bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Novel Endogenous Retroviruses in Anura
Authors: Free Hayley Beth , Nichols Richard , Kanda Ravinder 
Published: July 2024

AbstractEndogenous retroviruses (ERVs) represent remnants of past retroviral infections and have had a pivotal role in vertebrate evolution, contributing toward the generation of novel genes and regulatory elements. The majority of ERV research to date has had a mammalian focus; Anurans (the order of amphibians consisting of frogs and toads) are comparable in genome size and number of extant species and yet very few ERVs have been described in this order. Under the current classification, alpharetroviruses appear to be avian-specific; here we screened 47 publicly available Anuran genomes for alpharetroviruses using a bioinformatic pipeline. Both truncated and full-length ERV elements were identified through this screening process which were represented by multiple loci. Ten families of novel Anuran ERVs (AnERV1-10) with intact viral genes were identified in 11 anuran species, some of which are shared between multiple species. Furthermore, based on conserved domain and phylogenetic analysis, all ten novel ERV families appeared in recombined states. This included two families with alpharetrovirus classified Env proteins, although the majority had epsilonretrovirus classified Pol and gammaretrovirus classified Env proteins. These findings extend the pattern of recombination presented in two other Anuran ERVs and adds to the complex evolutionary history of retroviruses. These results suggest that analysis of other vertebrate groups beyond the mammals would provide new information on the presence and state of ERVs, providing further evidence of the modes of ERV evolution within host genomes and their role in the diversification of the vertebrate tree of life.
De novosynthesis of fatty acids in Archaea via an archaeal fatty acid synthase complex
Authors: Schmerling Christian , Zhou Xiaoxiao , Görs Paul E. , Köstlbacher Stephan , Kessenbrock Till , Podlesainski David , Sybers David , Wang Kun , Lindås Ann-Christin , Snoep Jacky L. , Peeters Eveline , Kaiser Markus , Ettema Thijs J.G. , Meckelmann Sven W. , Bräsen Christopher , Siebers Bettina 
Published: July 2024

AbstractArchaea synthesize membranes using isoprenoid-based ether lipids, whereas Bacteria and Eukarya usefattyacid-based ester lipids. While the factors responsible for this “lipid divide” remain unclear, this has important implications for understanding the evolutionary history of eukaryotes, which likely originated from within the Archaea and therefore changed membrane composition from isoprenoid-based to fatty acid-based lipids. Here, using13C labelling studies, we demonstrate that the archaeal model organismsSulfolobus acidocaldariusandHaloferax volcaniiare capable ofde novofatty acid synthesis. Biochemical characterization andin vitropathway reconstitution identify the key enzymes of a newly proposed fatty acid synthesis pathway inS. acidocaldariusand show that ketothiolase, ketoacyl-CoA reductase, and hydroxyacyl-CoA dehydratase form a stable assembly mediated by a DUF35 domain protein, which represents the first characterization of an archaeal fatty acid synthase complex. The final step is catalysed by an NADPH-dependent enoyl-CoA reductase. Deletion of the enoyl-CoA reductase demonstrate that this pathway operatesin vivoin S. acidocaldarius. The presented results including phylogenetic analysis reveal that the potential to synthesize fatty acids is widespread across archaeal lineages. Collectively, our findings demonstrate that archaea are capable of synthesizing fatty acids, elucidate the molecular mechanisms involved in this process and provide additional insights into the evolutionary histories of fatty acid synthesis in archaea.
MAP4K1 and MAP4K2 regulate ABA-induced and Ca2+-mediated stomatal closure in Arabidopsis
Authors: Yamashita Kota , Katagiri Sotaro , Takase Hinano , Li Yangdan , Otoguro Airi , Kamiyama Yoshiaki , Yamauchi Shota , Takemiya Atsushi , Mori Izumi C. , Umezawa Taishi 
Published: July 2024

