bluuebunny/crossref_metadata_2025_split huggingface dataset:
Impacts of Particle Shape, Skeletal Porosity and Density on the Settling Velocity of Gravel‐Size Coral Debris
Authors: Mao Lilei , Li Jiabo , Shimozono Takenori , Tajima Yoshimitsu 
Published: May 2023

AbstractKnowledge of the hydrodynamic behavior of carbonate bioclasts is essential for solving coastal morphodynamic problems in marine carbonate depositional environments. Marine carbonate grains are produced within the sedimentary system itself and are deformed by subsequent hydrodynamics, resulting in particle densities, sizes and shapes that are distinct from those of terrigenous sediments. In this study, we investigated the shapes and settling characteristics of gravel‐size natural coral debris collected from the coasts of Okinawa Prefecture, Japan. Based on the shape parameters and settling velocities obtained using image analysis techniques and settling tube experiments, respectively, a correlation model for predicting the settling velocity of coral gravel particles was developed by extending the previous formula of Dietrich (1982, https://doi.org/10.1029/wr018i006p01615) over particle Reynolds number values ranging from 384.23 to 4439.76. The model determines the settling velocity as a function of particle nominal diameter, form, roundness, and surface texture parameters that were selected after examining several other shape descriptors. Compared with other models, the proposed model showed better settling velocity predictive skills for coral gravel particles classified into four shape types. The proposed model also determines how the drag coefficient of coral gravel particles should be modified from that for spherical particles, by accounting for the abovementioned coral gravel particle shape parameters. The obtained data set of settling velocity and modification of the drag coefficient can be used for quantitative interpretation of suspension, transport, and sedimentation processes in marine carbonate depositional environments.
The Role of Atmospheric Rivers on Groundwater: Lessons Learned From an Extreme Wet Year
Authors: Siirila‐Woodburn Erica R. , Dennedy‐Frank P. James , Rhoades Alan , Vahmani Pouya , Maina Fadji , Hatchett Benjamin , Zhou Yang , Jones Andrew 
Published: May 2023

AbstractIn the coastal regions of the western United States, atmospheric rivers (ARs) are associated with the largest precipitation generating storms and contribute up to half of annual precipitation, but the impact of ARs on the integrated hydrologic cycle, specifically on groundwater storage and hydrodynamics, is largely unknown. To better explore the hydrologic behavior of AR versus non‐AR event precipitation, we present a novel combination of two water tracking methods (one in the atmosphere and one in the subsurface) to explicitly track the full lifecycle of water parcels generated by ARs. Simulations of northern California's Cosumnes River watershed during the record wet 2017 water year are performed via the coupling of a high‐resolution regional climate model and a land surface‐groundwater model accounting for lateral groundwater flow. Despite ARs contributing more precipitation than non‐AR storms, we find less AR water is preferentially stored in aquifers by year end. Fractionally, ARs result in 300% less snow derived groundwater‐recharged compared to non‐AR precipitation. Rain‐on‐snow (RoS) plays an important role in AR‐driven discharge, where over 50% of total discharge from ARs snow is from RoS events. Finally, despite record‐breaking annual precipitation, simulated groundwater depletion occurs by year end due to estimates of groundwater pumping activities. The results from these simulations serve as a partial analogue of future hydrologic conditions where ARs are expected to intensify and provide a greater fraction of annual precipitation due to climate change.
Photoelectron Boundary: The Top of the Dayside Ionosphere at Mars
Authors: Xu Shaosui , Mitchell David L. , McFadden James P. , Fowler Christopher M. , Hanley Kathleen , Weber Tristan , Brain David A. , Ma Yingjuan , DiBraccio Gina A. , Mazelle Christian , Curry Shannon M. 
Published: May 2023

