bluuebunny/crossref_metadata_2025_split huggingface dataset:
The whole genome analysis of four Orf virus strains from Europe and South America
Authors: Cacciabue Marco , Moleres Javier , Lozano Calderón Laura C. , Echeverría Irache , de Pablo Lorena , Glaria Idoia , König Guido , Peralta Andrea , Reina Ramsés 
Published: September 2024

AbstractOrf virus (ORFV) is the etiological agent of Contagious Ecthyma (CE), a worldwide disease that mainly affects sheep, goats, wild ruminants, and humans. Here, we determined the complete genome sequence of two ORFV strains from Spain (NAV and ARA) and two from Argentina (HRE and CHB), representing the second report from Europe and the first from South America. The assembled genomes of the ARA, CHB, HRE, and NAV strains of ORFV were found to be 137,891 bp, 137,160 bp, 137,340 bp, and 137,214 bp long, respectively, containing 132 genes in each strain, showing high amino acid identity and similar lengths to the reference strain NZ2. We performed a microsatellite analysis to determine a molecular signature for strains that differ in their host (sheep or goat). In addition, the analysis of 32 specially selected genes showed that the nucleotide substitution rate for this dataset was 3.2x10-5 subs/site/year (95% HPD 4.2X10-8 -7.6 X10-5) with a median value of 2.8 x 10-5 subs/site/year, placing the TMRCA (median divergence time) in 1661. The genetic characterization of ORFV strains not only allows epidemiological studies but is the first step toward the development of molecular tools oriented to diagnostics and vaccines.
Integrative systems neuroimmunology reveals leukocyte-expressing PAX6 as a critical predictor of major depressive disorder
Authors: Dias Haroldo Dutra , Adri Anny Silva , Nóbile Adriel Leal , de Oliveira Marilia Garcia , Chung Elizabeth N. , Bahia Ian Antunes Ferreira , Fonseca Dennyson Leandro M , Schimke Lena F. , Filgueiras Igor Salerno , Marçal Pedro , Nery do Vale Fernando Yuri , Dalmolin Rodrigo J S , Cabral-Miranda Gustavo , Nakaya Helder , Bortoloti Renato , Hamani Clement , Wheeler Michael A. , Rezende Rafael Machado , Cabral-Marques Otavio 
Published: September 2024

ABSTRACTMajor depressive disorder (MDD) is a complex psychiatric condition with a significant global impact. This study applied a genomic-driven integrative systems neuroimmunology approach to analyze transcriptomic data from 3,114 individuals (1,877 MDD patients and 1,237 controls). The analysis revealed neuroimmunological transcriptomic alterations, indicating cross-talk between the immune and nervous systems in peripheral blood mononuclear cells (PBMCs) and specific brain regions. Among 31 shared genes, NEGR1, PPP6C, SORCS3, and PAX6 emerged as significant predictors of MDD in patients’ PBMCs. Notably, PAX6 was also identified as a differentially expressed gene (DEG) in the amygdala, while NEGR1, PPP6C, and SORCS3 showed no significant differential expression in other central nervous system (CNS) regions. Validation by immunophenotyping in a mouse model of chronic stress demonstrated increased PAX6 expression in PBMCs, a gene previously associated with MDD in GWAS studies. Collectively, our findings suggest the existence of shared transcriptomic modules across the brain and immune system, highlighting PAX6 as a potential therapeutic target in MDD.
Directional motion sensitivity in people with Visual Snow Syndrome is modulated by the presence of trailing-type palinopsia
Authors: Obukhova T.S. , Stroganova T.A. , Artemenko A.R. , Petrokovskaia A.V. , Orekhova E.V. 
Published: September 2024

