bluuebunny/crossref_metadata_2025_split huggingface dataset:
Present‐Day Three‐Dimensional Crustal Deformation Velocity of the Tibetan Plateau Due to Multi‐Component Land Water Loading
Authors: Jiao Jiashuang , Pan Yuanjin , Ren Ding , Zhang Xiaohong 
Published: July 2024

AbstractQuantitative understanding of the land water loading is a prerequisite to the construction of reliable tectonic deformation velocity field in the Tibetan Plateau (TP). Here, for the first time, we image the three‐dimensional crustal loading deformation velocity field of each land water component in the TP. Our results reveal that the loading signal strength of the six land water components ranks from largest to smallest as groundwater, glacier, lake, soil water, permafrost, and snow, with the maximum vertical velocity close to ±1.60 mm/yr and the maximum horizontal velocity exceeding 0.40 mm/yr. All land water components can achieve a strong enough vertical loading velocity exceeding the present‐day Global Positioning System (GPS) velocity at some sites. But for horizontal loading, apparent impacts are only from glacier, lake and groundwater, however, are very limited, with the absolute ratio of loading velocity to GPS velocity being smaller than 5% at almost all the sites.
A Statistical Study of the Day‐To‐Day Variability of Diurnal and Semidiurnal Tides in the Ionospheric Dynamo Region From MIGHTI/ICON Observations
Authors: Oberheide J. , Lu X. , Aggarwal D. 
Published: July 2024

AbstractThe statistics of day‐to‐day tidal variability within 35‐day running mean windows is obtained from Michelson Interferometer for Global High‐Resolution Thermospheric Imaging (MIGHTI)/Ionospheric Connection Explorer (ICON) observations in the 90–107 km height region for the year 2020. Temperature standard deviations for 18 diurnal and semidiurnal tidal components, and for four quasi‐stationary planetary waves are presented, as function of latitude, altitude, and day‐of‐year. Our results show that the day‐to‐day variability (DTDV) can be as large as 70% of the monthly mean amplitudes, thus providing a significant source of variability for the ionospheric E‐region dynamo and hence for the F‐region plasma. We further validate our results with COSMIC‐2 ionospheric observations and present an approach to extend the MIGHTI/ICON results to all latitudes using Hough Mode Extension fitting, to produce global tidal fields and their statistical DTDV that are suitable as lower boundary conditions for nudging and ensemble modeling of TIE‐GCM. In the future, this will likely help to establish a data‐driven perspective of space weather variability caused by the tidal weather of the lower atmosphere.
Short‐Term Sea Fog Area Forecast: A New Data Set and Deep Learning Approach
Authors: Chen Keran , Zhou Yuan , Ren Tian , Li Xiaofeng 
Published: July 2024

AbstractPrompt and precise forecast of sea fog regions ensures maritime navigational safety. This paper establishes a prompt and precise forecast of sea fog regions that ensure maritime navigational safety. This paper establishes a multivariable sea fog forecast (MV‐SFF) data set and proposes a deep learning‐based forecast method named rich‐element aggregated (REA) for short‐term forecasts. The MV‐SFF data set contains 122 sea fog events from 2010 to 2020. Each event in the MV‐SFF data set includes meteorological variables from reanalysis data and geostationary ocean color imager satellite images captured hourly on the day of the sea fog occurrence. This data set aims to comprehensively utilize meteorological elements and remote sensing observations to predict the spatial changes of sea fog areas in the next 7 hours. The proposed REA model can extract and integrate features from historical meteorological elements of different types, times, and spatial locations. In addition, REA utilizes a position‐aware edge detection mechanism to locate the exact position of sea fog. We perform a seven‐hour ahead forecast starting from 09:16 local time and show promising forecasting results, which demonstrate the fog area forecast ability of our model. Compared with existing advanced deep learning networks, the REA model is superior in performance and stability.
The circadian gene ARNTL2 promotes nasopharyngeal carcinoma invasiveness and metastasis through suppressing AMOTL2-LATS-YAP pathway
Authors: Zou Wenqing , Lei Yiming , Ding Cong , Xiao Hongjun , Wang Shunxin , Liang Shaobo , Luo Weijie , Long Zhiqing , He Shiwei , Li Qingjie , Qiao Han , Liu Na , Mao Yanping 
Published: July 2024

