bluuebunny/crossref_metadata_2025_split huggingface dataset:
Assessment of pollution and metal toxicity in the bed sediment of El-Rayan Lakes, Fayoum, Egypt
Authors: Khedr Alaa I. , Goher Mohamed E. , Salem Salem G. , El Sayed Seliem M. , Farhat Hassan I. 
Published: June 2023

AbstractSediments are vital components of aquatic ecosystems, which trap and store various essential elements as well as harmful polluting substances. This is why sediment quality assessment is of great importance in measuring the quality, or pollution, of water bodies. In this study, the levels, ecological risk, and toxicity indices of 17 heavy metals (HMs) were evaluated in the sediments of the two lakes: Upper Wadi El-Rayan Lake (UWRL) and Lower Wadi El-Rayan Lake (LWRL). Both are important wetlands in Egypt used as agricultural drainage water reservoirs for Fayoum province. As revealed by the texture of the sediments, the sand represented the major sediment portion of the UWRL, while the mud was dominant in the LWRL. According to ecological risk assessment, the sediments of the two lakes suffer different degrees of metal pollution, mainly Cd, Pb, and Ni. Based on sediment quality guidelines, toxicity indices indicated different potential toxic effects of the studied HMs on benthic-dwelling organisms, but Ni and Ba had the highest potential biological risk. Results also revealed that the area facing the El-Wadi Drain is the most polluted due to its proximity to the water drainage entrance. However, LWRL is generally more polluted than UWRL. This is related to the shrinkage of water volume and lake area; it causes an increase in the concentration of metals in water, and thus an increase in the sedimentation rate of these metals into the bottom.
Trends of Anthropogenic Dissolved Inorganic Carbon in the Northwest Atlantic Ocean Estimated Using a State Space Model
Authors: Boteler Claire , Dowd Michael , Oliver Eric C. J. , Krainski Elias T. , Wallace Douglas W. R. 
Published: June 2023

AbstractThe northwest Atlantic Ocean is an important sink for carbon dioxide produced by anthropogenic activities. However the strong seasonal variability in the surface waters paired with the sparse and summer biased observations of ocean carbon makes it difficult to capture a full picture of its temporal variations throughout the water column. We aim to improve the estimation of temporal trends of dissolved inorganic carbon (DIC) due to anthropogenic sources using a new statistical approach: a time series generalization of the extended multiple linear regression (eMLR) method. Anthropogenic increase of northwest Atlantic DIC in the surface waters is hard to quantify due to the strong, natural seasonal variations of DIC. We address this by separating DIC into its seasonal, natural and anthropogenic components. Ocean carbon data is often collected in the summer, creating a summer bias, however using monthly averaged data made our results less susceptible to the strong summer bias in the available data. Variations in waters below 1000m have usually been analyzed on decadal time scales, but our monthly analysis showed the anthropogenic carbon component had a sudden change in 2000 from stationary to an increasing trend at the same rate as the waters above. All depths layers had similar rates of anthropogenic increase of ∼0.57µmol kg−1 year−1, and our uncertainty levels are smaller than with eMLR results. Integration throughout the water column (0–3,500 m) gives an anthropogenic carbon storage rate of 1.37 ± 0.57 mol m−2 year−1, which is consistent with other published estimates.
North American Hydroclimate During Past Warms States: A Proxy Compilation‐Model Comparison for the Last Interglacial and the Mid‐Holocene
Authors: de Wet C. B. , Ibarra D. E. , Belanger B. K. , Oster J. L. 
Published: June 2023

AbstractDuring the mid‐Holocene (MH: ∼6,000 years Before Present) and Last Interglacial LIG (LIG: ∼129,000–116,000 years Before Present) differences in the seasonal and latitudinal distribution of insolation drove Northern Hemisphere high‐latitude warming comparable to that projected for the end of the 21st century in low emissions scenarios. Paleoclimate proxy records point to distinct but regionally variable hydroclimatic changes during these past warm intervals. However, model simulations have generally disagreed on North American regional moisture patterns during the MH and LIG. To investigate how closely the latest generation of models associated with the Paleoclimate Model Intercomparison Project (PMIP4) reproduces proxy‐inferred moisture patterns during recent warm periods, we compare hydroclimate output from 17 PMIP4 models with newly updated compilations of moisture‐sensitive North American proxy records during the MH and LIG. Agreement is lower for the MH, with models producing wet anomalies across the western United States (US) where most proxies indicate increased aridity relative to the preindustrial period. The models that agree most closely with the LIG proxy compilation display relative wetness in the eastern US and Alaska, and dryness in the northwest and central US. An assessment of atmospheric dynamics using an ensemble of the three LIG simulations that best agree with the proxies suggests that weaker winter North Pacific pressure gradients and steeper summer North Pacific and Atlantic gradients drive LIG precipitation patterns. Our updated compilations and proxy‐model comparisons offer a tool for benchmarking climate models and their performance in simulating climate states that are warmer than present.
Unrestricted Solar Energetic Particle Access to the Moon While Within the Terrestrial Magnetotail
Authors: Liuzzo Lucas , Poppe Andrew R. , Lee Christina O. , Xu Shaosui , Angelopoulos Vassilis 
Published: June 2023