AbstractVisual Snow Syndrome (VSS) is characterized by visual perceptual distortions, potentially linked to increased neural excitability. We hypothesized that this hyperexcitability might affect motion direction sensitivity in VSS, particularly in those with trailing-type palinopsia (TTP), an atypical perception of visual motion.Using a spatial suppression paradigm, we assessed motion duration discrimination thresholds for small (1°), medium (2.5°), and large (12°) high-contrast gratings in 23 VSS and 27 control participants. Spatial Suppression Index (SSI) quantified size-dependent increases in duration thresholds. Visual Discomfort Questionnaire scores and VSS symptom ratings including TTP, afterimages, photophobia, etc. were also collected.VSS patients reported higher visual discomfort and perceptual disturbances. However, no group differences were found in duration thresholds or SSI. Notably, higher TTP scores were associated with lower duration thresholds, indicating a facilitatory effect of TTP on motion sensitivity.These findings suggest that ‘visual snow,’ the core symptom of VSS, is not linked to abnormal directional sensitivity or center-surround suppression associated with visual motion. However, the dependence of directional sensitivity on TTP emphasizes the heterogeneity of VSS, which should be considered in future neurophysiological and clinical models.
Placentas from SARS-CoV-2 infection during pregnancy exhibit foci of oxidative stress and DNA damage
Authors: Nobrega Guilherme M , McColl Eliza R , Antolini-Tavares Arthur , Souza Renato T , Cecatti José Guilherme , Costa Maria Laura , Mysorekar Indira U 
Published: September 2024

ABSTRACTProblemCOVID-19 during pregnancy is linked to increased maternal morbidity and a higher incidence of preterm births, yet the underlying mechanisms remain unclear. Cellular senescence, characterized by the irreversible cessation of cell division, is a critical process in placental function and its dysregulation has been implicated in pregnancy complications like preterm birth. Senescence can be induced by various stressors, including oxidative stress, DNA damage, and viral infections.Method of StudyIn this study, we determined whether COVID-19 had an impact on placental senescence. We examined placentas from women infected with SARS-CoV-2 (n=10 term, 4 preterm) compared to uninfected controls (n=10 term, 3 preterm). The placentas were analyzed for SARS-CoV-2 infection/replication (Spike and Nucleocapsid viral proteins), markers of DNA damage (γH2AX) and oxidative stress (ROS), and senescence (telomere length; cell cycle regulators, SASP).ResultsWhile no overall differences in cellular senescence markers were observed between the COVID-19 positive and negative groups, we found increased secreted SASP markers and confocal microscopy revealed localized areas of oxidative stress and DNA damage in the placentas from COVID-19 positive cases.ConclusionsThese findings indicate that SARS-CoV-2 infection induces localized placental damage, warranting further investigation into its impact on maternal and perinatal outcomes.
The human ciliopathy protein RSG1 links the CPLANE complex to transition zone architecture
Authors: Vazquez Neftalí , Lee Chanjae , Valenzuela Irene , Phan Thao P. , Derderian Camille , Chávez Marcelo , Mooney Nancie A. , Demeter Janos , Aziz-Zanjani Mohammad Ovais , Cusco Ivon , Codina Marta , Martínez-Gil Núria , Valverde Diana , Solarat Carlos , Buel Ange-Line , Thauvin-Robinet Cristel , Steichen Elisabeth , Filges Isabel , Joset Pascal , De Geyter Julie , Vaidyanathan Krishna , Gardner Tynan , Toriyama Michinori , Marcotte Edward M. , Roberson Elle C. , Jackson Peter K. , Reiter Jeremy F. , Tizzano Eduardo F. , Wallingford John B. 
Published: September 2024

AbstractCilia are essential organelles and variants in genes governing ciliary function result in ciliopathic diseases. The Ciliogenesis and PLANar polarity Effectors (CPLANE) protein complex is essential for ciliogenesis in animals models but remains poorly defined. Notably, all but one subunit of the CPLANE complex have been implicated in human ciliopathy. Here, we identify three families in which variants in the remaining CPLANE subunitCPLANE2/RSG1also cause ciliopathy. These patients display cleft palate, tongue lobulations and polydactyly, phenotypes characteristic of Oral-Facial-Digital Syndrome. We further show that these alleles disrupt two vital steps of ciliogenesis, basal body docking and recruitment of intraflagellar transport proteins. Moreover, APMS reveals that Rsg1 binds the CPLANE and also the transition zone protein Fam92 in a GTP-dependent manner. Finally, we show that CPLANE is generally required for normal transition zone architecture. Our work demonstrates that CPLANE2/RSG1 is a causative gene for human ciliopathy and also sheds new light on the mechanisms of ciliary transition zone assembly.
Non-CG DNA methylation modulates hypocotyl elongation during thermormorphogenesis
Authors: Garro Maián , Greco Eleonora , Vannay Gustavo J. , Leonova Aleksandra , Bruno Leonardo , Capella Matías 
Published: September 2024

