bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pantothenate kinase 4 controls skeletal muscle substrate metabolism
Authors: Miranda-Cervantes Adriana , Fritzen Andreas M. , Raun Steffen H. , Hodek Ondřej , Møller Lisbeth L. V. , Johann Kornelia , Deisen Luisa , Gregorevic Paul , Gudiksen Anders , Artati Anna , Adamski Jerzy , Andersen Nicoline R. , Sigvardsen Casper M. , Carl Christian S. , Voldstedlund Christian T. , Kjøbsted Rasmus , Hauck Stefanie M. , Schjerling Peter , Jensen Thomas E. , Cebrian-Serrano Alberto , Jähnert Markus , Gottmann Pascal , Burtscher Ingo , Lickert Heiko , Pilegaard Henriette , Schürmann Annette , Tschöp Matthias H. , Moritz Thomas , Müller Timo D. , Sylow Lykke , Kiens Bente , Richter Erik A. , Kleinert Maximilian 
Published: January 2025

AbstractMetabolic flexibility in skeletal muscle is essential for maintaining healthy glucose and lipid metabolism, and its dysfunction is closely linked to metabolic diseases. Exercise enhances metabolic flexibility, making it an important tool for discovering mechanisms that promote metabolic health. Here we show that pantothenate kinase 4 (PanK4) is a new conserved exercise target with high abundance in muscle. Muscle-specific deletion of PanK4 impairs fatty acid oxidation which is related to higher intramuscular acetyl-CoA and malonyl-CoA levels. Elevated acetyl-CoA levels persist regardless of feeding state and are associated with whole-body glucose intolerance, reduced insulin-stimulated glucose uptake in glycolytic muscle, and impaired glucose uptake during exercise. Conversely, increasing PanK4 levels in glycolytic muscle lowers acetyl-CoA and enhances glucose uptake. Our findings highlight PanK4 as an important regulator of acetyl-CoA levels, playing a key role in both muscle lipid and glucose metabolism.
Emergence of ferroelectricity in Sn-based perovskite semiconductor films by iminazole molecular reconfiguration
Authors: Liu Yu , Yang Shuzhang , Hua Lina , Yang Xiaomin , Li Enlong , Wen Jincheng , Wu Yanqiu , Zhu Liping , Yang Yingguo , Zhao Yan , An Zhenghua , Chu Junhao , Li Wenwu 
Published: January 2025

AbstractFerroelectric semiconductors have the advantages of switchable polarization ferroelectric field regulation and semiconductor transport characteristics, which are highly promising in ferroelectric transistors and nonvolatile memory. However, it is difficult to prepare a Sn-based perovskite film with both robust ferroelectric and semiconductor properties. Here, by doping with 2-methylbenzimidazole, Sn-based perovskite [93.3 mol% (FA0.86Cs0.14)SnI3 and 6.7 mol% PEA2SnI4] semiconductor films are transformed into ferroelectric semiconductor films, owing to molecular reconfiguration. The reconfigured ferroelectric semiconductors exhibit a high remanent polarization (Pr) of 23.2 μC/cm2. The emergence of ferroelectricity can be ascribed to the hydrogen bond enhancement after imidazole molecular doping, and then the spatial symmetry breaks causing the positive and negative charge centers to become non-coincident. Remarkably, the transistors based on perovskite ferroelectric semiconductors have a low subthreshold swing of 67 mv/dec, which further substantiates the superiority of introducing ferroelectricity. This work has developed a method to realize Sn-based ferroelectric semiconductor films for electronic device applications.
Essential and dual effects of Notch activity on a natural transdifferentiation event
Authors: Daniele Thomas , Cury Jeanne , Morin Marie-Charlotte , Ahier Arnaud , Isaia Davide , Jarriault Sophie 
Published: January 2025

