bluuebunny/crossref_metadata_2025_split huggingface dataset:
slimr: An R package for tailor‐made integrations of data in population genomic simulations over space and time
Authors: Dinnage Russell , Sarre Stephen D. , Duncan Richard P. , Dickman Christopher R. , Edwards Scott V. , Greenville Aaron C. , Wardle Glenda M. , Gruber Bernd 
Published: December 2023

AbstractSoftware for realistically simulating complex population genomic processes is revolutionizing our understanding of evolutionary processes, and providing novel opportunities for integrating empirical data with simulations. However, the integration between standalone simulation software and R is currently not well developed. Here, we present slimr, an R package designed to create a seamless link between standalone software SLiM >3.0, one of the most powerful population genomic simulation frameworks, and the R development environment, with its powerful data manipulation and analysis tools. We show how slimr facilitates smooth integration between genetic data, ecological data and simulation in a single environment. The package enables pipelines that begin with data reading, cleaning and manipulation, proceed to constructing empirically based parameters and initial conditions for simulations, then to running numerical simulations and finally to retrieving simulation results in a format suitable for comparisons with empirical data – aided by advanced analysis and visualization tools provided by R. We demonstrate the use of slimr with an example from our own work on the landscape population genomics of desert mammals, highlighting the advantage of having a single integrated tool for both data analysis and simulation. slimr makes the powerful simulation ability of SLiM directly accessible to R users, allowing integrated simulation projects that incorporate empirical data without the need to switch between software environments. This should provide more opportunities for evolutionary biologists and ecologists to use realistic simulations to better understand the interplay between ecological and evolutionary processes.
Effect of intraoral administration of parathyroid hormone on osseous and soft tissue healing around implants in ovariectomized rat maxillae
Authors: Al‐Omari Farah A. , Kuroshima Shinichiro , Uto Yusuke , Uchida Yusuke , Sawase Takashi 
Published: December 2023

AbstractObjectivesIntermittent administration of parathyroid hormone (PTH) increases systemic bone mass. However, the effect of PTH on osseous and soft tissue healing around implants in osteoporosis patients remains unclear. This study aimed to investigate the effects of PTH on tissue healing around implants in ovariectomized rats and to compare systemic and intraoral administration routes.Material and MethodsImplants were placed at the healed sites of ovariectomized rats 3 weeks after maxillary first molar extraction. Rats were randomly divided into two groups that received either daily systemic subcutaneous or local intraoral PTH administration. Maxillae were dissected to examine bone architectures with micro‐computed tomography images. Histomorphometric and immunohistochemical analyses were performed to evaluate osseous and soft tissue healing around the implants.ResultsRegardless of the administration route, PTH significantly increased bone area and the numbers of osteoblasts, osteoclasts, and osteocytes in the first and second inside and outside areas of implant threads, in addition to decreasing the number of sclerostin+ osteocytes. However, the intraoral PTH administration route was superior to the systemic route by significantly improving bone quality and promoting collagen production in the connective tissue around implants.ConclusionsParathyroid hormone administration promoted both osseous and soft tissue healing around implants, irrespective of administration route. Interestingly, intraoral administration improved the evaluated parameters more than systemic administration. Thus, the intraoral route could become a useful treatment strategy for implant treatment in osteoporosis patients.
Sacred forest biodiversity conservation: A meta‐analysis
Authors: Sullivan Megan K. , Browne Luke , Penagos Zuluaga Juan Carlos , Liu Jasmine , Surendra Akshay , Estrada‐Villegas Sergio 
Published: December 2023

