bluuebunny/crossref_metadata_2025_split huggingface dataset:
WITHDRAWN: Ultrastructural characterization of a viral RNA and G-protein containing, membranous organelle formed in respiratory syncytial virus infected cells
Authors: Vijayakrishnan Swetha , Burns Andrew M. , Blanchard Emmeline L. , Spink Matthew C. , Gilchrist James B. , Howe Andrew , Darrow Michelle C. , Harkiolaki Maria , Wu Cheng-Yu , Dutch Rebecca Ellis , Santangelo Philip J. , Fearns Rachel , Bhella David 
Published: November 2022

Withdrawal statementThe authors have withdrawn their manuscript because since deposition of this preprint, they have become aware of the possibility that the findings reported may be an artefact. Carter et al. (J Struct Biol 2018 Jan;201(1):15-25. doi: 10.1016/j.jsb.2017.10.009) have reported that multilamellar bodies exhibit autofluorescence under cryogenic conditions. Thus, there is a possibility that stress induced by virus infection may stimulate formation of the features reported in this article, and autofluorescence, rather than specific labelling led them to identify the puncta as compartments containing RSV proteins or genomes. They are working to address these issues. Therefore, the authors do not wish this work to be cited as reference for the project. If you have any questions, please contact the corresponding author.
ABLs and TMKs are co-receptors for extracellular auxin
Authors: Yu Yongqiang , Tang Wenxin , Lin Wenwei , Li Wei , Zhou Xiang , Li Ying , Chen Rong , Zheng Rui , Qin Guochen , Cao Wenhan , Perez Patricio , Huang Rongfeng , Ma Jun , Lin Juncheng , Jiang Liwen , Xu Tongda , Yang Zhenbiao 
Published: November 2022

SUMMARYExtracellular perception of auxin, an essential phytohormone in plants, has been debated for decades. Auxin binding protein 1 (ABP1) physically interacts with quintessential transmembrane kinases (TMKs) and was proposed to act as an extracellular auxin receptor, but its role was disputed becauseabp1knockout mutants lack obvious morphological phenotypes. Here we identified two new auxin-binding proteins, ABL1 and ABL2, that are localized to the apoplast and directly interact with the extracellular domain of TMKs in an auxin-dependent manner. Furthermore, functionally redundant ABL1 and ABL2 genetically interact with TMKs and exhibit functions that are overlapping with those of ABP1 as well as independent of ABP1. Importantly, the extracellular domain of TMK1 itself binds auxin and synergizes with either ABP1 or ABL1 in auxin binding. Thus, our findings discovered new auxin receptors ABL1 and ABL2 having functions overlapping with but distinct from ABP1 and acting together with TMKs as co-receptors for extracellular auxin.
Cross-species analysis identifies conserved transcriptional mechanisms of neutrophil maturation
Authors: Kirchberger Stefanie , Shoeb Mohamed R. , Lazic Daria , Fischer Kristin , Shaw Lisa E. , Nogueira Filomena , Rifatbegovic Fikret , Bozsaky Eva , Ladenstein Ruth , Bodenmiller Bernd , Lion Thomas , Traver David , Farlik Matthias , Taschner-Mandl Sabine , Halbritter Florian , Distel Martin 
Published: November 2022

AbstractNeutrophils are evolutionarily conserved innate defense cells implicated in diverse pathological processes. Zebrafish models have contributed substantially to our understanding of neutrophil functions, but similarities to human neutrophil maturation have not been characterized limiting applicability to study human disease.We generated transgenic zebrafish strains to distinguish neutrophil maturation gradesin vivoand established a high-resolution transcriptional profile of neutrophil maturation. We linked gene expression at each stage to characteristic transcription factors, including C/ebpβ, important for late neutrophil maturation. Cross-species comparison of zebrafish, mouse, and human confirmed high molecular similarity in immature stages and discriminated zebrafish-specific from pan-species gene signatures. Applying pan-species neutrophil maturation signatures in RNA-seq data from neuroblastoma patients revealed an association of metastatic tumor cell infiltration in the bone marrow with an increase in mature neutrophils.Our detailed neutrophil maturation atlas provides a valuable resource for studying neutrophil function at different stages across species in health and disease.Graphical abstract
Evolution along allometric lines of least resistance: Morphological differentiation inPristurusgeckos
Authors: Tejero-Cicuéndez Héctor , Menéndez Iris , Talavera Adrián , Riaño Gabriel , Burriel-Carranza Bernat , Simó-Riudalbas Marc , Carranza Salvador , Adams Dean C. 
Published: November 2022

