bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of key autophagy-related genes and pathways in spinal cord injury
Authors: Shang Zhen , Shi Weipeng , Fu Haitao , Zhang Yingze , Yu Tengbo 
Published: March 2024

AbstractSpinal cord injury (SCI) can cause a range of functional impairments, and patients with SCI have limited potential for functional recovery. Previous studies have demonstrated that autophagy plays a role in the pathological process of SCI, but the specific mechanism of autophagy in this context remains unclear. Therefore, we explored the role of autophagy in SCI by identifying key autophagy-related genes and pathways. This study utilized the GSE132242 expression profile dataset, which consists of four control samples and four SCI samples; autophagy-related genes were sourced from GeneCards. R software was used to screen differentially expressed genes (DEGs) in the GSE132242 dataset, which were then intersected with autophagy-related genes to identify autophagy-related DEGs in SCI. Subsequently, the expression levels of these genes were confirmed and analyzed with gene ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG). A protein–protein interaction (PPI) analysis was conducted to identify interaction genes, and the resulting network was visualized with Cytoscape. The MCODE plug-in was used to build gene cluster modules, and the cytoHubba plug-in was applied to screen for hub genes. Finally, the GSE5296 dataset was used to verify the reliability of the hub genes. We screened 129 autophagy-related DEGs, including 126 up-regulated and 3 down-regulated genes. GO and KEGG pathway enrichment analysis showed that these 129 genes were mainly involved in the process of cell apoptosis, angiogenesis, IL-1 production, and inflammatory reactions, the TNF signaling pathway and the p53 signaling pathway. PPI identified 10 hub genes, including CCL2, TGFB1, PTGS2, FN1, HGF, MYC, IGF1, CD44, CXCR4, and SERPINEL1. The GSE5296 dataset revealed that the control group exhibited lower expression levels than the SCI group, although only CD44 and TGFB1 showed significant differences. This study identified 129 autophagy-related genes that might play a role in SCI. CD44 and TGFB1 were identified as potentially important genes in the autophagy process after SCI. These findings provide new targets for future research and offer new perspectives on the pathogenesis of SCI.
Species delimitation, discovery and conservation in a tiger beetle species complex despite discordant genetic data
Authors: Duran Daniel P. , Laroche Robert A. , Roman Stephen J. , Godwin William , Herrmann David P. , Bull Ethan , Egan Scott P. 
Published: March 2024

AbstractIn an age of species declines, delineating and discovering biodiversity is critical for both taxonomic accuracy and conservation. In recent years, there has been a movement away from using exclusively morphological characters to delineate and describe taxa and an increase in the use of molecular markers to describe diversity or through integrative taxonomy, which employs traditional morphological characters, as well as genetic or other data. Tiger beetles are charismatic, of conservation concern, and much work has been done on the morphological delineation of species and subspecies, but few of these taxa have been tested with genetic analyses. In this study, we tested morphologically based taxonomic hypotheses of polymorphic tiger beetles in the Eunota circumpicta (LaFerté-Sénectère, 1841) species complex using multilocus genomic and mtDNA analyses. We find multiple cryptic species within the previous taxonomic concept of Eunota circumpicta, some of which were historically recognized as subspecies. We found that the mtDNA and genomic datasets did not identify the same taxonomic units and that the mtDNA was most at odds with all other genetic and morphological patterns. Overall, we describe new cryptic diversity, which raises important conservation concerns, and provide a working example for testing species and subspecies validity despite discordant data.
Effectiveness of Butorphanol in alleviating intra- and post-operative visceral pain following microwave ablation for hepatic tumor: a dual-central, randomized, controlled trial
Authors: Wang Bibo , Wang Neng , Zhao Zhiyue , Huang Shengxi , Shen Qiang , Liu Sheng , Zhou Pingsheng , Lu Lu , Qian Guojun 
Published: March 2024

