bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Comparison of Diagnostics for AMOC Heat Transport Applied to the CESM Large Ensemble
Authors: Jones C Spencer , Jiang Scout , Abernathey Ryan P. 
Published: July 2024

AbstractAtlantic time‐mean heat transport is northward at all latitudes and exhibits strong multidecadal variability between about 30°N and 55°N. Atlantic heat transport variability influences many aspects of the climate system, including regional surface temperatures, subpolar heat content, Arctic sea‐ice concentration and tropical precipitation patterns. Atlantic heat transport and heat transport variability are commonly partitioned into two components: the heat transport by the Atlantic Meridional Overturning Circulation (AMOC) and the heat transport by the gyres. In this paper we compare four different methods for performing this partition, and we apply these methods to the Community Earth System Model Large Ensemble at 34°N, 26°N and 5°S. We discuss the strengths and weaknesses of each method. The four methods all give significantly different estimates for the proportion of the time‐mean heat transport performed by AMOC. One of these methods is a new physically‐motivated method based on the pathway of the northward‐flowing part of AMOC. This paper presents a preliminary version of our method that works only when the AMOC follows the western boundary of the basin. All the methods agree that at 26°N, 80%–100% of heat transport variability at 2–10 years timescales is performed by AMOC, but there is more disagreement between methods in attributing multidecadal variability, with some methods showing a compensation between the AMOC and gyre heat transport variability.
Shear Bands Triggered by Solitary Porosity Waves in Deforming Fluid‐Saturated Porous Media
Authors: Alkhimenkov Yury , Khakimova Lyudmila , Podladchikov Yury 
Published: July 2024

AbstractThe interplay between compaction‐driven fluid flow and plastic yielding within porous media is investigated through numerical modeling. We establish a framework for understanding the dynamics of fluid flow in deforming porous materials that corresponds to the equations describing solitary porosity wave propagation. A concise derivation of the coupled fluid flow and poro‐viscoelastoplastic matrix behavior is presented, revealing a connection to Biot's equations of poroelasticity and Gassmann's theory in the elastic limit. Our findings demonstrate that fluid overpressure resulting from channelized fluid flow initiates the formation of new shear zones. Through three‐dimensional simulations, we observe that the newly formed shear zones exhibit a parabolic shape. Furthermore, plasticity exerts a significant influence on both the velocity of fluid flow and the shape of fluid channels. Importantly, our study highlights the potential of spontaneous channeling of porous fluids to trigger seismic events by activating both new and pre‐existing faults.
Indication for Biases in Dry Intrusions and the Marine Boundary Layer Over the Azores in ECMWF Short‐Term Forecasts and Analyses
Authors: Schäfler A. , Krüger K. , Oertel A. , Quinting J. F. , Raveh‐Rubin S. 
Published: July 2024

AbstractThe model representation of dry intrusions (DIs) and the marine boundary layer (MBL) is analyzed in the European Centre for Medium‐Range Weather Forecasts (ECMWF) Integrated Forecasting System (IFS). For this purpose, a DI classification at the Azores is combined with observation, short‐term background forecast and analysis data from the IFS data assimilation system. The background exhibits a cold bias in the descending DI, which is possibly related to a cold bias in the MBL below through vertical mixing. At the surface, simulated wind speeds are underestimated and directions are veered compared to the observations. The errors are reduced in the analysis except for near‐surface wind and humidity biases. We hypothesize that these biases are connected through underestimated surface latent heat fluxes. Such persistent biases potentially influence local weather and midlatitude weather evolution as cyclones are supplied with moisture from the cold sector influenced by DIs.
CMIP6 Models Underestimate Rainfall Trend on South Asian Monsoon Edge Tied to Middle East Warming
Authors: Li Baosheng , Murtugudde Raghu 
Published: July 2024