AbstractSpecies living in distinct habitats often experience unique ecological selective pressures, which can drive phenotypic divergence. However, how ecophenotypic patterns are affected by allometric trends and trait integration levels is less well understood. Here we evaluate the role of allometry in shaping body size and shape diversity inPristurusgeckos utilizing differing habitats. We found that patterns of body shape allometry and integration were distinct in species with different habitat preferences, with ground-dwellingPristurusdisplaying the most divergent allometric trend and the strongest integration. There was also strong concordance between static allometry across individuals and evolutionary allometry among species, revealing that body shape differences among individuals were predictive of evolutionary changes across the phylogeny at macroevolutionary scales. This suggested that phenotypic evolution occurred along allometric lines of least resistance, with allometric trajectories imposing a strong influence on the magnitude and direction of size and shape changes across the phylogeny. When viewed in phylomorphospace, the largest rock-dwelling species were most similar in body shape to the smallest ground-dwelling species, and vice versa. Thus, inPristurus, phenotypic evolution along the differing habitat-based allometric trajectories resulted in similar body shapes at differing body sizes in distinct ecological habitats.
Modelling genetic stability in engineered cell populations
Authors: Ingram Duncan , Stan Guy-Bart 
Published: November 2022

AbstractPredicting the evolution of engineered cell populations is a highly soughtafter goal in biotechnology. While models of evolutionary dynamics are far from new, their application to synthetic systems is scarce where the vast combination of genetic parts and regulatory elements creates a unique challenge. To address this gap, we herein present a framework that allows one to connect the DNA design of varied genetic devices with mutation spread in a growing cell population. Users can specify the functional parts of their system and the degree of mutation heterogeneity to explore, after which our model generates hostaware transition dynamics between different mutation phenotypes over time. We show how our framework can be used to generate insightful hypotheses across broad applications, from how a device’s components can be tweaked to optimise longterm protein yield and genetic shelf life, to generating new design paradigms for gene regulatory networks that improve their functionality.
Identifying functionally distinctive and threatened species
Authors: Pavoine Sandrine , Ricotta Carlo 
Published: November 2022

AbstractFunctional traits determine species’ responses to environmental change and/or determine species’ effects on ecosystem functions. When species with distinctive functional traits are threatened, there is a risk that ecosystem properties are also threatened. This is because functionally distinctive species may be those that have irreplaceable roles in an ecosystem and/or those that would be able to survive unusual environmental disturbances. To include functional distinctiveness as a criterion in conservation strategies, we need formal quantification of the degree of distinctiveness and threat a species exhibits. Starting with previous quantification attempts, we develop a framework that links different viewpoints on functional distinctiveness and accounts for all species’ extinction probabilities. Our framework is particularly relevant at the local scale where species extinctions impact ecosystem functioning and where conservation policies are developed. As a case study, we thus applied our framework to the mammals of Indian dry forests known to be threatened with a drastic decrease in functional diversity. We notably highlight that although some of the functionally distinctive and threatened species we identified, such as the tiger, are charismatic and considered by conservation actions, others are not. This is the case for some rat species and pangolins, whose negative image in the media during the COVID-19 pandemic could be detrimental to attracting public interest in their preservation. From this case study, we note that noncharismatic, less known species that may be key for ecosystems could be revealed by applying our framework to a range of ecosystems and taxa.
Synaptic weights that correlate with presynaptic selectivity increase decoding performance
Authors: Gallinaro Júlia V. , Scholl Benjamin , Clopath Claudia 
Published: November 2022

