bluuebunny/crossref_metadata_2025_split huggingface dataset:
Muscle 4EBP1 activation modifies the structure and function of the neuromuscular junction in mice
Authors: Ang Seok-Ting J. , Crombie Elisa M. , Dong Han , Tan Kuan-Ting , Hernando Adriel , Yu Dejie , Adamson Stuart , Kim Seonyoung , Withers Dominic J. , Huang Hua , Tsai Shih-Yin 
Published: December 2022

AbstractDysregulation of mTOR complex 1 (mTORC1) activity drives neuromuscular junction (NMJ) structural instability during aging; however, downstream targets mediating this effect have not been elucidated. Here, we investigate the roles of two mTORC1 phosphorylation targets for mRNA translation, ribosome protein S6 kinase 1 (S6K1) and eukaryotic translation initiation factor 4E-binding protein 1 (4EBP1), in regulating NMJ structural instability induced by aging and sustained mTORC1 activation. While myofiber-specific deletion of S6k1 has no effect on NMJ structural integrity, 4EBP1 activation in murine muscle induces drastic morphological remodeling of the NMJ with enhancement of synaptic transmission. Mechanistically, structural modification of the NMJ is attributed to increased satellite cell activation and enhanced post-synaptic acetylcholine receptor (AChR) turnover upon 4EBP1 activation. Considering that loss of post-synaptic myonuclei and reduced NMJ turnover are features of aging, targeting 4EBP1 activation could induce NMJ renewal by expanding the pool of post-synaptic myonuclei as an alternative intervention to mitigate sarcopenia.
Steps dominate gas evasion from a mountain headwater stream
Authors: Botter Gianluca , Carozzani Anna , Peruzzo Paolo , Durighetto Nicola 
Published: December 2022

AbstractSteps are dominant morphologic traits of high-energy streams, where climatically- and biogeochemically-relevant gases are processed, transported to downstream ecosystems or released into the atmosphere. Yet, capturing the imprint of the small-scale morphological complexity of channel forms on large-scale river outgassing represents a fundamental unresolved challenge. Here, we combine theoretical and experimental approaches to assess the contribution of localized steps to the gas evasion from river networks. The framework was applied to a representative, 1 km-long mountain reach in Italy, where carbon dioxide concentration drops across several steps and a reference segment without steps were measured under different hydrologic conditions. Our results indicate that local steps lead the reach-scale outgassing, especially for high and low discharges. These findings suggest that steps are key missing components of existing scaling laws used for the assessment of gas fluxes across water-air interfaces. Therefore, global evasion from rivers may differ substantially from previously reported estimates.
USP5-Beclin 1 axis overrides p53-dependent senescence and drives Kras-induced tumorigenicity
Authors: Li Juan , Wang Yang , Luo Yue , Liu Yang , Yi Yong , Li Jinsong , Pan Yang , Li Weiyuxin , You Wanbang , Hu Qingyong , Zhao Zhiqiang , Zhang Yujun , Cao Yang , Zhang Lingqiang , Yuan Junying , Xiao Zhi-Xiong Jim 
Published: December 2022

AbstractNon-small cell lung cancers (NSCLC) frequently contain KRAS mutation but retain wild-type TP53. Abundant senescent cells are observed in premalignant but not in malignant tumors derived from the Kras-driven mouse model, suggesting that KRAS oncogenic signaling would have to overcome the intrinsic senescence burden for cancer progression. Here, we show that the nuclear Beclin 1-mediated inhibition of p53-dependent senescence drives Kras-mediated tumorigenesis. KRAS activates USP5 to stabilize nuclear Beclin 1, leading to MDM2-mediated p53 protein instability. KrasG12D mice lacking Beclin 1 display retarded lung tumor growth. Knockdown of USP5 or knockout of Becn1 leads to increased senescence and reduced autophagy. Mechanistically, KRAS elevates ROS to induce USP5 homodimer formation by forming the C195 disulfide bond, resulting in stabilization and activation of USP5. Together, these results demonstrate that activation of the USP5-Beclin 1 axis is pivotal in overriding intrinsic p53-dependent senescence in Kras-driven lung cancer development.
Chemical reaction-mediated covalent localization of bacteria
Authors: Luo Huilong , Chen Yanmei , Kuang Xiao , Wang Xinyue , Yang Fengmin , Cao Zhenping , Wang Lu , Lin Sisi , Wu Feng , Liu Jinyao 
Published: December 2022