AbstractIn recent decades, an increase in rainfall has been observed on the northwestern edge of the Indian summer monsoon (ISM; NWEISM). However, no studies have focused on model performances over NWEISM, which calls for an urgent evaluation of models. Here, we utilize historical simulations from 24 CMIP6 models to demonstrate that current models tend to underestimate the observed increasing rainfall over NWEISM, with only ∼30% of the observed intensity. The models broadly capture the spring Middle East land warming, which is the main driver of increased rainfall over NWEISM. Unfortunately, most models fail to reproduce the associated significant decrease in sea level pressure over the surrounding landmasses. This deficiency results in an ineffective trigger of cross‐equatorial southwesterly winds, impeding the accurate simulation of the poleward shift of the summer low‐level jet (LLJ). Consequently, it leads to a weaker link from the Middle East warming to rainfall enhancement over NWEISM.
Direct Measurements of Dust Settling Velocity Under Low‐Density Atmospheres Using Time‐Resolved Particle Image Velocimetry
Authors: Alvarez Carlos A. , Gunn Andrew , Swann Christy , Trimble Sarah M. , Ewing Ryan C. , Lapôtre Mathieu G. A. 
Published: July 2024

AbstractDust dynamics influence planetary atmospheres. However, the settling velocity of dust—and thus its residence time in the atmosphere—is often mispredicted. Challenging, indirect experiments involving few ideal particles revealed that dust settling velocity deviates from Stokes' law under rarefied atmospheres. While useful, such experiments are inadequate to simulate more complex scenarios, including variable particles sizes and shapes. Here, we present direct measurements of settling velocity for spherical particles under Earth‐to‐Mars atmospheric pressures using time‐resolved particle image velocimetry (TR‐PIV), and validate their robustness with existing models. Our results demonstrate that TR‐PIV provides a relatively simple approach to quantifying dust settling velocity from direct observations of over 10,000 particles, enabling systematic investigations of dust settling under realistic scenarios. Such experiments will have significant implications for our understanding of Mars' past, present, and future ‐ from providing a tool to decipher its sedimentary record to enhancing predictive capabilities of atmospheric models.
Modeling Ion Transport in the Upper Ionosphere of Mars: Exploring the Effect of Crustal Magnetic Fields
Authors: Renzaglia A. R. , Cravens T. E. , Hamil O. 
Published: July 2024

AbstractStatistically ion and electron densities are enhanced above strong crustal magnetic field regions according to measurements made by the Mars Atmosphere and Volatile Evolution (MAVEN) spacecraft. Plasma created by ionization of neutrals in the lower ionosphere (where chemistry dominates) flows upward and becomes trapped on closed magnetic field loops. Enhanced ion density in the ionosphere (particularly O2+) is associated with enhanced photochemical escape of atomic oxygen. This paper presents a quasi‐1D multi‐fluid time‐dependent model of the Martian ionosphere for nine ion species. Ionospheric temperatures are adopted but ion densities and velocities (along the field lines) are determined using a numerical solution of the continuity and momentum equations. Diurnal effects are explored by varying photoionization rates. Three crustal field cases are considered: a low altitude closed, a high altitude closed, and a high altitude open field line. Additionally, a case with no crustal field is modeled to provide a comparison between regions with and without crustal fields in the upper Martian ionosphere. Model results show higher ion and electron densities in the crustal field cases than in the purely induced field case. Additionally, we find that densities are generally higher on the closed field lines than on the open field lines, and ion velocities are generally up the field lines, away from the Martian surface. We also find that velocities are larger on the open field line case. We compare modeled density results to MAVEN data and find general agreement. Implications for atmospheric escape, particularly photochemical escape of O, are also discussed.
Effect of Polar Cap Patches on the High‐Latitude Upper Thermospheric Winds
Authors: Cai L. , Aikio A. , Oyama S. , Ivchenko N. , Vanhamäki H. , Virtanen I. , Buchert S. , Mekuriaw M. L. , Zhang Y. 
Published: July 2024