AbstractPlants adapt to warm environments through physiological and morphological changes termed thermomorphogenesis, which involve transcriptional reprogramming exerted mainly by PHYTOCHROME INTERACTING FACTOR 4 (PIF4). Fluctuating temperatures can also influence the patterns of cytosine DNA methylation, thereby influencing gene expression. However, whether these epigenetic changes provide an adaptative advantage remains unclear. Here, we provide evidence that DNA methylation is required to regulate thermomorphogenesis. Hypomethylateddrm1 drm2 cmt3mutants or seedlings treated with 5-azacytidine to block DNA methylation exhibit reduced hypocotyl growth at warm temperatures, primarily due to impaired cell elongation. Moreover, DNA hypomethylation compromises auxin biosynthesis and transport in response to warmth, partially by reducing PIF4 protein levels. Notably, the loss of DNA methylation leads to increased expression ofSUPPRESSOR OF drm1 drm2 cmt3(SDC), which in turn restricts hypocotyl elongation during thermomorphogenesis. Finally, we demonstrate that DNAme regulates the inhibition ofSDCexpression to promote gibberellin biosynthesis. Our findings underscore the critical role of DNA methylation in modulating gene expression in response to temperature fluctuations and provide new insights into the epigenetic regulation of thermomorphogenesis.HighlightsDNA methylation regulates the expression of key genes involved in auxin and gibberellin metabolism, to ensure hypocotyl growth in response to warm temperatures.
Single-cell virology: On-chip, quantitative characterization of the dynamics of virus spread from one single cell to another
Authors: Liu Wu , Wilke Claus O. , Arnold Jamie J. , Sotoudegan Mohamad S. , Cameron Craig E. 
Published: September 2024

AbstractVirus spread at the single-cell level is largely uncharacterized. We have designed and constructed a microfluidic device in which each nanowell contained a single, infected cell (donor) and a single, uninfected cell (recipient). Using a GFP-expressing poliovirus as our model, we observed both lytic and non-lytic spread. Donor cells supporting lytic spread established infection earlier than those supporting non-lytic spread. However, non-lytic spread established infections in recipient cells substantially faster than lytic spread and yielded higher rates of genome replication. While lytic spread was sensitive to the presence of capsid entry/uncoating inhibitors, non-lytic spread was not. Consistent with emerging models for non-lytic spread of enteroviruses using autophagy, reduction of LC3 levels in cells impaired non-lytic spread and elevated the fraction of virus in donor cells spreading lytically. The ability to distinguish lytic and non-lytic spread unambiguously will enable discovery of viral and host factors and host pathways used for non-lytic spread of enteroviruses and other viruses as well.
The Senescence-Associated-Secretory Phenotype constituting HIF-1α activation is independent of micronuclei induction and associated cGAS-mediated interferon response
Authors: Lin Deng , Ho Celestine , Picone Remigio , Abderazzaq Fieda , Flanagan Nicole , Low Boon Chuan , Wu Selwin K. 
Published: September 2024

ABSTRACTThe Senescence-Associated Secretory Phenotype (SASP), characterized by the upregulation of inflammatory cytokines, is triggered during senescence by anti-proliferation stresses, such as replicative exhaustion and centrosome amplification. Previously, we have discovered that centrosome amplification activates a non-canonical SASP that is dominated by HIF-1α-induced inflammatory cytokines instead of the NFκb activation in canonical SASP. HIF-1α is not only activated in centrosome amplification, oncogene, and gamma-irradiation-induced senescence1but also induced in replicative exhaustion-induced senescence. Another major consequence of centrosome amplification is micronuclei generation from chromosome missegregation. The micronuclei could have triggered SASP by activating cGAS/Sting innate immune response2. However, it has been shown that micronuclei from chromosome missegregation fail to activate cGAS/Sting-mediated innate immune response3–5. Indeed, here we further demonstrate that moderate chromosome missegregation by centrosome amplification or mitotic kinase monopolar spindle 1 inhibition, which is known to generate micronuclei, fails to induce senescence and cGAS-mediated interferon response. In summary, we provide evidence that the Senescence-Associated-Secretory Phenotype constitutes hypoxia-inducible factor-alpha activation, independent of chromosome missegregation triggering cGAS-mediated innate immune interferon response.
Live imaging human embryos reveals mitotic errors and lineage specification prior to implantation
Authors: Abdelbaki Ahmed , McCarthy Afshan , Karsa Anita , Muresan Leila , Elder Kay , Papathanasiou Athanasios , Snell Phil , Christie Leila , Wilding Martin , Steventon Benjamin J. , Niakan Kathy K. 
Published: September 2024

