshua-Tor Leemor , Martienssen Robert A. 
Published: July 2023

SummaryEpigenetic inheritance refers to the faithful replication of DNA methylation and histone modification independent of DNA sequence. Nucleosomes block access to DNA methyltransferases, unless they are remodeled by DECREASE IN DNA METHYLATION1 (DDM1Lsh/HELLS), a Snf2-like master regulator of epigenetic inheritance. We show that DDM1 activity results in replacement of the transcriptional histone variant H3.3 for the replicative variant H3.1 during the cell cycle. Inddm1mutants, DNA methylation can be restored by loss of the H3.3 chaperone HIRA, while the H3.1 chaperone CAF-1 becomes essential. The single-particle cryo-EM structure at 3.2 Å of DDM1 with a variant nucleosome reveals direct engagement at SHL2 with histone H3.3 at or near variant residues required for assembly, as well as with the deacetylated H4 tail. An N-terminal autoinhibitory domain binds H2A variants to allow remodeling, while a disulfide bond in the helicase domain is essential for activityin vivoandin vitro. We show that differential remodeling of H3 and H2A variantsin vitroreflects preferential depositionin vivo. DDM1 co-localizes with H3.1 and H3.3 during the cell cycle, and with the DNA methyltransferase MET1Dnmt1. DDM1 localization to the chromosome is blocked by H4K16 acetylation, which accumulates at DDM1 targets inddm1mutants, as does the sperm cell specific H3.3 variant MGH3 in pollen, which acts as a placeholder nucleosome in the germline and contributes to epigenetic inheritance.
Mitochondrial proteostasis mediated by CRL5Ozzand Alix maintains skeletal muscle function
Authors: Campos Yvan , Rodriguez-Enriquez Ricardo , Palacios Gustavo , Van de Vlekkert Diantha , Qiu Xiaohui , Weesner Jayce , Gomero Elida , Demmers Jeroen , Bertorini Tulio , Opferman Joseph T. , Grosveld Gerard C. , d’Azzo Alessandra 
Published: July 2023

SUMMARYHigh energy-demanding tissues, such as skeletal muscle, require mitochondrial proteostasis to function properly. Two quality-control mechanisms, the ubiquitin proteasome system (UPS) and the release of mitochondria-derived vesicles, safeguard mitochondrial proteostasis. However, whether these processes interact is unknown. Here we show that the E3 ligase CRL5Ozz, a member of the UPS, and its substrate Alix control the mitochondrial concentration of Slc25A4, a solute carrier that is essential for ATP production. The mitochondria inOzz−/−orAlix−/−skeletal muscle share overt morphologic alterations (they are supernumerary, swollen, and dysmorphic) and have abnormal metabolomic profiles. We found that CRL5Ozzubiquitinates Slc25A4 and promotes its proteasomal degradation, while Alix facilitates SLC25A4 loading into exosomes destined for lysosomal destruction. The loss of Ozz or Alix offsets steady-state levels of Slc25A4, which disturbs mitochondrial metabolism and alters muscle fiber composition. These findings reveal hitherto unknown regulatory functions of Ozz and Alix in mitochondrial proteostasis.
The contribution of gene flow, selection, and genetic drift to five thousand years of human allele frequency change
Authors: Simon Alexis , Coop Graham 
Published: July 2023

