bluuebunny/crossref_metadata_2025_split huggingface dataset:
Atypical Cell Cycle Regulation over Neural Stem Cell Expansion
Authors: Qemo Ingrid , Lubanska Dorota , Stringer Keith Franklin , Fifield Bre-Anne , Elabed Youshaa , Mahendran Hema Priya , Alrashed Sami , Boujeke Emmanuel , Rodzinka Alexander , Sorge Alexandra , Kandalam Srinath , Brown Jillian , Ghafoor Hasan , Arshad Maheen , Porter Lisa A. 
Published: December 2023

SUMMARYPopulations of quiescent adult neural stem cells (NSCs) that reside in the mammalian brain aid in neurogenesis throughout life and can be identified by molecular markers including Nestin, a type VI intermediate filament protein. Cell cycle regulation plays an important role in determining the fate of NSCs in the adult brain and maintaining a crucial balance between self-renewal and differentiation. Data from our group and others support that the atypical cyclin-like protein Spy1 (also called RingoA; geneSPDYA) plays a critical role in activating NSCs from a quiescent state. Elevated levels of Spy1 are found in aggressive human brain cancers, including glioblastoma. Using a conditional mouse model, we demonstrate that driving the expression of Spy1 in the Nestin-enriched NSC population of the brain directs the cells toward symmetric cellular division, increases stemness characteristics, decreases differentiation, and increases susceptibility to oncogenic transformation & drug resistance. This study contributes to better understanding of intricate cell cycle mechanisms which lead to deviation from the homeostatic state, promoting aberrant changes in adult NSCs.
Robust trigger wave speed inXenopuscytoplasmic extracts
Authors: Huang Jo-Hsi , Chen Yuping , Huang William Y. C. , Tabatabaee Saman , Ferrell James E. 
Published: December 2023

ABSTRACTSelf-regenerating trigger waves can spread rapidly through the crowded cytoplasm without diminishing in amplitude or speed, providing consistent, reliable, long-range communication. The macromolecular concentration of the cytoplasm varies in response to physiological and environmental fluctuations, raising the question of how or if trigger waves can robustly operate in the face of such fluctuations. UsingXenopusextracts, we found that mitotic and apoptotic trigger wave speeds are remarkably invariant. We derived a model that accounts for this robustness and for the eventual slowing at extremely high and low cytoplasmic concentrations. The model implies that the positive and negative effects of cytoplasmic concentration (increased reactant concentration vs. increased viscosity) are nearly precisely balanced. Accordingly, artificially maintaining a constant cytoplasmic viscosity during dilution abrogates this robustness. The robustness in trigger wave speeds may contribute to the reliability of the extremely rapid embryonic cell cycle.
Glucocorticoids rapidly modulate CaV1.2-mediated calcium signals through Kv2.1 channel clusters in hippocampal neurons
Authors: Wan Di , Lu Tongchuang , Li Chenyang , Hu Changlong 
Published: December 2023