AbstractMetastasis is the major culprit of treatment failure in nasopharyngeal carcinoma (NPC). Aryl hydrocarbon receptor nuclear translocator like 2 (ARNTL2), a core circadian gene, plays a crucial role in the development of various tumors. Nevertheless, the biological role and mechanism of ARNTL2 are not fully elucidated in NPC. In this study, ARNTL2 expression was significantly upregulated in NPC tissues and cells. Overexpression of ARNTL2 facilitated NPC cell migration and invasion abilities, while inhibition of ARNTL2 in similarly treated cells blunted migration and invasion abilities in vitro. Consistently, in vivo xenograft tumor models revealed that ARNTL2 silencing reduced nude mice inguinal lymph node and lung metastases, as well as tumor growth. Mechanistically, ARNTL2 negatively regulated the transcription expression of AMOTL2 by directly binding to the AMOTL2 promoter, thus reducing the recruitment and stabilization of AMOTL2 to LATS1/2 kinases, which strengthened YAP nuclear translocation by suppressing LATS-dependent YAP phosphorylation. Inhibition of AMOTL2 counteracted the effects of ARNTL2 knockdown on NPC cell migration and invasion abilities. These findings suggest that ARNTL2 may be a promising therapeutic target to combat NPC metastasis and further supports the crucial roles of circadian genes in cancer development.
Epithelial cells maintain memory of prior infection with Streptococcus pneumoniae through di-methylation of histone H3
Authors: Chevalier Christine , Chica Claudia , Matheau Justine , Pain Adrien , Connor Michael G. , Hamon Melanie A. 
Published: July 2024

AbstractEpithelial cells are the first point of contact for bacteria entering the respiratory tract. Streptococcus pneumoniae is an obligate human pathobiont of the nasal mucosa, carried asymptomatically but also the cause of severe pneumoniae. The role of the epithelium in maintaining homeostatic interactions or mounting an inflammatory response to invasive S. pneumoniae is currently poorly understood. However, studies have shown that chromatin modifications, at the histone level, induced by bacterial pathogens interfere with the host transcriptional program and promote infection. Here, we uncover a histone modification induced by S. pneumoniae infection maintained for at least 9 days upon clearance of bacteria with antibiotics. Di-methylation of histone H3 on lysine 4 (H3K4me2) is induced in an active manner by bacterial attachment to host cells. We show that infection establishes a unique epigenetic program affecting the transcriptional response of epithelial cells, rendering them more permissive upon secondary infection. Our results establish H3K4me2 as a unique modification induced by infection, distinct from H3K4me3 or me1, which localizes to enhancer regions genome-wide. Therefore, this study reveals evidence that bacterial infection leaves a memory in epithelial cells after bacterial clearance, in an epigenomic mark, thereby altering cellular responses to subsequent infections and promoting infection.
A chemogenetic approach for dopamine imaging with tunable sensitivity
Authors: Labouesse Marie A. , Wilhelm Maria , Kagiampaki Zacharoula , Yee Andrew G. , Denis Raphaelle , Harada Masaya , Gresch Andrea , Marinescu Alina-Măriuca , Otomo Kanako , Curreli Sebastiano , Serratosa Capdevila Laia , Zhou Xuehan , Cola Reto B. , Ravotto Luca , Glück Chaim , Cherepanov Stanislav , Weber Bruno , Zhou Xin , Katner Jason , Svensson Kjell A. , Fellin Tommaso , Trudeau Louis-Eric , Ford Christopher P. , Sych Yaroslav , Patriarchi Tommaso 
Published: July 2024

AbstractGenetically-encoded dopamine (DA) sensors enable high-resolution imaging of DA release, but their ability to detect a wide range of extracellular DA levels, especially tonic versus phasic DA release, is limited by their intrinsic affinity. Here we show that a human-selective dopamine receptor positive allosteric modulator (PAM) can be used to boost sensor affinity on-demand. The PAM enhances DA detection sensitivity across experimental preparations (in vitro, ex vivo and in vivo) via one-photon or two-photon imaging. In vivo photometry-based detection of optogenetically-evoked DA release revealed that DETQ administration produces a stable 31 minutes window of potentiation without effects on animal behavior. The use of the PAM revealed region-specific and metabolic state-dependent differences in tonic DA levels and enhanced single-trial detection of behavior-evoked phasic DA release in cortex and striatum. Our chemogenetic strategy can potently and flexibly tune DA imaging sensitivity and reveal multi-modal (tonic/phasic) DA signaling across preparations and imaging approaches.
Enhancing sorption kinetics by oriented and single crystalline array-structured ZSM-5 film on monoliths
Authors: Weng Junfei , Zhu Chunxiang , Zhao Binchao , Tang Wenxiang , Lu Xingxu , Liu Fangyuan , Wu Mudi , Ding Yong , Gao Pu-Xian 
Published: July 2024

