bluuebunny/crossref_metadata_2025_split huggingface dataset:
Global Distribution of EMIC Waves and Its Association to Subauroral Proton Precipitation During the 27 May 2017 Storm: Modeling and Multipoint Observations
Authors: Shreedevi P. R. , Yu Yiqun , Miyoshi Yoshizumi , Tian Xingbin , Zhu Minghui , Jordanova Vania K. , Nakamura Satoko , Jun Chae‐Woo , Kumar Sandeep , Shiokawa Kazuo , Connors Martin , Hori T. , Shoji Masafumi , Shinohara I. , Yokota S. , Kasahara S. , Keika K. , Matsuoka A. , Kadokura Akira , Tsuchiya Fuminori , Kumamoto Atsushi , Kasahara Yoshiya 
Published: May 2024

AbstractRecent simulation studies using the RAM‐SCB model showed that proton precipitation contributes significantly to the total energy flux deposited into the subauroral ionosphere thereby affecting the magnetosphere‐ionosphere coupling. In this study, we use the BATS‐R‐US + RAM‐SCB model to understand the evolution of ElectroMagnetic Ion Cyclotron (EMIC) waves in the inner magnetosphere, their correspondence to the proton precipitation into the subauroral ionosphere, and to assess the performance of the model in reproducing the EMIC wave‐particle interactions. During the 27 May 2017 storm, Arase and RBSP‐A satellites observed typical signatures of EMIC waves in the inner magnetosphere. Within this interval, Defense Meteorological Satellite Program (DMSP) and National Oceanic and Atmospheric Administration (NOAA)/MetOp satellites observed significant proton precipitation in the dusk‐midnight sector. Simulation results show that H‐ and He‐band EMIC waves are excited within regions of strong temperature anisotropy near the plasmapause. The simulated growth rates of EMIC waves show a similar trend to that of the EMIC wave power observed by the Arase and RBSP‐A satellites, suggesting that the model can reproduce the EMIC wave activity qualitatively. The simulated H‐band waves in the dusk sector are stronger than He‐band waves possibly due to the presence of excess protons in the boundary conditions obtained from the BATS‐R‐US code. The precipitating proton fluxes reproduced by the simulation with EMIC waves are found to agree reasonably well with the DMSP and NOAA/MetOp satellite observations. It is suggested that EMIC wave scattering of ring current ions can account for proton precipitation observed by the DMSP and MetOp satellites during the 27 May 2017 storm.
Brittle Damage Processes Around Equi‐Dimensional Pores or Cavities in Rocks: Implications for the Brittle‐Ductile Transition
Authors: Bernabé Yves , Peč Matěj 
Published: May 2024

AbstractIn the Earth's upper crust, rocks deform mostly by means of brittle fracturing processes. At the micro‐scale these processes involve the formation and growth of microcracks in the vicinity of defects such as open fissures, pores and other cavities. Large defects can produce strong enough perturbations of the stress field to activate and/or intensify brittle damage around them. Here we considered the ideal cases of smooth cylindrical and spherical pores inside an infinite solid body subjected to remote triaxial compressive stresses (i.e., the intermediate and minimum principal stresses are assumed equal). We first established the resulting local stress field around one of those large pores and then verified whether certain brittle damage processes could be activated in these conditions. We mainly considered the formation of tensile microcracks and micro shear bands. The former requires the presence of tensile stresses in some regions around the pore, while the latter needs sufficiently large shear stresses on pre‐existing optimally inclined microcracks to overcome their frictional resistance to sliding. We find that shear driven deformation remains localized in the vicinity of the pore. On the other hand, dilatational, tensile cracks can propagate large distances away from the pore but cannot form at and above some threshold ratio of the least to the largest principal stresses. Faulting associated with interacting tensile cracks is therefore suppressed with increasing depth. Our analysis leads to conclusions generally consistent with published experimental observations and provides some clues to discuss the physical cause of the brittle‐ductile transition in rocks.
Frequency of personal care product use among reproductive-aged Black individuals and associations with socio-demographic characteristics
Authors: Taylor Kyla W. , Co Caroll A. , Gaston Symielle A. , Jackson Chandra L. , Harmon Quaker , Baird Donna D. 
Published: May 2024

Abstract
Background
Compared to White women, Black women in the United States are more likely to use personal care products (PCPs) with higher concentrations of endocrine-disrupting chemicals (EDCs) and harsher chemical formulations. This may contribute to differential health outcomes in Black women such as increased risk of breast cancer, cardiometabolic outcomes, adverse birth outcomes, and uterine fibroids.