AbstractThis study focuses on the poorly known effect of polar cap patches (PCPs) on the ion‐neutral coupling in the F‐region. The PCPs were identified by total electron content measurements from the Global Navigation Satellite System (GNSS) and the ionospheric parameters from the Defense Meteorological Satellite Program spacecraft. The EISCAT incoherent scatter radars on Svalbard and at Tromsø, Norway observed that PCPs entered the nightside auroral oval from the polar cap and became plasma blobs. The ionospheric convection further transported the plasma blobs to the duskside. Simultaneously, long‐lasting strong upper thermospheric winds were detected in the duskside auroral oval by a Fabry‐Perot Interferometer (FPI) at Tromsø and in the polar cap by the Gravity Recovery and Climate Experiment satellite. Using EISCAT ion velocities and plasma parameters as well as FPI winds, the ion drag acting on neutrals and the time constant for the ion drag could be estimated. Due to the arrival of PCPs/blobs and the accompanied increase in the F‐region electron densities, the ion drag is enhanced between about 220 and 500 km altitudes. At the F peak altitudes near 300 km, the median ion drag acceleration affecting neutrals more than doubled and the associated median e‐folding time decreased from 4.4 to 2 hr. The strong neutral wind was found to be driven primarily by the ion drag force due to large‐scale ionospheric convection. Our results provide a new insight into ionosphere‐thermosphere coupling in the presence of PCPs/blobs.
Statistical Distribution of the Peak Frequency of ECH Waves in the Outer Magnetosphere From Magnetospheric Multiscale Satellite Observations
Authors: Yu Jiang , Wang Jing , Chen Zuzheng , Ren Aojun , Liu Xiaoman , Liu Nigang , Li Liuyuan , Cui Jun , Cao Jinbin 
Published: July 2024

AbstractElectron cyclotron harmonic (ECH) waves are electrostatic emissions with frequencies between the harmonics of the electron gyrofrequencies. Their frequency properties provide clues for understanding their generation and are keys to evaluating their scattering efficiency. Based on Magnetospheric Multiscale satellite observations, we explored the statistical frequency properties of first‐harmonic band ECH waves in the outer magnetosphere. The frequencies at the peak power of ECH waves are found to be day‐night and dawn‐dusk asymmetries, with higher values in the regions from dawn to post‐noon, and these asymmetries are more evident during weaker geomagnetic activity. Furthermore, the frequencies at the peak power of ECH waves decrease gradually with increasing |MLAT| and are positively correlated with their amplitudes at each magnetic local time or |MLAT|. Information on the frequency properties of ECH waves presented in this study can be crucial for future modeling of their contributions to magnetospheric electron dynamics.
Effects of high-intensity interval training versus moderate-intensity continuous training on vascular function among individuals with overweight and obesity—a systematic review
Authors: K B Shishira , Vaishali K. , Kadavigere Rajagopal , Sukumar Suresh , K N Shivashankara , Pullinger Samuel A. , Bommasamudram Tulasiram 
Published: July 2024

Abstract
Background
The study aimed to investigate and systematically review the evidence relating to the effects of high-intensity interval training (HIIT) versus moderate-intensity continuous training (MICT) on vascular function such as arterial diameter, arterial stiffness, pulse wave velocity, blood flow, etc. in individuals with overweight and obesity.

Methods
The entire content of PubMed (MEDLINE), Scopus, SPORT Discus® (via EBSCO host), CINAHL, and Web of Science were searched. Only experimental research studies conducted in adult participants aged ≥18 years, published in English before January 2023 were included.

Results
A total of 5397 studies were reviewed for the title and abstract with 11 studies being included for data extraction. The review resulted in a total of 346 individuals with overweight and obesity with body mass index (BMI) ranging between 25–36 kg/m2. HIIT and MICT intensities resulted in 85%–95% and 60%–70% maximal heart rate (MHR) respectively. Seven out of 11 studies showed some concerns about the overall risk of bias. Six of 11 studies reported improving vascular function following HIIT than MICT.

Conclusion
HIIT is a more effective and time-efficient exercise for enhancing vascular functions in individuals with overweight and obesity, leading to improvements in flow-mediated dilation by 3.9% and arterial diameter by 4.8%, compared to MICT.
Mediating and moderating effects of plasma proteomic biomarkers on the association between poor oral health problems and brain white matter microstructural integrity: the UK Biobank study
Authors: Beydoun May A. , Beydoun Hind A. , Hu Yi-Han , Li Zhiguang , Georgescu Michael F. , Noren Hooten Nicole , Bouhrara Mustapha , Weiss Jordan , Launer Lenore J. , Evans Michele K. , Zonderman Alan B. 
Published: July 2024