AbstractAbscisic acid (ABA)-induced stomatal closure limits water loss from plants under drought stress. To investigate signaling pathways involved in stomatal closure, we performed a phosphoproteomic analysis of ABA-treated Arabidopsis guard cell protoplasts (GCPs). From this analysis, we discovered that MITOGEN-ACTIVATED PROTEIN 4 KINASE 1 (MAP4K1) is phosphorylated in response to ABA. Subsequent biochemical assays showed that Ser-479 of MAP4K1 is directly phosphorylated by SRK2E (OST1/SnRK2.6), a protein kinase that plays a central role in ABA-induced responses. Mutational analyses ofMAP4K1, as well as closely relatedMAP4K2, revealed that both kinases positively regulate ABA-induced stomatal closure, and that Ser-479 of MAP4K1 was required for this phenotype. Inmap4k1map4k2, stomatal closure was induced by exogenous Ca2+but not H2O2. Furthermore, electrophysiology experiments showed that MAP4K1/2 are required for ABA-dependent activation of Ca2+-permeable channels in GCPs. Together, our results indicate that SnRK2 and MAP4K1/2 function as a signaling module to regulate Ca2+-mediated stomatal closure.
Mass Spectrometry-based Profiling of Single-cell Histone Post-translational Modifications to Dissect Chromatin Heterogeneity
Authors: Cutler Ronald , Corveleyn Laura , Ctortecka Claudia , Cantlon Joshua , Jacome Vaca Sebastian Alvaro , Deforce Dieter , Vijg Jan , Dhaenens Maarten , Papanastasiou Malvina , Carr Steven A. , Sidoli Simone 
Published: July 2024

AbstractSingle-cell proteomics confidently quantifies cellular heterogeneity, yet precise quantification of post-translational modifications, such as those deposited on histone proteins, has remained elusive. Here, we developed a robust mass spectrometry-based method for the unbiased analysis of single-cell histone post-translational modifications (schPTM). schPTM identifies both single and combinatorial histone post-translational modifications (68 peptidoforms in total), which includes nearly all frequently studied histone post-translational modifications with comparable reproducibility to traditional bulk experiments. As a proof of concept, we treated cells with sodium butyrate, a histone deacetylase inhibitor, and demonstrated that our method can i) distinguish between treated and non-treated cells, ii) identify sub-populations of cells with heterogeneous response to the treatment, and iii) reveal differential co-regulation of histone post-translational modifications in the context of drug treatment. The schPTM method enables comprehensive investigation of chromatin heterogeneity at single-cell resolution and provides further understanding of the histone code.
Plasmodium falciparumSET10 is a histone H3 lysine K18 methyltransferase that participates in a chromatin modulation network crucial for intraerythrocytic development
Authors: Musabyimana Jean-Pierre , Musa Sherihan , Manti Janice , Distler Ute , Tenzer Stefan , Ngwa Che Julius , Pradel Gabriele 
Published: July 2024

AbstractLifecycle progression of the malaria parasitePlasmodium falciparumrequires precise tuning of gene expression including histone methylation. The histone methyltransferasePfSET10 was previously described as a H3K4 methyltransferase involved invargene regulation, making it a prominent antimalarial target. In this study, we investigate the role ofPfSET10 in the blood stages ofP. falciparumin more detail, using taggedPfSET10-knockout (KO) and -knockdown (KD) lines. We demonstrate a nuclear localization ofPfSET10 with peak protein levels in schizonts.PfSET10 deficiency results in reduced intraerythrocytic growth, but has no effect on gametocyte formation. When thePfSET10-KO line is screened for histone methylation variations, lack ofPfSET10 renders the parasites unable to mark H3K18me1, while no significant changes in the H3K4 methylation status are observed. Comparative transcriptomic profiling ofPfSET10-KO schizonts demonstrates the upregulation of transcripts particularly encoding proteins linked to erythrocyte invasion and multigene family proteins, suggesting a repressive function of the histone methylation mark. TurboID coupled with mass spectrometry further reveals an extensive nuclearPfSET10 interaction network with roles in transcriptional regulation, DNA replication and repair, chromatin remodeling and mRNA processing. Main interactors ofPfSET10 include ApiAP2 transcription factors, chromatin modulators likePfMORC andPfISWI, mediators of RNA polymerase II, and DNA replication licensing factors. The combined data pinpointPfSET10 as a histone H3 lysine K18 methyltransferase of theP. falciparumblood stages that regulates nucleic acid metabolic processes as part of a comprehensive chromatin modulation network.ImportanceThe fine-tuned regulation of DNA replication and transcription is particularly crucial for the rapidly multiplying blood stages of malaria parasites and proteins involved in these processes represent important drug targets. This study demonstrates that contrary to previous reports the histone methyltransferasePfSET10 of the malaria parasitePlasmodium falciparummethylates histone 3 at lysine K18, a histone mark to date not well understood. Deficiency ofPfSET10 due to genetic knockout affects genes involved in intraerythrocytic development. Furthermore, in the nuclei of blood stage parasites,PfSET10 interacts with various protein complexes crucial for DNA replication, remodeling and repair, as well as for transcriptional regulation and mRNA processing. In summary, this study highlightsPfSET10 as a H3K18 methyltransferase with critical functions in chromatin maintenance during the development ofP. falciparumin red blood cells.
Influence of the swirl vanes in convergent-divergent nozzle on screech tones and mixing efficiency at subsonic and supersonic jet flow
Authors: Sekar Manigandan , Kengaiah Vijayaraja , T.R. Praveenkumar , P. Gunasekar 
Published: July 2024