AbstractSacred forests offer co‐benefits of protecting both cultural traditions and forested areas. However, sacred forests' contribution to biodiversity conservation is often undervalued. Several reviews discuss biodiversity conservation in sacred forests, but large‐scale studies that quantify the effect of sacred forests on biodiversity conservation are scarce. Many studies on the effectiveness of sacred forests in protecting biodiversity are limited to single‐location censuses or lack comparisons against non‐sacred forests that serve as controls. To quantify the impact of sacred forests on biodiversity conservation, we conducted a global meta‐analysis that compares sacred forests with nearby non‐sacred forests (i.e., control areas). Using 35 studies from 17 different countries, we found that sacred forests harbored similar levels of biodiversity as nearby forested areas. When comparing taxonomic groups, we found that the positive benefits to biodiversity in sacred forests compared to non‐sacred forests were higher for plants compared to non‐plant taxa. Our meta‐analysis provides quantitative evidence that sacred forests can be effective areas of biodiversity conservation. Based on our results, we suggest that researchers interested in sacred forest biodiversity compare sacred forests with other land use types, collect standardized metadata from sacred forests and nearby areas that serve as comparisons, and extend monitoring to include more non‐plant taxa. Sacred forests can preserve ecosystem function, provide social benefits, and play a role in fighting against climate change, and should not be overlooked.
Participatory research with carers: A systematic review and narrative synthesis
Authors: Bowness Bryher , Henderson Claire , Akhter Khan Samia C. , Akiba Mia , Lawrence Vanessa 
Published: December 2023

AbstractIntroductionAs patient and public involvement (PPI) in research has become increasingly common, research‐based recommendations on its principles and impacts have been established. The specifics of conducting PPI are likely to differ when involving different groups. Family/informal carers for those with health conditions or disabilities have a lot to contribute to research, but instances of their involvement have yet to be reviewed.ObjectiveTo systematically review and synthesize studies where family/informal carers have been involved in the research process, to develop an understanding of the benefits, barriers and facilitating factors.MethodsA search of five electronic databases was conducted using a combination of terms relating to carers, involvement and research. A grey literature search, expert consultation and hand‐searching were also used. Following screening, data extraction and quality assessment, a narrative synthesis incorporating thematic analysis was conducted.FindingsA total of 55 studies met the inclusion criteria, with diverse design and participatory approaches. Four themes were identified, relating to the outcomes, challenges, and practicalities of involving carers: (re) building relationships with carers; carers as equals not afterthoughts; carers have unique experiences; carers create change. Full involvement throughout the research was not always possible, due to barriers from the research world and responsibilities of the caring role. The literature demonstrated ways for carers to contribute in ways that suited them, maximizing their impact, while attending to relationships and power imbalances.ConclusionBy summarizing the reported instances of carer involvement in research, this review brings together different examples of how successful research partnerships can be built with carers, despite various challenges. Carers are a heterogeneous group, and participatory approaches should be tailored to specific situations. Wider understanding of the challenges of conducting empowering research with carers, and the resources required to address these, are needed.Patient and Public InvolvementThe initial findings and themes were presented to a group of carers who had been involved in research and whose reflections informed the final synthesis.
Validity and reliability study of the Turkish version of the Salutogenic Health Indicator Scale
Authors: Aci Ozgur Sema , Gencbas Dercan , Ciydem Emre , Kackin Ozlem 
Published: December 2023

AbstractAimsThe aim of this study was to assess the validity and reliability of the Salutogenic Health Indicator Scale (SHIS) among a sample of Turkish university students.MethodsThis study was conducted with 291 university students. The SHIS was evaluated in terms of language equivalence, validity and the reliability. Content validity was assessed with the content validity index (CVI). Construct validity was determined by confirmatory factor analysis (CFA). A Cronbach's alpha reliability coefficient was used for the analysis of internal consistency, a Pearson's correlation coefficient was used for parallel form reliability, and the intraclass correlation coefficient (ICC) was used for the test–retest technique.ResultsThe CVI of the SHIS was between 0.80 and 1.00. When the results of the CFA were examined, the factor loadings of all items were above 0.50. A statistically significant moderate positive correlation was found between the SHIS and the Sense of Coherence (SOC) scores for parallel form reliability (r = 0.489). Within the scope of the test–retest analysis, an ICC = 0.762 was determined (p < 0.001).ConclusionThe findings obtained from this validity and reliability study carried out on a sample of Turkish university students showed that the SHIS was both valid and reliable.
A network approach to the investigation of childhood irritability: probing frustration using social stimuli
Authors: Thompson Khalil I. , Schneider Clayton J. , Lopez‐Roque Justin A. , Wakschlag Lauren S. , Karim Helmet T. , Perlman Susan B. 
Published: December 2023