AbstractThe precise regulation of Ca2+signals plays a crucial role in the physiological functions of neurons. Here, we investigated the rapid effect of glucocorticoids on Ca2+signals in hippocampal neurons. In cultured hippocampal neurons, glucocorticoids inhibited the spontaneous somatic Ca2+spikes generated by Kv2.1-organized Ca2+microdomains. Furthermore, glucocorticoids rapidly reduced the cell surface expressions of Kv2.1 and CaV1.2 channels in hippocampal neurons. In HEK293 cells transfected with Kv2.1 alone, glucocorticoids significantly reduced the surface expression of Kv2.1 with little effect on K+currents. Glucocorticoids inhibited CaV1.2 currents but had no effect on the cell surface expression of CaV1.2 in HEK293 cells transfected with CaV1.2 alone. Notably, in the presence of wild-type Kv2.1, glucocorticoids caused a decrease in the surface expression of CaV1.2 channels in HEK293 cells. However, this effect was not observed in the presence of non-clustering Kv2.1S586A mutant channels. Live cell imaging showed that glucocorticoids rapidly decreased Kv2.1 clusters on the plasma membrane. Correspondingly, western blot results indicated a significant increase in the cytoplasmic level of Kv2.1, suggesting the endocytosis of Kv2.1 clusters. Glucocorticoids rapidly decreased the intracellular cAMP concentration and the phosphorylation level of PKA in hippocampal neurons. The PKA inhibitor H89 mimicked the effect of glucocorticoids on Kv2.1, while the PKA agonist forskolin abrogated the effect. In conclusion, glucocorticoids rapidly regulate CaV1.2-mediated Ca2+signals in hippocampal neurons by promoting the endocytosis of Kv2.1 channel clusters through reducing PKA activity.Significance StatementThe rapid non-genomic effect of glucocorticoids on the central nervous system is not fully understood. CaV1.2-mediated Ca2+signaling microdomains control somatic Ca2+signals and regulate excitation-transcription coupling in hippocampal neurons. Here, we demonstrate that glucocorticoids rapidly inhibit CaV1.2-mediated somatic Ca2+spikes in hippocampal neurons. Glucocorticoids reduce the surface expression of Kv2.1 clusters but do not affect the surface expression of non-clustering Kv2.1. Moreover, glucocorticoids induce the endocytosis of CaV1.2 channels through wild-type Kv2.1. However, glucocorticoids cannot induce the endocytosis of CaV1.2 channels through Kv2.1S586A mutant channels, which cannot form clusters. This study sheds light on the intricate interplay between glucocorticoids, Kv2.1 channels, and CaV1.2 channels, unraveling a dual mechanism that influences both overall Ca2+signaling and the intricate organization of neural microdomains.
A Combination of Four Nuclear Targeted Effectors ProtectsToxoplasmaAgainst Interferon Gamma Driven Human Host Cell Death During Acute Infection
Authors: Henry Brittany , Sibley L. David , Rosenberg Alex 
Published: December 2023

AbstractIn both mice and humans, Type II interferon-gamma (IFNγ) is crucial for regulation ofToxoplasma gondii(T. gondii) infection, during acute or chronic phases. To thwart this defense,T. gondiisecretes protein effectors hindering the host’s immune response. For example,T. gondiirelies on the MYR translocon complex to deploy soluble dense granule effectors (GRAs) into the host cell cytosol or nucleus. Recent genome-wide loss-of-function screens in IFNγ-primed primary human fibroblasts identified MYR translocon components as crucial for parasite resistance against IFNγ driven vacuole clearance. However, these screens did not pinpoint specific MYR-dependent GRA proteins responsible for IFNγ signaling blockade, suggesting potential functional redundancy.Our study reveals thatT. gondiidepends on the MYR translocon complex to prevent host cell death and parasite premature egress in human cells stimulated with IFNγ post-infection, a unique phenotype observed in various human cell lines but not in murine cells. Intriguingly, inhibiting parasite egress did not prevent host cell death, indicating this mechanism is distinct from those described previously. Genome-wide loss-of-function screens uncovered TgIST, GRA16, GRA24, and GRA28 as effectors necessary for a complete block of IFNγ response. GRA24 and GRA28 directly influenced IFNγ driven transcription, GRA24’s action depended on its interaction with p38 MAPK, while GRA28 disrupted histone acetyltransferase activity of CBP/p300. Given the intricate nature of the immune response toT. gondii, it appears that the parasite has evolved equally elaborate mechanisms to subvert IFNγ signaling, extending beyond direct interference with the JAK/STAT1 pathway, to encompass other signaling pathways as well.
Adaptation-induced sharpening of orientation tuning curves in the mouse visual cortex
Authors: Ouelhazi Afef , Bharmauria Vishal , Molotchnikoff Stéphane 
Published: December 2023