Abstract
The plasma proteome can mediate associations between periodontal disease (Pd) and brain white matter integrity (WMI). We screened 5089 UK Biobank participants aged 40–70 years for poor oral health problems (POHP). We examined the association between POHP and WMI (fractional anisotropy (FA), mean diffusivity (MD), Intracellular Volume Fraction (ICVF), Isotropic Volume Fraction (ISOVF) and Orientation Diffusion (OD)), decomposing the total effect through the plasma proteome of 1463 proteins into pure mediation, pure interaction, neither, while adjusting for socio-demographic and cardiovascular health factors. Similarly, structural equations modeling (SEM) was conducted. POHP was more prevalent among men (12.3% vs. 9.6%), and was associated with lower WMI on most metrics, in a sex-specific manner. Of 15 proteins strongly associated with POHP, growth differentiation factor 15 (GDF15) and WAP four-disulfide core domain 2 (WFDC2; also known as human epididymis protein 4; HE4) were consistent mediators. Both proteins mediated 7–8% of total POHP effect on FAmean. SEM yielded significant total effects for FAmean, MDmean and ISOVFmean in full models, with %mediated by common latent factor (GDF15 and WFDC2) ranging between 13% (FAmean) and 19% (ISOVFmean). For FA, mediation by this common factor was found for 16 of 49 tract-specific and global mean metrics. Protein metabolism, immune system, and signal transduction were the most common pathways for mediational effects. POHP was associated with poorer WMI, which was partially mediated by GDF15 and WFDC2.
Trim21-mediated CCT2 ubiquitination suppresses malignant progression and promotes CD4+T cell activation in breast cancer
Authors: Chen Xi , Ma Chenao , Li Yaming , Liang Yiran , Chen Tong , Han Dianwen , Luo Dan , Zhang Ning , Zhao Wenjing , Wang Lijuan , Chen Bing , Guo Hong , Yang Qifeng 
Published: July 2024

AbstractBreast cancer remains a significant global health challenge, and its mechanisms of progression and metastasis are still not fully understood. In this study, analysis of TCGA and GEO datasets revealed a significant increase in CCT2 expression in breast cancer tissues, which was associated with poor prognosis in breast cancer patients. Functional analysis revealed that CCT2 promoted breast cancer growth and metastasis through activation of the JAK2/STAT3 signaling pathway. Additionally, the E3 ubiquitin ligase Trim21 facilitated CCT2 ubiquitination and degradation, significantly reversing the protumor effects of CCT2. Most interestingly, we discovered that exosomal CCT2 derived from breast cancer cells suppressed the activation and proinflammatory cytokine secretion of CD4+ T cell. Mechanistically, exosomal CCT2 constrained Ca2+-NFAT1 signaling, thereby reducing CD40L expression on CD4+ T cell. These findings highlight CCT2 upregulation as a potential driver of breast cancer progression and immune evasion. Our study provides new insights into the molecular mechanisms underlying breast cancer progression, suggesting that CCT2 is a promising therapeutic target and prognostic predictor for breast cancer.
Myeloid PTEN loss affects the therapeutic response by promoting stress granule assembly and impairing phagocytosis by macrophages in breast cancer
Authors: Li Yan , Xu Chao , Qian Xiaojun , Wang Gang , Han Chaoqiang , Hua Hui , Dong Menghao , Chen Jian , Yu Haiyang , Zhang Rutong , Feng Xiaoxi , Yang Zhenye , Pan Yueyin 
Published: July 2024

AbstractBreast cancer (BRCA) has become the most common type of cancer in women. Improving the therapeutic response remains a challenge. Phosphatase and tensin homologue deleted on chromosome 10 (PTEN) is a classic tumour suppressor with emerging new functions discovered in recent years, and myeloid PTEN loss has been reported to impair antitumour immunity. In this study, we revealed a novel mechanism by which myeloid PTEN potentially affects antitumour immunity in BRCA. We detected accelerated stress granule (SG) assembly under oxidative stress in PTEN-deficient bone marrow-derived macrophages (BMDMs) through the EGR1-promoted upregulation of TIAL1 transcription. PI3K/AKT/mTOR (PAM) pathway activation also promoted SG formation. ATP consumption during SG assembly in BMDMs impaired the phagocytic ability of 4T1 cells, potentially contributing to the disruption of antitumour immunity. In a BRCA neoadjuvant cohort, we observed a poorer response in myeloid PTENlow patients with G3BP1 aggregating as SGs in CD68+ cells, a finding that was consistent with the observation in our study that PTEN-deficient macrophages tended to more readily assemble SGs with impaired phagocytosis. Our results revealed the unconventional impact of SGs on BMDMs and might provide new perspectives on drug resistance and therapeutic strategies for the treatment of BRCA patients.
Structural basis of antagonist selectivity in endothelin receptors
Authors: Hou Junyi , Liu Shenhui , Zhang Xiaodan , Tu Guowei , Wu Lijie , Zhang Yijie , Yang Hao , Li Xiangcheng , Liu Junlin , Jiang Longquan , Tan Qiwen , Bai Fang , Liu Zhijie , Miao Changhong , Hua Tian , Luo Zhe 
Published: July 2024

