bluuebunny/crossref_metadata_2025_split huggingface dataset:
ERK MAPK signaling pathway inhibition as a potential target to prevent autophagy alterations in Spinal Muscular Atrophy motoneurons
Authors: Sansa Alba , Miralles Maria P. , Beltran Maria , Celma-Nos Ferran , Calderó Jordi , Garcera Ana , Soler Rosa M. 
Published: April 2023

AbstractSpinal Muscular Atrophy (SMA) is a severe genetic neuromuscular disorder that occurs in childhood and is caused by misexpression of the survival motor neuron (SMN) protein. SMN reduction induces spinal cord motoneuron (MN) degeneration, which leads to progressive muscular atrophy and weakness. The link between SMN deficiency and the molecular mechanisms altered in SMA cells remains unclear. Autophagy, deregulation of intracellular survival pathways and ERK hyperphosphorylation may contribute to SMN-reduced MNs collapse, offering a useful strategy to develop new therapies to prevent neurodegeneration in SMA. Using SMA MN in vitro models, the effect of pharmacological inhibition of PI3K/Akt and ERK MAPK pathways on SMN and autophagy markers modulation was studied by western blot analysis and RT-qPCR. Experiments involved primary cultures of mouse SMA spinal cord MNs and differentiated SMA human MNs derived from induced pluripotent stem cells (iPSCs). Inhibition of the PI3K/Akt and the ERK MAPK pathways reduced SMN protein and mRNA levels. Importantly, mTOR phosphorylation, p62, and LC3-II autophagy markers protein level were decreased after ERK MAPK pharmacological inhibition. Furthermore, the intracellular calcium chelator BAPTA prevented ERK hyperphosphorylation in SMA cells. Our results propose a link between intracellular calcium, signaling pathways, and autophagy in SMA MNs, suggesting that ERK hyperphosphorylation may contribute to autophagy deregulation in SMN-reduced MNs.
Bone marrow-derived extracellular vesicles carry the TGF-β signal transducer Smad2 to preserve hematopoietic stem cells in mice
Authors: Gautheron Flavie , Georgievski Aleksandra , Garrido Carmen , Quéré Ronan 
Published: April 2023

SummaryExtracellular vesicles (EVs) released by cells in the bone marrow (BM) are important for regulating proliferation, differentiation, and other processes in hematopoietic stem cells (HSC). TGF-β signaling is now well known to be involved in HSC’s quiescence and maintenance, but the TGF-β pathway related to EVs is still largely unknown in the hematopoietic system. We found that the EV inhibitor Calpeptin, when injected intravenously into mice, particularly affected the in vivo production of EVs carrying phosphorylated Smad2 (p-Smad2) in mouse BM. This was accompanied with an alteration in the quiescence and maintenance of murine HSC in vivo. EVs produced by murine mesenchymal stromal MS-5 cells also showed presence of p-Smad2 as a cargo. We treated MS-5 cells with the TGF-β inhibitor SB431542 in order to produce EVs lacking p-Smad2, and discovered that its presence was required for ex vivo maintenance of HSC. In conclusion, we revealed a new mechanism involving EVs produced in the mouse BM that transport bioactive phosphorylated Smad2 as a cargo to enhance the TGF-β signaling-mediated quiescence and maintenance of HSC.
Drivers of strong isolation and small effective population size at a leading range edge of a widespread plant
Authors: Cisternas-Fuentes Anita , Koski Matthew H. 
Published: April 2023

AbstractClimate change has influenced species distributions worldwide with upward elevational shifts observed in many systems. Leading range edge populations, like those at upper elevation limits, are crucial for climate change responses but can exhibit low genetic diversity due to founder effects, isolation, or limited outbreeding. These factors can hamper local adaptation at range limits. Using the widespread herb, Argentina anserina, we measured ecological attributes (population density on the landscape, area of population occupancy, and plant and flower density) spanning a 1000 m elevation gradient, with high elevation populations at the range limit. We measured vegetative clonal potential in the greenhouse for populations spanning the gradient. We combined these data with a ddRAD-seq dataset to test the hypotheses that high elevation populations would exhibit ecological and genomic signatures of leading range edge populations. We found that population density on the landscape declined towards the high elevation limit, as is expected towards range edges. However, plant density was elevated within edge populations. In the greenhouse, high elevation plants exhibited stronger clonal potential than low elevation plants, likely explaining increased plant density in the field. Phylogeographic analysis supported more recent colonization of high elevation populations which were also more genetically isolated, had more extreme heterozygote excess and had smaller effective population size than low. Results support that colonization of high elevations was likely accompanied by increased asexuality, contributing to a decline in effective population size. Despite high plant density in leading edge populations, their small effective size, isolation and clonality could constrain adaptive potential.
A stress-induced cilium-to-PML-NB route drives senescence initiation
Authors: Ma Xiaoyu , Zhang Yingyi , Zhang Yuanyuan , Zhang Xu , Huang Yan , He Kai , Chen Chuan , Hao Jielu , Zhao Debiao , LeBrasseur Nathan K. , Kirkland James L. , Chini Eduardo N. , Wei Qing , Ling Kun , Hu Jinghua 
Published: April 2023