Objective
Classify distinct PCP use patterns across multiple types of products and examine how patterns vary by socio-demographic characteristics.

Methods
The Study of Environment, Lifestyle and Fibroids is a cohort study of reproductive-aged Black individuals living around Detroit, Michigan. Using self-reported data on frequency of PCP collected between 2013–2018, we employed latent class analysis to identify distinct groups of participants with similar PCP use. Socio-demographic characteristics were compared across latent classes.

Results
Among 1562 participants, we identified 6 latent classes: Lower Overall; Higher Nailcare; Higher Skincare; Moderate Overall; Higher Makeup/Haircare/Skincare; Higher Overall. Makeup and nailcare usage were the most predictive for classifying participants into groups. Participants in classes with less frequent use of all PCPs and those with only high use of nailcare products, were more likely to report lower socio-economic status (SES), be current smokers, have a body mass index of ≥35 kg/m2, and have ≥3 births. In comparison, participants in classes with average and more frequent use of PCPs were more likely to report higher SES, be non-smokers, be nulliparous, and have ever used oral contraceptives.

Impact statement
This study is one of the first detailed assessments of PCP usage among a large cohort of young adult Black women that considers multiple product categories including makeup, hair, skin, nail, and vaginal products. Latent class analysis was used to capture complex patterns of PCP use and identify distinct groups of individuals with similar product use. Although the latent classes are specific to this study population, the identified socio-demographic characteristics or behaviors associated with latent classes may inform targeted and impactful exposure reduction strategies in similar populations.
Natural evidence of coronaviral 2′-O-methyltransferase activity affecting viral pathogenesis via improved substrate RNA binding
Authors: Deng Jikai , Yang Shimin , Li Yingjian , Tan Xue , Liu Jiejie , Yu Yanying , Ding Qiang , Fan Chengpeng , Wang Hongyun , Chen Xianyin , Liu Qianyun , Guo Xiao , Gong Feiyu , Zhou Li , Chen Yu 
Published: May 2024

AbstractPrevious studies through targeted mutagenesis of K-D-K-E motif have demonstrated that 2′-O-MTase activity is essential for efficient viral replication and immune evasion. However, the K-D-K-E catalytic motif of 2′-O-MTase is highly conserved across numerous viruses, including flaviviruses, vaccinia viruses, coronaviruses, and extends even to mammals. Here, we observed a stronger 2′-O-MTase activity in SARS-CoV-2 compared to SARS-CoV, despite the presence of a consistently active catalytic center. We further identified critical residues (Leu-36, Asn-138 and Ile-153) which served as determinants of discrepancy in 2′-O-MTase activity between SARS-CoV-2 and SARS-CoV. These residues significantly enhanced the RNA binding affinity of 2′-O-MTase and boosted its versatility toward RNA substrates. Of interest, a triple substitution (Leu36 → Ile36, Asn138 → His138, Ile153 → Leu153, from SARS-CoV-2 to SARS-CoV) within nsp16 resulted in a proportional reduction in viral 2′-O-methylation and impaired viral replication. Furthermore, it led to a significant upregulation of type I interferon (IFN-I) and proinflammatory cytokines both in vitro and vivo, relying on the cooperative sensing of melanoma differentiation-associated protein 5 (MDA5) and laboratory of genetics and physiology 2 (LGP2). In conclusion, our findings demonstrated that alterations in residues other than K-D-K-E of 2′-O-MTase may affect viral replication and subsequently influence pathogenesis. Monitoring changes in nsp16 residues is crucial as it may aid in identifying and assessing future alteration in viral pathogenicity resulting from natural mutations occurring in nsp16.
Network analysis of comorbid aggressive behavior and testosterone among bipolar disorder patients: a cross-sectional study
Authors: Liu Yi , Cai Hong , Han Tian , Wang Yi-Fan , Li Juan , Xie Xiao-meng , Ji Xiao 
Published: May 2024