BackgroundSelf‐regulation in early childhood develops within a social context. Variations in such development can be attributed to inter‐individual behavioral differences, which can be captured both as facets of temperament and across a normal:abnormal dimensional spectrum. With increasing emphasis on irritability as a robust early‐life transdiagnostic indicator of broad psychopathological risk, linkage to neural mechanisms is imperative. Currently, there is inconsistency in the identification of neural circuits that underlie irritability in children, especially in social contexts. This study aimed to address this gap by utilizing a functional magnetic resonance imaging (fMRI) paradigm to investigate pediatric anger/frustration using social stimuli.MethodsSeventy‐three children (M = 6 years, SD = 0.565) were recruited from a larger longitudinal study on irritability development. Caregivers completed questionnaires assessing irritable temperament and clinical symptoms of irritability. Children participated in a frustration task during fMRI scanning that was designed to induce frustration through loss of a desired prize to an animated character. Data were analyzed using both general linear modeling (GLM) and independent components analysis (ICA) and examined from the temperament and clinical perspectives.ResultsICA results uncovered an overarching network structure above and beyond what was revealed by traditional GLM analyses. Results showed that greater temperamental irritability was associated with significantly diminished spatial extent of activation and low‐frequency power in a network comprised of the posterior superior temporal sulcus (pSTS) and the precuneus (p < .05, FDR‐corrected). However, greater severity along the spectrum of clinical expression of irritability was associated with significantly increased extent and intensity of spatial activation as well as low‐ and high‐frequency neural signal power in the right caudate (p < .05, FDR‐corrected).ConclusionsOur findings point to specific neural circuitry underlying pediatric irritability in the context of frustration using social stimuli. Results suggest that a deliberate focus on the construction of network‐based neurodevelopmental profiles and social interaction along the normal:abnormal irritability spectrum is warranted to further identify comprehensive transdiagnostic substrates of the irritability.
Corporate cash holdings and industry risk
Authors: Lee Jinsook 
Published: December 2023

AbstractI conjecture that a firm's sensitivity to industry shocks escalates its need to retain a cash buffer. Consistent with this conjecture, I find that a 1 SD increase in a firm's industry risk exposure increases cash holdings by 10%. In fact, industry risk has a greater effect on corporate cash holdings than does economywide and idiosyncratic risk in my sample. The effect of industry risk exposure on corporate cash holdings is greater for firms in highly competitive industries, as well as for firms with high leverage, a greater fraction of short‐term debt, and few tangible assets.
The role of the dual holder in mitigating underinvestment
Authors: Bohdan Roman , Mukherjee Tarun 
Published: December 2023

AbstractThe literature on dual holding focuses exclusively on cases where the holder is primarily a creditor and buys the firm's stocks to reduce potential wealth transfer. However, wealth transfer is not a concern when the dual holder is a stockholder first and becomes a bondholder later. We hypothesize that the principal motive behind such dual holdings is to provide debt funding to an otherwise successful firm that cannot fund good projects because of internal capital allocation problems coupled with external capital constraints. We select samples from multinational corporations based on evidence that these firms are exposed to domestic underinvestment because they are reluctant to bring back foreign profits to avoid repatriation taxes. We choose hedge funds (HFs) as dual holders. The treatment group comprises firms where HFs are dual owners, and the control group comprises firms in which HFs own stocks only. The treatment group experiences steeper financial constraints, leading to deeper underinvestment problems and causing target firms to seek HF funding. The funding corresponds well to the amount of underinvestment. Targets improve investment efficiency by alleviating underinvestment, surpassing their predual performance and the control group's postdual performance.
Forced to be a good citizen: Exploring the bright‐ and dark‐side effects of daily compulsory citizenship behaviours on subsequent proactive helping and interpersonal deviance
Authors: Chi Nai‐Wen , Lin Chieh‐Yu , Bruning Patrick F. , Hung Yu 
Published: December 2023

