bluuebunny/crossref_metadata_2025_split huggingface dataset:
Geochemical Split Among the Suspended and Mud Sediments in the Nethravati River: Insights to Compositional Similarity of Peninsular Gneiss and the Deccan Basalt Derived Sediments, and Its Implications on Tracing the Provenance in the Indian Ocean
Authors: Gurumurthy G. P. 
Published: July 2024

AbstractMajor, trace, and rare earth element (REE) geochemistry of sediments from a tropical mountain river is investigated to understand the behavior of chemical elements during weathering and transportation in a Peninsular Gneissic terrain. The results from this study are compared with the Deccan Basalt‐derived River sediments and the eastern Arabian Sea sediments with an intent to highlight the challenges associated with the provenance determination of sediments along the continental margin of India. The geochemistry of suspended particulate matter (SPM) and mud sediments (<63 μm) of the Nethravati River indicate that sediments are derived from a relatively homogenous lithology, characterized by intermediate rocks of tonalitic (low‐Al TTGs) composition. The tectonic origin of the source rocks discriminated using sediment geochemistry suggests an ocean island arc origin. The sediments experience intense chemical weathering in the source region. The elemental composition and their inter‐element relationships suggest differential chemical weathering of mineral phases fractionate mafic components and their secondary mineral products in SPM, and mixed sources dominated by felsic components and their secondary mineral products in mud sediments. Intense chemical weathering induces significant geochemical splits among the suspended and mud sediments. The transport of mafic‐biased sediments from Peninsular India to Oceans, and the geochemical similarity with Deccan Basalt‐derived sediments makes it challenging to track the Peninsular Gneiss‐derived sediment provenance along the continental margin of India using conventional elemental geochemistry. The inferences from this study have important implications for determining the sediment provenance along the continental margin of India.
A Virtual Solar Wind Monitor at Mars With Uncertainty Quantification Using Gaussian Processes
Authors: Azari A. R. , Abrahams E. , Sapienza F. , Halekas J. , Biersteker J. , Mitchell D. L. , Pérez F. , Marquette M. , Rutala M. J. , Bowers C. F. , Jackman C. M. , Curry S. M. 
Published: July 2024

AbstractSingle spacecraft missions do not measure the pristine solar wind continuously because of the spacecrafts' orbital trajectory. The infrequent spatiotemporal cadence of measurement fundamentally limits conclusions about solar wind‐magnetosphere coupling throughout the solar system. At Mars, such single spacecraft missions result in limitations for assessing the solar wind's role in causing lower altitude observations, such as auroral dynamics or atmospheric loss. In this work, we detail the development of a virtual solar wind monitor from the Mars Atmosphere and Volatile Evolution (MAVEN) mission; a single spacecraft. This virtual solar wind monitor provides a continuous estimate of the solar wind upstream from Mars with uncertainties. We specifically employ Gaussian process regression to estimate the upstream solar wind and uncertainty estimations that scale with the data sparsity of our real observations. This proxy enables continuous solar wind estimation at Mars with representative uncertainties for the majority of the time since late 2014. We conclude by discussing suggested uses of this virtual solar wind monitor for statistical studies of the Mars space environment and heliosphere.
A Self‐Supervised Learning Framework for Seismic Low‐Frequency Extrapolation
Authors: Cheng Shijun , Wang Yi , Zhang Qingchen , Harsuko Randy , Alkhalifah Tariq 
Published: July 2024

AbstractFull waveform inversion (FWI) is capable of generating high‐resolution subsurface parameter models, but it is susceptible to cycle‐skipping when the data lack low‐frequency components. Unfortunately, such components (<5.0 Hz) are often tainted by noise in real seismic exploration, which hinders the application of FWI. To address this issue, we develop a novel self‐supervised low‐frequency extrapolation method that does not require labeled data, enabling neural networks to be trained directly on real data. In the proposed approach, the neural network training is divided into two stages: warm‐up and iterative data refinement (IDR). In the IDR stage, the pseudo‐labels for the current epoch are derived from the predictions made by the network trained in the previous epoch on the original observed data. The IDR stage gradually narrows the gap between the predicted pseudo‐label and the ideal ground truth, thereby enhancing the network's low‐frequency extrapolation performance. This paradigm effectively addresses the significant generalization gap often encountered using supervised learning techniques, which are typically trained on synthetic data. We validate the effectiveness of our method on both synthetic and field data. The results demonstrate that our method effectively extrapolates low‐frequency components, aiding in circumventing the challenges of cycle‐skipping in FWI. Meanwhile, by integrating a self‐supervised denoiser, our method effectively and simultaneously performs denoising and low‐frequency extrapolation on noisy data. Furthermore, we showcase the potential application of our method in extending the ultralow frequency components of the large‐scale collected earthquake seismogram.
Beyond first impressions: the importance of seeing the whole person
Authors: Raby Meg , Kong Michele 
Published: July 2024