Purpose
The purpose of this study is to investigate the effect of coaxial swirlers on acoustic emission and reduction of potential core length in jet engines.

Design/methodology/approach
The swirlers are introduced in the form of curved vanes with angles varied from 0° to 130°, corresponding to swirl numbers of 0–1.5. These swirlers are fixed in the annular chamber and tested at different nozzle pressure ratios of 2, 4 and 6.

Findings
The study finds that transonic tones exist for the nonswirl jet, creating an unfavorable effect. However, these screech tones are eliminated by introducing a swirl jet at the nozzle exit. Weak swirl shows a greater reduction in noise than strong swirl at subsonic conditions. In addition, the introduction of swirl jets at all pressure ratios significantly reduces jet noise and core length in supersonic conditions, mitigating the noise created by shockwaves and leading to screech tone-free jet mixing.

Originality/value
The paper provides valuable insights into the use of coaxial swirlers for noise reduction and core length reduction in jet engines, particularly in supersonic conditions.
Integrating design for lean six sigma (DFLSS) with the stage gate phases of the innovation management assessment framework (IMAF)
Authors: Lobo Stanislaus , Malaarachchi Dasun Nirmala , Samaranayake Premaratne , Elias Arun , Teh Pei-Lee 
Published: July 2024

PurposeThe purpose of this study is to investigate the influence of design for lean six sigma (DFLSS) on operational functions of the innovation management model by appraising an innovation management assessment framework.Design/methodology/approachAn empirical approach for evaluating causal relationships among various constructs in the model phases that identify optimum pathways in achieving commercial success was adopted. A quantitative analysis of survey data were collected from large, medium and small organiations, including incubators in ANZ (Australia, New Zealand) and TMSV (Thailand, Malaysia, Sri Lanka and Vietnam).FindingsThe structural equation modelling recursive path analysis results of the model provide empirical evidence and pathways through the various constructs considered in the model. All these pathways lead to delivering optimum commercialization success (CS). Furthermore, DFLSS is confirmed as an enabler and has direct one-to-one and indirect influence on all the operational function constructs of the model including commercial success.Research limitations/implicationsThis study had a relatively small sample size of completed responses obtained from the population and a constrained ability to compare commercialization success (CS) between the two regions in the dataset. Future studies could be conducted on a global scale to increase responses.Practical implicationsThe research findings enabled the development of important and practical guidelines for managers and innovation practitioners engaged in planning and management of innovation.Originality/valueThis research offers a holistic approach for integrating DFLSS with stage gate phases of innovation management assessment framework, supported by empirical evidence, to aid organizations in effectively managing the innovation process and achieving greater success in commercialization.
The role of organizational performance in sustaining competitive advantage through reverse logistics activities
Authors: Dabees Ahmed , Lisec Andrej , Elbarky Sahar , Barakat Mahmoud 
Published: July 2024