AbstractCell identity can be reprogrammed, naturally or experimentally, albeit with low frequency. Why some cells, but not their neighbours, undergo a cell identity conversion remains unclear. We find that Notch signalling plays a key role to promote natural transdifferentiation in C. elegans hermaphrodites. Endogenous Notch signalling endows a cell with the competence to transdifferentiate by promoting plasticity factors expression (hlh-16/Olig and sem-4/Sall). Strikingly, ectopic Notch can trigger additional transdifferentiation in vivo. However, Notch signalling can both promote and block transdifferentiation depending on its activation timing. Notch only promotes transdifferentiation during an early precise window of opportunity and signal duration must be tightly controlled in time. Our findings emphasise the importance of temporality and dynamics of the underlying molecular events preceding the initiation of natural cell reprogramming. Finally, our results support a model where both an extrinsic signal and the intrinsic cellular context combine to empower a cell with the competence to transdifferentiate.
Genomic and phenotypic stability of fusion-driven pediatric sarcoma cell lines
Authors: Kasan Merve , Geyer Florian H. , Siebenlist Jana , Sill Martin , Öllinger Rupert , Faehling Tobias , de Álava Enrique , Surdez Didier , Dirksen Uta , Oehme Ina , Scotlandi Katia , Delattre Olivier , Müller-Nurasyid Martina , Rad Roland , Strauch Konstantin , Grünewald Thomas G. P. , Cidre-Aranaz Florencia 
Published: January 2025

AbstractHuman cancer cell lines are the mainstay of cancer research. Recent reports showed that highly mutated adult carcinoma cell lines (mainly HeLa and MCF-7) present striking diversity across laboratories and that long-term continuous culturing results in genomic/transcriptomic heterogeneity with strong phenotypical implications. Here, we hypothesize that oligomutated pediatric sarcoma cell lines mainly driven by a fusion transcription factor, such as Ewing sarcoma (EwS), are genetically and phenotypically more stable than the previously investigated adult carcinoma cell lines. A comprehensive molecular and phenotypic characterization of multiple EwS cell line strains, together with a simultaneous analysis during 12 months of continuous cell culture show that fusion-driven pediatric sarcoma cell line strains are genomically more stable than adult carcinoma strains, display remarkably stable and homogenous transcriptomes, and exhibit uniform and stable drug response. Additionally, the analysis of multiple EwS cell lines subjected to long-term continuous culture reveals that variable degrees of genomic/transcriptomic/phenotypic changes among fusion-driven cell lines, further exemplifying that the potential for reproducibility of in vitro scientific results may be rather understood as a spectrum, even within the same tumor entity.
Design principles for engineering bacteria to maximise chemical production from batch cultures
Authors: Mannan Ahmad A. , Darlington Alexander P. S. , Tanaka Reiko J. , Bates Declan G. 
Published: January 2025

AbstractBacteria can be engineered to manufacture chemicals, but it is unclear how to optimally engineer a single cell to maximise production performance from batch cultures. Moreover, the performance of engineered production pathways is affected by competition for the host’s native resources. Here, using a ‘host-aware’ computational framework which captures competition for both metabolic and gene expression resources, we uncover design principles for engineering the expression of host and production enzymes at the cell level which maximise volumetric productivity and yield from batch cultures. However, this does not break the fundamental growth-synthesis trade-off which limits production performance. We show that engineering genetic circuits to switch cells to a high synthesis-low growth state after first growing to a large population can further improve performance. By analysing different circuit topologies, we show that highest performance is achieved by circuits that inhibit host metabolism to redirect it to product synthesis. Our results should facilitate construction of microbial cell factories with high and efficient production capabilities.
Overcoming optical losses in thin metal-based recombination layers for efficient n-i-p perovskite-organic tandem solar cells
Authors: Tian Jingjing , Liu Chao , Forberich Karen , Barabash Anastasia , Xie Zhiqiang , Qiu Shudi , Byun Jiwon , Peng Zijian , Zhang Kaicheng , Du Tian , Sathasivam Sanjayan , Macdonald Thomas J. , Dong Lirong , Li Chaohui , Zhang Jiyun , Halik Marcus , Le Corre Vincent M. , Osvet Andres , Heumüller Thomas , Li Ning , Zhou Yinhua , Lüer Larry , Brabec Christoph J. 
Published: January 2025