AbstractCellular senescence contributes to tissue homeostasis and age-related pathologies. However, how senescence is initiated in stressed cells remains vague. Here, we discover that exposure to irradiation, oxidative or inflammatory stressors induces transient biogenesis of primary cilia, which are then used by stressed cells to communicate with the promyelocytic leukemia nuclear bodies (PML-NBs) to initiate senescence responses in human cells. Mechanistically, a ciliary ARL13B-ARL3 GTPase cascade negatively regulates the association of transition fiber protein FBF1 and SUMO-conjugating enzyme UBC9. Irreparable stresses downregulate the ciliary ARLs and release UBC9 to SUMOylate FBF1 at the ciliary base. SUMOylated FBF1 then translocates to PML-NBs to promote PML-NB biogenesis and PML-NB-dependent senescence initiation. Remarkably, Fbf1 ablation effectively subdues global senescence burden and prevents associated health decline in irradiation-treated mice. Collectively, our findings assign the primary cilium a key role in senescence induction in mammalian cells and, also, a promising target in future senotherapy strategies.
The m6A reader YTHDC1 and the RNA helicase DDX5 control the production of rhabdomyosarcoma-enriched circRNAs
Authors: Dattilo Dario , Di Timoteo Gaia , Setti Adriano , Giuliani Andrea , Peruzzi Giovanna , Beltran Nebot Manuel , Centrón-Broco Alvaro , Mariani Davide , Mozzetta Chiara , Bozzoni Irene 
Published: April 2023

AbstractN6-Methyladenosine (m6A) is well-known for controlling different processes of linear RNA metabolism. Conversely, its role in the biogenesis and function of circular RNAs (circRNAs) is still poorly understood. Here, we characterize circRNA expression in the pathological context of rhabdomyosarcoma (RMS), observing a global increase when compared to wild-type myoblasts. For a set of circRNAs, such an increase is due to the raised expression of the m6A machinery, which we also find to control the proliferation activity of RMS cells. Furthermore, we identify the RNA helicase DDX5 as a mediator of the back-splicing reaction and as a co-factor of the m6A regulatory network. DDX5 and the m6A reader YTHDC1 are shown to interact and to promote the production of a common subset of circRNAs in RMS. In line with the observation that YTHDC1/DDX5 depletion reduces RMS proliferation, our results provide proteins and RNA candidates for the study of rhabdomyosarcoma tumorigenicity.
Imaging-based intelligent spectrometer on a plasmonic rainbow chip
Authors: Tua Dylan , Liu Ruiying , Yang Wenhong , Zhou Lyu , Song Haomin , Ying Leslie , Gan Qiaoqiang 
Published: April 2023

AbstractCompact, lightweight, and on-chip spectrometers are required to develop portable and handheld sensing and analysis applications. However, the performance of these miniaturized systems is usually much lower than their benchtop laboratory counterparts due to oversimplified optical architectures. Here, we develop a compact plasmonic “rainbow” chip for rapid, accurate dual-functional spectroscopic sensing that can surpass conventional portable spectrometers under selected conditions. The nanostructure consists of one-dimensional or two-dimensional graded metallic gratings. By using a single image obtained by an ordinary camera, this compact system can accurately and precisely determine the spectroscopic and polarimetric information of the illumination spectrum. Assisted by suitably trained deep learning algorithms, we demonstrate the characterization of optical rotatory dispersion of glucose solutions at two-peak and three-peak narrowband illumination across the visible spectrum using just a single image. This system holds the potential for integration with smartphones and lab-on-a-chip systems to develop applications for in situ analysis.
Two-dimensional ferroelectricity in a single-element bismuth monolayer
Authors: Gou Jian , Bai Hua , Zhang Xuanlin , Huang Yu Li , Duan Sisheng , Ariando A. , Yang Shengyuan A. , Chen Lan , Lu Yunhao , Wee Andrew Thye Shen 
Published: April 2023