ABSTRACTOrientation selectivity is an emergent property of visual neurons across species with columnar and non-columnar organization of the visual cortex. To compute the orientation selectivity of a neuron, a tuning function is fit on the raw responses of a neuron and then a measure, termed orientation selectivity index (OSI), is derived from this fitted curve to determine the tuning of the neuron. Previously, it has been shown that adaptation (a protocol where a neuron under observation is presented a non-optimal stimulus for a specific time) has varying effects on the tuning properties of neurons, such as, orientation, spatial frequency, motion etc. The emergence of OSI is more established in columnar cortices than the non-columnar ones. However, how adaptation impinges upon the OSI of the latter has not been systematically investigated. Here, in the mouse primary visual cortex (V1), we show that a 12-min adaptation protocol sharpens the OSI (tuning) of the visual neurons, underlying a specific dendritic neural mechanism, potentially facilitating the learning of novel features.
Evidence of 14-3-3 proteins contributing to kinetochore integrity and chromosome congression during mitosis
Authors: Anbalagan Guhan Kaliyaperumal , Agarwal Prakhar , Ghosh Santanu Kumar 
Published: December 2023

AbstractThe 14-3-3 family of proteins are conserved across eukaryotes and serve myriad important regulatory functions of the cell. Homo/heterodimers of these protein homologs, majorly recognize their ligands via conserved motifs from a plethora of cellular proteins to modulate the localization and functions of those effector ligands. In most of the genetic backgrounds ofSaccharomyces cerevisiae, disruption of both 14-3-3 homologs (Bmh1 and Bmh2) are either lethal or survive with severe growth defects showing gross chromosomal missegregation and prolonged cell cycle arrest. To elucidate their contributions to chromosome segregation, in this work we investigated their centromere/kinetochore-related functions. Analysis of appropriate deletion mutants shows that Bmh isoforms have cumulative and unshared isoform-specific contributions in maintaining the proper integrity of the kinetochore ensemble. Consequently,bmhmutant cells exhibited perturbations in kinetochore-microtubule (KT-MT) dynamics, characterized by kinetochore declustering, mis-localization of kinetochore proteins, and Mad2-mediated transient G2/M arrest. These defects also caused an asynchronous chromosome congression inbmhmutants during metaphase. In summary, this report advances the knowledge on contributions of budding yeast 14-3-3 proteins in chromosome segregation by demonstrating their roles in kinetochore integrity and chromosome congression.
Immune-responsive gene-1: The mitochondrial Key to Th17 Cell Pathogenicity in CNS Autoimmunity
Authors: Nematullah Mohammad , Fatma Mena , Zhou Guoli , Rashid Faraz , Ayasolla Kameshwar , Ahmed Mohammad Ejaz , She Ruicong , Mir Sajad , Zahoor Insha , Hoda Nasrul , Rattan Ramandeep , Giri Shailendra 
Published: December 2023

AbstractPathogenic Th17 cells play crucial roles in CNS autoimmune diseases such as multiple sclerosis (MS), but their regulation by endogenous mechanisms remains unknown. Through RNA-seq analysis of primary brain glial cells, we identified immuno-responsive gene 1 (Irg1) as one of the highly upregulated gene under inflammatory conditions. Validation in the spinal cord of animals with experimental autoimmune encephalomyelitis (EAE), an MS model, confirmed elevatedIrg1levels in myeloid, CD4, and B cells in the EAE group raising the concern ifIrg1 is detrimental or protective.Irg1knockout (KO) mice exhibited severe EAE disease, increased mononuclear cell infiltration, and increased levels of triple-positive CD4+ T cells expressing IL17a, GM-CSF, and IFNγ. A lack ofIrg1in macrophages elevates Class II expression, promoting the polarization of myelin-primed CD4+ T cells into pathogenic Th17 cells via the NLRP3/IL-1β axis. Adoptive transfer in Rag-1 KO and single-cell RNA sequencing highlighted the crucial role ofIrg1in shaping pathogenic Th17 cells. Moreover, bone marrow chimeras revealed that immune cells lackingIrg1maintained pathogenic and inflammatory phenotypes, suggesting its protective role in autoimmune diseases, including MS.SignificanceImmunoresponsive gene 1 (Irg1) was identified as a significantly elevated gene under inflammatory conditions through in vitro and in vivo models. Using global knockout mice, we identifiedIrg1 as a protective endogenous gene that negatively regulates pathogenic Th17 cells. Single-cell RNA sequencing of infiltrating cells during EAE revealed thatIrg1 knockout enhanced the expression of pathogenic Th signatures in CD4+ T cells, indicating a robust proinflammatory environment.Irg1 negatively regulates IL-1β in macrophages, which is essential for the differentiation of pTh17 CD4+ T cells, potentially clarifying the exacerbation of EAE in knockout animals. Our study identifiedIrg1 as a negative regulator of both innate and adaptive immune responses in a CNS autoimmunity model.
Magnetoelectric Nanodiscs Enable Wireless Transgene-Free Neuromodulation
Authors: Kim Ye Ji , Driscoll Nicolette , Kent Noah , Paniagua Emmanuel Vargas , Tabet Anthony , Koehler Florian , Manthey Marie , Sahasrabudhe Atharva , Signorelli Lorenzo , Gregureć Danijela , Anikeeva Polina 
Published: December 2023