AbstractThe power of a first impression and the trajectory it can set an individual on is something that impacts all people, and especially those with invisible disabilities. Societal norms and pragmatics are centered around neurotypical individuals and do not consider the perspective and neurology of the neurodivergent. What is the social norm for society can literally be impossible or physically uncomfortable for the neurodivergent, resulting in a mismatched doctor-patient relationship, an unintentionally inaccurate plan of care, or even a missed chance at a successful hire. We are presently in the neurodivergent movement where intentional inclusive practices are happening. First impressions coupled with curiosity and a better understanding of neurodivergence, could be the answer to a more positive relationship and outcome for all, no matter the situation or environment.
Biogenesis of specialized lysosomes in differentiated keratinocytes relies on close apposition with the Golgi apparatus
Authors: Mahanty Sarmistha , Bergam Ptissam , Belapurkar Vivek , Eluvathingal Litralson , Gupta Nikita , Goud Bruno , Nair Deepak , Raposo Graça , Setty Subba Rao Gangi 
Published: July 2024

AbstractIntracellular organelles support cellular physiology in diverse conditions. In the skin, epidermal keratinocytes undergo differentiation with gradual changes in cellular physiology, accompanying remodeling of lysosomes and the Golgi apparatus. However, it was not known whether changes in Golgi and lysosome morphology and their redistribution were linked. Here, we show that disassembled Golgi is distributed in close physical apposition to lysosomes in differentiated keratinocytes. This atypical localization requires the Golgi tethering protein GRASP65, which is associated with both the Golgi and lysosome membranes. Depletion of GRASP65 results in the loss of Golgi-lysosome apposition and the malformation of lysosomes, defined by their aberrant morphology, size, and function. Surprisingly, a trans-Golgi enzyme and secretory Golgi cargoes are extensively localized to the lysosome lumen and secreted to the cell surface, contributing to total protein secretion of differentiated keratinocytes but not in proliferative precursors, indicating that lysosomes acquire specialization during differentiation. We further demonstrate that the secretory function of the Golgi apparatus is critical to maintain keratinocyte lysosomes. Our study uncovers a novel form of Golgi-lysosome cross-talk and its role in maintaining specialized secretory lysosomes in differentiated keratinocytes.
Cell atlas of the regenerating human liver after portal vein embolization
Authors: Brazovskaja Agnieska , Gomes Tomás , Holtackers Rene , Wahle Philipp , Körner Christiane , He Zhisong , Schaffer Theresa , Eckel Julian Connor , Hänsel René , Santel Malgorzata , Seimiya Makiko , Denecke Timm , Dannemann Michael , Brosch Mario , Hampe Jochen , Seehofer Daniel , Damm Georg , Camp J. Gray , Treutlein Barbara 
Published: July 2024

AbstractThe liver has the remarkable capacity to regenerate. In the clinic, regeneration is induced by portal vein embolization, which redirects portal blood flow, resulting in liver hypertrophy in locations with increased blood supply, and atrophy of embolized segments. Here, we apply single-cell and single-nucleus transcriptomics on healthy, hypertrophied, and atrophied patient-derived liver samples to explore cell states in the regenerating liver. Our data unveils pervasive upregulation of genes associated with developmental processes, cellular adhesion, and inflammation in post-portal vein embolization liver, disrupted portal-central hepatocyte zonation, and altered cell subtype composition of endothelial and immune cells. Interlineage crosstalk analysis reveals mesenchymal cells as an interaction hub between immune and endothelial cells, and highlights the importance of extracellular matrix proteins in liver regeneration. Moreover, we establish tissue-scale iterative indirect immunofluorescence imaging for high-dimensional spatial analysis of perivascular microenvironments, uncovering changes to tissue architecture in regenerating liver lobules. Altogether, our data is a rich resource revealing cellular and histological changes in human liver regeneration.
Molecular and structural basis of the chromatin remodeling activity by Arabidopsis DDM1
Authors: Osakabe Akihisa , Takizawa Yoshimasa , Horikoshi Naoki , Hatazawa Suguru , Negishi Lumi , Sato Shoko , Berger Frédéric , Kakutani Tetsuji , Kurumizaka Hitoshi 
Published: July 2024