AbstractTo enhance the reaction kinetics without sacrificing activity in porous materials, one potential solution is to utilize the anisotropic distribution of pores and channels besides enriching active centers at the reactive surfaces. Herein, by designing a unique distribution of oriented pores and single crystalline array structures in the presence of abundant acid sites as demonstrated in the ZSM-5 nanorod arrays grown on monoliths, both enhanced dynamics and improved capacity are exhibited simultaneously in propene capture at low temperature within a short duration. Meanwhile, the ZSM-5 array also helps mitigate the long-chain HCs and coking formation due to the enhanced diffusion of reactants in and reaction products out of the array structures. Further integrating the ZSM-5 array with Co3O4 nanoarray enables comprehensive propene removal throughout a wider temperature range. The array structured film design could offer energy-efficient solutions to overcome both sorption and reaction kinetic restrictions in various solid porous materials for various energy and chemical transformation applications.
Maternal mRNA deadenylation is defective in in vitro matured mouse and human oocytes
Authors: Liu Yusheng , Tao Wenrong , Wu Shuang , Zhang Yiwei , Nie Hu , Hou Zhenzhen , Zhang Jingye , Yang Zhen , Chen Zi-Jiang , Wang Jiaqiang , Lu Falong , Wu Keliang 
Published: July 2024

AbstractOocyte in vitro maturation is a technique in assisted reproductive technology. Thousands of genes show abnormally high expression in in vitro maturated metaphase II (MII) oocytes compared to those matured in vivo in bovines, mice, and humans. The mechanisms underlying this phenomenon are poorly understood. Here, we use poly(A) inclusive RNA isoform sequencing (PAIso-seq) for profiling the transcriptome-wide poly(A) tails in both in vivo and in vitro matured mouse and human oocytes. Our results demonstrate that the observed increase in maternal mRNA abundance is caused by impaired deadenylation in in vitro MII oocytes. Moreover, the cytoplasmic polyadenylation of dormant Btg4 and Cnot7 mRNAs, which encode key components of deadenylation machinery, is impaired in in vitro MII oocytes, contributing to reduced translation of these deadenylase machinery components and subsequently impaired global maternal mRNA deadenylation. Our findings highlight impaired maternal mRNA deadenylation as a distinct molecular defect in in vitro MII oocytes.
Whole-exome sequencing identifies protein-coding variants associated with brain iron in 29,828 individuals
Authors: Gong Weikang , Fu Yan , Wu Bang-Sheng , Du Jingnan , Yang Liu , Zhang Ya-Ru , Chen Shi-Dong , Kang JuJiao , Mao Ying , Dong Qiang , Tan Lan , Feng Jianfeng , Cheng Wei , Yu Jin-Tai 
Published: July 2024

AbstractIron plays a fundamental role in multiple brain disorders. However, the genetic underpinnings of brain iron and its implications for these disorders are still lacking. Here, we conduct an exome-wide association analysis of brain iron, measured by quantitative susceptibility mapping technique, across 26 brain regions among 26,789 UK Biobank participants. We find 36 genes linked to brain iron, with 29 not being previously reported, and 16 of them can be replicated in an independent dataset with 3,039 subjects. Many of these genes are involved in iron transport and homeostasis, such as FTH1 and MLX. Several genes, while not previously connected to brain iron, are associated with iron-related brain disorders like Parkinson’s (STAB1, KCNA10), Alzheimer’s (SHANK1), and depression (GFAP). Mendelian randomization analysis reveals six causal relationships from regional brain iron to brain disorders, such as from the hippocampus to depression and from the substantia nigra to Parkinson’s. These insights advance our understanding of the genetic architecture of brain iron and offer potential therapeutic targets for brain disorders.
Experimental demonstration of tunable hybrid improper ferroelectricity in double-perovskite superlattice films
Authors: Jiang Yaoxiang , Niu Jianguo , Wang Cong , Xue Donglai , Shi Xiaohui , Gao Weibo , Zhao Shifeng 
Published: July 2024