AbstractMany patients who underwent hepatic percutaneous microwave ablation (MWA) reported experiencing pain during the procedure. This study utilized a well-designed multicentral, randomized, and placebo-controlled format to investigate the effects of Butorphanol. Patients who underwent MWA were randomly assigned to either Butorphanol or normal saline group. The primary outcomes of the study were assessed by measuring the patients' intraoperative pain levels using a 10-point visual analog scale (VAS). Secondary outcomes included measuring postoperative pain levels at the 6-h mark (VAS) and evaluating comprehensive pain assessment outcomes. A total of 300 patients were divided between the control group (n = 100) and the experimental group (n = 200). Butorphanol showed statistically significant reductions in intraoperative pain levels compared to the placebo during surgery (5.00 ± 1.46 vs. 3.54 ± 1.67, P < 0.001). Significant differences were observed in postoperative pain levels at the 6-h mark and in the overall assessment of pain (1.39 + 1.21 vs. 0.65 + 0.81, P < 0.001). Butorphanol had a significant impact on reducing the heart rate of patients. The empirical evidence supports the effectiveness of Butorphanol in reducing the occurrence of visceral postoperative pain in patients undergoing microwave ablation for hepatic tumor. Furthermore, the study found no noticeable impact on circulatory and respiratory dynamics.
Age-period-cohort analysis of ischemic stroke deaths attributable to physical inactivity in different income regions
Authors: Liu Junjiao , Liu Yueyang , Ma Wenjun , Liu Jie , Tong Yan , Wang Cui , Zheng Jianzhong 
Published: March 2024

AbstractThis study assessed the global and regional burden of IS (ischemic stroke) deaths due to LPA (low physical activity) from 1990 to 2019, analyzed regional, sex, and age differences in ASMR (age-standardized mortality rate), and provided a comprehensive understanding of the impact of age, period, and cohort on low physical activity related ischemic stroke ASMR. We conducted an APC (age-period-cohort) analysis of the global and four World Bank income level regions’ IS mortality data attributed to LPA from 1990 to 2019, using the GBD2019 database, and the results showed that the global net drift of the Ischemic stroke age-standardized mortality attributable to low physical activity was − 1.085%[95% CI: − 1.168, − 1.003].The ASMR drop is most pronounced in the high-income zone, with a net drift of − 2.473% [95% CI: − 2.759, − 2.187] across the four income groups. The influence of age on mortality is increasing in the worldwide old population, while the period and cohort effects are decreasing. We also performed a Joinpoint regression analysis, which revealed that the specific time of considerable drop in ASMR of IS in the global LPA population was 2002–2007, with an APC of -2.628%. The specific period of considerable drop in ASMR in high-income regions with the highest variation was 1999–2007, with an APC = − 4.726%. The global burden of public health deaths caused by LPA is diminishing, with the most notable progress observed in high-income regions. However, in low and lower-middle income areas, the situation continues to deteriorate. Within the global elderly population, the effects of age on mortality is increasing, while the effects of period and cohort are diminishing. These trends vary across income levels, highlighting the necessity for enhanced international collaboration to formulate context-specific public health strategies aimed at enhancing cardiovascular health on a global, regional, and national scale.
The prevalent life cycle of agricultural flash droughts
Authors: Lovino Miguel A. , Pierrestegui M. Josefina , Müller Omar V. , Müller Gabriela V. , Berbery Ernesto H. 
Published: March 2024

AbstractThis work examines the characteristics and prevalent life cycle of agricultural flash droughts globally. Using ERA5 data, the study introduces a flash drought indicator based on soil water availability. This approach integrates root-zone soil moisture and hydraulic soil properties, such as field capacity and wilting point, to couple the rapid soil moisture depletion and plant water stress. Our findings reveal that agricultural flash droughts present their higher frequency predominantly during the critical growth periods of crops. Notably, these droughts exhibit a similar life cycle regardless of the location or climatic regime. The primary cause of the rapid soil moisture depletion is the precipitation deficit, but evapotranspiration also plays a significant role. In an energy-limited environment, evapotranspiration rapidly increases before the onset and decreases rapidly during the intensification period as the system becomes water-limited. Upon concluding the intensification period, most crops experience water stress, diminishing their yields.
Nanofluidic logic with mechano–ionic memristive switches
Authors: Emmerich Theo , Teng Yunfei , Ronceray Nathan , Lopriore Edoardo , Chiesa Riccardo , Chernev Andrey , Artemov Vasily , Di Ventra Massimiliano , Kis Andras , Radenovic Aleksandra 
Published: March 2024