AbstractThe activity of neurons in the visual cortex is often characterized by tuning curves, which are thought to be shaped by Hebbian plasticity during development and sensory experience. This leads to the prediction that neural circuits should be organized such that neurons with similar functional preference are connected with stronger weights. In support of this idea, previous experimental and theoretical work have provided evidence for a model of the visual cortex characterized by such functional subnetworks. A recent experimental study, however, have found that the postsynaptic preferred stimulus was defined by the total number of spines activated by a given stimulus and independent of their individual strength. While this result might seem to contradict previous literature, there are many factors that define how a given synaptic input influences postsynaptic selectivity. Here, we designed a computational model in which postsynaptic functional preference is defined by the number of inputs activated by a given stimulus. Using a plasticity rule where synaptic weights tend to correlate with presynaptic selectivity, and is independent of functional-similarity between pre- and postsynaptic activity, we find that this model can be used to decode presented stimuli in a manner that is comparable to maximum likelihood inference.
#BookTokMadeMeReadIt: young adult reading communities across an international, sociotechnical landscape
Authors: Martens Marianne , Balling Gitte , Higgason Kristen A. 
Published: November 2022

Purpose
This research article presents an exploratory case study of the sociotechnical landscape of BookTok, and how young people use it to connect with others around the books they love, or those they love to hate. By observing the interplay between young people, books, and the technology (TikTok) that connects them, this study aims to explore how blending analog and digital media tools makes reading social and fun.

Design/methodology/approach
The authors selected three bestsellers available in English and Danish, and BookTokers who made related videos. This study used a qualitative, ethnographic (Pink, 2021) approach to explore interactions on the app. Inductive coding (Saldaña, 2021) helped the authors identify themes, and connect to areas of inquiry.

Findings
During the pandemic, TikTok and BookTok offered young people opportunities for reading engagement in social, bookish communities by using technology to promote reading in print. In doing so, their actions made reading and being a reader highly entertaining.

Research limitations/implications
As an exploratory case study, this research is not generalizable. But the findings will apply to future work on reading, publishing, and connected learning in a sociotechnical landscape.

Practical implications
BookTok connects print and digital formats, offering innovative possibilities for young people’s connected learning and reading promotion in schools and libraries.

Originality/value
Because TikTok is a relatively new tool, and its sub-community BookTok became popular during the COVID-19 pandemic, research on this topic is still in its earliest stages.
From workplace bullying to workplace withdrawal: mediating role of fear-based silence and moderating role of personality
Authors: Srivastava Shalini , Chhabra Bindu , Madan Poornima , Puri Geetika 
Published: November 2022

PurposeThe study aims to attempt to investigate the mediating role of fear-based silence (FBS) and moderating role of personality in the relationship between workplace bullying (WPB) and workplace withdrawal (WW) in hotel industry.Design/methodology/approachDrawing upon conservation of resources theory, two waves approach was used to collect data from 263 hotel employees in India. Partial Least Squares (PLS) based Structural Equation Modeling (SEM) was used to analyse the data.FindingsFear based silence was seen to mediate the relationship between WPB and WW. Further, proactive personality moderated the relationship between FBS and WW.Practical implicationsThe present study has vital implications for practitioners, academicians and policy makers. Executives must take cognizance of incidences of WPB and take on well-timed actions to curb it altogether. Taking into consideration the significance of resources in mitigating the adverse impacts of WPB, organizations must try to promote conditions necessary for that resource acquisition.Originality/valueThis is the first study to examine FBS as a mediator in the relationship between WPB and WW.
With a little help from my friends? The impact of social networks on citizens' forecasting ability
Authors: MONGRAIN PHILIPPE 
Published: November 2022