AbstractFerroelectric materials are fascinating for their non-volatile switchable electric polarizations induced by the spontaneous inversion-symmetry breaking. However, in all of the conventional ferroelectric compounds, at least two constituent ions are required to support the polarization switching1,2. Here, we report the observation of a single-element ferroelectric state in a black phosphorus-like bismuth layer3, in which the ordered charge transfer and the regular atom distortion between sublattices happen simultaneously. Instead of a homogenous orbital configuration that ordinarily occurs in elementary substances, we found the Bi atoms in a black phosphorous-like Bi monolayer maintain a weak and anisotropic sp orbital hybridization, giving rise to the inversion-symmetry-broken buckled structure accompanied with charge redistribution in the unit cell. As a result, the in-plane electric polarization emerges in the Bi monolayer. Using the in-plane electric field produced by scanning probe microscopy, ferroelectric switching is further visualized experimentally. Owing to the conjugative locking between the charge transfer and atom displacement, we also observe the anomalous electric potential profile at the 180° tail-to-tail domain wall induced by competition between the electronic structure and electric polarization. This emergent single-element ferroelectricity broadens the mechanism of ferroelectrics and may enrich the applications of ferroelectronics in the future.
Imperatorin exerts antioxidant effects in vascular dementia via the Nrf2 signaling pathway
Authors: Liao Xiangping , Zhang Ziliang , Ming Min , Zhong Shanquan , Chen Jianping , Huang Ying 
Published: April 2023

AbstractImperatorin, an active ingredient extracted from Angelica and Qianghuo, has anti-inflammatory, anti-oxidative stress damage, blocking calcium channels, and other properties. Our preliminary findings revealed the protective role of imperatorin in the treatment of vascular dementia, we further explored the underlying mechanisms concerning the neuroprotection function of imperatorin in vascular dementia. The cobalt chloride (COCl2)-induced chemical hypoxia and hypoglycemia of hippocampal neuronal cells was applied as in vitro vascular dementia model. Primary neuronal cells was isolated from the hippocampal tissue of SD suckling rats within 24 h of birth. Hippocampal neurons were identified by immunofluorescence staining of microtubule-associated protein 2. Silencing or overexpression of Nrf2 was conducted by transfection of corresponding plasmids in hippocampal neuronal cells. Cell viability was detected by MTT assay to determine the optimal modeling concentration of CoCl2. Mitochondrial membrane potential, intracellular reactive oxygen species and apoptosis rate was measured by flow cytometry. The expression of anti-oxidative proteins was detected by quantitative real-time PCR and western blot, including Nrf2, NQO-1 and HO-1. Nrf2 nuclear translocation was detected using laser confocal microscopy. The modeling concentration of CoCl2 was 150umol/l, and the best interventional concentration of imperatorin was 7.5umol/l. Significantly, imperatorin facilitated the nuclear localization of Nrf2, promoted the expressions of Nrf2, NQO-1, and HO-1 relative to the model-control group. Moreover, imperatorin reduced the mitochondrial membrane potential and ameliorated CoCl2-induced hypoxic apoptosis in hippocampal neurons. On the contrary, silencing Nrf2 completely abrogated the protective effects of imperatorin. Imperatorin might be an effective drug for preventing and treating vascular dementia.
Synthesis, characterization and protective efficiency of novel polybenzoxazine precursor as an anticorrosive coating for mild steel
Authors: Soliman Ahmed M. M. , Aly Kamal I. , Mohamed Mohamed Gamal , Amer Amer A. , Belal Mostafa R. , Abdel-Hakim Mohamed 
Published: April 2023

AbstractIn this study, 2-[(E)-(hexylimino)methyl] phenol (SA-Hex-SF) was synthesized by adding salicylaldehyde (SA) and n-hexylamine (Hex-NH2), which was subsequently reduced by sodium borohydride to produce 2-[(hexylamino)methyl] phenol (SA-Hex-NH). Finally, the SA-Hex-NH reacted with formaldehyde to give a benzoxazine monomer (SA-Hex-BZ). Then, the monomer was thermally polymerized at 210 °C to produce the poly(SA-Hex-BZ). The chemical composition of SA-Hex-BZ was examined using FT-IR, 1H, and 13C NMR spectroscopy. Differential scanning calorimetry (DSC), thermogravimetric analysis (TGA), scanning electron microscopy (SEM), and X-ray Diffraction (XRD), respectively, were used to examine the thermal behavior, surface morphology, and crystallinity of the SA-Hex-BZ and its PBZ polymer. Mild steel (MS) was coated by poly(SA-Hex-BZ) which was quickly prepared using spray coating and thermal curing techniques (MS). Finally, the electrochemical tests were used to evaluate the poly(SA-Hex-BZ)-coating on MS as anti-corrosion capabilities. According to this study, the poly(SA-Hex-BZ) coating was hydrophobic, and corrosion efficiency reached 91.7%.
A new Carboniferous edaphosaurid and the origin of herbivory in mammal forerunners
Authors: Mann Arjan , Henrici Amy C. , Sues Hans-Dieter , Pierce Stephanie E. 
Published: April 2023