AbstractHybrid improper ferroelectricity can effectively avoid the intrinsic chemical incompatibility of electronic mechanism for multiferroics. Perovskite superlattices, as theoretically proposed hybrid improper ferroelectrics with simple structure and high technological compatibility, are conducive to device integration and miniaturization, but the experimental realization remains elusive. Here, we report a strain-driven oxygen octahedral distortion strategy for hybrid improper ferroelectricity in La2NiMnO6/La2CoMnO6 double-perovskite superlattices. The epitaxial growth mode with mixed crystalline orientations maintains a large strain transfer distance more than 90 nm in the superlattice films with lattice mismatch less than 1%. Such epitaxial strain permits sustainable long-range modulation of oxygen octahedral rotation and tilting, thereby inducing and regulating hybrid improper ferroelectricity. A robust room-temperature ferroelectricity with remnant polarization of ~ 0.16 μC cm−2 and piezoelectric coefficient of 2.0 pm V−1 is obtained, and the density functional theory calculations and Landau-Ginsburg-Devonshire theory reveal the constitutive correlations between ferroelectricity, octahedral distortions, and strain. This work addresses the gap in experimental studies of hybrid improper ferroelectricity for perovskite superlattices and provides a promising research platform and idea for designing and exploring hybrid improper ferroelectricity.
Identification of unique cell type responses in pancreatic islets to stress
Authors: Maestas Marlie M. , Ishahak Matthew , Augsornworawat Punn , Veronese-Paniagua Daniel A. , Maxwell Kristina G. , Velazco-Cruz Leonardo , Marquez Erica , Sun Jiameng , Shunkarova Mira , Gale Sarah E. , Urano Fumihiko , Millman Jeffrey R. 
Published: July 2024

AbstractDiabetes involves the death or dysfunction of pancreatic β-cells. Analysis of bulk sequencing from human samples and studies using in vitro and in vivo models suggest that endoplasmic reticulum and inflammatory signaling play an important role in diabetes progression. To better characterize cell type-specific stress response, we perform multiplexed single-cell RNA sequencing to define the transcriptional signature of primary human islet cells exposed to endoplasmic reticulum and inflammatory stress. Through comprehensive pair-wise analysis of stress responses across pancreatic endocrine and exocrine cell types, we define changes in gene expression for each cell type under different diabetes-associated stressors. We find that β-, α-, and ductal cells have the greatest transcriptional response. We utilize stem cell-derived islets to study islet health through the candidate gene CIB1, which was upregulated under stress in primary human islets. Our findings provide insights into cell type-specific responses to diabetes-associated stress and establish a resource to identify targets for diabetes therapeutics.
X chromosome dosage drives statin-induced dysglycemia and mitochondrial dysfunction
Authors: Zhang Peixiang , Munier Joseph J. , Wiese Carrie B. , Vergnes Laurent , Link Jenny C. , Abbasi Fahim , Ronquillo Emilio , Scheker Katherine , Muñoz Antonio , Kuang Yu-Lin , Theusch Elizabeth , Lu Meng , Sanchez Gabriela , Oni-Orisan Akinyemi , Iribarren Carlos , McPhaul Michael J. , Nomura Daniel K. , Knowles Joshua W. , Krauss Ronald M. , Medina Marisa W. , Reue Karen 
Published: July 2024

AbstractStatin drugs lower blood cholesterol levels for cardiovascular disease prevention. Women are more likely than men to experience adverse statin effects, particularly new-onset diabetes (NOD) and muscle weakness. Here we find that impaired glucose homeostasis and muscle weakness in statin-treated female mice are associated with reduced levels of the omega-3 fatty acid, docosahexaenoic acid (DHA), impaired redox tone, and reduced mitochondrial respiration. Statin adverse effects are prevented in females by administering fish oil as a source of DHA, by reducing dosage of the X chromosome or the Kdm5c gene, which escapes X chromosome inactivation and is normally expressed at higher levels in females than males. As seen in female mice, we find that women experience more severe reductions than men in DHA levels after statin administration, and that DHA levels are inversely correlated with glucose levels. Furthermore, induced pluripotent stem cells from women who developed NOD exhibit impaired mitochondrial function when treated with statin, whereas cells from men do not. These studies identify X chromosome dosage as a genetic risk factor for statin adverse effects and suggest DHA supplementation as a preventive co-therapy.
Epigenetic-based differentiation therapy for Acute Myeloid Leukemia
Authors: San José-Enériz Edurne , Gimenez-Camino Naroa , Rabal Obdulia , Garate Leire , Miranda Estibaliz , Gómez-Echarte Nahia , García Fernando , Charalampopoulou Stella , Sáez Elena , Vilas-Zornoza Amaia , San Martín-Uriz Patxi , Valcárcel Luis V. , Barrena Naroa , Alignani Diego , Tamariz-Amador Luis Esteban , Pérez-Ruiz Ana , Hilscher Sebastian , Schutkowski Mike , Alfonso-Pierola Ana , Martinez-Calle Nicolás , Larrayoz María José , Paiva Bruno , Calasanz María José , Muñoz Javier , Isasa Marta , Martin-Subero José Ignacio , Pineda-Lucena Antonio , Oyarzabal Julen , Agirre Xabier , Prósper Felipe 
Published: July 2024

