bluuebunny/crossref_metadata_2025_split huggingface dataset:
Derepression of transposable elements enhances interferon beta signaling and stem/progenitor cell activity after proton irradiation
Authors: Cinat Davide , van der Wal Ryan , Baanstra Mirjam , Soto-Gamez Abel , Jellema-de Bruin Anne L. , van Goethem Marc-Jan , van Vugt Marcel A.T.M. , Barazzuol Lara , Coppes Rob P. 
Published: February 2024

SummaryThe release and subsequent detection of nucleic acids into the cytoplasm constitute a hallmark of the radiation-induced DNA damage response. However, different radiation types, such as photons and protons, may elicit distinct DNA damage responses, uniquely influencing normal stem cell activity and tissue regeneration. Here, we show that proton irradiation leads to enhanced derepression of transposable elements (TEs) with consequent activation of salivary gland stem/progenitor cells. This response is mediated by a pronounced loss of heterochromatin regulators and accumulation of cytoplasmic TE-derived dsRNA, resulting in upregulation of RIG-I and augmented interferon-beta (IFN-β) signaling. Single cell RNA sequencing (scRNA-seq) and TE dynamics analyses corroborate these findings, specifically in a subpopulation ofSox9-expressing stem/progenitor cells with increased INF-β response. These data reveal that the presence of TE-derived IFN-β in the microenvironment of irradiated organoids increases stem/progenitor cell activity and organoid growth, pointing to advantages of proton therapy over photon-based radiotherapy.
Loss of function of metabolic traits in typhoidalSalmonellawithout apparent genome degradation
Authors: Machado Leopoldo F. M. , Galán Jorge E. 
Published: February 2024

AbstractSalmonella entericaserovar Typhi and Paratyphi A are the cause of typhoid and paratyphoid fever in humans, which are systemic life-threatening illnesses. Both serovars are exclusively adapted to the human host, where they can cause life-long persistent infection. A distinct feature of these serovars is the presence of a relatively high number of degraded coding sequences coding for metabolic pathways, most likely a consequence of their adaptation to a single host. As a result of convergent evolution, these serovars shared many of the degraded coding sequences although often affecting different genes in the same metabolic pathway. However, there are several coding sequences that appear intact in one serovar while clearly degraded in the other, suggesting differences in their metabolic capabilities. Here, we examined the functionality of metabolic pathways that appear intact inS. Typhi but that show clear signs of degradation inS. Paratyphi A. We found that, in all cases, the existence of single amino acid substitutions inS.Typhi metabolic enzymes, transporters, or transcription regulators resulted in the inactivation of these metabolic pathways. Thus, the inability ofS. Typhi to metabolize Glucose-6-Phosphate or 3-phosphoglyceric acid is due to the silencing of the expression of the genes encoding the transporters for these compounds due to point mutations in the transcriptional regulatory proteins. In contrast, its inability to utilize glucarate or galactarate is due to the presence of point mutations in the transporter and enzymes necessary for the metabolism of these sugars. These studies provide additional support for the concept of adaptive convergent evolution of these two human-adaptedSalmonella entericaserovars and highlight a limitation of bioinformatic approaches to predict metabolic capabilities.
Intraspecific diversity in thermal performance determines phytoplankton ecological niche
Authors: Krinos Arianna I. , Shapiro Sara K. , Li Weixuan , Haley Sheean T. , Dyhrman Sonya T. , Dutkiewicz Stephanie , Follows Michael J. , Alexander Harriet 
Published: February 2024

AbstractTemperature has a primary influence on phytoplankton physiology and affects biodiversity and ecology. To examine how intraspecific diversity and temperature shape plankton populations, we grew 12 strains of the ecologically-important coccolithophoreGephyrocapsa huxleyiisolated from regions of different temperature for ∼45 generations (2 months), each at 6-8 temperatures, and characterized the acclimated thermal response curve of each strain. Even with virtually identical temperature optima and overlapping cell size, strain growth rates varied between 0.45 and 1 day-1. While some thermal curves were effectively symmetrical, others had more slowly declining growth rates above the “thermal optimum,” and thermal niche widths varied between 16.7 and 24.8 °C. This suggests that different strains use distinct thermal response mechanisms. We investigated the ecological implications of such intraspecific diversity on thermal response using an ocean ecosystem simulation resolving distinct phytoplankton thermal phenotypes. Resolving model analogs of thermal “generalists” and “specialists” (similar to those observed inG. huxleyi)resulted in a distinctive global biogeography of preferred thermal niche widths with a nonlinear latitudinal pattern. We leveraged the model output to predict the ranges of the 12 strains we studied in the laboratory and demonstrated how this approach could refine predictions of phytoplankton thermal geographic rangein situ. Our combination of observed thermal traits and modeled biogeography highlights the capacity of diverse groups to persist through temperature shifts.Significance StatementIntraspecific diversity in the phytoplankton may underpin their distribution. We show that within a single coccolithophore species, thermal response curves have diverse trait parameters. For example, many strains had a variable range of temperatures at which they could survive (thermal niche width). Adding this thermal niche width diversity to an ecosystem model simulation impacted phytoplankton coexistence and overall biomass. These observations show that thermal niche width is a gap in phytoplankton representation in ecosystem models that impacts modeled phytoplankton biogeography and concomitant carbon cycle dynamics. Including thermal tolerance is crucial to predictive modeling as ocean temperature dynamics change.
DFCP1 is a Regulator of ATGL-mediated Lipid Droplet Lipolysis
Authors: Ismail V.A. , Harvey M.N. , Castillo-Badillo J. , Naismith T. , Kast D.J. 
Published: February 2024