AbstractDeep-brain stimulation (DBS) with implanted electrodes revolutionized treatment of movement disorders and empowered neuroscience studies. Identifying less invasive alternatives to DBS may further extend its clinical and research applications. Nanomaterial-mediated transduction of magnetic fields into electric potentials offers an alternative to invasive DBS. Here, we synthesize magnetoelectric nanodiscs (MENDs) with a core-double shell Fe3O4-CoFe2O4-BaTiO3architecture with efficient magnetoelectric coupling. We find robust responses to magnetic field stimulation in neurons decorated with MENDs at a density of 1 µg/mm2despite individual-particle potentials below the neuronal excitation threshold. We propose a model for repetitive subthreshold depolarization, which combined with cable theory, corroborates our findings in vitro and informs magnetoelectric stimulation in vivo. MENDs injected into the ventral tegmental area of genetically intact mice at concentrations of 1 mg/mL enable remote control of reward behavior, setting the stage for mechanistic optimization of magnetoelectric neuromodulation and inspiring its future applications in fundamental and translational neuroscience.
Deconer: A comprehensive and systematic evaluation toolkit for reference-based cell type deconvolution algorithms using gene expression data
Authors: Zhang Wei , Zhang Xianglin , Liu Qiao , Wei Lei , Qiao Xu , Gao Rui , Liu Zhiping , Wang Xiaowo 
Published: December 2023

AbstractIn recent years, computational methods for quantifying cell type proportions from transcription data have gained significant attention, particularly those reference-based methods which have demonstrated high accuracy. However, there is currently a lack of comprehensive evaluation and guidance for available reference-based deconvolution methods in cell proportion deconvolution analysis. In this study, we propose a comprehensive evaluation toolkit, called Deconer, specifically designed for reference-based deconvolution methods. Deconer provides various simulated and real gene expression datasets, including both bulk and single-cell sequencing data, and offers multiple visualization interfaces. By utilizing Deconer, we conducted systematic comparisons of 14 reference-based deconvolution methods from different perspectives, including method robustness, accuracy in deconvolving rare components, signature gene selection, and building external reference. We also performed an in-depth analysis of the application scenarios and challenges in cell proportion deconvolution methods. Finally, we provided constructive suggestions for users in selecting and developing cell proportion deconvolution algorithms. This work presents novel insights to researchers, assisting them in choosing appropriate toolkits, applying solutions in clinical contexts, and advancing the development of deconvolution tools tailored to gene expression data.
How the immune mousetrap works: structural evidence for the immunomodulatory action of a peptide from influenza NS1 protein
Authors: Zabrodskaya Yana , Tsvetkov Vladimir , Shurygina Anna-Polina , Vasyliev Kirill , Shaldzhyan Aram , Gorshkov Andrey , Kuklin Alexander , Fedorova Natalya , Egorov Vladimir 
Published: December 2023