AbstractGenomic time series from experimental evolution studies and ancient DNA datasets offer us a chance to directly observe the interplay of various evolutionary forces. We show how the genome-wide variance in allele frequency change between two time points can be decomposed into the contributions of gene flow, genetic drift, and linked selection. In closed populations, the contribution of linked selection is identifiable because it creates covariances between time intervals, and genetic drift does not. However, repeated gene flow between populations can also produce directionality in allele frequency change, creating covariances. We show how to accurately separate the fraction of variance in allele frequency change due to admixture and linked selection in a population receiving gene flow. We use two human ancient DNA datasets, spanning around 5,000 years, as time transects to quantify the contributions to the genome-wide variance in allele frequency change. We find that a large fraction of genome-wide change is due to gene flow. In both cases, after correcting for known major gene flow events, we do not observe a signal of genome-wide linked selection. Thus despite the known role of selection in shaping long-term polymorphism levels, and an increasing number of examples of strong selection on single loci and polygenic scores from ancient DNA, it appears to be gene flow and drift, and not selection, that are the main determinants of recent genome-wide allele frequency change. Our approach should be applicable to the growing number of contemporary and ancient temporal population genomics datasets.Significance statementThe relative contribution of random genetic drift and natural selection to the change in allele frequencies through time is a long standing question in Evolutionary Biology. We show through theory and simulation how genomic time series – such as ancient DNA datasets – can be used to decompose the genome-wide contributions of selection, gene flow, and genetic drift to allele frequency change. We apply these methods to two time time series from ancient Europeans and show that gene flow accounts for most allele frequency change over the last few thousand years, with genetic drift and not selection making up much of the rest of the contribution to genome-wide evolutionary change.
Arbuscular mycorrhiza convey significant plant carbon to a diverse hyphosphere microbial food web and mineral-associated organic matter
Authors: Kakouridis Anne , Yuan Mengting , Nuccio Erin E. , Hagen John A. , Fossum Christina A. , Moore Madeline L. , Estera-Molina Katerina Y. , Nico Peter S. , Weber Peter K. , Pett-Ridge Jennifer , Firestone Mary K. 
Published: July 2023

SummaryArbuscular mycorrhizal fungi (AMF) transport substantial plant carbon (C) that serves as a substrate for other soil organisms, a precursor of soil organic matter (SOM), and a driver of soil microbial dynamics. Using two-chamber microcosms where an air gap isolated AMF from roots, we13CO2-labeledAvena barbatafor six weeks and measured. the CRhizophagus intraradicestransferred to SOM and hyphosphere microorganisms.NanoSIMS imaging, IRMS,13C NMR, and SOM density fractionation showed hyphae and roots had similar13C enrichment. AMF transferred 0.77 mg C per g of soil (increasing total C by 2%); 33% was found in occluded or mineral-associated pools, primarily as carbohydrates.In the AMF hyphosphere, there was no overall change in community diversity but 36 bacterial ASVs significantly changed in relative abundance. With stable isotope probing (SIP)-enabled shotgun sequencing, we found taxa from the Solibacterales, Sphingobacteriales, Myxococcales and Nitrososphaerales (ammonium oxidizing archaea) were highly enriched in AMF-imported13C (>20 atom%). Mapping13C-enriched metagenome-assembled genomes to total ASVs showed at least 92 bacteria and archaea were significantly13C-enriched.Our results illustrate the quantitative impact of hyphal C transport on the formation of potentially protective SOM pools and indicate microbial roles in the AMF hyphosphere soil food web.
How broadcasters' characteristics affect viewers' loyalty: the role of parasocial relationships
Authors: Liu Wei , Wang Zongshui , Jian Ling , Sun Zhuo 
Published: July 2023

PurposeThis study applies parasocial relationship theory to identify the role of broadcaster characteristics in the highly interactive business setting of live streaming commerce.Design/methodology/approachA total of 401 online questionnaires were distributed to individuals with live streaming showroom shopping experience, and SmartPLS software was used to analyse the data and test the hypotheses.FindingsBroadcasters' characteristics are positively associated with viewers' parasocial relationships, thus further enhancing viewers' attitudinal and behavioural loyalty towards that broadcaster's streams. Parasocial relationships mediate the effects of most broadcaster characteristics (except for expertise) on attitudinal and behavioural loyalty. In addition, parasocial relationships have a stronger positive effect on viewer behaviours for hedonic products and under high match-up.Originality/valueThe broadcaster is a key indicator of the success of live streaming commerce. This study establishes a well-organized framework to understand how broadcaster characteristics influence viewer loyalty towards that broadcasters' streams based on parasocial relationship theory.
Credit default swaps, investor protection, and audit cost: international evidence
Authors: Akorsu Patrick Kwashie 
Published: July 2023