AbstractEndothelins and their receptors, ETA and ETB, play vital roles in maintaining vascular homeostasis. Therapeutically targeting endothelin receptors, particularly through ETA antagonists, has shown efficacy in treating pulmonary arterial hypertension (PAH) and other cardiovascular- and renal-related diseases. Here we present cryo-electron microscopy structures of ETA in complex with two PAH drugs, macitentan and ambrisentan, along with zibotentan, a selective ETA antagonist, respectively. Notably, a specialized anti-ETA antibody facilitated the structural elucidation. These structures, together with the active-state structures of ET-1-bound ETA and ETB, and the agonist BQ3020-bound ETB, in complex with Gq, unveil the molecular basis of agonist/antagonist binding modes in endothelin receptors. Key residues that confer antagonist selectivity to endothelin receptors were identified along with the activation mechanism of ETA. Furthermore, our results suggest that ECL2 in ETA can serve as an epitope for antibody-mediated receptor antagonism. Collectively, these insights establish a robust theoretical framework for the rational design of small-molecule drugs and antibodies with selective activity against endothelin receptors.
mTORC2-driven chromatin cGAS mediates chemoresistance through epigenetic reprogramming in colorectal cancer
Authors: Lv Guoqing , Wang Qian , Lin Lin , Ye Qiao , Li Xi , Zhou Qian , Kong Xiangzhen , Deng Hongxia , You Fuping , Chen Hebing , Wu Song , Yuan Lin 
Published: July 2024

AbstractCyclic GMP–AMP synthase (cGAS), a cytosolic DNA sensor that initiates a STING-dependent innate immune response, binds tightly to chromatin, where its catalytic activity is inhibited; however, mechanisms underlying cGAS recruitment to chromatin and functions of chromatin-bound cGAS (ccGAS) remain unclear. Here we show that mTORC2-mediated phosphorylation of human cGAS serine 37 promotes its chromatin localization in colorectal cancer cells, regulating cell growth and drug resistance independently of STING. We discovered that ccGAS recruits the SWI/SNF complex at specific chromatin regions, modifying expression of genes linked to glutaminolysis and DNA replication. Although ccGAS depletion inhibited cell growth, it induced chemoresistance to fluorouracil treatment in vitro and in vivo. Moreover, blocking kidney-type glutaminase, a downstream ccGAS target, overcame chemoresistance caused by ccGAS loss. Thus, ccGAS coordinates colorectal cancer plasticity and acquired chemoresistance through epigenetic patterning. Targeting both mTORC2–ccGAS and glutaminase provides a promising strategy to eliminate quiescent resistant cancer cells.
Co-transcriptional production of programmable RNA condensates and synthetic organelles
Authors: Fabrini Giacomo , Farag Nada , Nuccio Sabrina Pia , Li Shiyi , Stewart Jaimie Marie , Tang Anli A. , McCoy Reece , Owens Róisín M. , Rothemund Paul W. K. , Franco Elisa , Di Antonio Marco , Di Michele Lorenzo 
Published: July 2024

AbstractCondensation of RNA and proteins is central to cellular functions, and the ability to program it would be valuable in synthetic biology and synthetic cell science. Here we introduce a modular platform for engineering synthetic RNA condensates from tailor-made, branched RNA nanostructures that fold and assemble co-transcriptionally. Up to three orthogonal condensates can form simultaneously and selectively accumulate fluorophores through embedded fluorescent light-up aptamers. The RNA condensates can be expressed within synthetic cells to produce membrane-less organelles with a controlled number and relative size, and showing the ability to capture proteins using selective protein-binding aptamers. The affinity between otherwise orthogonal nanostructures can be modulated by introducing dedicated linker constructs, enabling the production of bi-phasic RNA condensates with a prescribed degree of interphase mixing and diverse morphologies. The in situ expression of programmable RNA condensates could underpin the spatial organization of functionalities in both biological and synthetic cells.