AbstractOne of the critical stages of the T-cell immune response is the dimerization of the intramembrane domains of T-cell receptors (TCR). Structural similarities between the immunosuppressive domains of viral proteins and the transmembrane domains of TCR have led several authors to hypothesize the mechanism of immune response suppression by highly pathogenic viruses: viral proteins embed themselves in the membrane and act on the intramembrane domain of the TCRalpha subunit, hindering its functional oligomerization. It has also been suggested that this mechanism is used by influenza A virus in NS1-mediated immunosuppression. We have shown that the peptide corresponding to the primary structure of the potential immunosuppressive domain of NS1 protein (G51) can reduce concanavalin A-induced proliferation of PBMC cells, as well as in vitro, G51 can affect the oligomerization of the core peptide corresponding to the intramembrane domain of TCR, using AFM and small-angle neutron scattering.The results obtained usingin celluloandin vitromodel systems suggest the presence of functional interaction between the NS1 fragment and the intramembrane domain of the TCR alpha subunit. We have proposed a possible scheme for such interaction obtained by computer modeling.This suggests the existence of another NS1-mediated mechanism of immunosuppression in influenza.Abstract Figure
Occupational stress in the construction industry: a bibliometric-qualitative analysis of literature and future research directions
Authors: Chiang Dephanie Cheok Ieng , Antwi-Afari Maxwell Fordjour , Anwer Shahnawaz , Mohandes Saeed Reza , Li Xiao 
Published: December 2023

PurposeGiven the growing concern about employees' well-being, numerous researchers have investigated the causes and effects of occupational stress. However, a review study on identifying existing research topics and gaps is still deficient in the extant literature. To fill this gap, this review study aims to present a bibliometric and science mapping approach to review the state-of-the-art journal articles published on occupational stress in the construction industry.Design/methodology/approachA three-fold comprehensive review approach consisting of bibliometric review, scientometric analysis and in-depth qualitative discussion was employed to review 80 journal articles in Scopus.FindingsThrough qualitative discussions, mainstream research topics were summarized, research gaps were identified and future research directions were proposed as follows: versatile stressors and stress model; an extended subgroup of factors in safety behavior; adaptation of multiple biosensors and bio-feedbacks; evaluation and comparison of organizational stress interventions; and incorporation of artificial intelligence and smart technologies into occupational stress management in construction.Originality/valueThe findings of this review study present a well-rounded framework to identify the research gaps in this field to advance research in the academic community and enhance employees' well-being in construction.
From traditional to emerging technologies in supporting smart libraries. A bibliometric and thematic approach from 2013 to 2022
Authors: Khan Asad Ullah , Ma Zhiqiang , Li Mingxing , Zhi Liangze , Hu Weijun , Yang Xia 
Published: December 2023

PurposeThe evolution from emerging technologies to smart libraries is thoroughly analyzed thematically and bibliometrically in this research study, spanning 2013 through 2022. Finding and analyzing the significant changes, patterns and trends in the subject as they are represented in academic papers is the goal of this research.Design/methodology/approachUsing bibliometric methodologies, this study gathered and examined a large corpus of research papers, conference papers and related material from several academic databases.FindingsStarting with Artificial Intelligence (AI), the Internet of Things (IoT), Big Data (BD), Augmentation Reality/Virtual Reality and Blockchain Technology (BT), the study discusses the advent of new technologies and their effects on libraries. Using bibliometric analysis, this study looks at the evolution of publications over time, the geographic distribution of research and the most active institutions and writers in the area. A thematic analysis is also carried out to pinpoint the critical areas of study and trends in emerging technologies and smart libraries. Some emerging themes are information retrieval, personalized recommendations, intelligent data analytics, connected library spaces, real-time information access, augmented reality/virtual reality applications in libraries and strategies, digital literacy and inclusivity.Originality/valueThis study offers a thorough overview of the research environment by combining bibliometric and thematic analysis, illustrating the development of theories and concepts during the last ten years. The results of this study helps in understanding the trends and future research directions in emerging technologies and smart libraries. This study is an excellent source of information for academics, practitioners and policymakers involved in developing and applying cutting-edge technology in library environments.
A bargaining perspective on vertical integration
Authors: Döpper Hendrik , Sapi Geza , Wey Christian 
Published: December 2023

AbstractWe analyze vertical integration incentives in a bilaterally duopolistic industry with bargaining in the input market. Vertical integration incentives are a combination of horizontal integration incentives upstream and downstream and depend on the strength of substitutability and complementarity and the shape of the unit cost function. Under particular circumstances, vertical integration can convey more bargaining power to the merged entity than a horizontal merger to monopoly. In a bidding game for an exogenously determined target firm, a vertical merger can dominate a horizontal one, while pre‐emption does not occur.