AbstractHerbivory evolved independently in several tetrapod lineages during the Late Carboniferous and became more widespread throughout the Permian Period, eventually leading to the basic structure of modern terrestrial ecosystems. Here we report a new taxon of edaphosaurid synapsid based on two fossils recovered from the Moscovian-age cannel coal of Linton, Ohio, which we interpret as an omnivore–low-fibre herbivore. Melanedaphodon hovaneci gen. et sp. nov. provides the earliest record of an edaphosaurid to date and is one of the oldest known synapsids. Using high-resolution X-ray micro-computed tomography, we provide a comprehensive description of the new taxon that reveals similarities between Late Carboniferous and early Permian (Cisuralian) members of Edaphosauridae. The presence of large bulbous, cusped, marginal teeth alongside a moderately-developed palatal battery, distinguishes Melanedaphodon from all other known species of Edaphosauridae and suggests adaptations for processing tough plant material already appeared among the earliest synapsids. Furthermore, we propose that durophagy may have provided an early pathway to exploit plant resources in terrestrial ecosystems.
Enhancement of magnon–photon–phonon entanglement in a cavity magnomechanics with coherent feedback loop
Authors: Amazioug Mohamed , Teklu Berihu , Asjad Muhammad 
Published: April 2023

AbstractIn this paper, we present a coherent feedback loop scheme to enhance the magnon–photon–phonon entanglement in cavity magnomechanics. We provide a proof that the steady state and dynamical state of the system form a genuine tripartite entanglement state. To quantify the entanglement in the bipartite subsystem and the genuine tripartite entanglement, we use the logarithmic negativity and the minimum residual contangle, respectively, in both the steady and dynamical regimes. We demonstrate the feasibility of our proposal by implementing it with experimentally realizable parameters to achieve the tripartite entanglement. We also show that the entanglement can be significantly improved with coherent feedback by appropriately tuning the reflective parameter of the beam splitter and that it is resistant to environmental thermalization. Our findings pave the way for enhancing entanglement in magnon–photon–phonon systems and may have potential applications in quantum information.
Key therapeutic targets implicated at the early stage of hepatocellular carcinoma identified through machine-learning approaches
Authors: Hosseiniyan Khatibi Seyed Mahdi , Najjarian Farima , Homaei Rad Hamed , Ardalan Mohammadreza , Teshnehlab Mohammad , Zununi Vahed Sepideh , Pirmoradi Saeed 
Published: April 2023

AbstractHepatocellular carcinoma (HCC) is the most frequent type of primary liver cancer. Early-stage detection plays an essential role in making treatment decisions and identifying dominant molecular mechanisms. We utilized machine learning algorithms to find significant mRNAs and microRNAs (miRNAs) at the early and late stages of HCC. First, pre-processing approaches, including organization, nested cross-validation, cleaning, and normalization were applied. Next, the t-test/ANOVA methods and binary particle swarm optimization were used as a filter and wrapper method in the feature selection step, respectively. Then, classifiers, based on machine learning and deep learning algorithms were utilized to evaluate the discrimination power of selected features (mRNAs and miRNAs) in the classification step. Finally, the association rule mining algorithm was applied to selected features for identifying key mRNAs and miRNAs that can help decode dominant molecular mechanisms in HCC stages. The applied methods could identify key genes associated with the early (e.g., Vitronectin, thrombin-activatable fibrinolysis inhibitor, lactate dehydrogenase D (LDHD), miR-590) and late-stage (e.g., SPRY domain containing 4, regucalcin, miR-3199-1, miR-194-2, miR-4999) of HCC. This research could establish a clear picture of putative candidate genes, which could be the main actors at the early and late stages of HCC.
Behavioral pattern separation is associated with neural and electrodermal correlates of context-dependent fear conditioning
Authors: Neudert Marie K. , Schäfer Axel , Zehtner Raphaela I. , Fricke Susanne , Seinsche Rosa J. , Kruse Onno , Stark Rudolf , Hermann Andrea 
Published: April 2023