PurposeReverse logistics (RL) activities are becoming crucial in today’s business environment because of their ability to enhance organizational capabilities to manage waste and resources effectively and efficiently as an approach for achieving sustainability. These capabilities can eventually create sustainable competitive advantage (SCA). Drawing on resource-based view (RBV), this study posits RL as a tool to develop capabilities gained from high performance (financial and nonfinancial) to enhance SCA.Design/methodology/approachCovariance-based structural equation modeling (SEM) was used to analyze 1,207 responses collected from manufacturing organizations operating in Egypt. Data were gathered through an online survey sent via email to manufacturing organizations operating in Egypt, particularly Cairo, Giza and Alexandria, as these governorates contain most business activities in Egypt and hence high a percentage of waste.FindingsResults indicated that RL activities (recycling, remanufacturing, repair, recondition and disposal) can fully mediate the relationship between organizational performance (financial and nonfinancial) and SCA. However, the remanufacturing and recycling mediating roles between financial performance and SCA were not significant.Research limitations/implicationsApplying this research in a developing country (Egypt) will help extend RBV and incentivize organizations to apply RL activities, which can potentially solve several environmental issues such as decreasing waste.Originality/valueUsing the research variables in combination will help in filling the literature gap as previous research focused on RL and only organizational operational performance, where RL was used as an independent variable with no illustration of how its dimensions affect performance or its mediating role between performance and SCA.
Toward an analysis of employer engagement in the TVET system for 10 ASEAN member states
Authors: Moon Hanna , Choi Jihee 
Published: July 2024

Purpose
This study aims to analyze employer’s engagement to the technical and vocational education and training (TVET) system among ASEAN member states by developing the analytical framework.

Design/methodology/approach
Data collection has been made through collaboration between the research team and the ASEAN regional consultants recruited for the project by using the survey questionnaire. ASEAN member states are analyzed based on the framework, which includes the existence of meeting, the existence of law or regulation, the degree of influence of meeting to TVET and the degree of influence of the employers to TVET.

Findings
Employers’ engagement can play its significant role as part of monitoring the skills demand of labor market. If the country can build feedback mechanism which circulates skills supply and demand on behalf of individual sectors, it will help reduce the skills gap.

Originality/value
The pace of economic development is and has been more rapid among 10 ASEAN member states. To analyze employer’s engagement to the TVET system among ASEAN member states, developing the analytical framework is imperative. Not only is there insufficient labor market information for each country, but there is also a lack of information linking the labor market and TVET system.
Examining the complexities of estate management practices in Central mosques: a case study of Kumasi Central mosque in Ghana
Authors: Mohammed Abubakar Sadiq , Mark Adolwine (ESQ.) William , Danlard Iddrisu 
Published: July 2024

Purpose
To analyze the challenges and intricacies involved in managing the physical and administrative aspects of central mosques, with a specific focus on the Kumasi Central Mosque in Ghana. Through this case study, the paper aims to provide insights into the unique estate management practices and design a conceptual framework that incorporates efficient estate management practices for Ghana’s central mosques.

Design/methodology/approach
The study adopted a mixed-methods approach. Structured questionnaires were used to gather the data administered to the head of the development office, maintenance workers and mosque users. The data were analyzed using descriptive methods.

Findings
The overall findings of the study indicate that the estate management practices of the mosque are having difficulties financing maintenance. Other difficulties include the type of maintenance regime, the period of planned maintenance, the lack of an asset register, the absence of insurance policies and the causes of emergency maintenance.

Practical implications
The research provides valuable insights into the management of central mosques in Ghana and offers scalable practical recommendations such as adopting a planned maintenance regime, insuring mosque facilities and implementing comprehensive recording-keeping guidelines guided by policies.

Originality/value
The paper will assist stakeholders in comprehending the most practical approach to mosque estate management practices.
Structural transformation of the Indian states: heterogeneity among them in a ten-sector economy
Authors: T. Thasni , Gangopadhyay Kausik , Mondal Debasis 
Published: July 2024

Purpose
This paper aims to analyse the pattern of structural transformation and productivity growth of 15 major Indian states at a ten-sector level of disaggregation from 1983 to 2017.