AbstractMeiotic and mitotic chromosome segregation errors in human development have been studied mostly prior to and at the time of fertilisation. Despite chromosomal errors being a leading cause of miscarriage and infertility, chromosome missegregation has not been extensively studied at later stages of human development. Here we optimised labelling, light-sheet live imaging and semi-quantitative analysis of human embryos and reveal chromosome segregation errors just prior to implantation. We found that human embryos exhibited a number of chromosome missegregation events including multipolar spindle formation, lagging chromosomes, misalignment and chromosome slippage. We found that the majority of lagging chromosomes were passively inherited by one of the daughter cells, instead of reincorporating into the nuclei, suggesting a distinct pattern of micronuclei inheritance. By semi-automated segmentation, we tracked the position of labelled cells in human embryos and observed that while most labelled cells remained segregated to the outside, and therefore restricted to a placental-progenitor fate, there was evidence of a rare cell migration to cells positioned on the inside, which suggests that there may be plasticity. Altogether, we found that mitotic chromosome segregation errors arise just prior to implantation, which has implications for our understanding of biological events that contribute to aneuploidy mosaicism.
The employability consequences of grit: examining the roles of job involvement and team member proactivity
Authors: Jiang Lin , Khapova Svetlana N. , Cai Wenjing , Gao Xiaopei 
Published: September 2024

Purpose
Responding to the call for more research on the consequences of grit, this study aims to examine the relationship between grit and employees’ perceived employability. Drawing on the self-determination theory, the authors hypothesize that job involvement and team member proactivity sequentially mediate the relationship between grit and employability.

Design/methodology/approach
A time-lagged research design with a one-month interval was conducted to collect data from three public sector organizations in China (N = 484). The model was tested using confirmatory factor analysis, correlation analysis and the PROCESS bootstrapping program in SPSS25.0 and AMOS21.0 software.

Findings
The findings reveal that the positive effect of grit on employability is mediated by job involvement and team member proactivity sequentially.

Originality/value
The authors contribute to the literature on the employability outcomes of grit. It is also one of a few studies that use a job perspective on the grit−employability relationship.
Revisiting the financial challenges faced by women-led microenterprises: some evidence from the Indian manufacturing sector
Authors: Majumdar Raju , Mittal Ankur 
Published: September 2024

PurposeThis primary purpose of this research is to explore the rank order of funding challenges among the other challenges faced by women entrepreneurs (WEs) in an urban setting. For this purpose, the study uses a sample of women microentrepreneurs engaged in (the relatively capital-intensive) manufacturing activities. The study further explores the perception of WEs toward borrowing as a source of funds and the challenges they face while accessing institutional finance. Lastly, the study explores whether the financial challenges faced by them are, in part, influenced by the deficiencies in their own skill set, as the human capital theory suggests.Design/methodology/approachFor the purpose of analysis, this research uses summary statistics, namely the mean, mode and standard deviation for the purpose of preliminary analysis. The Friedman two-way analysis of variance by rank test and the associated chi-square value are used to statistically validate the hypothesis. Furthermore, the Wilcoxon signed-rank test is used to check for the robustness of our results.FindingsOur findings suggest that the growth of the financial services sector in urban India has not had a significant impact on the funding challenges that WEs faced. A closer look at the evidence suggests that even for educated urban women, the funding challenges faced are no different from what has widely been reported in the context of other emerging nations. Highlighting the inadequacies in high school and college education in so far as financial skills training is concerned, the study recommends a multipronged approach to address the observed voluntary abstinence from borrowing as well as the institutional hurdles WEs faced.Originality/valueUnlike previous research where WEs are treated as a monolithic whole, this study focuses on WEs engaged in manufacturing activities in an urban setting.
To complete or terminate smart manufacturing projects: a prospect theory perspective
Authors: Shan Xueshu , Shao Jinan , Zhao Xinyu , Shou Yongyi 
Published: September 2024