AbstractCompulsory citizenship behaviour (CCB) refers to extra‐role behaviours that are not necessarily voluntary or driven by goodwill, and are often conducted under duress or performed in response to supervisor or coworker pressure. The literature is currently unclear about whether these behaviours have negative, positive, or a nuanced combination of outcomes. We address this confusion by drawing on Conservation of Resources Theory to explain employees' daily depletion and organization‐based self‐esteem (OBSE) mechanisms that capture respective costs and benefits of daily CCB. We also explain how employees' extraversion and leader–member exchange (LMX) are critical boundary conditions of these effects. Using an experience sampling method, we collected data twice per day from 186 full‐time employees across 10 working days, yielding 1551 valid daily responses. The results of multilevel path analyses showed that: (a) daily CCB had a positive indirect effect on next‐day interpersonal deviance via increased ego depletion, with extraversion buffering this positive indirect effect; and (b) daily CCB had a positive indirect effect on next‐day proactive helping via increased OBSE, with LMX strengthening this positive indirect effect. These results suggest that employees' daily CCB has both costs (i.e., resource depletion) and benefits (i.e., positive self‐focused beliefs).
The Arrival 64${6 \atop 4}$ Chord in Wagner's Die Walküre: Types, Function, and Dramatic Meanings
Authors: LEE JI YEON 
Published: December 2023

ABSTRACTThis article applies Hatten's (1994) concept of the ‘arrival ’ – a cadential that resolves tonal or thematic instabilities without necessarily proceeding to V(7) – to cadences and cadential gestures in Wagner's Die Walküre. It identifies and describes three essential types of arrival chord: a cadential becoming I and launching a new leitmotivic passage (type 1); one continuing in the cadential progression and initiating a new leitmotivic passage (type 2) and one continuing in the cadential progression and becoming a rhetorical highpoint (type 3). Ultimately, it demonstrates that examples of each type produce an aurally illuminating, ‘marked’ effect within Wagnerian ‘musical prose’ in conjunction with the dramatic circumstances.
Pathogenic DPAGT1 variants in limb‐girdle congenital myasthenic syndrome (LG‐CMS) associated with tubular aggregates and ORAI1 hypoglycosylation
Authors: vanden Brande Laura , Bauché Stéphanie , Pérez‐Guàrdia Laura , Sternberg Damien , Seferian Andreea M. , Malfatti Edoardo , Silva‐Rojas Roberto , Labasse Clémence , Chevessier Frédéric , Carlier Pierre , Eymard Bruno , Romero Norma B. , Laporte Jocelyn , Servais Laurent , Gidaro Teresa , Böhm Johann 
Published: December 2023

AbstractAimsLimb‐girdle congenital myasthenic syndrome (LG‐CMS) is a genetically heterogeneous disorder characterised by muscle weakness and fatigability. The LG‐CMS gene DPAGT1 codes for an essential enzyme of the glycosylation pathway, a posttranslational modification mechanism shaping the structure and function of proteins. In DPAGT1‐related LG‐CMS, decreased glycosylation of the acetylcholine receptor (AChR) reduces its localization at the neuromuscular junction (NMJ) and results in diminished neuromuscular transmission. LG‐CMS patients also show tubular aggregates on muscle biopsy, but the origin and potential contribution of the aggregates to disease development are not understood. Here, we describe two LG‐CMS patients with the aim of providing a molecular diagnosis and to shed light on the pathways implicated in tubular aggregate formation.MethodsFollowing clinical examination of the patients, we performed next‐generation sequencing (NGS) to identify the genetic causes, analysed the biopsies at the histological and ultrastructural levels, investigated the composition of the tubular aggregates and performed experiments on protein glycosylation.ResultsWe identified novel pathogenic DPAGT1 variants in both patients and pyridostigmine treatment quantitatively improved muscle force and function. The tubular aggregates contained proteins of the sarcoplasmic reticulum (SR) and structurally conformed to the aggregates observed in tubular aggregate myopathy (TAM). TAM arises from overactivation of the plasma membrane calcium channel ORAI1, and functional studies on muscle extracts from our LG‐CMS patients evidenced abnormal ORAI1 glycosylation.ConclusionsWe expand the genetic variant spectrum of LG‐CMS and provide a genotype/phenotype correlation for pathogenic DPAGT1 variants. The discovery of ORAI1 hypoglycosylation in our patients highlights a physiopathological link between LG‐CMS and TAM.
Skeptic, enthusiast, guarantor or believer? Public managers' perception of participatory budgeting
Authors: Manes‐Rossi Francesca , Orelli Rebecca Levy , Sicilia Mariafrancesca 
Published: December 2023