AbstractPerovskite-organic tandem solar cells (P-O-TSCs) hold substantial potential to surpass the theoretical efficiency limits of single-junction solar cells. However, their performance is hampered by non-ideal interconnection layers (ICLs). Especially in n-i-p configurations, the incorporation of metal nanoparticles negatively introduces serious parasitic absorption, which alleviates photon utilization in organic rear cell and decisively constrains the maximum photocurrent matching with front cell. Here, we demonstrate an efficient strategy to mitigate optical losses in Au-embedded ICLs by tailoring the shape and size distribution of Au nanoparticles via manipulating the underlying surface property. Achieving fewer, smaller, and more uniformly spherical Au nanoparticles significantly minimizes localized surface plasmon resonance absorption, while maintaining efficient electron-hole recombination within ICLs. Consequently, optimized P-O-TSCs combining CsPbI2Br with various organic cells benefit from a substantial current gain of >1.5 mA/cm2 in organic rear cells, achieving a champion efficiency of 25.34%. Meanwhile, optimized ICLs contribute to improved long-term device stability.
Single-neuron spiking variability in hippocampus dynamically tracks sensory content during memory formation in humans
Authors: Waschke Leonhard , Kamp Fabian , van den Elzen Evi , Krishna Suresh , Lindenberger Ulman , Rutishauser Ueli , Garrett Douglas D. 
Published: January 2025

AbstractDuring memory formation, the hippocampus is presumed to represent the content of stimuli, but how it does so is unknown. Using computational modelling and human single-neuron recordings, we show that the more precisely hippocampal spiking variability tracks the composite features of each individual stimulus, the better those stimuli are later remembered. We propose that moment-to-moment spiking variability may provide a new window into how the hippocampus constructs memories from the building blocks of our sensory world.
E4F1 coordinates pyruvate metabolism and the activity of the elongator complex to ensure translation fidelity during brain development
Authors: Di Michele Michela , Attina Aurore , Roux Pierre-François , Tabet Imène , Laguesse Sophie , Florido Javier , Houdeville Morane , Choquet Armelle , Encislai Betty , Arena Giuseppe , De Blasio Carlo , Wendling Olivia , Frenois François-Xavier , Papon Laura , Stuani Lucille , Fuentes Maryse , Jahannault Talignani Céline , Rousseau Mélanie , Guégan Justine , Buscail Yoan , Dupré Pierrick , Michaud Henri-Alexandre , Rodier Geneviève , Bellvert Floriant , Kulyk Hanna , Ferraro Peyret Carole , Mathieu Hugo , Close Pierre , Rapino Francesca , Chaveroux Cédric , Pirot Nelly , Rubio Lucie , Torro Adeline , Sorg Tania , Ango Fabrice , Hirtz Christophe , Compan Vincent , Lebigot Elise , Legati Andrea , Ghezzi Daniele , Nguyen Laurent , David Alexandre , Sardet Claude , Lacroix Matthieu , Le Cam Laurent 
Published: January 2025