PurposeDespite the increasingly salient role of smart manufacturing (SM) in revolutionizing operational processes, little research has explored the dynamics of corporate executives’ decision-making on SM projects after their initiation. To fill this research gap, this study examines the configurations of project complexities (i.e. technological breadth and organizational breadth) and industry conditions (i.e. industry growth and industry competition) that shape managerial decisions to complete or terminate SM projects.Design/methodology/approachUsing secondary data of 125 SM projects implemented in 106 manufacturers during the 2011–2020 period, we conduct a fuzzy-set qualitative comparative analysis to empirically derive equifinal configurations that lead to the completion or termination of SM projects.FindingsThe results reveal that project complexities and industry conditions work together in configurations where manufacturers will complete or terminate SM projects. We employ prospect theory to elucidate the findings and offer propositions.Originality/valueOur study extends the extant SM literature by revealing the configurations of project complexities and industry conditions that shape managerial decisions on the completion or termination of SM projects after their initiation. It contributes to the prospect theory literature by accounting for the roles of both decision content and decision context and providing empirical evidence on their joint effects on managerial risk-taking decisions that alter the subjective value and probability weight of decision outcomes.
Social, cultural and institutional forces in corporate and patrimonial states and their relations with corporate governance: a North–South contrast
Authors: Martínez-Avella Mario , Jiménez-Aguilar Carlos 
Published: September 2024

Purpose
This study aims to examine two questions that contribute to understanding the organizational corporate governance forms of the so-called New World: What have been the social and cultural forces that gave rise to the institutional features of the Anglo-Saxon corporate states and the Hispanic patrimonial states? And how have these traits influenced the governance forms of North American and Latin American firms?

Design/methodology/approach
A comparative historical analysis methodology that dates back to the colonial foundations of the New World was used. Analysis categories were derived to allow us to reflect on the phenomenon studied and support the hypotheses while deriving observations that explain the historical relationships of the state types and their capitalisms with contemporary corporate governance. The research also considered case analysis in context, presented as specific empirical evidence.

Findings
The paper maintains that the historical social and cultural forces that were configured in the New World shaped the institutional features of the Anglo-Saxon corporate states with liberal capitalism and the Hispanic patrimonial states with hierarchical capitalism, and that these features are related to the predominant organizational corporate governance forms in North American and Latin American firms, respectively.

Originality/value
This paper provides insights into the social, cultural and institutional factors that gave rise to corporate and patrimonial states and their relationships with the different types of organizational corporate governance. It introduces a categorization into the literature with three types of organizational corporate governance (e.g. corporatist, patrimonial and hybrid). This allows progress in linking corporate governance theories with a managerial focus and governance perspectives oriented to economic and social development.
An novel finite difference dispersion error elimination mechanism in the Lax–Wendroff high‐order time discretization
Authors: Liang Wenquan , Wang Yanfei 
Published: September 2024

AbstractTime domain finite difference methods have been widely used for wave‐equation modelling in exploration geophysics over many decades. When using time domain finite difference methods, it is desirable to use a larger time step so as to save numerical simulation time. The Lax–Wendroff method is one of the well‐known methods to allow larger time step without increasing the time grid dispersion. However, the Lax–Wendroff method suffers from more time consumption because there are more spatial derivatives required to be approximated by the finite difference operators. We propose a new finite difference scheme for the Lax–Wendroff method so as to reduce the numerical simulation time. Then we determine the finite difference operator coefficients and analyse the dispersion error of the proposed finite difference scheme for the Lax–Wendroff method. At last, we apply the proposed finite difference scheme for the Lax–Wendroff method to different velocity models. The numerical simulation results indicate that the proposed finite difference scheme for the Lax–Wendroff method can effectively suppress time grid dispersion and is more efficient compared to the traditional finite difference scheme for the Lax–Wendroff method.