AbstractHippocampus-dependent pattern separation is considered as a relevant factor for context discrimination and might therefore impact the contextual modulation of conditioned fear. However, the association between pattern separation and context-dependent fear conditioning has not been investigated so far. In the current study, 72 healthy female students completed the Mnemonic Similarity Task, a measure of behavioral pattern separation, in addition to a context-dependent fear conditioning paradigm during functional magnetic resonance imaging. The paradigm included fear acquisition in context A and extinction training in context B on a first day, as well as retrieval testing of the fear and extinction memories in the safe context B (extinction recall) and a novel context C (fear renewal) one day later. Main outcome measures comprised skin conductance responses (SCRs) and blood oxygen level-dependent responses in brain regions of the fear and extinction circuit. Regarding retrieval testing, pattern separation did not correlate with extinction recall, but with stronger dorsal anterior cingulate cortex activation and conditioned SCRs (trend) during fear renewal, indicating a stronger retrieval of the fear memory trace. Our findings suggest that behavioral pattern separation ability seems to be important for context-dependent fear modulation, which is impaired in patients with posttraumatic stress disorder.
The role of nonequilibrium LO phonons, Pauli exclusion, and intervalley pathways on the relaxation of hot carriers in InGaAs/InGaAsP multi-quantum-wells
Authors: Zou Yongjie , Esmaielpour Hamidreza , Suchet Daniel , Guillemoles Jean-François , Goodnick Stephen M. 
Published: April 2023

AbstractUnder continuous-wave laser excitation in a lattice-matched In0.53Ga0.47As/In0.8Ga0.2As0.44P0.56 multi-quantum-well (MQW) structure, the carrier temperature extracted from photoluminescence rises faster for 405 nm compared with 980 nm excitation, as the injected carrier density increases. Ensemble Monte Carlo simulation of the carrier dynamics in the MQW system shows that this carrier temperature rise is dominated by nonequilibrium LO phonon effects, with the Pauli exclusion having a significant effect at high carrier densities. Further, we find a significant fraction of carriers reside in the satellite L-valleys for 405 nm excitation due to strong intervalley transfer, leading to a cooler steady-state electron temperature in the central valley compared with the case when intervalley transfer is excluded from the model. Good agreement between experiment and simulation has been shown, and detailed analysis has been presented. This study expands our knowledge of the dynamics of the hot carrier population in semiconductors, which can be applied to further limit energy loss in solar cells.
NASHmap: clinical utility of a machine learning model to identify patients at risk of NASH in real-world settings
Authors: Schattenberg Jörn M. , Balp Maria-Magdalena , Reinhart Brenda , Tietz Andreas , Regnier Stephane A. , Capkun Gorana , Ye Qin , Loeffler Jürgen , Pedrosa Marcos C. , Docherty Matt 
Published: April 2023

AbstractThe NASHmap model is a non-invasive tool using 14 variables (features) collected in standard clinical practice to classify patients as probable nonalcoholic steatohepatitis (NASH) or non-NASH, and here we have explored its performance and prediction accuracy. The National Institute of Diabetes and Digestive Kidney Diseases (NIDDK) NAFLD Adult Database and the Optum Electronic Health Record (EHR) were used for patient data. Model performance metrics were calculated from correct and incorrect classifications for 281 NIDDK (biopsy-confirmed NASH and non-NASH, with and without stratification by type 2 diabetes status) and 1,016 Optum (biopsy-confirmed NASH) patients. NASHmap sensitivity in NIDDK is 81%, with a slightly higher sensitivity in T2DM patients (86%) than non-T2DM patients (77%). NIDDK patients misclassified by NASHmap had mean feature values distinct from correctly predicted patients, particularly for aspartate transaminase (AST; 75.88 U/L true positive vs 34.94 U/L false negative), and alanine transaminase (ALT; 104.09 U/L vs 47.99 U/L). Sensitivity was slightly lower in Optum at 72%. In an undiagnosed Optum cohort at risk for NASH (n = 2.9 M), NASHmap predicted 31% of patients as NASH. This predicted NASH group had AST and ALT mean levels above normal range of 0–35 U/L, and 87% had HbA1C levels > 5.7%. Overall, NASHmap demonstrates good sensitivity in predicting NASH status in both datasets, and NASH patients misclassified as non-NASH by NASHmap have clinical profiles closer to non-NASH patients.