AbstractThis study presents observations of Solar Energetic Particle (SEP) protons that have penetrated Earth's magnetotail to reach the lunar environment. We apply data from Wind as an upstream monitor and compare to observations from THEMIS‐ARTEMIS within the tail to show clear signatures of SEPs at the Moon during two events. Combining modeling and data analysis, we show that SEPs above energies of ∼25 keV gain access to the Moon's position deep within the magnetotail through field lines that are open on one end to the solar wind. These results contradict previous studies that have suggested that the magnetotail is effective in shielding the Moon from SEPs with energies up to 1 GeV. Instead, we highlight that Earth's magnetosphere provides poor protection to the Moon from SEPs, which irradiate the lunar surface even within the tail. Our results have important implications regarding the safety of astronauts during upcoming lunar missions.
Field‐Line Curvature Scattering at the Outer Boundary of the Proton Radiation Belt
Authors: Selesnick R. S. , Looper M. D. 
Published: June 2023

AbstractA model balancing diffusive field‐line curvature (FLC) scattering loss with other local source, loss, and transport processes is used to compute the L‐shell location of the proton radiation belt outer boundary, where intensity falls below observable levels. The FLC scattering rate increases with increasing L and proton energy, decreasing equatorial pitch angle, and increasing geomagnetic activity, as determined with the Kp‐dependent T89 external magnetic field combined with a dipole internal field. Simulated proton intensity near the outer boundary is compared to measurements from both the low‐altitude SAMPEX satellite and the high‐altitude Van Allen Probes satellites, with correction for instrumental biases caused by field‐of‐view, energy range, and the east‐west effect. Good agreement between observations and simulations is obtained for average boundary locations, time‐dependent variations caused by magnetic storms, and average equatorial pitch‐angle distributions.
Depth‐Dependent Aftershock Trigger Potential Revealed by 3D‐ETAS Modeling
Authors: Asayesh Behnam M. , Hainzl Sebastian , Zöller Gert 
Published: June 2023

AbstractCurrent earthquake catalogs provide high‐precision depth values that contain valuable information. Thus, we extend the spatiotemporal Epidemic Type Aftershock Sequence model to 3D by considering hypocentral instead of epicentral distances. To explore the most appropriate parametric form of the spatial kernel, we first examine different triggering functions for the depth difference of the aftershock‐mainshock pairs identified by the Nearest‐Neighbor method, showing that a magnitude‐dependent power‐law kernel fits best the earthquakes data in Southern California. Therefore, we incorporate the corresponding kernel into the 3D‐ETAS model with space‐dependent background activity, where we additionally allow for depth‐dependent aftershock productivity. The application to Southern California shows that the model fits the data well. We also find that the aftershock productivity strongly depends on depth, similar to the seismic moment released by the mainshocks, which may be related to depth‐dependent seismic coupling.
Effect of Asymmetric Topography on Rupture Propagation Along Fault Stepovers
Authors: Douilly Roby 
Published: June 2023

AbstractComplex fault systems are often located in regions with asymmetric topography on one side of a fault, and these systems are very common in Southern California. Along these fault systems, geometrical complexities such as stepovers can impact fault rupture. Previous rupture dynamic studies have investigated the effect of stepover widths on throughgoing rupture, but these studies didn't examine the influence of topography on the rupture behavior. To investigate the effect of asymmetric topography on rupture dynamics at stepovers, I consider three cases: (a) a flat topography, (b) a positive (mountain), and (c) a negative (basin) topography on only one side of the fault system outside of the stepover. In each case, I use the 3D finite element method to compute the rupture dynamics of these fault systems. The results show a significant time dependent variation of the normal stress for the topography cases as opposed to the flat surface case, which can have an important impact on rupture propagation at the stepover. For a positive topography on the right of the rupture propagation, there is a clamping effect behind the rupture front that prevents the rupture to jump a wider extensional stepover. The opposite is observed for a negative topography or for a positive topography on the left side of the rupture propagation, where the rupture can jump over a wider compressional stepover. These results suggest that topography should be considered in dynamic studies with geometric complexities such as stepovers, and perhaps bends and branched fault systems.
Reconstructing the Oxygen Depth Profile in the Arabian Sea During the Last Glacial Period
Authors: Lu Wanyi , Costa Kassandra M. , Oppo Delia W. 
Published: June 2023