AbstractPyruvate metabolism defects lead to severe neuropathies such as the Leigh syndrome (LS) but the molecular mechanisms underlying neuronal cell death remain poorly understood. Here, we unravel a connection between pyruvate metabolism and the regulation of the epitranscriptome that plays an essential role during brain development. Using genetically engineered mouse model and primary neuronal cells, we identify the transcription factor E4F1 as a key coordinator of AcetylCoenzyme A (AcCoA) production by the pyruvate dehydrogenase complex (PDC) and its utilization as an essential co-factor by the Elongator complex to acetylate tRNAs at the wobble position uridine 34 (U34). E4F1-mediated direct transcriptional regulation of Dlat and Elp3, two genes encoding key subunits of the PDC and of the Elongator complex, respectively, ensures proper translation fidelity and cell survival in the central nervous system (CNS) during mouse embryonic development. Furthermore, analysis of PDH-deficient cells highlight a crosstalk linking the PDC to ELP3 expression that is perturbed in LS patients.
diaTracer enables spectrum-centric analysis of diaPASEF proteomics data
Authors: Li Kai , Teo Guo Ci , Yang Kevin L. , Yu Fengchao , Nesvizhskii Alexey I. 
Published: January 2025

AbstractData-independent acquisition has become a widely used strategy for peptide and protein quantification in liquid chromatography-tandem mass spectrometry-based proteomics studies. The integration of ion mobility separation into data-independent acquisition analysis, such as the diaPASEF technology available on Bruker’s timsTOF platform, further improves the quantification accuracy and protein depth achievable using data-independent acquisition. We introduce diaTracer, a spectrum-centric computational tool optimized for diaPASEF data. diaTracer performs three-dimensional (mass to charge ratio, retention time, ion mobility) peak tracing and feature detection to generate precursor-resolved “pseudo-tandem mass spectra”, facilitating direct (“spectral-library free”) peptide identification and quantification from diaPASEF data. diaTracer is available as a stand-alone tool and is fully integrated into the widely used FragPipe computational platform. We demonstrate the performance of diaTracer and FragPipe using diaPASEF data from triple-negative breast cancer, cerebrospinal fluid, and plasma samples, data from phosphoproteomics and human leukocyte antigens immunopeptidomics experiments, and low-input data from a spatial proteomics study. We also show that diaTracer enables unrestricted identification of post-translational modifications from diaPASEF data using open/mass-offset searches.
Compound electron acceleration at planetary foreshocks
Authors: Shi Xiaofei , Artemyev Anton , Angelopoulos Vassilis , Liu Terry , Wilson III Lynn B. 
Published: January 2025

AbstractShock waves, the interface of supersonic and subsonic plasma flows, are the primary region for charged particle acceleration in multiple space plasma systems, including Earth’s bow shock, which is readily accessible for in-situ measurements. Spacecraft frequently observe relativistic electron populations within this region, characterized by energy levels surpassing those of solar wind electrons by a factor of 10,000 or more. However, mechanisms of such strong acceleration remain elusive. Here we use observations of electrons with energies up to 200 kiloelectron volts and a data-constrained model to reproduce the observed power-law electron spectrum and demonstrate that the acceleration by more than 4 orders of magnitude is a compound process including a complex, multi-step interaction between more commonly known mechanisms and resonant scattering by several distinct plasma wave modes. The proposed model of electron acceleration addresses a decades-long issue of the generation of energetic (and relativistic) electrons at planetary plasma shocks. This work may further guide numerical simulations of even more effective electron acceleration in astrophysical shocks.
MCM2-7 ring closure involves the Mcm5 C-terminus and triggers Mcm4 ATP hydrolysis
Authors: Faull Sarah V. , Barbon Marta , Mossler Audrey , Yuan Zuanning , Bai Lin , Reuter L. Maximilian , Riera Alberto , Winkler Christian , Magdalou Indiana , Peach Matthew , Li Huilin , Speck Christian 
Published: January 2025

