bluuebunny/crossref_metadata_2025_split huggingface dataset:
IκBα controls dormancy in hematopoietic stem cells via retinoic acid during embryonic development
Authors: Thambyrajah Roshana , Maqueda Maria , Fadlullah Muhammad Zaki , Proffitt Martin , Neo Wen Hao , Guillén Yolanda , Casado-Pelaez Marta , Herrero-Molinero Patricia , Brujas Carla , Castelluccio Noemi , González Jessica , Iglesias Arnau , Marruecos Laura , Ruiz-Herguido Cristina , Esteller Manel , Mereu Elisabetta , Lacaud Georges , Espinosa Lluis , Bigas Anna 
Published: June 2024

AbstractRecent findings suggest that Hematopoietic Stem Cells (HSC) and progenitors arise simultaneously and independently of each other already in the embryonic aorta-gonad mesonephros region, but it is still unknown how their different features are established. Here, we uncover IκBα (Nfkbia, the inhibitor of NF-κB) as a critical regulator of HSC proliferation throughout development. IκBα balances retinoic acid signaling levels together with the epigenetic silencer, PRC2, specifically in HSCs. Loss of IκBα decreases proliferation of HSC and induces a dormancy related gene expression signature instead. Also, IκBα deficient HSCs respond with superior activation to in vitro culture and in serial transplantation. At the molecular level, chromatin regions harboring binding motifs for retinoic acid signaling are hypo-methylated for the PRC2 dependent H3K27me3 mark in IκBα deficient HSCs. Overall, we show that the proliferation index in the developing HSCs is regulated by a IκBα-PRC2 axis, which controls retinoic acid signaling.
Efficient intersystem crossing and tunable ultralong organic room-temperature phosphorescence via doping polyvinylpyrrolidone with polyaromatic hydrocarbons
Authors: Yang Guangxin , Hao Subin , Deng Xin , Song Xinluo , Sun Bo , Hyun Woo Jin , Li Ming-De , Dang Li 
Published: June 2024

AbstractPolymer-based pure organic room-temperature phosphorescent materials have tremendous advantages in applications owing to their low cost, vast resources, and easy processability. However, designing polymer-based room-temperature phosphorescent materials with large Stokes shifts as key requirements in biocompatibility and environmental-friendly performance is still challenging. By generating charge transfer states as the gangplank from singlet excited states to triplet states in doped organic molecules, we find a host molecule (pyrrolidone) that affords charge transfer with doped guest molecules, and excellent polymer-based organic room-temperature phosphorescent materials can be easily fabricated when polymerizing the host molecule. By adding polyaromatic hydrocarbon molecules as electron-donor in polyvinylpyrrolidone, efficient intersystem crossing and tunable phosphorescent from green to near-infrared can be achieved, with maximum phosphorescence wavelength and lifetime up to 757 nm and 3850 ms, respectively. These doped polyvinylpyrrolidone materials have good photoactivation properties, recyclability, advanced data encryption, and anti-counterfeiting. This reported design strategy paves the way for the design of polyvinylpyrrolidone-based room-temperature phosphorescent materials.
An axonemal intron splicing program sustains Plasmodium male development
Authors: Guan Jiepeng , Wu Peijia , Mo Xiaoli , Zhang Xiaolong , Liang Wenqi , Zhang Xiaoming , Jiang Lubin , Li Jian , Cui Huiting , Yuan Jing 
Published: June 2024

AbstractDifferentiation of male gametocytes into flagellated fertile male gametes relies on the assembly of axoneme, a major component of male development for mosquito transmission of the malaria parasite. RNA-binding protein (RBP)-mediated post-transcriptional regulation of mRNA plays important roles in eukaryotic sexual development, including the development of female Plasmodium. However, the role of RBP in defining the Plasmodium male transcriptome and its function in male gametogenesis remains incompletely understood. Here, we performed genome-wide screening for gender-specific RBPs and identified an undescribed male-specific RBP gene Rbpm1 in the Plasmodium. RBPm1 is localized in the nucleus of male gametocytes. RBPm1-deficient parasites fail to assemble the axoneme for male gametogenesis and thus mosquito transmission. RBPm1 interacts with the spliceosome E complex and regulates the splicing initiation of certain introns in a group of 26 axonemal genes. RBPm1 deficiency results in intron retention and protein loss of these axonemal genes. Intron deletion restores axonemal protein expression and partially rectifies axonemal defects in RBPm1-null gametocytes. Further splicing assays in both reporter and endogenous genes exhibit stringent recognition of the axonemal introns by RBPm1. The splicing activator RBPm1 and its target introns constitute an axonemal intron splicing program in the post-transcriptional regulation essential for Plasmodium male development.
Machine intelligence accelerated design of conductive MXene aerogels with programmable properties
Authors: Shrestha Snehi , Barvenik Kieran James , Chen Tianle , Yang Haochen , Li Yang , Kesavan Meera Muthachi , Little Joshua M. , Whitley Hayden C. , Teng Zi , Luo Yaguang , Tubaldi Eleonora , Chen Po-Yen 
Published: June 2024