AbstractThe histone H2A variant H2A.W occupies transposons and thus prevents access to them in Arabidopsis thaliana. H2A.W is deposited by the chromatin remodeler DDM1, which also promotes the accessibility of chromatin writers to heterochromatin by an unknown mechanism. To shed light on this question, we solve the cryo-EM structures of nucleosomes containing H2A and H2A.W, and the DDM1-H2A.W nucleosome complex. These structures show that the DNA end flexibility of the H2A nucleosome is higher than that of the H2A.W nucleosome. In the DDM1-H2A.W nucleosome complex, DDM1 binds to the N-terminal tail of H4 and the nucleosomal DNA and increases the DNA end flexibility of H2A.W nucleosomes. Based on these biochemical and structural results, we propose that DDM1 counters the low accessibility caused by nucleosomes containing H2A.W to enable the maintenance of repressive epigenetic marks on transposons and prevent their activity.
Air pollution disproportionately impairs beneficial invertebrates: a meta-analysis
Authors: Ryalls James M. W. , Bishop Jacob , Mofikoya Adedayo O. , Bromfield Lisa M. , Nakagawa Shinichi , Girling Robbie D. 
Published: July 2024

AbstractAir pollution has the potential to disrupt ecologically- and economically-beneficial services provided by invertebrates, including pollination and natural pest regulation. To effectively predict and mitigate this disruption requires an understanding of how the impacts of air pollution vary between invertebrate groups. Here we conduct a global meta-analysis of 120 publications comparing the performance of different invertebrate functional groups in unpolluted and polluted atmospheres. We focus on the pollutants ozone, nitrogen oxides, sulfur dioxide and particulate matter. We show that beneficial invertebrate performance is reduced by air pollution, whereas the performance of plant pest invertebrates is not significantly affected. Ozone pollution has the most detrimental impacts, and these occur at concentrations below national and international air quality standards. Changes in invertebrate performance are not dependent on air pollutant concentrations, indicating that even low levels of pollution are damaging. Predicted increases in tropospheric ozone could result in unintended consequences to global invertebrate populations and their valuable ecological services.
The transcriptional co-repressor Runx1t1 is essential for MYCN-driven neuroblastoma tumorigenesis
Authors: Murray Jayne E. , Valli Emanuele , Milazzo Giorgio , Mayoh Chelsea , Gifford Andrew J. , Fletcher Jamie I. , Xue Chengyuan , Jayatilleke Nisitha , Salehzadeh Firoozeh , Gamble Laura D. , Rouaen Jourdin R. C. , Carter Daniel R. , Forgham Helen , Sekyere Eric O. , Keating Joanna , Eden Georgina , Allan Sophie , Alfred Stephanie , Kusuma Frances K. , Clark Ashleigh , Webber Hannah , Russell Amanda J. , de Weck Antoine , Kile Benjamin T. , Santulli Martina , De Rosa Piergiuseppe , Fleuren Emmy D. G. , Gao Weiman , Wilkinson-White Lorna , Low Jason K. K. , Mackay Joel P. , Marshall Glenn M. , Hilton Douglas J. , Giorgi Federico M. , Koster Jan , Perini Giovanni , Haber Michelle , Norris Murray D. 
Published: July 2024

AbstractMYCN oncogene amplification is frequently observed in aggressive childhood neuroblastoma. Using an unbiased large-scale mutagenesis screen in neuroblastoma-prone transgenic mice, we identify a single germline point mutation in the transcriptional corepressor Runx1t1, which abolishes MYCN-driven tumorigenesis. This loss-of-function mutation disrupts a highly conserved zinc finger domain within Runx1t1. Deletion of one Runx1t1 allele in an independent Runx1t1 knockout mouse model is also sufficient to prevent MYCN-driven neuroblastoma development, and reverse ganglia hyperplasia, a known pre-requisite for tumorigenesis. Silencing RUNX1T1 in human neuroblastoma cells decreases colony formation in vitro, and inhibits tumor growth in vivo. Moreover, RUNX1T1 knockdown inhibits the viability of PAX3-FOXO1 fusion-driven rhabdomyosarcoma and MYC-driven small cell lung cancer cells. Despite the role of Runx1t1 in MYCN-driven tumorigenesis neither gene directly regulates the other. We show RUNX1T1 forms part of a transcriptional LSD1-CoREST3-HDAC repressive complex recruited by HAND2 to enhancer regions to regulate chromatin accessibility and cell-fate pathway genes.
Natural variation of TBR confers plant zinc toxicity tolerance through root cell wall pectin methylesterification
Authors: Zhong Kaizhen , Zhang Peng , Wei Xiangjin , Platre Matthieu Pierre , He Wenrong , Zhang Ling , Małolepszy Anna , Cao Min , Hu Shikai , Tang Shaoqing , Li Baohai , Hu Peisong , Busch Wolfgang 
Published: July 2024