AbstractMethods capable of manipulating bacterial colonization are of great significance for modulating host-microbiota relationships. Here, we describe a strategy of in-situ chemical reaction-mediated covalent localization of bacteria. Through a simple one-step imidoester reaction, primary amino groups on bacterial surface can be converted to free thiols under cytocompatible conditions. Surface thiolation is applicable to modify diverse strains and the number of introduced thiols per bacterium can be easily tuned by varying feed ratios. These chemically reactive bacteria are able to spontaneously bond with mucous layer by catalyst-free thiol-disulfide exchange between mucin-associated disulfides and newly converted thiols on bacterial surface and show thiolation level-dependent attachment. Bacteria optimized with 9.3 × 107 thiols per cell achieve 170-fold higher attachment in mucin-enriched jejunum, a challenging location for gut microbiota to colonize. As a proof-of-concept application for microbiota transplantation, covalent bonding-assisted localization of an oral probiotic in the jejunum generates an improved remission of jejunal mucositis. Our findings demonstrate that transforming bacteria with a reactive surface provides an approach to chemically control bacterial localization, which is highly desirable for developing next-generation bacterial living bioagents.
Tubular epithelial cells-derived small extracellular vesicle-VEGF-A promotes peritubular capillary repair in ischemic kidney injury
Authors: Zhong Xin , Tang Tao-Tao , Shen An-Ran , Cao Jing-Yuan , Jing Jing , Wang Cui , Zhu Xiao-Xiao , Wen Yi , Li Zuo-Lin , Wang Bin , Qin Suo-Fu , Liu Bi-Cheng , Lv Lin-Li 
Published: December 2022

AbstractPeritubular capillaries (PTCs) are closely related to renal tubules in structure and function, and both are pivotal regulators in the development and progression of acute kidney injury (AKI). However, the mechanisms that underlie the interaction between PTCs and tubules during AKI remain unclear. Here we explored a new mode of tubulovascular crosstalk mediated by small extracellular vesicles (sEV) after AKI. In response to renal ischemia/reperfusion (I/R) injury, endothelial proliferation of PTCs and tubular expression of vascular endothelial growth factor-A (VEGF-A) were increased, accompanied by a remarkable redistribution of cytoplasmic VEGF-A to the basolateral side of tubular cells. Meanwhile, the secretion mode of VEGF-A was converted in the injured tubular cells, which showed a much greater tendency to secrete VEGF-A via sEV other than the free form. Interestingly, tubular cell-derived VEGF-A-enriched sEV (sEV-VEGF-A) turned out to promote endothelial proliferation which was regulated by VEGF receptors 1 and 2. Furthermore, inhibition of renal sEV secretion by Rab27a knockdown resulted in a significant decrease in the proliferation of peritubular endothelial cells in vivo. Importantly, taking advantage of the newly recognized endogenous repair response of PTCs, exogenous supplementation of VEGF-A + sEV efficiently recused PTC rarefaction, improved renal perfusion, and halted the AKI to CKD transition. Taken together, our study uncovered a novel intrinsic repair response after AKI through renal tubule-PTC crosstalk via sEV-VEGF-A, which could be exploited as a promising therapeutic angiogenesis strategy in diseases with ischemia.
Evidence supporting the use of a brief cognitive assessment in routine clinical assessment for psychosis
Authors: Cowman M. , Lonergan E. , Burke T. , Bowie C. R. , Corvin A. , Morris D. W. , O’Connor K. , Donohoe G. 
Published: December 2022

AbstractCognitive impairment is a core feature of psychosis. Full cognitive assessments are not often conducted in routine clinical practice as administration is time-consuming. Here, we investigated whether brief tests of cognition could be used to predict broader neurocognitive performance in a manner practical for screening use in mental health services. We carried out a principal component analysis (PCA) to obtain an estimate of general cognitive function (N = 415). We investigated whether brief tests of memory accounted for a significant percentage of variation in the PCA scores. We used discriminant function analysis to determine if measures could predict classification as lower, intermediate or higher level of cognitive function and to what extent these groups overlapped with groups based on normative data. Memory tests correctly classified 65% of cases in the highest scoring group, 35% of cases in the intermediate group, and 77% of cases in the lowest scoring group. These PCA-derived groups and groups based on normative scores for the two tests were significantly associated (χ2 = 164.00, p < 0.001). These measures accurately identified three quarters of the low performing group, the group of greatest interest from the perspective of identifying those likely to need greater supports as part of clinical care. In so doing they suggest a potentially useful approach to screening for cognitive impairment in clinical services, upon which further assessment can be built if required.
Comparative transcriptome profiles of four sexually size dimorphic fish
Authors: Luo Li-Fei , Xu Zi-Sheng , Li Dan-Yang , Hu Zhen , Gao Ze-Xia 
Published: December 2022