AbstractThe eukaryotic helicase MCM2-7, is loaded by ORC, Cdc6 and Cdt1 as a double-hexamer onto replication origins. The insertion of DNA into the helicase leads to partial MCM2-7 ring closure, while ATP hydrolysis is essential for consecutive steps in pre-replicative complex (pre-RC) assembly. Currently it is unknown how MCM2-7 ring closure and ATP-hydrolysis are controlled. A cryo-EM structure of an ORC-Cdc6-Cdt1-MCM2-7 intermediate shows a remodelled, fully-closed Mcm2/Mcm5 interface. The Mcm5 C-terminus (C5) contacts Orc3 and specifically recognises this closed ring. Interestingly, we found that normal helicase loading triggers Mcm4 ATP-hydrolysis, which in turn leads to reorganisation of the MCM2-7 complex and Cdt1 release. However, defective MCM2-7 ring closure, due to mutations at the Mcm2/Mcm5 interface, leads to MCM2-7 ring splitting and complex disassembly. As such we identify Mcm4 as the key ATPase in regulating pre-RC formation. Crucially, a stable Mcm2/Mcm5 interface is essential for productive ATP-hydrolysis-dependent remodelling of the helicase.
Generalized cue reactivity in rat dopamine neurons after opioids
Authors: Lehmann Collin M. , Miller Nora E. , Nair Varun S. , Costa Kauê M. , Schoenbaum Geoffrey , Moussawi Khaled 
Published: January 2025

AbstractCue reactivity is the maladaptive neurobiological and behavioral response upon exposure to drug cues and is a major driver of relapse. A widely accepted assumption is that drugs of abuse result in disparate dopamine responses to cues that predict drug vs. natural rewards. The leading hypothesis is that drug-induced dopamine release represents a persistently positive reward prediction error that causes runaway enhancement of dopamine responses to drug cues, leading to their pathological overvaluation. However, this hypothesis has not been directly tested. Here, we develop Pavlovian and operant procedures in male rats to measure firing responses within the same dopamine neurons to drug versus natural reward cues, which we find to be similarly enhanced compared to cues predicting natural rewards in drug-naive controls. This enhancement is associated with increased behavioral reactivity to the drug cue, suggesting that dopamine neuronal activity may still be relevant to cue reactivity, albeit not as previously hypothesized. These results challenge the prevailing hypothesis of cue reactivity, warranting revised models of dopaminergic function in opioid addiction, and provide insights into the neurobiology of cue reactivity with potential implications for relapse prevention.
Feshbach hypothesis of high-Tc superconductivity in cuprates
Authors: Homeier Lukas , Lange Hannah , Demler Eugene , Bohrdt Annabelle , Grusdt Fabian 
Published: January 2025

AbstractResonant interactions associated with the emergence of a bound state constitute one of the cornerstones of modern many-body physics. Here we present a Feshbach perspective on the origin of strong pairing in Fermi-Hubbard type models. We perform a theoretical analysis of interactions between spin-polaron charge carriers in doped Mott insulators, modeled by a near-resonant two-channel scattering problem, and report evidence for Feshbach-type interactions in the $${d}_{{x}^{2}-{y}^{2}}$$

d

x

2

−

y

2

channel, consistent with the established phenomenology of cuprates. Existing experimental and numerical results on hole-doped cuprates lead us to conjecture the existence of a light, long-lived, low-energy excited state of two holes, which enables near-resonant interactions. To put our theory to a test we suggest to use coincidence angle-resolved photoemission spectroscopy (cARPES), pair-tunneling measurements or pump-probe experiments. The emergent Feshbach resonance among spin-polarons could also underlie superconductivity in other doped antiferromagnetic Mott insulators highlighting its potential as a unifying strong-coupling pairing mechanism rooted in quantum magnetism.
High-entropy alloys catalyzing polymeric transformation of water pollutants with remarkably improved electron utilization efficiency
Authors: Yao Ziwei , Chen Yidi , Wang Xiaodan , Hu Kunsheng , Ren Shiying , Zhang Jinqiang , Song Zhao , Ren Nanqi , Duan Xiaoguang 
Published: January 2025