AbstractZinc (Zn) is an essential micronutrient but can be cytotoxic when present in excess. Plants have evolved mechanisms to tolerate Zn toxicity. To identify genetic loci responsible for natural variation of plant tolerance to Zn toxicity, we conduct genome-wide association studies for root growth responses to high Zn and identify 21 significant associated loci. Among these loci, we identify Trichome Birefringence (TBR) allelic variation determining root growth variation in high Zn conditions. Natural alleles of TBR determine TBR transcript and protein levels which affect pectin methylesterification in root cell walls. Together with previously published data showing that pectin methylesterification increase goes along with decreased Zn binding to cell walls in TBR mutants, our findings lead to a model in which TBR allelic variation enables Zn tolerance through modulating root cell wall pectin methylesterification. The role of TBR in Zn tolerance is conserved across dicot and monocot plant species.
PARG is essential for Polθ-mediated DNA end-joining by removing repressive poly-ADP-ribose marks
Authors: Vekariya Umeshkumar , Minakhin Leonid , Chandramouly Gurushankar , Tyagi Mrityunjay , Kent Tatiana , Sullivan-Reed Katherine , Atkins Jessica , Ralph Douglas , Nieborowska-Skorska Margaret , Kukuyan Anna-Mariya , Tang Hsin-Yao , Pomerantz Richard T. , Skorski Tomasz 
Published: July 2024

AbstractDNA polymerase theta (Polθ)-mediated end-joining (TMEJ) repairs DNA double-strand breaks and confers resistance to genotoxic agents. How Polθ is regulated at the molecular level to exert TMEJ remains poorly characterized. We find that Polθ interacts with and is PARylated by PARP1 in a HPF1-independent manner. PARP1 recruits Polθ to the vicinity of DNA damage via PARylation dependent liquid demixing, however, PARylated Polθ cannot perform TMEJ due to its inability to bind DNA. PARG-mediated de-PARylation of Polθ reactivates its DNA binding and end-joining activities. Consistent with this, PARG is essential for TMEJ and the temporal recruitment of PARG to DNA damage corresponds with TMEJ activation and dissipation of PARP1 and PAR. In conclusion, we show a two-step spatiotemporal mechanism of TMEJ regulation. First, PARP1 PARylates Polθ and facilitates its recruitment to DNA damage sites in an inactivated state. PARG subsequently activates TMEJ by removing repressive PAR marks on Polθ.
Active learning streamlines development of high performance catalysts for higher alcohol synthesis
Authors: Suvarna Manu , Zou Tangsheng , Chong Sok Ho , Ge Yuzhen , Martín Antonio J. , Pérez-Ramírez Javier 
Published: July 2024

AbstractDeveloping efficient catalysts for syngas-based higher alcohol synthesis (HAS) remains a formidable research challenge. The chain growth and CO insertion requirements demand multicomponent materials, whose complex reaction dynamics and extensive chemical space defy catalyst design norms. We present an alternative strategy by integrating active learning into experimental workflows, exemplified via the FeCoCuZr catalyst family. Our data-aided framework streamlines navigation of the extensive composition and reaction condition space in 86 experiments, offering >90% reduction in environmental footprint and costs over traditional programs. It identifies the Fe65Co19Cu5Zr11catalyst with optimized reaction conditions to attain higher alcohol productivities of 1.1 gHAh−1gcat−1under stable operation for 150 h on stream, a 5-fold improvement over typically reported yields. Characterization reveals catalytic properties linked to superior activities despite moderate higher alcohol selectivities. To better reflect catalyst demands, we devise multi-objective optimization to maximize higher alcohol productivity while minimizing undesired CO2and CH4selectivities. An intrinsic trade-off between these metrics is uncovered, identifying Pareto-optimal catalysts not readily discernible by human experts. Finally, based on feature-importance analysis, we formulate data-informed guidelines to develop performance-specific FeCoCuZr systems. This approach goes beyond existing HAS catalyst design strategies, is adaptable to broader catalytic transformations, and fosters laboratory sustainability.
3D printable and biocompatible PEDOT:PSS-ionic liquid colloids with high conductivity for rapid on-demand fabrication of 3D bioelectronics
Authors: Oh Byungkook , Baek Seunghyeok , Nam Kum Seok , Sung Changhoon , Yang Congqi , Lim Young-Soo , Ju Min Sang , Kim Soomin , Kim Taek-Soo , Park Sung-Min , Park Seongjun , Park Steve 
Published: July 2024