AbstractPartisan preferences usually stand out as the major driving force behind voters' expectations about election outcomes. Apart from partisan preferences, however, purely individual‐level factors appear to be only weakly associated with forecasting ability. Some studies argue that we need to move from the strictly personal sphere to the interpersonal one to better understand the underpinnings of individuals' forecasting ability. This paper leverages data from 77 elections at the district, municipal, regional, and/or national levels in 10 different countries to assess the impact of social networks and social interactions on the accuracy of citizens' electoral expectations. The results cast doubt on the capacity of social interactions to influence citizens' forecasting skills.
crabs—A software program to generate curated reference databases for metabarcoding sequencing data
Authors: Jeunen Gert‐Jan , Dowle Eddy , Edgecombe Jonika , von Ammon Ulla , Gemmell Neil J. , Cross Hugh 
Published: November 2022

AbstractThe measurement of biodiversity is an integral aspect of life science research. With the establishment of second‐ and third‐generation sequencing technologies, an increasing amount of metabarcoding data is being generated as we seek to describe the extent and patterns of biodiversity in multiple contexts. The reliability and accuracy of taxonomically assigning metabarcoding sequencing data have been shown to be critically influenced by the quality and completeness of reference databases. Custom, curated, eukaryotic reference databases, however, are scarce, as are the software programs for generating them. Here, we present crabs (Creating Reference databases for Amplicon‐Based Sequencing), a software package to create custom reference databases for metabarcoding studies. crabs includes tools to download sequences from multiple online repositories (i.e., NCBI, BOLD, EMBL, MitoFish), retrieve amplicon regions through in silico PCR analysis and pairwise global alignments, curate the database through multiple filtering parameters (e.g., dereplication, sequence length, sequence quality, unresolved taxonomy, inclusion/exclusion filter), export the reference database in multiple formats for immediate use in taxonomy assignment software, and investigate the reference database through implemented visualizations for diversity, primer efficiency, reference sequence length, database completeness and taxonomic resolution. crabs is a versatile tool for generating curated reference databases of user‐specified genetic markers to aid taxonomy assignment from metabarcoding sequencing data. crabs can be installed via docker and is available for download as a conda package and via GitHub (https://github.com/gjeunen/reference_database_creator).
Issuing of isotonic crystalloid solutions to Danish public hospitals in 2021—A retrospective nationwide observational study
Authors: Ellekjaer Karen Louise , Perner Anders , Bruun Svan Kathrine , Møller Morten Hylander 
Published: November 2022

AbstractBackgroundIntravenous (IV) fluid therapy is a ubiquitous intervention in daily clinical practice. However, nationwide detailed hospital‐ and departmental‐level information on IV fluid use is limited. Hence, we aimed to describe the current issuing of isotonic crystalloid solutions across Danish public hospitals.MethodsWe conducted a nationwide, retrospective observational study describing the issuing of isotonic crystalloid solutions for IV administration, including 0.9% saline, acetate‐ and lactate‐buffered crystalloid solutions. We assessed fluid issuing at national‐, regional‐, hospital‐ and departmental‐level from 1 January 2021 to 31 December 2021. We obtained sales figures from the Danish Regional Hospital Pharmacies. Regional characteristics were acquired from the Danish Health Data Authorities online resources. Results are presented graphically and descriptively, including frequencies (%).ResultsThe total amount of isotonic crystalloid solutions issued across Danish public hospitals in 2021 was 1,487,144 L (67.4% saline, 25.9% acetate‐ and 6.7% lactate‐buffered solutions) equivalent to 2.1 L per hospitalised patient within the study period. Both the issuing of saline versus. buffered crystalloid solutions and the issuing of acetate‐ versus lactate‐buffered solutions varied across geographical regions. Medical departments used saline more frequently (85.3%) than emergency departments (71.5%), surgical departments (70.6%) and anaesthesiological departments including intensive care units (43.0%).ConclusionsIn this nationwide observational study, we found that the issuing of different isotonic crystalloid solutions varied based on geographical location. Furthermore, the issuing of different crystalloid solutions differed across departmental settings with medical departments using the highest proportion of saline and anaesthesiological departments using the highest proportion of buffered crystalloid solutions.Editorial CommentIV fluid administration practices can be assessed across specialties by examining hospital purchasing. This study analysed the use of IV isotonic crystalloid solutions across all major departments of Danish public hospitals for 1 year. Isotonic sodium chloride was the most commonly used fluid in emergency medicine (71%), internal medicine (85%) and surgical departments (71%). Only anaesthesia and intensive care medicine departments used more buffered crystalloid solutions (57%) than isotonic natrium chloride.
Habit formation in context: Context‐specific and context‐free measures for tracking fruit consumption habit formation and behaviour
Authors: Diefenbacher Svenne , Lally Phillippa , Gardner Benjamin 
Published: November 2022