AbstractLipid droplets (LDs) are transient lipid storage organelles that can be readily tapped to resupply cells with energy or lipid building blocks, and therefore play a central role in cellular metabolism. Double FYVE Domain Containing Protein 1 (DFCP1/ZFYV1) has emerged as a key regulator of LD metabolism, where the nucleotide-dependent accumulation of DFCP1 on LDs influences their size, number, and dynamics. Here we show that DFCP1 regulates lipid metabolism by directly modulating the activity of Adipose Triglyceride Lipase (ATGL/PNPLA2), the rate-limiting lipase driving the catabolism of LDs. We show through pharmacological inhibition of key enzymes associated with LD metabolism that DFCP1 specifically regulates lipolysis and, to a lesser extent, lipophagy. Consistent with this observation, DFCP1 interacts with and recruits ATGL to LDs in starved cells, irrespective of known regulatory factors of ATGL. We further establish that this interaction prevents dynamic disassociation of ATGL from LDs and thereby impedes the rate of LD lipolysis. Collectively, our findings indicate that DFCP1 primes ATGL on LDs to promote rapid LD catabolism.
Calculation of momentum correlation functions between
π, K
, and
p
for several heavy-ion collision systems at
sNN=39
GeV
Authors: Wang Ting-Ting , Ma Yu-Gang , Zhang Song 
Published: February 2024

Momentum correlation functions between π, K, and p are calculated for several heavy-ion collision systems, namely B510+B510, O816+O816, Ca2040+Ca2040, and Au79197+Au79197 in central collisions as well as Au79197+Au79197 collision in different centralities at center-of-mass energy sNN=39 GeV within the framework of a multiphase transport model complemented by the Lednický and Lyuboshitz analytical method. The results present the centrality and system-size dependence of the momentum correlation functions among pairs of π, K, and p, from which the emission source-size can be deduced. It is found that the deduced source sizes increase with the decreasing of centrality for Au + Au system or with the increasing of system size in central collisions with different nuclear size. In addition, through the momentum correlation functions of nonidentical particle pairs gated on velocity, the average emission sequence of nonidentical particles can be indicated. The results illustrate that in the small relative momentum region, protons are emitted in average earlier than π+ and K+, and K+ are emitted averagely earlier than π+. Furthermore, it seems that larger interval of the average emission order among them is exhibited for smaller collision systems. The present study sheds light on the dynamics of light particle emission at RHIC energy.

Published by the American Physical Society
2024
Linear and nonlinear integrate-and-fire neurons driven by synaptic shot noise with reversal potentials
Authors: Richardson Magnus J. E. 
Published: February 2024

The steady-state firing rate and firing-rate response of the leaky and exponential integrate-and-fire models receiving synaptic shot noise with excitatory and inhibitory reversal potentials is examined. For the particular case where the underlying synaptic conductances are exponentially distributed, it is shown that the master equation for a population of such model neurons can be reduced from an integrodifferential form to a more tractable set of three differential equations. The system is nevertheless more challenging analytically than for current-based synapses: where possible, analytical results are provided with an efficient numerical scheme and code provided for other quantities. The increased tractability of the framework developed supports an ongoing critical comparison between models in which synapses are treated with and without reversal potentials, such as recently in the context of networks with balanced excitatory and inhibitory conductances.