AbstractThe interaction between Mars and the solar wind results in different plasma regimes separated by several boundaries, among which the separation between the sheath flow and the ionosphere is complicated. Previous studies have provided different and sometimes opposite findings regarding this region. In this study, we utilize observations from the Mars Atmospheric and Volatile EvolutioN (MAVEN) mission to revisit boundaries within this region and perhaps reconcile some differences. More specifically, we start with the photoelectron boundary (PEB), a topological boundary that separates magnetic field lines having access to the dayside ionosphere (open or closed) from those connected to the solar wind on both ends (draped). We find that large gradients in the planetary ion densiti occur across the PEB and that the dominant ion switches from heavy planetary ions to protons near the PEB, indicating that the PEB falls within the ion composition boundary (ICB). Furthermore, our results show that the PEB is not a pressure balance boundary; rather the magnetic pressure dominates both sides of the PEB. Meanwhile, we find that the PEB is located where the shocked solar wind flow stops penetrating deeper into the ionosphere. These findings suggest the PEB marks the top of the Mars dayside ionosphere and also the interface where the sheath plasma flow deflects around the obstacle going downstream.
Cell-cycle dependent nuclear gene delivery enhances the effects of E-cadherin against tumor invasion and metastasis
Authors: Xie Liting , Wang Jieqiong , Song Liming , Jiang Tianan , Yan Fei 
Published: May 2023

AbstractGene delivery is the process by which foreign DNA is transferred to host cells, released from intracellular vesicles, and transported to the nuclei for transcription. This process is frequently inefficient and difficult to control spatiotemporally. We developed a gene delivery strategy that uses ultrasound to directly deliver plasmid DNA into nuclei via gas vesicles (GVs)-based intracellular cavitation. pDNA-binding GVs can be taken up by cells and cause intracellular cavitation when exposed to acoustic irradiation and delivering their pDNA payloads into nuclei. Importantly, GVs can remain stable in the cytoplasm in the absence of acoustic irradiation, allowing for temporally controlled nuclear gene delivery. We were able to achieve spatiotemporal control of E-cadherin nuclear gene delivery in this manner, demonstrating its efficacy in tumor invasion and metastasis inhibition. Interestingly, we discovered that nuclear gene delivery of E-cadherin during the G2/M phase of the cell cycle in C6 tumor cells inhibited tumor invasion and metastasis more effectively than during the G1 and S phases. The gene delivery of E-cadherin at the G2/M phase resulted in significantly lower expression of Fam50a, which reduced Fam50a/Runx2 interaction and led to reduced transactivation of MMP13, an important factor for epithelial-mesenchymal transition, as observed in a molecular mechanism assay. Thus, using remote acoustic control of intracellular cavitation of pDNA-GVs, we developed a high spatiotemporally controllable gene delivery strategy and achieved stronger tumor invasion and metastasis inhibition effects by delivering the E-cadherin gene at the G2/M phase.
KLF12 promotes the proliferation of breast cancer cells by reducing the transcription of p21 in a p53-dependent and p53-independent manner
Authors: Li Yanan , Li Shujing , Shi Xiaoxia , Xin Zhiqiang , Yang Yuxi , Zhao Binggong , Li Yvlin , Lv Linlin , Ren Ping , Wu Huijian 
Published: May 2023

AbstractBreast cancer is the most common cancer affecting women worldwide. Many genes are involved in the development of breast cancer, including the Kruppel Like Factor 12 (KLF12) gene, which has been implicated in the development and progression of several cancers. However, the comprehensive regulatory network of KLF12 in breast cancer has not yet been fully elucidated. This study examined the role of KLF12 in breast cancer and its associated molecular mechanisms. KLF12 was found to promote the proliferation of breast cancer and inhibit apoptosis in response to genotoxic stress. Subsequent mechanistic studies showed that KLF12 inhibits the activity of the p53/p21 axis, specifically by interacting with p53 and affecting its protein stability via influencing the acetylation and ubiquitination of lysine370/372/373 at the C-terminus of p53. Furthermore, KLF12 disrupted the interaction between p53 and p300, thereby reducing the acetylation of p53 and stability. Meanwhile, KLF12 also inhibited the transcription of p21 independently of p53. These results suggest that KLF12 might have an important role in breast cancer and serve as a potential prognostic marker and therapeutic target.
Venlafaxine antagonizes the noradrenaline-promoted colon cancer progression by inhibiting the norepinephrine transporter
Authors: Zhang Huahua , Han Jiming , Zhang Jing , Miao Jiyu , Li Fang , Tang Kaijie , Zhou Kai , Duan Baojun , Li Wen , Cheng Jing , Sun Ying , Hou Ni , Huang Chen 
Published: May 2023