AbstractObjectivesInterventions promoting habitual fruit consumption have the potential to bring about long‐term behaviour change. Assessing the effectiveness of such interventions requires adequate habit and behaviour measures. Habits are based on learned context‐behaviour associations, so measures that incorporate context should be more sensitive to expected habit and behaviour changes than context‐free measures. This study compared context‐specific and context‐free measures of fruit consumption habit and behaviour following a 3‐week habit formation intervention.DesignProspective online study (n = 58).MethodsBehaviour frequency was assessed across five timepoints, retrospectively (Time 1 [T1], T5) or via daily diary data (uploaded weekly at T2, T3 and T4). Habit strength was assessed before (T1) and immediately after the intervention (T4), and again 2 weeks later (T5). Analyses of variance were run, with time and context specificity as within‐subject factors, and habit and behaviour frequency as dependent measures.ResultsAn interaction between time and context specificity was found in both analyses (habit: F(2,114) = 12.848, p < .001, part.η2 = .184; behaviour: F(2,114) = 6.714, p = .002, part.η2 = .105). Expected habit formation patterns 5 weeks post‐baseline were only detected by the context‐specific habit measure. Likewise, increased behaviour frequency was only found when the target context was specified (p's < .001).ConclusionsAssessments of purposeful dietary habit and behaviour change attempts should incorporate context‐specific measurement.
Impact of human foraging on tree diversity, composition, and abundance in a tropical rainforest
Authors: Asuk Sijeh A. , Matthews Thomas J. , Sadler Jonathan P. , Pugh Thomas A. M. , Ebu Vincent T. , Ifebueme Nzube M. , Kettridge Nicholas 
Published: November 2022

AbstractTropical forest tree communities are structured by a range of large‐scale drivers including elevation, certain high‐impact anthropogenic activities (e.g., deforestation), and fires. However, low‐impact human activities such as foraging may also be subtly but notably altering the composition of tropical forest tree communities. The study assessed the (i) differences in species diversity, patterns of relative abundance, and pairwise beta diversity between trees with edible and inedible fruits and seeds along an elevation gradient, and (ii) impact of human foraging on the forest tree communities in Oban Division of Cross River National Park, Nigeria. Fifteen permanent 40 by 40 m plots were established along an elevational gradient (120–460 m above mean sea level). All trees of 0.1 m diameter at breast height (dbh) and above were measured, identified, and, with the aid of structured questionnaires, classified into those with edible and inedible fruits/seeds. A total of 35 edible species with density of 128 stems/hectare and basal area of 11.99 m2/hectare, and 109 inedible species with density of 364 stems/hectare and basal area of 22.42 m2/hectare were sampled. However, the evenness of edible and inedible species was similar at pooled and plot levels. For inedible species, there was a positive relationship between pairwise beta diversity and elevation, and this was driven mainly by turnover. In contrast, edible species exhibited a non‐significant trend between elevation and beta diversity. Thus, the study showed that human foraging of edible fruits may have subtly influenced patterns of species diversity and community structure in this tropical forest.