AbstractNeuromorphic systems are typically based on nanoscale electronic devices, but nature relies on ions for energy-efficient information processing. Nanofluidic memristive devices could thus potentially be used to construct electrolytic computers that mimic the brain down to its basic principles of operation. Here we report a nanofluidic device that is designed for circuit-scale in-memory processing. The device, which is fabricated using a scalable process, combines single-digit nanometric confinement and large entrance asymmetry and operates on the second timescale with a conductance ratio in the range of 9 to 60. In operando optical microscopy shows that the memory capabilities are due to the reversible formation of liquid blisters that modulate the conductance of the device. We use these mechano–ionic memristive switches to assemble logic circuits composed of two interactive devices and an ohmic resistor.
CGRP causes anxiety via HP1γ–KLF11–MAOB pathway and dopamine in the dorsal hippocampus
Authors: Hashikawa-Hobara Narumi , Fujiwara Kyoshiro , Hashikawa Naoya 
Published: March 2024

AbstractCalcitonin gene-related peptide (CGRP) is a neuropeptide that causes anxiety behavior; however, the underlying mechanisms remain unclear. We found that CGRP modulates anxiety behavior by epigenetically regulating the HP1γ-KLF-11-MAOB pathway and depleting dopamine in the dorsal hippocampus. Intracerebroventricular administration of CGRP (0.5 nmol) elicited anxiety-like behaviors in open field, hole-board, and plus-maze tests. Additionally, we observed an increase in monoamine oxidase B (MAOB) levels and a concurrent decrease in dopamine levels in the dorsal hippocampus of mice following CGRP administration. Moreover, CGRP increased abundance the transcriptional regulator of MAOB, Krüppel-like factor 11 (KLF11), and increased levels of phosphorylated heterochromatin protein (p-HP1γ), which is involved in gene silencing, by methylating histone H3 in the dorsal hippocampus. Chromatin immunoprecipitation assay showed that HP1γ was recruited to the Klf11 enhancer by CGRP. Furthermore, infusion of CGRP (1 nmol) into the dorsal hippocampus significantly increased MAOB expression as well as anxiety-like behaviors, which were suppressed by the pharmacological inhibition or knockdown of MAOB. Together, these findings suggest that CGRP reduces dopamine levels and induces anxiety-like behavior through epigenetic regulation in the dorsal hippocampus.
Macroscopic inhibition of DNA damage repair pathways by targeting AP-2α with LEI110 eradicates hepatocellular carcinoma
Authors: Wang Chenchen , Zhao Zhenjun , Zhao Yudong , Zhao Jie , Xia Lei , Xia Qiang 
Published: March 2024

AbstractDNA damage repair (DDR) genes are known to be closely associated with the progression of Hepatocellular carcinoma (HCC). Here we report a unique cluster of “deletion-up” genes in HCC, which are accordantly overexpressed in HCC patients and predict the unfavorable prognosis. Binding motif analysis and further validation with ChIP-qPCR unveil that the AP-2α directly modulate the transcription of critical DNA repair genes including TOP2A, NUDT1, POLD1, and PARP1, which facilitates the sanitation of oxidized DNA lesions. Structural analysis and the following validation identify LEI110 as a potent AP-2α inhibitor. Together, we demonstrate that LEI110 stabilizes AP-2α and sensitizes HCC cells toward DNA-damaging reagents. Altogether, we identify AP-2α as a crucial transcription modulator in HCC and propose small-molecule inhibitors targeting AP-2α are a promising novel class of anticancer agents. Our study provides insights into the concept of macroscopic inhibition of DNA damage repair-related genes in cancer treatment.
BNST GABAergic neurons modulate wakefulness over sleep and anesthesia
Authors: Li Mengyao , Li Wen , Liang Shanshan , Liao Xiang , Gu Miaoqing , Li Huiming , Chen Xiaowei , Liu Hongliang , Qin Han , Xiao Jingyu 
Published: March 2024

AbstractThe neural circuits underlying sleep-wakefulness and general anesthesia have not been fully investigated. The GABAergic neurons in the bed nucleus of the stria terminalis (BNST) play a critical role in stress and fear that relied on heightened arousal. Nevertheless, it remains unclear whether BNST GABAergic neurons are involved in the regulation of sleep-wakefulness and anesthesia. Here, using in vivo fiber photometry combined with electroencephalography, electromyography, and video recordings, we found that BNST GABAergic neurons exhibited arousal-state-dependent alterations, with high activities in both wakefulness and rapid-eye movement sleep, but suppressed during anesthesia. Optogenetic activation of these neurons could initiate and maintain wakefulness, and even induce arousal from anesthesia. However, chronic lesion of BNST GABAergic neurons altered spontaneous sleep-wakefulness architecture during the dark phase, but not induction and emergence from anesthesia. Furthermore, we also discovered that the BNST-ventral tegmental area pathway might participate in promoting wakefulness and reanimation from steady-state anesthesia. Collectively, our study explores new elements in neural circuit mechanisms underlying sleep-wakefulness and anesthesia, which may contribute to a more comprehensive understanding of consciousness and the development of innovative anesthetics.
Self-sustainable autonomous soft actuators
Authors: Nie Zhen-Zhou , Wang Meng , Yang Hong 
Published: March 2024