AbstractParticipatory budgeting (PB) aims to enhance citizens' participation in local government. While there is a significant body of literature on PB, few studies investigate the role of internal actors in its management. This study aims to understand public managers' perceptions of the whole PB process. Using the Q‐methodology on a sample of Italian local governments experienced in PB, we analyze the perspectives of public managers, revealing four approaches to PB, which we classify as skeptics, enthusiasts; guarantors; and believers. We find that managers have different approaches to how PB works and its potential effects, based on their role in managing the process. We also find that their attitude may influence citizens' participation in and perception of PB. Further research should consider the nexus between managers' perceptions and citizens' involvement in PB.
Rice Yellow Mottle Virus resistance by genome editing of the Oryza sativa L. ssp. japonica nucleoporin gene OsCPR5.1 but not OsCPR5.2
Authors: Arra Yugander , Auguy Florence , Stiebner Melissa , Chéron Sophie , Wudick Michael M. , Miras Manuel , Schepler‐Luu Van , Köhler Steffen , Cunnac Sébastien , Frommer Wolf B. , Albar Laurence 
Published: December 2023

SummaryRice yellow mottle virus (RYMV) causes one of the most devastating rice diseases in Africa. Management of RYMV is challenging. Genetic resistance provides the most effective and environment‐friendly control. The recessive resistance locus rymv2 (OsCPR5.1) had been identified in African rice (Oryza glaberrima), however, introgression into Oryza sativa ssp. japonica and indica remains challenging due to crossing barriers. Here, we evaluated whether CRISPR/Cas9 genome editing of the two rice nucleoporin paralogs OsCPR5.1 (RYMV2) and OsCPR5.2 can be used to introduce RYMV resistance into the japonica variety Kitaake. Both paralogs had been shown to complement the defects of the Arabidopsis atcpr5 mutant, indicating partial redundancy. Despite striking sequence and structural similarities between the two paralogs, only oscpr5.1 loss‐of‐function mutants were fully resistant, while loss‐of‐function oscpr5.2 mutants remained susceptible, intimating that OsCPR5.1 plays a specific role in RYMV susceptibility. Notably, edited lines with short in‐frame deletions or replacements in the N‐terminal domain (predicted to be unstructured) of OsCPR5.1 were hypersusceptible to RYMV. In contrast to mutations in the single Arabidopsis AtCPR5 gene, which caused severely dwarfed plants, oscpr5.1 and oscpr5.2 single and double knockout mutants showed neither substantial growth defects nor symptoms indicative lesion mimic phenotypes, possibly reflecting functional differentiation. The specific editing of OsCPR5.1, while maintaining OsCPR5.2 activity, provides a promising strategy for generating RYMV‐resistance in elite Oryza sativa lines as well as for effective stacking with other RYMV resistance genes or other traits.
A Response to Dehnel's ‘Defending Wittgenstein’
Authors: Wheeler Samuel J. 
Published: December 2023

AbstractThis is a reply to ‘Defending Wittgenstein’, Piotr Dehnel's critique of my article, ‘Defending Wittgenstein's Remarks on Cantor from Putnam’. I first show that my position is much more in agreement with Felix Mühlhölzer than Dehnel takes it to be, and that his criticism of me is nothing more than a failure to recognize this. I then show how Dehnel incorrectly reads Wittgenstein as rejecting set theory as false. It is an overemphasis on and a much too narrow picture of ‘applicability’ which leads him to this view. Finally, I conclude by rejecting Dehnel's view that Wittgenstein was a finitist about mathematics.