AbstractDesigning ultralight conductive aerogels with tailored electrical and mechanical properties is critical for various applications. Conventional approaches rely on iterative, time-consuming experiments across a vast parameter space. Herein, an integrated workflow is developed to combine collaborative robotics with machine learning to accelerate the design of conductive aerogels with programmable properties. An automated pipetting robot is operated to prepare 264 mixtures of Ti3C2Tx MXene, cellulose, gelatin, and glutaraldehyde at different ratios/loadings. After freeze-drying, the aerogels’ structural integrity is evaluated to train a support vector machine classifier. Through 8 active learning cycles with data augmentation, 162 unique conductive aerogels are fabricated/characterized via robotics-automated platforms, enabling the construction of an artificial neural network prediction model. The prediction model conducts two-way design tasks: (1) predicting the aerogels’ physicochemical properties from fabrication parameters and (2) automating the inverse design of aerogels for specific property requirements. The combined use of model interpretation and finite element simulations validates a pronounced correlation between aerogel density and compressive strength. The model-suggested aerogels with high conductivity, customized strength, and pressure insensitivity allow for compression-stable Joule heating for wearable thermal management.
Co-aggregation with Apolipoprotein E modulates the function of Amyloid-β in Alzheimer’s disease
Authors: Xia Zengjie , Prescott Emily E. , Urbanek Agnieszka , Wareing Hollie E. , King Marianne C. , Olerinyova Anna , Dakin Helen , Leah Tom , Barnes Katy A. , Matuszyk Martyna M. , Dimou Eleni , Hidari Eric , Zhang Yu P. , Lam Jeff Y. L. , Danial John S. H. , Strickland Michael R. , Jiang Hong , Thornton Peter , Crowther Damian C. , Ohtonen Sohvi , Gómez-Budia Mireia , Bell Simon M. , Ferraiuolo Laura , Mortiboys Heather , Higginbottom Adrian , Wharton Stephen B. , Holtzman David M. , Malm Tarja , Ranasinghe Rohan T. , Klenerman David , De Suman 
Published: June 2024

AbstractWhich isoforms of apolipoprotein E (apoE) we inherit determine our risk of developing late-onset Alzheimer’s Disease (AD), but the mechanism underlying this link is poorly understood. In particular, the relevance of direct interactions between apoE and amyloid-β (Aβ) remains controversial. Here, single-molecule imaging shows that all isoforms of apoE associate with Aβ in the early stages of aggregation and then fall away as fibrillation happens. ApoE-Aβ co-aggregates account for ~50% of the mass of diffusible Aβ aggregates detected in the frontal cortices of homozygotes with the higher-risk APOE4 gene. We show how dynamic interactions between apoE and Aβ tune disease-related functions of Aβ aggregates throughout the course of aggregation. Our results connect inherited APOE genotype with the risk of developing AD by demonstrating how, in an isoform- and lipidation-specific way, apoE modulates the aggregation, clearance and toxicity of Aβ. Selectively removing non-lipidated apoE4-Aβ co-aggregates enhances clearance of toxic Aβ by glial cells, and reduces secretion of inflammatory markers and membrane damage, demonstrating a clear path to AD therapeutics.
Engineering natural microbiomes toward enhanced bioremediation by microbiome modeling
Authors: Ruan Zhepu , Chen Kai , Cao Weimiao , Meng Lei , Yang Bingang , Xu Mengjun , Xing Youwen , Li Pengfa , Freilich Shiri , Chen Chen , Gao Yanzheng , Jiang Jiandong , Xu Xihui 
Published: June 2024