AbstractSexual size dimorphism is widespread in fish species. Although sex growth differences in multiple species have been studied successively, the commonalities of regulatory mechanisms across sexually dimorphic species are unknown. In this study, we performed RNA-seq analysis of four representative fish (loach, half-smooth tongue sole, yellow catfish, and Nile tilapia) with significant growth differences between females and males. Clean reads were identified from four fish species, ranging from 45,718,052 to 57,733,120. Following comparison transcriptome analysis, there were 1,132 and 1,108, 1,290 and 1,102, 4,732 and 4,266, 748 and 192 differentially expressed genes (DEGs) in the brain and muscle of loach, half-smooth tongue sole, yellow catfish, and Nile tilapia, respectively. Furthermore, the expression levels were validated by quantitative real-time PCR (qRT-PCR). Comparative transcriptome profiles of four fish described here will provide fundamental information for further studies on the commonalities of sexually size dimorphic fish in regulating growth differences between females and males.
Magnetic signatures of a creosote oil contaminated site: case study in São Paulo, Brazil
Authors: de Moraes Carolina Silveira , Ustra Andrea Teixeira , Barbosa Alexandre Muselli , Imbernon Rosely Aparecida Liguori , Tengan Cinthia Midory Uehara 
Published: December 2022

AbstractSoils and groundwater contamination modifies the physical–chemical conditions of the environment, altering natural biogeochemical processes of the ground. As a result, several mineral transformations occur, in which iron plays a decisive role. The presence of iron enables the study of magnetic properties, improving the understanding of the geophysical signatures of highly dynamic environments (e.g., biogeochemical hotspots and contamination plumes). In this work, we seek to identify creosote biodegradation related to the precipitation of magnetic minerals on sediments at a contaminated site in São Paulo, Brazil. Several rock magnetism analyses were carried out to provide the magnetic mineralogy of the samples in terms of their composition, size, and abundance. We conducted high-temperature thermomagnetic curves, frequency-dependent magnetic susceptibility, anesthetic remanent magnetization (ARM) and isothermal remanent magnetization (IRM) data, superparamagnetic concentration and dipole moment (SPCDM), and scanning electron microscopy (SEM) analyses. The magnetic signatures of the contaminated samples suggest an increase of superparamagnetic grains in the water table fluctuation zone if compared to the magnetic signatures of the uncontaminated samples. Thermomagnetic curves of contaminated samples showed a lower heterogeneity of the magnetic mineral phases than the uncontaminated ones. This work contributes to the advancement of the understanding of how natural biogeochemical processes are impacted by human actions, such as soil contamination, and even by climate change, which should affect soil redox conditions in periods of drought and flooding.
Pre-contrast MAGiC in treated gliomas: a pilot study of quantitative MRI
Authors: Nunez-Gonzalez Laura , van Garderen Karin A. , Smits Marion , Jaspers Jaap , Romero Alejandra Méndez , Poot Dirk H. J. , Hernandez-Tamames Juan A. 
Published: December 2022