AbstractSelf-sustainable autonomous locomotion is a non-equilibrium phenomenon and an advanced intelligence of soft-bodied organisms that exhibit the abilities of perception, feedback, decision-making, and self-sustainment. However, artificial self-sustaining architectures are often derived from algorithms and onboard modules of soft robots, resulting in complex fabrication, limited mobility, and low sensitivity. Self-sustainable autonomous soft actuators have emerged as naturally evolving systems that do not require human intervention. With shape-morphing materials integrating in their structural design, soft actuators can direct autonomous responses to complex environmental changes and achieve robust self-sustaining motions under sustained stimulation. This perspective article discusses the recent advances in self-sustainable autonomous soft actuators. Specifically, shape-morphing materials, motion characteristics, built-in negative feedback loops, and constant stimulus response patterns used in autonomous systems are summarized. Artificial self-sustaining autonomous concepts, modes, and deformation-induced functional applications of soft actuators are described. The current challenges and future opportunities for self-sustainable actuation systems are also discussed.
Insulin signalling regulates Pink1 mRNA localization via modulation of AMPK activity to support PINK1 function in neurons
Authors: Hees J. Tabitha , Wanderoy Simone , Lindner Jana , Helms Marlena , Murali Mahadevan Hariharan , Harbauer Angelika B. 
Published: March 2024

AbstractMitochondrial quality control failure is frequently observed in neurodegenerative diseases. The detection of damaged mitochondria by stabilization of PTEN-induced kinase 1 (PINK1) requires transport of Pink1 messenger RNA (mRNA) by tethering it to the mitochondrial surface. Here, we report that inhibition of AMP-activated protein kinase (AMPK) by activation of the insulin signalling cascade prevents Pink1 mRNA binding to mitochondria. Mechanistically, AMPK phosphorylates the RNA anchor complex subunit SYNJ2BP within its PDZ domain, a phosphorylation site that is necessary for its interaction with the RNA-binding protein SYNJ2. Notably, loss of mitochondrial Pink1 mRNA association upon insulin addition is required for PINK1 protein activation and its function as a ubiquitin kinase in the mitophagy pathway, thus placing PINK1 function under metabolic control. Induction of insulin resistance in vitro by the key genetic Alzheimer risk factor apolipoprotein E4 retains Pink1 mRNA at the mitochondria and prevents proper PINK1 activity, especially in neurites. Our results thus identify a metabolic switch controlling Pink1 mRNA localization and PINK1 activity via insulin and AMPK signalling in neurons and propose a mechanistic connection between insulin resistance and mitochondrial dysfunction.
Deep-ocean channel-wall collapse order of magnitude larger than any other documented
Authors: McArthur Adam D. , Tek Daniel E. , Poyatos-Moré Miquel , Colombera Luca , McCaffrey William D. 
Published: March 2024

AbstractSubmarine channels are the largest conveyors of sediment on Earth, yet little is known about their stability in the deep-ocean. Here, 3D seismic data from the deep-ocean Hikurangi channel-levee system, offshore New Zealand, reveal the largest channel-wall failure yet documented. Collapse of both channel-walls along a 68 km stretch created a mass-transport deposit of 19 km3, containing 4 km long blocks. Channel-walls typically collapse piecemeal, but here synchronous failure of both channel-walls and landslide erosion of the seafloor is documented, requiring a new process model for channel-wall failure. Mass-failure on this scale poses an under-appreciated risk to seafloor infrastructure both within channels and over regions extending twice the channel width into their overbank. Hitherto, channel-wall failures of this size are unrecognised in abyssal plains; its scale changes our understanding of how channel-levee systems are constructed and how they conduct sediment, carbon and pollutants into the deep-ocean.
The GAPS Programme at TNG
Authors: Basilicata M. , Giacobbe P. , Bonomo A. S. , Scandariato G. , Brogi M. , Singh V. , Di Paola A. , Mancini L. , Sozzetti A. , Lanza A. F. , Cubillos P. E. , Damasso M. , Desidera S. , Biazzo K. , Bignamini A. , Borsa F. , Cabona L. , Carleo I. , Ghedina A. , Guilluy G. , Maggio A. , Mainella G. , Micela G. , Molinari E. , Molinaro M. , Nardiello D. , Pedani M. , Pino L. , Poretti E. , Southworth J. , Stangret M. , Turrini D. 
Published: March 2024