AbstractEngineering natural microbiomes for biotechnological applications remains challenging, as metabolic interactions within microbiomes are largely unknown, and practical principles and tools for microbiome engineering are still lacking. Here, we present a combinatory top-down and bottom-up framework to engineer natural microbiomes for the construction of function-enhanced synthetic microbiomes. We show that application of herbicide and herbicide-degrader inoculation drives a convergent succession of different natural microbiomes toward functional microbiomes (e.g., enhanced bioremediation of herbicide-contaminated soils). We develop a metabolic modeling pipeline, SuperCC, that can be used to document metabolic interactions within microbiomes and to simulate the performances of different microbiomes. Using SuperCC, we construct bioremediation-enhanced synthetic microbiomes based on 18 keystone species identified from natural microbiomes. Our results highlight the importance of metabolic interactions in shaping microbiome functions and provide practical guidance for engineering natural microbiomes.
Diffusion-based deep learning method for augmenting ultrastructural imaging and volume electron microscopy
Authors: Lu Chixiang , Chen Kai , Qiu Heng , Chen Xiaojun , Chen Gu , Qi Xiaojuan , Jiang Haibo 
Published: June 2024

AbstractElectron microscopy (EM) revolutionized the way to visualize cellular ultrastructure. Volume EM (vEM) has further broadened its three-dimensional nanoscale imaging capacity. However, intrinsic trade-offs between imaging speed and quality of EM restrict the attainable imaging area and volume. Isotropic imaging with vEM for large biological volumes remains unachievable. Here, we developed EMDiffuse, a suite of algorithms designed to enhance EM and vEM capabilities, leveraging the cutting-edge image generation diffusion model. EMDiffuse generates realistic predictions with high resolution ultrastructural details and exhibits robust transferability by taking only one pair of images of 3 megapixels to fine-tune in denoising and super-resolution tasks. EMDiffuse also demonstrated proficiency in the isotropic vEM reconstruction task, generating isotropic volume even in the absence of isotropic training data. We demonstrated the robustness of EMDiffuse by generating isotropic volumes from seven public datasets obtained from different vEM techniques and instruments. The generated isotropic volume enables accurate three-dimensional nanoscale ultrastructure analysis. EMDiffuse also features self-assessment functionalities on predictions’ reliability. We envision EMDiffuse to pave the way for investigations of the intricate subcellular nanoscale ultrastructure within large volumes of biological systems.
Redox dynamics and surface structures of an active palladium catalyst during methane oxidation
Authors: Yue Shengnan , Praveen C. S. , Klyushin Alexander , Fedorov Alexey , Hashimoto Masahiro , Li Qian , Jones Travis , Liu Panpan , Yu Wenqian , Willinger Marc-Georg , Huang Xing 
Published: June 2024

AbstractCatalysts based on palladium are among the most effective in the complete oxidation of methane. Despite extensive studies and notable advances, the nature of their catalytically active species and conceivable structural dynamics remains only partially understood. Here, we combine operando transmission electron microscopy (TEM) with near-ambient pressure X-ray photoelectron spectroscopy (NAP-XPS) and density functional theory (DFT) calculations to investigate the active state and catalytic function of Pd nanoparticles (NPs) under methane oxidation conditions. We show that the particle size, phase composition and dynamics respond appreciably to changes in the gas-phase chemical potential. In combination with mass spectrometry (MS) conducted simultaneously with in situ observations, we uncover that the catalytically active state exhibits phase coexistence and oscillatory phase transitions between Pd and PdO. Aided by DFT calculations, we provide a rationale for the observed redox dynamics and demonstrate that the emergence of catalytic activity is related to the dynamic interplay between coexisting phases, with the resulting strained PdO having more favorable energetics for methane oxidation.
Insight into selectivity of photocatalytic methane oxidation to formaldehyde on tungsten trioxide
Authors: Fan Yingying , Jiang Yuheng , Lin Haiting , Li Jianan , Xie Yuanjiang , Chen Anyi , Li Siyang , Han Dongxue , Niu Li , Tang Zhiyong 
Published: June 2024