Abstract3D printing has been widely used for on-demand prototyping of complex three-dimensional structures. In biomedical applications, PEDOT:PSS has emerged as a promising material in versatile bioelectronics due to its tissue-like mechanical properties and suitable electrical properties. However, previously developed PEDOT:PSS inks have not been able to fully utilize the advantages of commercial 3D printing due to its long post treatment times, difficulty in high aspect ratio printing, and low conductivity. We propose a one-shot strategy for the fabrication of PEDOT:PSS ink that is able to simultaneously achieve on-demand biocompatibility (no post treatment), structural integrity during 3D printing for tall three-dimensional structures, and high conductivity for rapid-prototyping. By using ionic liquid-facilitated PEDOT:PSS colloidal stacking induced by a centrifugal protocol, a viscoplastic PEDOT:PSS-ionic liquid colloidal (PILC) ink was developed. PILC inks exhibit high-aspect ratio vertical stacking, omnidirectional printability for generating suspended architectures, high conductivity (~286 S/cm), and high-resolution printing (~50 µm). We demonstrate the on-demand and versatile applicability of PILC inks through the fabrication of 3D circuit boards, on-skin physiological signal monitoring e-tattoos, and implantable bioelectronics (opto-electrocorticography recording, low voltage sciatic nerve stimulation and recording from deeper brain layers via 3D vertical spike arrays).
Corrosion behavior of the second phase in Mg–9Gd–3Y–2Zn–0.5Zr alloy under simulated coastal storage environment
Authors: Chen Junhang , Zhang Chao , Hu Zhihao , Tan Yao , Zou Shiwen , Gao Jin , Zhang Xin , Xiao Kui 
Published: July 2024

AbstractThe Mg–9Gd–3Y–2Zn–0.5Zr alloy was studied for its long-term corrosion behavior in a simulated coastal storage environment. The results show that the Mg12 (Y, Gd) Zn phase in the Mg–9Gd–3Y–2Zn–0.5Zr alloy forms a galvanic couple with α-Mg, and the Mg12 (Y, Gd) Zn phase acts as a cathode to accelerate α-Mg during the corrosion initiation period. The corrosion of the anode is subsequently transformed into corrosive dissolution of the anode. With the dissolution of the Mg12 (Y, Gd) Zn phase, elements such as Gd and Y are gradually distributed into the entire corrosion product layer, improving the protective performance of the corrosion product layer by forming dense Gd2O3 and Y2O3.
Why are clams steamed with wine in Mediterranean cuisine?
Authors: He Fangzhou , Yu Zhaoshuo , Luo Sihao , Meng Xiangyu , Wang Leying , Jin Xuanlu , Huang Zongke , Zhang Yue , Deng Peishan , Peng Weng Kung , Ke Lijing , Wang Huiqin , Zhou Jianwu , Wall Patrick , Rao Pingfan 
Published: July 2024

AbstractWine is renowned for its rich content of polyphenols, including resveratrol (Res), known for their health promoting properties. Steamed clam with wine, a popular Mediterranean delicacy that highlights the role of wine as a key ingredient. However, despite these benefits, resveratrol’s low bioavailability poses challenges. Could the process of steaming together with clam alter the digestive fate of resveratrol from wine? This study explores the potential of proteoglycan-based nanoparticles from freshwater clam (CFNPs) as a delivery vehicle for enhancing the stability and bioavailability of resveratrol, compared with wine and free Res’ solution, aiming to elucidate mechanisms facilitating Res’ absorption. The results demonstrated that CFNPs can effectively encapsulate Res with an efficiency over 70%, leading to a uniform particle size of 70.5±0.1 nm (PDI < 0.2). Resveratrol loaded in CFNPs (CFNPs-Res) exhibited an improved antioxidant stability under various conditions, retaining over 90% of antioxidant capacity after three-day storage at room temperature. The controlled-release profile of Res loaded in CFNPs fits both first and Higuchi order kinetics and was more desirable than that of wine and the free Res. Examined by the simulated gastrointestinal digestion, CFNPs-Res showed a significantly higher bioaccessibility and antioxidant retention compared to free Res and the wines. The discovery and use of food derived nanoparticles to carry micronutrients and antioxidants could lead to a shift in functional food design and nutritional advice, advocating much more attention on these entities over solely conventional molecules.