Context. The atmospheric characterisation of hot and warm Neptune-size exoplanets is challenging mainly due to their relatively small radius and atmospheric scale height, which reduce the amplitude of atmospheric spectral features. The warm-Neptune HAT-P-11 b is a remarkable target for atmospheric characterisation because of the large brightness of its host star (V = 9.46 mag; H = 7.13 mag).
Aims. The aims of this work are to review the main physical and architectural properties of the HAT-P-11 planetary system, and to probe the presence of eight molecular species in the atmosphere of HAT-P-11 b through near-infrared (NIR) high-resolution transmission spectroscopy.
Methods. We reviewed the physical and architectural properties of the HAT-P-11 planetary system by analysing transits and occultations of HAT-P-11 b from the Kepler data set as well as HIRES at Keck archival radial-velocity data. We modelled the latter with Gaussian-process regression and a combined quasi-periodic and squared-exponential kernel to account for stellar variations on both (short-term) rotation and (long-term) activity-cycle timescales. In order to probe the atmospheric composition of HAT-P-11 b, we observed four transits of this target with the NIR GIANO-B at TNG spectrograph and cross-correlated the data with template atmospheric transmission spectra.
Results. We find that the long-period radial-velocity signal previously attributed to the HAT-P-11 c planet (P ~ 9.3 yr; Mp sin i ~ 1.6 MJ; e ~ 0.6) is more likely due to the stellar magnetic activity cycle. Nonetheless, the HIPPARCOS-Gaia difference in the proper-motion anomaly suggests that an outer-bound companion might still exist. For HAT-P-11 b, we measure a radius of Rp = 0.4466 ± 0.0059 RJ, a mass of Mp = 0.0787 ± 0.0048 MJ, a bulk density of ρp = 1.172 ± 0.085 g cm−3, and an orbital eccentricity of e = 0.2577−0.0025+0.0033. These values are compatible with those from the literature. Probing its atmosphere, we detect the presence of two molecular species, H2O and NH3, with a S/N of 5.1 and 5.3, and a significance of 3.4 σ and 5.0 σ, respectively. We also tentatively detect the presence of CO2 and CH4, with a S/N of 3.0 and 4.8, and a significance of 3.2 σ and 2.6 σ, respectively.
Conclusions. We revisit the HAT-P-11 planetary system, confirm the presence of H2O, and report the detection of NH3 in the atmosphere of HAT-P-11 b, also finding hints for the presence of CO2 and CH4 that need to be confirmed by further observations.
High speed stars
Authors: Caffau E. , Bonifacio P. , Monaco L. , Sbordone L. , Spite M. , François P. , Panuzzo P. , Sartoretti P. , Chemin L. , Thévenin F. , Mucciarelli A. 
Published: March 2024

Context.TheGaiasatellite has provided the community with three releases containing astrometrical and photometric data as well as by products, such as stellar parameters and variability indicators.Aims.By selecting in theGaiadatabase, one can select stars with the requested characteristics, such as high speed. At present any selection is based on availableGaiareleases including a subset of the observations. This, for some stars, can show some limitations, for example there is still not a sufficient number of observations to detect binarity.Methods.We investigated a star selected inGaiaEDR3 for its high speed that appears unbound to the Galaxy. We requested high-quality spectra to derive more information on the star.Results.From the spectroscopic investigation we confirm the low metallicity content of the star, and we derive a detailed chemical composition. The star is poor in carbon and very rich in oxygen: [(C+N+O)/Fe] = +0.65. From the two spectra observed we conclude that the star is in a binary system and from the investigation of the ionisation balance we derive that the star is closer than implied by theGaiaDR3 parallax, and thus has a a lower intrinsic luminosity.Conclusions.The star is probably still unbound, but there is the possibility that it is bound to the Galaxy. Its low carbon abundance suggests that the star was formed in a dwarf galaxy.