Published by the American Physical Society
2024
Agroforestry in the UK: exploring consumer knowledge and interest
Authors: Cole Robert , Gittins Heli , Dandy Norman 
Published: February 2024

PurposeThis paper's purpose is to explore the current interest and knowledge that UK consumers hold around agroforestry. Despite the many reported benefits of agroforestry systems, uptake in the UK, as well as other temperate nations, has been low. As the consumer has a role to play in the transition of agriculture to methods that are more environmentally friendly it is vital to have an understanding of their perceptions. Yet to date no work has looked at agroforestry from the perspective of the UK consumer.Design/methodology/approachAn online survey was conducted using a convenience sample accessed by floating a link through social media and messaging apps. The survey was also shared to the members of a private Facebook group associated with an organic vegetable box service. A mix of multiple choice and open text boxes were used. The survey received 139 responses.FindingsNon-parametric tests indicate that this sample of UK consumers would be mostly likely to buy, and willing to pay more for, agroforestry produce; and the sample showed a split group regarding familiarity. Inductive thematic analysis of the qualitative data highlighted some important barriers to the purchase as well as capturing a snapshot of this sample's perceptions.Originality/valueThis paper presents, to the authors knowledge, the first set of data regarding a sample of UK consumers' perspective of agroforestry produce. The findings could bolster producers' confidence in adopting agroforestry practices, but also highlight the need for policymakers to bolster consumer support through parallel means.
Symmetrical and asymmetrical analysis of the complex relationship between perceived environmental uncertainty and creative performance: exploring a competency formula
Authors: Darvishmotevali Mahlagha , Prentice Catherine , Altinay Levent 
Published: February 2024

Purpose
In a dynamic and complex environment, employees’ creative performance (CP) can be essential in developing a distinguished and competitive strategy for an organization. Using the lens of competency management, this study aims to examine how employees perceived environmental uncertainty (PEU) and competency formula relate to employee CP, with a focus on the hospitality industry.

Design/methodology/approach
The data was collected from employees in the hospitality sector. Both symmetrical (PLS-SEM) and asymmetrical (fuzzy-set qualitative comparative analysis [fsQCA]) tests were performed to gain in-depth knowledge of how individual, organizational and environmental factors can be configured to explain employees’ CP.

Findings
The symmetrical analysis shows that the competency formula mediates the negative impacts of PEU on two dimensions of creativity – that is, novelty and utility. The fsQCA testing generated contrasting findings and revealed that uncertainty, along with the formula elements, is a unique antecedent condition and opportunity for employees’ CP. The inconsistent findings indicate asymmetrical and complex relationships between the proposed antecedents and outcomes in the case of employee creativity.

Practical implications
A combination of symmetrical and asymmetrical approaches is necessary to uncover the complex relationships among employees, organizations and the environment. This study shows that organizational agility, competency strategies and comprehensive strategic management processes can be configured to explain positive outcomes for organizations during uncertain circumstances. The findings can be used by human resource practitioners to maximize employee creativity and enhance organizational performance.

Originality/value
To the best of the authors’ knowledge, this study is the first to use symmetrical and asymmetrical testing to address the inadequacy of explaining employee CP in complex and uncertain environments, and highlight the crucial role of the competency formula in enhancing novelty and utility dimensions of CP. This research examines the impact of various internal and external factors (i.e. individual, organizational and contextual) on employee creativity within the hospitality industry.
Work engagement among higher education teachers: exploring the influence of human values and subjective well-being
Authors: Telu Sreenu , Potnuru Rama Krishna Gupta 
Published: February 2024

PurposeIn today’s competitive environment, understanding employee well-being and work engagement (WE) is crucial. This study explores the relationship between values, well-being and WE within positive organizational behavior (POB). The research aims to provide insights for promoting employee well-being and enhancing WE.Design/methodology/approachUsing a cross-sectional approach, three hundred and seventy-two teachers from higher education institutes in India participated by completing questionnaires. Covariance-based structural equation modeling (CB-SEM) was employed to examine the mediation effect.FindingsHuman values i.e. benevolence (BE) and universalism (UN) significantly impacted teachers' WE. These relationships were mediated by positive emotions (PE), negative emotions (NE) and satisfaction with life (SWL). Interestingly, UN exhibited a positive relationship with PE and SWL and a negative relationship with NE. These findings contradict existing theories and may be attributed to India’s cultural aspects, particularly the concept of karma orientation.Research limitations/implicationsThe quantitative results obtained through CB-SEM could be complemented by future qualitative studies. Employing longitudinal research might yield different results. Generalizing the findings to other populations requires caution.Practical implicationsInstitutions should prioritize human values in teacher recruitment and development to improve engagement. Promoting PE, managing NE and enhancing SWL can boost WE. Future research should explore mediation with other variables and use longitudinal studies to understand cultural impact and intervention strategies.Originality/valueThe study contributes to knowledge on WE within positive organizational behavior by examining BE and UN. Additionally, exploring the mediating effect of PE, NE and SWL adds further value.
Is UGC sentiment helpful for recommendation? An application of sentiment-based recommendation model
Authors: Gao Mengyang , Wang Jun , Liu Ou 
Published: February 2024