AbstractTestosterone has complex effects on psychological traits and behavior; it is associated with social dominance and competition and is a potential human sex pheromone. This study aimed to investigate the associations between testosterone levels, aggressive behavior, and manic symptoms using a network analysis among bipolar disorder (BD) patients in psychiatric emergency departments (PED). Data from January 2021 and March 2022 BD patients in PED were analyzed. Manic symptoms were assessed using the Young Mania Rating Scale (YMRS). Aggression was assessed with subscale of the PANSS scale (PANSS-AG). The undirected network structures of testosterone levels, aggressive behavior, and manic symptoms were estimated, and centrality and bridge centrality indices were examined. Network stability was examined using the case-dropping procedure. The Network Comparison Test (NCT) was conducted to evaluate whether network characteristics differed by gender. We recruited a total of 898 BD patients, with the mean YMRS score as 13.30 ± 9.58. The prevalence of level II aggression was 35.6% (95%CI = 32.5%–38.7%), level III aggression was 29.5% (95%CI = 26.3%–32.6%), and level VI aggression was 7.0% (95%CI = 5.4%–8.8%). The male participants had a mean testosterone level of 391.71 (Standard Deviation (SD):223.39) compared to 36.90 (SD:30.50) for female participants in the whole sample. Through network analysis, “Increased motor activity-energy” emerged as the central symptom, with the highest centrality expected influence, followed by “Emotional Instability” and “Disruptive/aggression behavior”. Notably, “Emotional Instability” appeared to be the bridge symptom linking manic symptoms to aggressive behavior. Within the flow network model, “Speech rate and amount” exhibited the strongest positive correlation with testosterone levels, followed closely by “Disruptive/aggression behavior”. The constructed network model demonstrated robust stability, with gender showing no significant impact on the structure. In this study, “Increased motor activity-energy” stood out as the most influential symptom, and “Speech rate and amount” acted as the main bridge symptom linking testosterone levels, aggressive behavior, and manic symptoms. Targeting the central and bridge symptoms may improve the outcomes of aggression interventions implemented among BD patients in psychiatric emergency care.
GRP94 is an IGF-1R chaperone and regulates beta cell death in diabetes
Authors: Kim Do-Sung , Song Lili , Gou Wenyu , Kim Jisun , Liu Bei , Wei Hua , Muise-Helmericks Robin C. , Li Zihai , Wang Hongjun 
Published: May 2024

AbstractHigh workload-induced cellular stress can cause pancreatic islet β cell death and dysfunction, or β cell failure, a hallmark of type 2 diabetes mellitus. Thus, activation of molecular chaperones and other stress-response genes prevents β cell failure. To this end, we have shown that deletion of the glucose-regulated protein 94 (GRP94) in Pdx1+ pancreatic progenitor cells led to pancreas hypoplasia and reduced β cell mass during pancreas development in mice. Here, we show that GRP94 was involved in β cell adaption and compensation (or failure) in islets from leptin receptor-deficient (db/db) mice in an age-dependent manner. GRP94-deficient cells were more susceptible to cell death induced by various diabetogenic stress conditions. We also identified a new client of GRP94, insulin-like growth factor-1 receptor (IGF-1R), a critical factor for β cell survival and function that may mediate the effect of GRP94 in the pathogenesis of diabetes. This study has identified essential functions of GRP94 in β cell failure related to diabetes.
Combined inhibition of class 1-PI3K-alpha and delta isoforms causes senolysis by inducing p21WAF1/CIP1 proteasomal degradation in senescent cells
Authors: Neuwahl Judith , Neumann Chantal A. , Fitz Annika C. , Biermann Anica D. , Magel Maja , Friedrich Annabelle , Sellin Lorenz , Stork Björn , Piekorz Roland P. , Proksch Peter , Budach Wilfried , Jänicke Reiner U. , Sohn Dennis 
Published: May 2024