AbstractQuantitative MR imaging is becoming more feasible to be used in clinical work since new approaches have been proposed in order to substantially accelerate the acquisition and due to the possibility of synthetically deriving weighted images from the parametric maps. However, their applicability has to be thoroughly validated in order to be included in clinical practice. In this pilot study, we acquired Magnetic Resonance Image Compilation scans to obtain T1, T2 and PD maps in 14 glioma patients. Abnormal tissue was segmented based on conventional images and using a deep learning segmentation technique to define regions of interest (ROIs). The quantitative T1, T2 and PD values inside ROIs were analyzed using the mean, the standard deviation, the skewness and the kurtosis and compared to the quantitative T1, T2 and PD values found in normal white matter. We found significant differences in pre-contrast T1 and T2 values between abnormal tissue and healthy tissue, as well as between T1w-enhancing and non-enhancing regions. ROC analysis was used to evaluate the potential of quantitative T1 and T2 values for voxel-wise classification of abnormal/normal tissue (AUC = 0.95) and of T1w enhancement/non-enhancement (AUC = 0.85). A cross-validated ROC analysis found high sensitivity (73%) and specificity (73%) with AUCs up to 0.68 on the a priori distinction between abnormal tissue with and without T1w-enhancement. These results suggest that normal tissue, abnormal tissue, and tissue with T1w-enhancement are distinguishable by their pre-contrast quantitative values but further investigation is needed.
A conserved MTMR lipid phosphatase increasingly suppresses autophagy in brain neurons during aging
Authors: Kovács Tibor , Szinyákovics Janka , Billes Viktor , Murányi Gábor , Varga Virginia B. , Bjelik Annamária , Légrádi Ádám , Szabó Melinda , Sándor Sára , Kubinyi Enikő , Szekeres-Paracky Cecília , Szocsics Péter , Lőke János , Mulder Jun , Gulyás Balázs , Renner Éva , Palkovits Miklós , Gulya Károly , Maglóczky Zsófia , Vellai Tibor 
Published: December 2022

AbstractAgeing is driven by the progressive, lifelong accumulation of cellular damage. Autophagy (cellular self-eating) functions as a major cell clearance mechanism to degrade such damages, and its capacity declines with age. Despite its physiological and medical significance, it remains largely unknown why autophagy becomes incapable of effectively eliminating harmful cellular materials in many cells at advanced ages. Here we show that age-associated defects in autophagic degradation occur at both the early and late stages of the process. Furthermore, in the fruit fly Drosophila melanogaster, the myotubularin-related (MTMR) lipid phosphatase egg-derived tyrosine phosphatase (EDTP) known as an autophagy repressor gradually accumulates in brain neurons during the adult lifespan. The age-related increase in EDTP activity is associated with a growing DNA N6-adenine methylation at EDTP locus. MTMR14, the human counterpart of EDTP, also tends to accumulate with age in brain neurons. Thus, EDTP, and presumably MTMR14, promotes brain ageing by increasingly suppressing autophagy throughout adulthood. We propose that EDTP and MTMR14 phosphatases operate as endogenous pro-ageing factors setting the rate at which neurons age largely independently of environmental factors, and that autophagy is influenced by DNA N6-methyladenine levels in insects.
Human-built environment interactions: the relationship between subjective well-being and perceived neighborhood environment characteristics
Authors: Sadeghi Ali Reza , Ebadi Maryam , Shams Fatemeh , Jangjoo Sina 
Published: December 2022

AbstractThe neighborhood is one of the most fundamental urban elements and acts as the intermediary link between the city and citizens to enhance the quality of life. The present study examined the significance of the relationship between the subjective well-being of citizens and perceived neighborhood environment characteristics in urban historical fabrics for creating healthy neighborhoods. To this end, a survey research method was employed, and the data were collected via questionnaires. The population consisted of all the citizens of the historical neighborhood of Sange Siah in Shiraz, Iran, who lived or worked in the neighborhood and used the neighborhood spaces daily. A Nonparametric Spearman correlation coefficient was run to assess the correlation between the variables. The results showed that the component of social inclusion from among the six components of subjective well-being had a significant positive correlation with perceived neighborhood environment characteristics (r = 0.712). In the following, the components of satisfaction with life (0.614), mental well-being (0.569), positive and negative effect (0.526), and feeling of happiness (0.468) had a moderate positive correlation; and the component of physical and mental health also had a weak positive correlation with perceived neighborhood environment characteristics (0.230). In addition, the concept of subjective well-being with a correlation coefficient of 0.579 had a moderate positive correlation with perceived neighborhood environment characteristics, which indicates that the structural characteristics of the neighborhood have a significant relationship with the subjective well-being of the people living in the neighborhood.
The effect of tumor shape irregularity on Gamma Knife treatment plan quality and treatment outcome: an analysis of 234 vestibular schwannomas
Authors: Sümer Esra , Tek Ece , Türe O. Artunç , Şengöz Meriç , Dinçer Alp , Özcan Alpay , Pamir M. Necmettin , Özduman Koray , Ozturk-Isik Esin 
Published: December 2022