Design/methodology/approach
The analysis has been carried over in a ten-sector disaggregated level through construction of the labour and output data from various micro data sets.

Findings
The majority of Indian states have bypassed the stage of industrialization, wherein labour previously engaged in agriculture has transitioned directly into the modern services sector while skipping the manufacturing. There are no sign of convergence of sectoral productivities and the heterogeneity among Indian states persists throughout the time period. The growth performance of states are not positively associated with the movement of labour across sectors as measured by the structural transformation index (STI). This goes against the narrative that structural transformation help reduce the misallocation of factors. Despite an increase in educational attainment of workers across all sectors, more than one-third of agricultural workers still remain either illiterate or lack formal schooling. Among sectors, construction (C) and trade, hotels and restaurants (THR) have absorbed the majority of workers who have left agricultural jobs. Finance, insurance, real estate and business services (FIRB), electricity, gas and water supply (EGWS) and mining and quarrying (MQ) are the three sectors that have seen significant gains in labour productivity during the study period.

Originality/value
To the best of the authors’ knowledge, this is the first attempt to analyse structural change and productivity growth in the Indian economy using Indian states as critical geographical marker. The results are new and add value to the literature.
Positive psychology in individual wellness: a thematic illustration of drama as a therapeutic framework in identity transformation
Authors: D’Souza Anil , Rani Jaya 
Published: July 2024

Purpose
The language of participative theatre can be considered immersive in the treatment of its dialectics where participants engage fully with their dichotomies and value systems through physical and psychological exploratory processes as they commit themselves to transformation.

Design/methodology/approach
The use of drama as an intervention for challenging recurring mental models of oppressive narratives is used extensively in experiential psychotherapy and as a socio-psychological integrative tool. This experiential methodology allows for an organic development and expression of themes and motifs by encouraging a participant to develop a deeper awareness of how he/she interprets their identity and that of the community in which they function.

Findings
This paper aims to review the implications of applying drama-based interventions as positive psychotherapeutic devices to facilitate self-reflection and active-constructive responding in enabling a rendering of positive patterns of thought and purposeful movement towards emotional and physical well-being.

Practical implications
Research on the principles of positive psychology suggests that positive emotions lead to therapeutic change. Nurturing positive emotions which are immanent in spirituality, creativity and optimistic perseverance through autonomy and self-regulation enable individual potential to come to meaningful fruition.

Originality/value
The paper conceptualizes psychodrama as a framing technique in enabling reflexive action in identity transformation and well-being.
Barriers and facilitators to research data sharing: a lifecycle perspective
Authors: He Zilong , Fang Wei 
Published: July 2024

PurposeThis study investigates the multifaceted barriers and facilitators affecting research data sharing across the research data lifecycle. It aims to broaden the understanding of data sharing beyond the publication phase, emphasizing the continuous nature of data sharing from generation to reuse.Design/methodology/approachEmploying a mixed-methods approach, the study integrates the Theory of Planned Behavior, the Technology Acceptance Model, and the Institutional Theory to hypothesize the influence of various factors on data sharing behaviors across the lifecycle. A questionnaire survey and structural equation modeling are utilized to empirically test these hypotheses.FindingsThis study identifies critical factors influencing data sharing at different lifecycle stages, including perceived behavioral control, perceived effort, journal and funding agency pressures, subjective norms, perceived risks, resource availability, and perceived benefits. The findings highlight the complex interplay of these factors and their varying impacts at different stages of data sharing.Research limitations/implicationsThis study illuminates the dynamics of research data sharing, offering insights while recognizing its scope might not capture all disciplinary and cultural nuances. It highlights pathways for stakeholders to bolster data sharing, suggesting a collaborative push towards open science, reflecting on how strategic interventions can bridge existing gaps in practice.Practical implicationsThis study offers actionable recommendations for policymakers, journals, and institutions to foster a more conducive environment for data sharing, emphasizing the need for support mechanisms at various lifecycle stages.Originality/valueThis study contributes to the literature by offering a comprehensive model of the research data lifecycle, providing empirical evidence on the factors influencing data sharing across this continuum.