AbstractThe targeted elimination of radio- or chemotherapy-induced senescent cells by so-called senolytic substances represents a promising approach to reduce tumor relapse as well as therapeutic side effects such as fibrosis. We screened an in-house library of 178 substances derived from marine sponges, endophytic fungi, and higher plants, and determined their senolytic activities towards DNA damage-induced senescent HCT116 colon carcinoma cells. The Pan-PI3K-inhibitor wortmannin and its clinical derivative, PX-866, were identified to act as senolytics. PX-866 potently induced apoptotic cell death in senescent HCT116, MCF-7 mammary carcinoma, and A549 lung carcinoma cells, independently of whether senescence was induced by ionizing radiation or by chemotherapeutics, but not in proliferating cells. Other Pan-PI3K inhibitors, such as the FDA-approved drug BAY80-6946 (Copanlisib, Aliqopa®), also efficiently and specifically eliminated senescent cells. Interestingly, only the simultaneous inhibition of both PI3K class I alpha (with BYL-719 (Alpelisib, Piqray®)) and delta (with CAL-101 (Idelalisib, Zydelig®)) isoforms was sufficient to induce senolysis, whereas single application of these inhibitors had no effect. On the molecular level, inhibition of PI3Ks resulted in an increased proteasomal degradation of the CDK inhibitor p21WAF1/CIP1 in all tumor cell lines analyzed. This led to a timely induction of apoptosis in senescent tumor cells. Taken together, the senolytic properties of PI3K-inhibitors reveal a novel dimension of these promising compounds, which holds particular potential when employed alongside DNA damaging agents in combination tumor therapies.
Pancreatic beta-cell IL-22 receptor deficiency induces age-dependent dysregulation of insulin biosynthesis and systemic glucose homeostasis
Authors: Sajiir Haressh , Wong Kuan Yau , Müller Alexandra , Keshvari Sahar , Burr Lucy , Aiello Elena , Mezza Teresa , Giaccari Andrea , Sebastiani Guido , Dotta Francesco , Ramm Grant A. , Macdonald Graeme A. , McGuckin Michael A. , Prins Johannes B. , Hasnain Sumaira Z. 
Published: May 2024

AbstractThe IL-22RA1 receptor is highly expressed in the pancreas, and exogenous IL-22 has been shown to reduce endoplasmic reticulum and oxidative stress in human pancreatic islets and promote secretion of high-quality insulin from beta-cells. However, the endogenous role of IL-22RA1 signaling on these cells remains unclear. Here, we show that antibody neutralisation of IL-22RA1 in cultured human islets leads to impaired insulin quality and increased cellular stress. Through the generation of mice lacking IL-22ra1 specifically on pancreatic alpha- or beta-cells, we demonstrate that ablation of murine beta-cell IL-22ra1 leads to similar decreases in insulin secretion, quality and islet regeneration, whilst increasing islet cellular stress, inflammation and MHC II expression. These changes in insulin secretion led to impaired glucose tolerance, a finding more pronounced in female animals compared to males. Our findings attribute a regulatory role for endogenous pancreatic beta-cell IL-22ra1 in insulin secretion, islet regeneration, inflammation/cellular stress and appropriate systemic metabolic regulation.
An amphioxus neurula stage cell atlas supports a complex scenario for the emergence of vertebrate head mesoderm
Authors: Grau-Bové Xavier , Subirana Lucie , Meister Lydvina , Soubigou Anaël , Neto Ana , Elek Anamaria , Naranjo Silvia , Fornas Oscar , Gomez-Skarmeta Jose Luis , Tena Juan J. , Irimia Manuel , Bertrand Stéphanie , Sebé-Pedrós Arnau , Escriva Hector 
Published: May 2024

AbstractThe emergence of new structures can often be linked to the evolution of novel cell types that follows the rewiring of developmental gene regulatory subnetworks. Vertebrates are characterized by a complex body plan compared to the other chordate clades and the question remains of whether and how the emergence of vertebrate morphological innovations can be related to the appearance of new embryonic cell populations. We previously proposed, by studying mesoderm development in the cephalochordate amphioxus, a scenario for the evolution of the vertebrate head mesoderm. To further test this scenario at the cell population level, we used scRNA-seq to construct a cell atlas of the amphioxus neurula, stage at which the main mesodermal compartments are specified. Our data allowed us to validate the presence of a prechordal-plate like territory in amphioxus. Additionally, the transcriptomic profile of somite cell populations supports the homology between specific territories of amphioxus somites and vertebrate cranial/pharyngeal and lateral plate mesoderm. Finally, our work provides evidence that the appearance of the specific mesodermal structures of the vertebrate head was associated to both segregation of pre-existing cell populations, and co-option of new genes for the control of myogenesis.
Multivariate extremes in lakes
Authors: Woolway R. Iestyn , Tong Yan , Feng Lian , Zhao Gang , Dinh Dieu Anh , Shi Haoran , Zhang Yunlin , Shi Kun 
Published: May 2024