AbstractEpidemiological studies have demonstrated that the use of antidepressants is associated with a decreased risk of colorectal cancer (CRC); however, the mechanisms behind this association are yet unknown. Adrenergic system contributes to the stress-related tumor progression, with norepinephrine (NE) mainly secreted from adrenergic nerve fibers. Norepinephrine serotonin reuptake inhibitors are successfully used antidepressants. This study demonstrates that a widely used antidepressant venlafaxine (VEN) antagonizes NE-promoted colon cancer in vivo and in vitro. Bioinformatic analysis suggested that NE transporter (NET, SLC6A2), a target of VEN, was closely associated with the prognosis of clinical patients with CRC. In addition, the knockdown of NET antagonized the effect of NE. The NET-protein phosphatase 2 scaffold subunit alpha/phosphorylated Akt/vascular endothelial growth factor pathway partially mediates the antagonizing effect of VEN on NE’s actions in colon cancer cells. These were also confirmed by in vivo experiments. Our findings revealed for the first time that, in addition to its primary function as a transporter, NET also promotes NE-enhanced colon cancer cell proliferation, tumor angiogenesis, and tumor growth. This provides direct experimental and mechanistic evidence for the use of antidepressant VEN in the treatment of CRC and a therapeutic potential for repurposing existing drugs as an anti-cancer approach to improve the prognosis of patients with CRC.
RNA N6-methyladenosine reader IGF2BP3 interacts with MYCN and facilitates neuroblastoma cell proliferation
Authors: Zhu Kai , Gao Tingting , Wang Zhiru , Zhang Liaoran , Tan Kezhe , Lv Zhibao 
Published: May 2023

AbstractNeuroblastoma (NB) is a kind of typical life-threatening extracranial tumor in children. N6-methyladenosine (m6A) modification is closely related to multiple cancer pathological processes. Insulin-like growth factor 2 mRNA binding protein 3 (IGF2BP3) is a top-ranked prognostic risk gene in NB; however, its function is uncertain. The expression of m6A-associated enzymes in patients with NB was analyzed using the Gene Expression Omnibus (GEO) and Therapeutically Applicable Research to Generate Effective Treatments (TARGET) database. The IGF2BP3 level in NB cell lines and primary samples was tested using quantitative real-time polymerase chain reaction (qRT-PCR), western blot method, and immunohistochemical analysis. The IGF2BP3 function in cell proliferation was clarified based on many functional in vitro and in vivo experiments. The interaction between IGF2BP3 and N-myc was researched via RNA immunoprecipitation (RIP), m6A RNA immunoprecipitation (MeRIP), and chromatin immunoprecipitation (ChIP) assays. The 16 m6A-regulated enzymes in NB were researched, and the result indicated that IGF2BP3 overexpression was related to cancer progression, COG risk, and survival based on the GEO and TARGET databases. Besides, the IGF2BP3 and MYCN levels were positively correlated. IGF2BP3 expression levels increased in MYCN-amplified NB clinical samples and cells. Knockdown of IGF2BP3 inhibited N-myc expression and NB cell proliferation in vitro and in vivo. IGF2BP3 regulates MYCN RNA stability by modifying m6A. In addition, we demonstrated that N-myc is a transcription factor that directly promotes IGF2BP3 expression in NB cells. IGF2BP3 regulates the proliferation of NB cells via m6A modification of MYCN. N-myc also acts as a transcription factor that regulates IGF2BP3 expression. A positive feedback loop between IGF2BP3 and N-myc facilitates NB cell proliferation.
Optical coherence tomography-based misdiagnosis and morphological distinction in pachychoroid neovasculopathy vs. polypoidal choroidal vasculopathy
Authors: Siedlecki Jakob , Klaas Julian , Keidel Leonie , Asani Ben , Schiefelbein Johannes , Knebel Dominik , Luft Nikolaus , Priglinger Siegfried G. , Schworm Benedikt 
Published: May 2023

Abstract
Purpose
To evaluate the rate of misdiagnosis of aneurysmatic pachychoroid type 1 choroidal neovascularization/polypoidal choroidal vasculopathy (PAT1/PCV) among cases diagnosed as non-aneurysmatic pachychoroid neovasculopathy (PNV) and to define optical coherence tomography (OCT) features facilitating their distinction.

Methods
The database of the Department of Ophthalmology, Ludwig-Maximilians University Munich, was screened for patients diagnosed with PNV. Multimodal imaging was screened for the presence of choroidal neovascularization (CNV) and aneurysms/polyps. Imaging features facilitating the diagnosis of PAT1/PCV were analysed.