AbstractThe primary aim of Gamma Knife (GK) radiosurgery is to deliver high-dose radiation precisely to a target while conforming to the target shape. In this study, the effects of tumor shape irregularity (TSI) on GK dose-plan quality and treatment outcomes were analyzed in 234 vestibular schwannomas. TSI was quantified using seven different metrics including volumetric index of sphericity (VioS). GK treatment plans were created on a single GK-Perfexion/ICON platform. The plan quality was measured using selectivity index (SI), gradient index (GI), Paddick’s conformity index (PCI), and efficiency index (EI). Correlation and linear regression analyses were conducted between shape irregularity features and dose plan indices. Machine learning was employed to identify the shape feature that predicted dose plan quality most effectively. The treatment outcome analysis including tumor growth control and serviceable hearing preservation at 2 years, were conducted using Cox regression analyses. All TSI features correlated significantly with the dose plan indices (P < 0.0012). With increasing tumor volume, vestibular schwannomas became more spherical (P < 0.05) and the dose plan indices varied significantly between tumor volume subgroups (P < 0.001 and P < 0.01). VioS was the most effective predictor of GK indices (P < 0.001) and we obtained 89.36% accuracy (79.17% sensitivity and 100% specificity) for predicting PCI. Our results indicated that TSI had significant effects on the plan quality however did not adversely affect treatment outcomes.
Analyzing and predicting success of professional musicians
Authors: Kang Inwon , Mandulak Michael , Szymanski Boleslaw K. 
Published: December 2022

AbstractThe emergence of streaming services, e.g., Spotify, has changed the way people listen to music and the way professional musicians achieve fame and success. Classical music has been the backbone of Western media for a long time, but Spotify has introduced the public to a much wider variety of music, also opening a new venue for professional musicians to gain exposure. In this paper, we use open-source data from Spotify and Musicbrainz databases to construct collaboration-based and genre-based networks. We call genres defined in these databases primary genres. Our goal is to find the correlation between various features of each professional musician, the current stage of their career, and the level of their success in the music field. We build regression models using XGBoost to first analyze correlation between features provided by Spotify. We then analyze the correlation between the digital music world of Spotify and the more traditional world of Billboard charts. We find that within certain bounds, machine learning techniques such as decision tree classifiers and Q-based models perform quite well on predicting success of professional musicians from the data on their early careers. We also find features that are highly predictive of their success. The most prominent among them are the musicians’ collaboration counts and the span of their career. Our findings also show that classical musicians are still very centrally placed in the general, genre-agnostic network of musicians. Using these models and success metrics, aspiring professional musicians can check if their chances for career success could be improved by increasing their specific success measures in both Spotify and Billboard charts.
Development of an implantable three-dimensional model of a functional pathogenic multispecies biofilm to study infected wounds
Authors: Cárdenas-Calderón Camila , Veloso-Giménez Valentina , González Tamara , Wozniak Aniela , García Patricia , Martín Sebastián San , Varas Juan F. , Carrasco-Wong Ivo , Vera Mario , Egaña José Tomás 
Published: December 2022

AbstractChronic wounds cannot heal due to impairment of regeneration, mainly caused by the persistent infection of multispecies biofilms. Still, the effects of biofilm wound infection and its interaction with the host are not fully described. We aimed to study functional biofilms in physiological conditions in vitro, and their potential effects in health and regeneration in vivo. Therefore, Pseudomonas aeruginosa, Staphylococcus aureus and Enterococcus faecalis were seeded in collagen-based scaffolds for dermal regeneration. After 24 h, scaffolds had bacterial loads depending on the initial inoculum, containing viable biofilms with antibiotic tolerance. Afterwards, scaffolds were implanted onto full skin wounds in mice, together with daily supervision and antibiotic treatment. Although all mice survived their health was affected, displaying fever and weight loss. After ten days, histomorphology of scaffolds showed high heterogeneity in samples and within groups. Wounds were strongly, mildly, or not infected according to colony forming units, and P. aeruginosa had higher identification frequency. Biofilm infection induced leucocyte infiltration and elevated interferon-γ and interleukin-10 in scaffolds, increase of size and weight of spleen and high systemic pro-calcitonin concentrations. This functional and implantable 3D biofilm model allows to study host response during infection, providing a useful tool for infected wounds therapy development.