AbstractExtreme within-lake conditions have the potential to exert detrimental effects on lakes. Here we use satellite observations to investigate how the occurrence of multiple types of extremes, notably algal blooms, lake heatwaves, and low lake levels, have varied in 2724 lakes since the 1980s. Our study, which focuses on bloom-affected lakes, suggests that 75% of studied lakes have experienced a concurrent increase in at least two of the extremes considered (27% defined as having a notable increase), with 25% experiencing an increase in frequency of all three extremes (5% had a notable increase). The greatest increases in the frequency of these extremes were found in regions that have experienced increases in agricultural fertilizer use, lake warming, and a decline in water availability. As extremes in lakes become more common, understanding their impacts must be a primary focus of future studies and they must be carefully considered in future risk assessments.
Data-driven optimization and machine learning analysis of compatible molecules for halide perovskite material
Authors: Wang Shaojun , Huang Yiru , Hu Wenguang , Zhang Lei 
Published: May 2024

AbstractOptoelectronic stability of halide perovskite material in hostile conditions such as water is rather limited, preventing them from further industrial deployment. Here, we optimize and perform machine learning analysis on CH3NH3PbI3 materials with additives, solvents and post-treatment molecules using combined experimental and data-driven methods. A champion system consisting of a compatible tertiary molecular combination ‘calcein+PbBr2 + DMSO’ active at diverse surfaces is identified, delivering a large aqueous photoelectrochemical (PEC) photocurrent of 10-5 A/cm2 and an improved aqueous stability of 92.5%. Subsequently, machine interpretation is provided to decouple the multi-molecule contributions with the assistance of genetic programming (GP) and extra-trees (ET) machine learning models, highlighting the intricate molecular features for the target outputs. The post-hoc density functional theory (DFT) calculation suggests the presence of multiple hydrogen bond and anion··π surface interactions to stabilize the interfacial structures. The present ‘PEC + GP + ET + DFT’ approach is suggested to be an effective approach to design and comprehensively evaluate molecule-modified materials.
Analysis of cell free DNA to predict outcome to bevacizumab therapy in colorectal cancer patients
Authors: Venken Tom , Miller Ian S. , Arijs Ingrid , Thomas Valentina , Barat Ana , Betge Johannes , Zhan Tianzuo , Gaiser Timo , Ebert Matthias P. , O’Farrell Alice C. , Prehn Jochen , Klinger Rut , O’Connor Darran P. , Moulton Brian , Murphy Verena , Serna Garazi , Nuciforo Paolo G. , McDermott Ray , Bird Brian , Leonard Gregory , Grogan Liam , Horgan Anne , Schulte Nadine , Moehler Markus , Lambrechts Diether , Byrne Annette T. 
Published: May 2024

AbstractTo predict outcome to combination bevacizumab (BVZ) therapy, we employed cell-free DNA (cfDNA) to determine chromosomal instability (CIN), nucleosome footprints (NF) and methylation profiles in metastatic colorectal cancer (mCRC) patients. Low-coverage whole-genome sequencing (LC-WGS) was performed on matched tumor and plasma samples, collected from 74 mCRC patients from the AC-ANGIOPREDICT Phase II trial (NCT01822444), and analysed for CIN and NFs. A validation cohort of plasma samples from the University Medical Center Mannheim (UMM) was similarly profiled. 61 AC-ANGIOPREDICT plasma samples collected before and following BVZ treatment were selected for targeted methylation sequencing. Using cfDNA CIN profiles, AC-ANGIOPREDICT samples were subtyped with 92.3% accuracy into low and high CIN clusters, with good concordance observed between matched plasma and tumor. Improved survival was observed in CIN-high patients. Plasma-based CIN clustering was validated in the UMM cohort. Methylation profiling identified differences in CIN-low vs. CIN high (AUC = 0.87). Moreover, significant methylation score decreases following BVZ was associated with improved outcome (p = 0.013). Analysis of CIN, NFs and methylation profiles from cfDNA in plasma samples facilitates stratification into CIN clusters which inform patient response to treatment.
The art of modeling gene regulatory circuits
Authors: Gómez-Schiavon Mariana , Montejano-Montelongo Isabel , Orozco-Ruiz F. Sophia , Sotomayor-Vivas Cristina 
Published: May 2024

AbstractThe amazing complexity of gene regulatory circuits, and biological systems in general, makes mathematical modeling an essential tool to frame and develop our understanding of their properties. Here, we present some fundamental considerations to develop and analyze a model of a gene regulatory circuit of interest, either representing a natural, synthetic, or theoretical system. A mathematical model allows us to effectively evaluate the logical implications of our hypotheses. Using our models to systematically perform in silico experiments, we can then propose specific follow-up assessments of the biological system as well as to reformulate the original assumptions, enriching both our knowledge and our understanding of the system. We want to invite the community working on different aspects of gene regulatory circuits to explore the power and benefits of mathematical modeling in their system.