PurposeCredit Default Swap (CDS) trading alters equilibrium interactive monitoring of external corporate monitors due to a possible change in private lenders' incentive to monitor client firms. This study explores how audit fees change in response to CDS trade initiation on client firms and how this effect is moderated by investor protection.Design/methodology/approachWith 6,052 cross-country firm observations, the author conducts estimations in the systems dynamic general methods of moments framework.FindingsThe author documents that audit fees rise on average after CDS trade initiations with and/or without investor protection. Meanwhile, change in auditors' risk perception result in increased audit costs when CDS trade initiation and investor protection interact. The effect of CDS trading on audit fees remain after controlling for firm, audit, and auditor features are robust to different proxies of audit cost.Practical implicationsThe need for firms in high investor protection jurisdictions to initiate CDS trade to implement policies in order to maximize their gains from investor protection activities to lessen the overall impact of any increased audit cost that may arise. Furthermore, CDS regulation may be strategically targeted to lessen the effect of increased audit costs on firms after initiation. This would ensure that the resulting increase in audit cost may not materially impact the cash or profitability position of such firms.Originality/valueThis study is distinct from previous ones by focusing on variation in private lenders incentive to monitor after CDS trade initiation after controlling for possible monitoring by short-term creditors. Given that monitoring is not costless for private lenders and CDS trading on their borrowers causes a change in this cost structure, the author documents how auditors react to such changes in incentive to monitor.
What drives consumers to use P2P payment systems? An analytical approach based on the stimulus–organism–response (S-O-R) model
Authors: Irimia-Diéguez Ana , Liébana-Cabanillas Francisco , Blanco-Oliver Antonio , Lara-Rubio Juan 
Published: July 2023

PurposeTraditional payment systems based on cash and bank cards are being replaced by new innovative formats. This research analyzes the success factors in the adoption by customers of Bizum, a peer-to-peer (P2P) mobile payment system widely used in Spain. This study proposes a theoretical framework based on the Stimulus–Organism–Response (S-O-R) model and includes the analysis of the moderating effect of perceived risk and the mediating effect of perceived trust.Design/methodology/approachTo achieve the proposed objectives, an online questionnaire was administered to 701 Spanish smartphone users, potential users of the proposed P2P payment systems.FindingsThe results show that perceived usefulness is the most important predictor of intention to use. Additionally, a medium predictive relevance performance of the proposed model is found.Originality/valueThis research contributes to a more holistic understanding of the adoption of P2P payment systems and provides new business opportunities that companies can exploit through the use of this technology.
Green human resource management and environmental performance: mediating role of green innovation – a study from an emerging country
Authors: Rana Geeta , Arya Vikas 
Published: July 2023

PurposeThis study sought to determine the role of green human resource management (GHRM) in fostering employees' environmental performance (ENVP). This study aims to advance knowledge related to the role of firms’ GHRM activities in cultivating eco-responsible behaviors among employees, considering green innovation (GI) as a mediator.Design/methodology/approachFor this study, data of 579 respondents were collected from employees working in the manufacturing industry in India. In all, 579 employees from the manufacturing sector in India participated in the study. The proposed model was tested using SMART PLS 3.3.FindingsThe findings of this study stated that GHRM was found significantly to predict ENVP in the Indian manufacturing industry, and GI exhibited partial mediation. This study emphasizes that GHRM activities carried out by firms encourage employees to engage in innovation to develop green products and find novel green operation processes to improve firms’ ENVP.Research limitations/implicationsAs this study is limited to manufacturing organizations in India, the results of this study cannot be generalized; future studies may examine the proposed model in different contexts to generalize findings.Originality/valueThis study encourages policymakers to devise laws to enable organizations to implement GHRM practices. This study contributes to the existing literature on the environmental aspects of corporate social responsibility and environmental management. This study is one of the few attempts that seek to assess the relationship between GHRM, ENVP and GI in the Indian manufacturing industry. The contribution of this paper is significant to limit GHRM literature, as it empirically investigates the association between GHRM and ENVP.
Understanding knowledge hiding in organizations: a bibliometric analysis of research trends between 2005 and 2022
Authors: Farooq Rayees , Durst Susanne 
Published: July 2023