AbstractTungsten trioxide (WO3) has been recognized as the most promising photocatalyst for highly selective oxidation of methane (CH4) to formaldehyde (HCHO), but the origin of catalytic activity and the reaction manner remain controversial. Here, we take {001} and {110} facets dominated WO3 as the model photocatalysts. Distinctly, {001} facet can readily achieve 100% selectivity of HCHO via the active site mechanism whereas {110} facet hardly guarantees a high selectivity of HCHO along with many intermediate products via the radical way. In situ diffuse reflectance infrared Fourier transform spectroscopy, electron paramagnetic resonance and theoretical calculations confirm that the competitive chemical adsorption between CH4 and H2O and the different CH4 activation routes on WO3 surface are responsible for diverse CH4 oxidation pathways. The microscopic mechanism elucidation provides the guidance for designing high performance photocatalysts for selective CH4 oxidation.
Nutrient levels control root growth responses to high ambient temperature in plants
Authors: Lee Sanghwa , Showalter Julia , Zhang Ling , Cassin-Ross Gaëlle , Rouached Hatem , Busch Wolfgang 
Published: June 2024

AbstractGlobal warming will lead to significantly increased temperatures on earth. Plants respond to high ambient temperature with altered developmental and growth programs, termed thermomorphogenesis. Here we show that thermomorphogenesis is conserved in Arabidopsis, soybean, and rice and that it is linked to a decrease in the levels of the two macronutrients nitrogen and phosphorus. We also find that low external levels of these nutrients abolish root growth responses to high ambient temperature. We show that in Arabidopsis, this suppression is due to the function of the transcription factor ELONGATED HYPOCOTYL 5 (HY5) and its transcriptional regulation of the transceptor NITRATE TRANSPORTER 1.1 (NRT1.1). Soybean and Rice homologs of these genes are expressed consistently with a conserved role in regulating temperature responses in a nitrogen and phosphorus level dependent manner. Overall, our data show that root thermomorphogenesis is a conserved feature in species of the two major groups of angiosperms, monocots and dicots, that it leads to a reduction of nutrient levels in the plant, and that it is dependent on environmental nitrogen and phosphorus supply, a regulatory process mediated by the HY5-NRT1.1 module.
Electrochemical characteristics and damage mechanism in scrubber washing water of UNS N08367 with plasma ion nitriding and electropolishing
Authors: Hwang Hyun-Kyu , Kim Seong-Jong 
Published: June 2024

AbstractIn this investigation, electropolishing and plasma ion nitriding are applied to super austenitic stainless steel for the purpose of improving its corrosion and pitting resistance. Electrochemical experiments are conducted with washing water collected directly from the ship’s scrubber. After electropolishing, the surface roughness is improved by about 73.6% compared to mechanical polishing. After plasma ion nitriding, CrN (precipitate), Fe4N (compound), and γN (solid solution) are observed on the surface. The thickness of the layer formed on the surface is measured to be about 10 μm. A hysteresis loop is observed in the cyclic potentiodynamic polarization curves of mechanical polishing and electropolishing, and the areas are calculated as 23.33 mW cm−2 and 0.17 mW cm−2, respectively. The polarization curve of plasma ion nitriding presents perfect passivation characteristics. Accordingly, mechanical polishing and electropolishing reveal local corrosion, whereas plasma ion nitriding presents a tendency towards general corrosion. In the mechanical polishing, electropolishing, and plasma ion nitriding, the corrosion current densities are 0.665 μA cm−2, 0.093 μA cm−2, and 16.47 μA cm−2, respectively, and the maximum damage depth is observed to grow progressively smaller from plasma ion nitriding to electropolishing and then mechanical polishing.
Atomic-scale visualization of a cascade of magnetic orders in the layered antiferromagnet GdTe3
Authors: Raghavan Arjun , Romanelli Marisa , May-Mann Julian , Aishwarya Anuva , Aggarwal Leena , Singh Anisha G. , Bachmann Maja D. , Schoop Leslie M. , Fradkin Eduardo , Fisher Ian R. , Madhavan Vidya 
Published: June 2024