Results
In total, 49 eyes of 44 patients with a clinical PNV diagnosis were included, of which 42 (85.7%) had PNV and 7 (14.3%) represented misdiagnosed PAT1/PCV. SFCT was comparable (PNV: 377 ± 92 vs. PAT1/PCV: 400 ± 83 µm; p = 0.39). Whereas no difference was detected in total pigment epithelium detachment (PED) diameter (p = 0.46), maximum PED height was significantly higher in the PAT1/PCV group (199 ± 31 vs. 82 ± 46, p < 0.00001). In a receiver operating characteristic (ROC) analysis, the optimum cutoff for defining “peaking PED” was 158 µm with an area under the curve of 0.969, a sensitivity of 1.0 (95% CI: 0.59–1.0), and a specificity of 0.95 (95% CI: 0.84–0.99). Sub-retinal hyperreflective material (SHRM; p = 0.04), sub-retinal ring-like structures (SRRLS; p < 0.00001), and sub-RPE fluid (p = 0.04) were significantly more frequent in eyes with PAT1/PCV.

Conclusion
A relevant percentage of eyes diagnosed with PNV might instead suffer from PAT1/PCV. The detection of a maximum PED height (“peaking PED”) exceeding approximately 150 µm, SHRM, SRRLS, and sub-RPE fluid might greatly aid in the production of a more accurate diagnosis.
Hierarchical triphase diffusion photoelectrodes for photoelectrochemical gas/liquid flow conversion
Authors: Meng Xiangyu , Zhu Chuntong , Wang Xin , Liu Zehua , Zhu Mengmeng , Yin Kuibo , Long Ran , Gu Liuning , Shao Xinxing , Sun Litao , Sun Yueming , Dai Yunqian , Xiong Yujie 
Published: May 2023

AbstractPhotoelectrochemical device is a versatile platform for achieving various chemical transformations with solar energy. However, a grand challenge, originating from mass and electron transfer of triphase—reagents/products in gas phase, water/electrolyte/products in liquid phase and catalyst/photoelectrode in solid phase, largely limits its practical application. Here, we report the simulation-guided development of hierarchical triphase diffusion photoelectrodes, to improve mass transfer and ensure electron transfer for photoelectrochemical gas/liquid flow conversion. Semiconductor nanocrystals are controllably integrated within electrospun nanofiber-derived mat, overcoming inherent brittleness of semiconductors. The mechanically strong skeleton of free-standing mat, together with satisfactory photon absorption, electrical conductivity and hierarchical pores, enables the design of triphase diffusion photoelectrodes. Such a design allows photoelectrochemical gas/liquid conversion to be performed continuously in a flow cell. As a proof of concept, 16.6- and 4.0-fold enhancements are achieved for the production rate and product selectivity of methane conversion, respectively, with remarkable durability.
Genetics implicates overactive osteogenesis in the development of diffuse idiopathic skeletal hyperostosis
Authors: Sethi Anurag , Ruby J. Graham , Veras Matthew A. , Telis Natalie , Melamud Eugene 
Published: May 2023

AbstractDiffuse idiopathic skeletal hyperostosis (DISH) is a condition where adjacent vertebrae become fused through formation of osteophytes. The genetic and epidemiological etiology of this condition is not well understood. Here, we implemented a machine learning algorithm to assess the prevalence and severity of the pathology in ~40,000 lateral DXA scans in the UK Biobank Imaging cohort. We find that DISH is highly prevalent, above the age of 45, ~20% of men and ~8% of women having multiple osteophytes. Surprisingly, we find strong phenotypic and genetic association of DISH with increased bone mineral density and content throughout the entire skeletal system. Genetic association analysis identified ten loci associated with DISH, including multiple genes involved in bone remodeling (RUNX2, IL11, GDF5, CCDC91, NOG, and ROR2). Overall, this study describes genetics of DISH and implicates the role of overactive osteogenesis as a key driver of the pathology.
Structural mechanisms of TRPM7 activation and inhibition
Authors: Nadezhdin Kirill D. , Correia Leonor , Narangoda Chamali , Patel Dhilon S. , Neuberger Arthur , Gudermann Thomas , Kurnikova Maria G. , Chubanov Vladimir , Sobolevsky Alexander I. 
Published: May 2023