PurposeConsidering the increasing interest devoted to knowledge hiding in the workplace and academic research, the aim of this study is to analyze the existing literature on knowledge hiding to understand and trace how it has evolved over time and to uncover emerging areas for future research.Design/methodology/approachThe study used performance analysis and science mapping to analyze a sample of 243 studies published between 2005 and 2022. The study focused on analyzing the scientific productivity of articles, themes and authors.FindingsThe results of performance and science mapping analysis indicate that the concept of knowledge hiding behavior evolved recently and a majority of the studies have been conducted in the past decade. The study found that knowledge hiding is still in its infancy and has been studied in relation to other themes such as knowledge sharing, knowledge management, knowledge withholding and knowledge transfer. The study identified emerging themes, productive authors and countries, affiliations, collaboration network of authors, countries and institutions and co-occurrence of keywords.Originality/valueCompared to the recent developments in the knowledge hiding behavior, the present study is more comprehensive in terms of the methods and databases used. The results of the study contribute to the existing literature on knowledge hiding and knowledge withholding.
The impact of Covid-19 on struggling ethnic minority entrepreneurs' business strategy: the case of Bangladeshi curry houses in the United Kingdom
Authors: Razzak B M , Idris Bochra , Hasan Rahaman , Saridakis George , Hansen Jared M. 
Published: July 2023

PurposeThis paper outlines ways in which struggling ethnic minority entrepreneurial service ventures and their owners might respond to unforeseen economic and social shocks. Interviews with owners of Bangladeshi Curry Houses in the United Kingdom — whom historically have lower performance rates compared to other ethnic minority businesses in the country — reveal that the entrepreneurs' response strategies undertaken to survive and remain in the business despite the challenges faced from operating in a turbulence environment.Design/methodology/approachThe authors conducted depth phone interviews with owners of Bangladeshi Curry Houses in London during January and February of 2021. The Gioia methodology was applied to the interview scripts to identify which crisis themes exist.FindingsDespite no advanced educational training, Bangladeshi owners have applied all of the different crisis management techniques present in larger companies: retrenchment, persevering, innovation, and exit. Although the results show that government schemes aimed at helping small businesses have contributed significantly to their survival, concerns regarding the post-health crisis situation remain challenging and threatening for their growth and survivability.Originality/valueThe results indicates that the ethnic minority owned small and medium-sized enterprises (SMEs) are less likely to plan for the future operations; furthermore, they tend not to have formulated a strategy for dealing with an external shock hence affecting and threatening their performance and competitiveness in the marketplace.
Bibliometric analysis of value-added tax research: a comparative study between European Union and Gulf Cooperation Council countries
Authors: Al Mazroui Tif Said Suhail , Thottoli Mohammed Muneerali , Al Alawi Maathir Mohammed Saud , Al Shukaili Noor Talal Hamed , Al Hoqani Duaa Suleiman Amur 
Published: July 2023

Purpose
This study aims to compare recent topics on value-added tax (VAT) in the European Union (EU) and Gulf Cooperation Council (GCC), understand the differences in VAT discourses between the two regions and explore the connection between research agendas, institutional legacies and semantic output in the field of VAT in each territory.

Design/methodology/approach
A bibliometric study was conducted using R programming. The data were gathered from the Scopus database, which contains 99 English-language publications with publication dates ranging from 1996 to 2022 (87 of which are from the EU and 12 from the GCC). Information about publications, journals, authors and citations is gathered, validated, cross-referenced and analyzed using bibliometric metrics.

Findings
The results highlight two ideal research contexts for studying VAT: the EU countries approach VAT research with a centralized, pluralistic and quantitative focus, while the GCC countries adopt a centralized, qualitative and practically oriented approach, highlighting distinct research goals, collaboration styles and institutional legacies. The authors extend their result findings to broader discussions on competing knowledge systems in VAT, the significance of the state and the level of autonomy within tax governance after identifying the most popular issues among scholars working in GCC and EU countries.

Research limitations/implications
Although the focus of this analysis is restricted to the GCC and EU, it includes theoretical recommendations for broadening its application to other nations. Researchers from the GCC and the EU may benefit from this study by gaining more about VAT and being encouraged to share their research with young researchers. The study’s findings are relevant and important for comprehending the comparative state of research on VAT in GCC and EU countries, tax fields, publications and institutions.

Originality/value
This study analyzes the VAT systems of the GCC and the EU while identifying the intellectual structure of the field from each author’s point of view, revealing the scientometrics and informetrics intellectual structures in detail.