AbstractDespite the development of novel therapies for acute myeloid leukemia, outcomes remain poor for most patients, and therapeutic improvements are an urgent unmet need. Although treatment regimens promoting differentiation have succeeded in the treatment of acute promyelocytic leukemia, their role in other acute myeloid leukemia subtypes needs to be explored. Here we identify and characterize two lysine deacetylase inhibitors, CM-444 and CM-1758, exhibiting the capacity to promote myeloid differentiation in all acute myeloid leukemia subtypes at low non-cytotoxic doses, unlike other commercial histone deacetylase inhibitors. Analyzing the acetylome after CM-444 and CM-1758 treatment reveals modulation of non-histone proteins involved in the enhancer–promoter chromatin regulatory complex, including bromodomain proteins. This acetylation is essential for enhancing the expression of key transcription factors directly involved in the differentiation therapy induced by CM-444/CM-1758 in acute myeloid leukemia. In summary, these compounds may represent effective differentiation-based therapeutic agents across acute myeloid leukemia subtypes with a potential mechanism for the treatment of acute myeloid leukemia.
Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making
Authors: Hajnal Márton Albert , Tran Duy , Szabó Zsombor , Albert Andrea , Safaryan Karen , Einstein Michael , Vallejo Martelo Mauricio , Polack Pierre-Olivier , Golshani Peyman , Orbán Gergő 
Published: July 2024

AbstractAttention supports decision making by selecting the features that are relevant for decisions. Selective enhancement of the relevant features and inhibition of distractors has been proposed as potential neural mechanisms driving this selection process. Yet, how attention operates when relevance cannot be directly determined, and the attention signal needs to be internally constructed is less understood. Here we recorded from populations of neurons in the anterior cingulate cortex (ACC) of mice in an attention-shifting task where relevance of stimulus modalities changed across blocks of trials. In contrast with V1 recordings, decoding of the irrelevant modality gradually declined in ACC after an initial transient. Our analytical proof and a recurrent neural network model of the task revealed mutually inhibiting connections that produced context-gated suppression as observed in mice. Using this RNN model we predicted a correlation between contextual modulation of individual neurons and their stimulus drive, which we confirmed in ACC but not in V1.
Environmental circadian disruption re-writes liver circadian proteomes
Authors: Duong Hao A. , Baba Kenkichi , DeBruyne Jason P. , Davidson Alec J. , Ehlen Christopher , Powell Michael , Tosini Gianluca 
Published: July 2024

AbstractCircadian gene expression is fundamental to the establishment and functions of the circadian clock, a cell-autonomous and evolutionary-conserved timing system. Yet, how it is affected by environmental-circadian disruption (ECD) such as shiftwork and jetlag are ill-defined. Here, we provided a comprehensive and comparative description of male liver circadian gene expression, encompassing transcriptomes, whole-cell proteomes and nuclear proteomes, under normal and after ECD conditions. Under both conditions, post-translation, rather than transcription, is the dominant contributor to circadian functional outputs. After ECD, post-transcriptional and post-translational processes are the major contributors to whole-cell or nuclear circadian proteome, respectively. Furthermore, ECD re-writes the rhythmicity of 64% transcriptome, 98% whole-cell proteome and 95% nuclear proteome. The re-writing, which is associated with changes of circadian regulatory cis-elements, RNA-processing and protein localization, diminishes circadian regulation of fat and carbohydrate metabolism and persists after one week of ECD-recovery.
HiTE: a fast and accurate dynamic boundary adjustment approach for full-length transposable element detection and annotation
Authors: Hu Kang , Ni Peng , Xu Minghua , Zou You , Chang Jianye , Gao Xin , Li Yaohang , Ruan Jue , Hu Bin , Wang Jianxin 
Published: July 2024

AbstractRecent advancements in genome assembly have greatly improved the prospects for comprehensive annotation of Transposable Elements (TEs). However, existing methods for TE annotation using genome assemblies suffer from limited accuracy and robustness, requiring extensive manual editing. In addition, the currently available gold-standard TE databases are not comprehensive, even for extensively studied species, highlighting the critical need for an automated TE detection method to supplement existing repositories. In this study, we introduce HiTE, a fast and accurate dynamic boundary adjustment approach designed to detect full-length TEs. The experimental results demonstrate that HiTE outperforms RepeatModeler2, the state-of-the-art tool, across various species. Furthermore, HiTE has identified numerous novel transposons with well-defined structures containing protein-coding domains, some of which are directly inserted within crucial genes, leading to direct alterations in gene expression. A Nextflow version of HiTE is also available, with enhanced parallelism, reproducibility, and portability.