AbstractThe transient receptor potential channel TRPM7 is a master regulator of the organismal balance of divalent cations that plays an essential role in embryonic development, immune responses, cell mobility, proliferation, and differentiation. TRPM7 is implicated in neuronal and cardiovascular disorders, tumor progression and has emerged as a new drug target. Here we use cryo-EM, functional analysis, and molecular dynamics simulations to uncover two distinct structural mechanisms of TRPM7 activation by a gain-of-function mutation and by the agonist naltriben, which show different conformational dynamics and domain involvement. We identify a binding site for highly potent and selective inhibitors and show that they act by stabilizing the TRPM7 closed state. The discovered structural mechanisms provide foundations for understanding the molecular basis of TRPM7 channelopathies and drug development.
4D nanoimaging of early age cement hydration
Authors: Shirani Shiva , Cuesta Ana , Morales-Cantero Alejandro , Santacruz Isabel , Diaz Ana , Trtik Pavel , Holler Mirko , Rack Alexander , Lukic Bratislav , Brun Emmanuel , Salcedo Inés R. , Aranda Miguel A. G. 
Published: May 2023

AbstractDespite a century of research, our understanding of cement dissolution and precipitation processes at early ages is very limited. This is due to the lack of methods that can image these processes with enough spatial resolution, contrast and field of view. Here, we adapt near-field ptychographic nanotomography to in situ visualise the hydration of commercial Portland cement in a record-thick capillary. At 19 h, porous C-S-H gel shell, thickness of 500 nm, covers every alite grain enclosing a water gap. The spatial dissolution rate of small alite grains in the acceleration period, ∼100 nm/h, is approximately four times faster than that of large alite grains in the deceleration stage, ∼25 nm/h. Etch-pit development has also been mapped out. This work is complemented by laboratory and synchrotron microtomographies, allowing to measure the particle size distributions with time. 4D nanoimaging will allow mechanistically study dissolution-precipitation processes including the roles of accelerators and superplasticizers.
Structure of the actively translating plant 80S ribosome at 2.2 Å resolution
Authors: Smirnova Julia , Loerke Justus , Kleinau Gunnar , Schmidt Andrea , Bürger Jörg , Meyer Etienne H. , Mielke Thorsten , Scheerer Patrick , Bock Ralph , Spahn Christian M. T. , Zoschke Reimo 
Published: May 2023

AbstractIn plant cells, translation occurs in three compartments: the cytosol, the plastids and the mitochondria. While the structures of the (prokaryotic-type) ribosomes in plastids and mitochondria are well characterized, high-resolution structures of the eukaryotic 80S ribosomes in the cytosol have been lacking. Here the structure of translating tobacco (Nicotiana tabacum) 80S ribosomes was solved by cryo-electron microscopy with a global resolution of 2.2 Å. The ribosome structure includes two tRNAs, decoded mRNA and the nascent peptide chain, thus providing insights into the molecular underpinnings of the cytosolic translation process in plants. The map displays conserved and plant-specific rRNA modifications and the positions of numerous ionic cofactors, and it uncovers the role of monovalent ions in the decoding centre. The model of the plant 80S ribosome enables broad phylogenetic comparisons that reveal commonalities and differences in the ribosomes of plants and those of other eukaryotes, thus putting our knowledge about eukaryotic translation on a firmer footing.
Time to workforce exit after a Parkinson’s disease diagnosis
Authors: Timpka Jonathan , Dahlström Örjan , Nilsson Maria H. , Iwarsson Susanne , Odin Per 
Published: May 2023

AbstractThe impact of Parkinson’s disease (PD) on workforce participation has received little attention even though demographic, lifestyle, and political changes together will result in an increased burden of PD on the working-age population. In this study, we investigate workforce survival after a PD diagnosis, as well as what demographic factors that are associated with workforce survival. As an exploratory outcome, we investigate workforce survival in persons with and without device-aided treatment (DAT). This is a nested case-cohort study based on Swedish national data from 2001–2016. Controls were matched on year of birth, sex, and municipality of residence. The used registers contain data on demographics, social insurance, in- and outpatient visits, filled drug prescriptions, and cause of death on the person-level. A total of 4781 persons with PD and 23,905 controls were included. The median survival until all-cause workforce exit was 43 months among persons that were workforce-active at the time of PD diagnosis, compared to 66 months in non-PD controls. Being female, ≥50 years old at diagnosis, or having a lower education were contributing factors to health-related workforce exit. Persons receiving DAT during follow-up exhibited shorter workforce survival than controls. However, this needs further investigation, particularly as patients have generally already left the workforce at the time for start of DAT. It is evident that PD has grave negative effects on workforce participation. Thus, supportive measures need to start at an early stage after diagnosis, and the development of new interventions is urgently needed.