AbstractGdTe3 is a layered antiferromagnet which has attracted attention due to its exceptionally high mobility, distinctive unidirectional incommensurate charge density wave (CDW), superconductivity under pressure, and a cascade of magnetic transitions between 7 and 12 K, with as yet unknown order parameters. Here, we use spin-polarized scanning tunneling microscopy to directly image the charge and magnetic orders in GdTe3. Below 7 K, we find a striped antiferromagnetic phase with twice the periodicity of the Gd lattice and perpendicular to the CDW. As we heat the sample, we discover a spin density wave with the same periodicity as the CDW between 7 and 12 K; the viability of this phase is supported by our Landau free energy model. Our work reveals the order parameters of the magnetic phases in GdTe3 and shows how the interplay between charge and spin can generate a cascade of magnetic orders.
On the role of surface morphology in impacting-freezing dynamics of supercooled droplets
Authors: Hosseini S. R. , Moghimi M. , Nouri N. M. 
Published: June 2024

AbstractA thorough understanding of droplet impact and freezing is vital in preventing ice accretion on many outdoor devices. This simulation-based study investigated the effect of surface morphology on the impacting-freezing process of a supercooled droplet. Also, the variations of Weber number and supercooling temperature were studied numerically. The droplet impact and freezing process were simulated with the volume of fluid method and freezing model. A more accurate simulation was achieved by modeling the supercooled droplet and the dynamic contact angle. At the given ranges of the input parameters, the main factors that guaranteed droplet rebounding after collision were determined. The supercooling temperature and the groove width should be above 266 K and less than 0.21 mm, respectively. The droplet should also maintain its cohesion and integrity during impact. Creating grooves on a surface is novel and paves a new way to understand the impact and solidification of water droplets in supercooled conditions.
Little evidence of inbreeding depression for birth mass, survival and growth in Antarctic fur seal pups
Authors: Paijmans A. J. , Berthelsen A. L. , Nagel R. , Christaller F. , Kröcker N. , Forcada J. , Hoffman J. I. 
Published: June 2024

AbstractInbreeding depression, the loss of offspring fitness due to consanguineous mating, is generally detrimental for individual performance and population viability. We investigated inbreeding effects in a declining population of Antarctic fur seals (Arctocephalus gazella) at Bird Island, South Georgia. Here, localised warming has reduced the availability of the seal’s staple diet, Antarctic krill, leading to a temporal increase in the strength of selection against inbred offspring, which are increasingly failing to recruit into the adult breeding population. However, it remains unclear whether selection operates before or after nutritional independence at weaning. We therefore used microsatellite data from 885 pups and their mothers, and SNP array data from 98 mother–offspring pairs, to quantify the effects of individual and maternal inbreeding on three important neonatal fitness traits: birth mass, survival and growth. We did not find any clear or consistent effects of offspring or maternal inbreeding on any of these traits. This suggests that selection filters inbred individuals out of the population as juveniles during the time window between weaning and recruitment. Our study brings into focus a poorly understood life-history stage and emphasises the importance of understanding the ecology and threats facing juvenile pinnipeds.
The lymphedema patient experience within the healthcare system: a cross-sectional epidemiologic assessment
Authors: Bowman Catharine , Rockson Stanley G. 
Published: June 2024

AbstractLymphedema is a progressive lymphatic disease that potentiates physical and psychosocial distress. Despite its impact, patients reportedly encounter lymphatic ignorance throughout the healthcare system. This cross-sectional study aims to summarize clinical characteristics and interactions of lymphedema patients within the healthcare system. Two lymphedema patient cohorts were included: The Global Registry Analysis Cohort included lymphedema patients who contributed to an international digital lymphatic registry and the Interactions Cohort included patients who initiated a questionnaire about interactions with the medical system. The global registry was used to obtain demographic and clinical characteristics from affiliated lymphedema patients. A 23-item online questionnaire on healthcare experiences and satisfaction with lymphatic healthcare was then distributed to the Interactions Cohort. Complete responses were obtained from 2474 participants. Participants were a mean age of 57.5 ± 16.1 years and 51.4% had a cancer history. Participants reported substantial delays in diagnosis and treatment. Cancer-related and non-cancer-related lymphedema patients reported similar levels of perceived physician disinterest in their lymphedema; however, non-cancer-related lymphedema patients reported more care dissatisfaction. Ultimately, patients continue to face delays in lymphedema diagnosis and treatment. We developed an evidence-based model highlighting areas of reform needed to improve lymphatic education and healthcare.