AbstractHigh-entropy alloy nanoparticles (HEA-NPs) exhibit favorable properties in catalytic processes, as their multi-metallic sites ensure both high intrinsic activity and atomic efficiency. However, controlled synthesis of uniform multi-metallic ensembles at the atomic level remains challenging. This study successfully loads HEA-NPs onto a nitrogen-doped carbon carrier (HEAs) and pioneers the application in peroxymonosulfate (PMS) activation to drive Fenton-like oxidation. The HEAs-PMS system achieves ultrafast pollutant removal across a wide pH range with strong resistance to real-world water interferences. Furthermore, the nonradical HEAs-PMS system selectively transforms phenolics into high-molecular-weight products via a polymerization pathway. The unique non-mineralization regime remarkably reduces PMS consumption and achieves a high electron utilization efficiency of up to 213.4%. Further DFT calculations and experimental analysis reveal that Fe and Co in HEA-NPs act as the primary catalytic sites to complex with PMS for activation, while Ni, Cu, and Pd serve as charge mediators to facilitate electron transfer. The resulting PMS* complexes on HEAs possess a high redox potential, which drives spatially separated phenol oxidation on nitrogen-doped graphene support to form phenoxyl radicals, subsequently triggering the formation of high-molecule polymeric products via polymerization reactions. This study offers engineered HEAs catalysts for water treatment with low oxidant consumption and emissions.
NHSL3 controls single and collective cell migration through two distinct mechanisms
Authors: Novikov Nikita M. , Gao Jinmei , Fokin Artem I. , Rocques Nathalie , Chiappetta Giovanni , Rysenkova Karina D. , Zea Diego Javier , Polesskaya Anna , Vinh Joelle , Guerois Raphael , Gautreau Alexis M. 
Published: January 2025

AbstractThe molecular mechanisms underlying cell migration remain incompletely understood. Here, we show that knock-out cells for NHSL3, the most recently identified member of the Nance-Horan Syndrome family, are more persistent than parental cells in single cell migration, but that, in wound healing, follower cells are impaired in their ability to follow leader cells. The NHSL3 locus encodes several isoforms. We identify the partner repertoire of each isoform using proteomics and predict direct partners and their binding sites using an AlphaFold2-based pipeline. Rescue with specific isoforms, and lack of rescue when relevant binding sites are mutated, establish that the interaction of a long isoform with MENA/VASP proteins is critical at cell-cell junctions for collective migration, while the interaction of a short one with 14-3-3θ in lamellipodia is critical for single cell migration. Taken together, these results demonstrate that NHSL3 regulates single and collective cell migration through distinct mechanisms.
Neurophysiological gradient in the Parkinsonian subthalamic nucleus as a marker for motor symptoms and apathy
Authors: Bernasconi Elena , Amstutz Deborah , Averna Alberto , Fischer Petra , Sousa Mario , Debove Ines , Petermann Katrin , Alva Laura , Magalhães Andreia D. , Lachenmayer M. Lenard , Nguyen Thuy-Anh K. , Schuepbach Michael , Nowacki Andreas , Pollo Claudio , Krack Paul , Tinkhauser Gerd 
Published: January 2025

AbstractSensing-based deep brain stimulation should optimally consider both the motor and neuropsychiatric domain to maximize quality of life of Parkinson’s disease (PD) patients. Here we characterize the neurophysiological properties of the subthalamic nucleus (STN) in 69 PD patients using a newly established neurophysiological gradient metric and contextualize it with motor symptoms and apathy. We could evidence a STN power gradient that holds most of the spectral information between 5 and 30 Hz spanning along the dorsal-ventral axis. It shows elevated power in the sub-beta range (8-12 Hz) toward the ventral STN, and elevated dorsal beta power (16–24 Hz) indicative for the hemispheres contralateral to the more affected hemi-body side. The rigidity response to DBS was highest dorsally on the axis. Importantly, apathetic symptoms can be related to reduced ventral alpha power. In conclusion, the STN spectral gradient may inform about the motor and neuropsychiatric domain, supporting integrative closed-loop strategies.