PurposeGiven the critical role of user-generated content (UGC) in e-commerce, exploring various aspects of UGC can aid in understanding user purchase intention and commodity recommendation. Therefore, this study investigates the impact of UGC on purchase decisions and proposes new recommendation models based on sentiment analysis, which are verified in Douban, one of the most popular UGC websites in China.Design/methodology/approachAfter verifying the relationship between various factors and product sales, this study proposes two models, collaborative filtering recommendation model based on sentiment (SCF) and hidden factors topics recommendation model based on sentiment (SHFT), by combining traditional collaborative filtering model (CF) and hidden factors topics model (HFT) with sentiment analysis.FindingsThe results indicate that sentiment significantly influences purchase intention. Furthermore, the proposed sentiment-based recommendation models outperform traditional CF and HFT in terms of mean absolute error (MAE) and root mean square error (RMSE). Moreover, the two models yield different outcomes for various product categories, providing actionable insights for organizers to implement more precise recommendation strategies.Practical implicationsThe findings of this study advocate the incorporation of UGC sentimental factors into websites to heighten recommendation accuracy. Additionally, different recommendation strategies can be employed for different products types.Originality/valueThis study introduces a novel perspective to the recommendation algorithm field. It not only validates the impact of UGC sentiment on purchase intention but also evaluates the proposed models with real-world data. The study provides valuable insights for managerial decision-making aimed at enhancing recommendation systems.
Entropic behavior with activation energy in the dynamics of hyperbolic-tangent mixed-convective nanomaterial due to a vertical slendering surface
Authors: Faisal Muhammad , Mabood F. , Badruddin I.A. , Aiyaz Muhammad , Butt Faisal Mehmood 
Published: February 2024

PurposeNonlinear mixed-convective entropy optimized the flow of hyperbolic-tangent nanofluid (HTN) with magnetohydrodynamics (MHD) process is considered over a vertical slendering surface. The impression of activation energy is incorporated in the modeling with the significance of nonlinear radiation, dissipative-function, heat generation/consumption connection and Joule heating. Research in this area has practical applications in the design of efficient heat exchangers, thermal management systems or nanomaterial-based devices.Design/methodology/approachSuitable set of variables is introduced to transform the PDEs (Partial differential equations) system into required ODEs (Ordinary differential equations) system. The transformed ODEs system is then solved numerically via finite difference method. Graphical artworks are made to predict the control of applicable transport parameters on surface entropy, Bejan number, Sherwood number, skin-friction, Nusselt number, temperature, velocity and concentration fields.FindingsIt is noticed from present numerical examination that Bejan number aggravates for improved estimations of concentration-difference parameter a_2, Eckert number E_c, thermal ratio parameter ?_w and radiation parameter R_d, whereas surface entropy condenses for flow performance index n, temperature-difference parameter a_1, thermodiffusion parameter N_t and mixed convection parameter ?. Sherwood number is enriched with the amplification of pedesis-motion parameter N_b, while opposite development is perceived for thermodiffusion parameter. Lastly, outcomes are matched with formerly published data to authenticate the present numerical investigation.Originality/valueTo the best of the authors' knowledge, no investigation has been reported yet that explains the entropic behavior with activation energy in the flowing of hyperbolic-tangent mixed-convective nanomaterial due to a vertical slendering surface.
Review of studies on risk factors in critical infrastructure projects from 2011 to 2023
Authors: Al-Mhdawi M.K.S. , O'connor Alan , Qazi Abroon , Rahimian Farzad , Dacre Nicholas 
Published: February 2024

PurposeThis research aims to systematically review studies on significant risks for Critical Infrastructure Projects (CIPs) from selected top-tier academic journals from 2011 to 2023.Design/methodology/approachIn this research, a three-step systematic literature review methodology was employed to analyse 55 selected articles on Critical Infrastructure Risks (CIRs) from well-regarded and relevant academic journals published from 2011 to 2023.FindingsThe findings highlight a growing research focus on CIRs from 2011 to 2023. A total of 128 risks were identified and grouped into ten distinct categories: construction, cultural, environmental, financial, legal, management, market, political, safety and technical risks. In addition, literature reviews combined with questionnaire surveys were more frequently used to identify CIRs than any other method. Moreover, oil and gas projects were the subjects most often explored in the reviewed papers. Furthermore, it was observed that publications from Iran, the USA and China dominated CIRs research, making significant contributions, accounting for 49.65% of the analysed articles.Research limitations/implicationsThis research specifically focuses on five types of CIPs (i.e. roadways, bridges, water supply systems, dams and oil and gas projects). Other CIPs like cyber-physical systems or electric power systems, were not considered in this research.Practical implicationsGovernments and contracting firms can benefit from the findings of this study by understanding the significant risks associated with the execution of CIPs, irrespective of the nation, industry or type of project. The results of this investigation can offer construction professionals valuable insights to formulate and implement risk response plans in the early stages of a project.Originality/valueAs a novel literature review related to CIRs, it lays the groundwork for future research and deepens the understanding of the multi-faceted effects of these risks, as well as sets practical response strategies.