AbstractReconstructing the strength and depth boundary of oxygen minimum zones (OMZs) in the glacial ocean advances our understanding of how OMZs respond to climate changes. While many efforts have inferred better oxygenation of the glacial Arabian Sea OMZ from qualitative indices, oxygenation and vertical extent of the glacial OMZ is not well quantified. Here we present glacial‐Holocene oxygen reconstructions in a depth transect of Arabian Sea cores ranging from 600 to 3,650 m water depths. We estimate glacial oxygen concentrations using benthic foraminiferal surface porosity and benthic carbon isotope gradient reconstructions. Compared to the modern Arabian Sea, glacial oxygen concentrations were approximately 10–15 μmol/kg higher in the shallow OMZ (<1,000 m), and 5–80 μmol/kg lower at greater depths (1,500–3,650 m). Our results suggest that the OMZ in the glacial Arabian Sea was slightly better oxygenated but remained in the upper 1,000 m. We propose that the small increase in oxygenation of the Arabian Sea OMZ during the last glacial period was due to weaker upper ocean stratification induced by stronger winter monsoon winds coupled with an increase in oxygen solubility due to lower temperatures, counteracting the effects of more oxygen consumption resulting from higher primary productivity. Large‐scale changes in ocean circulation may have also contributed to better ventilation of the glacial Arabian Sea OMZ.
A pangolin-origin SARS-CoV-2-related coronavirus: infectivity, pathogenicity, and cross-protection by preexisting immunity
Authors: Huang Xing-Yao , Chen Qi , Sun Meng-Xu , Zhou Hang-Yu , Ye Qing , Chen Wu , Peng Jin-Yu , Qi Yi-Ni , Zhai Jun-Qiong , Tian Ying , Liu Zi-Xin , Huang Yi-Jiao , Deng Yong-Qiang , Li Xiao-Feng , Wu Aiping , Yang Xiao , Yang Guan , Shen Yongyi , Qin Cheng-Feng 
Published: June 2023

AbstractVirus spillover remains a major challenge to public health. A panel of SARS-CoV-2-related coronaviruses have been identified in pangolins, while the infectivity and pathogenicity of these pangolin-origin coronaviruses (pCoV) in humans remain largely unknown. Herein, we comprehensively characterized the infectivity and pathogenicity of a recent pCoV isolate (pCoV-GD01) in human cells and human tracheal epithelium organoids and established animal models in comparison with SARS-CoV-2. pCoV-GD01 showed similar infectivity to SARS-CoV-2 in human cells and organoids. Remarkably, intranasal inoculation of pCoV-GD01 caused severe lung pathological damage in hACE2 mice and could transmit among cocaged hamsters. Interestingly, in vitro neutralization assays and animal heterologous challenge experiments demonstrated that preexisting immunity induced by SARS-CoV-2 infection or vaccination was sufficient to provide at least partial cross-protection against pCoV-GD01 challenge. Our results provide direct evidence supporting pCoV-GD01 as a potential human pathogen and highlight the potential spillover risk.
Direct laser writing of 3D electrodes on flexible substrates
Authors: Brown Morgan A. , Zappitelli Kara M. , Singh Loveprit , Yuan Rachel C. , Bemrose Melissa , Brogden Valerie , Miller David J. , Smear Matthew C. , Cogan Stuart F. , Gardner Timothy J. 
Published: June 2023

AbstractThis report describes a 3D microelectrode array integrated on a thin-film flexible cable for neural recording in small animals. The fabrication process combines traditional silicon thin-film processing techniques and direct laser writing of 3D structures at micron resolution via two-photon lithography. Direct laser-writing of 3D-printed electrodes has been described before, but this report is the first to provide a method for producing high-aspect-ratio structures. One prototype, a 16-channel array with 300 µm pitch, demonstrates successful electrophysiological signal capture from bird and mouse brains. Additional devices include 90 µm pitch arrays, biomimetic mosquito needles that penetrate through the dura of birds, and porous electrodes with enhanced surface area. The rapid 3D printing and wafer-scale methods described here will enable efficient device fabrication and new studies examining the relationship between electrode geometry and electrode performance. Applications include small animal models, nerve interfaces, retinal implants, and other devices requiring compact, high-density 3D electrodes.
Structure and proposed DNA delivery mechanism of a marine roseophage
Authors: Huang Yang , Sun Hui , Wei Shuzhen , Cai Lanlan , Liu Liqin , Jiang Yanan , Xin Jiabao , Chen Zhenqin , Que Yuqiong , Kong Zhibo , Li Tingting , Yu Hai , Zhang Jun , Gu Ying , Zheng Qingbing , Li Shaowei , Zhang Rui , Xia Ningshao 
Published: June 2023

AbstractTailed bacteriophages (order, Caudovirales) account for the majority of all phages. However, the long flexible tail of siphophages hinders comprehensive investigation of the mechanism of viral gene delivery. Here, we report the atomic capsid and in-situ structures of the tail machine of the marine siphophage, vB_DshS-R4C (R4C), which infects Roseobacter. The R4C virion, comprising 12 distinct structural protein components, has a unique five-fold vertex of the icosahedral capsid that allows genome delivery. The specific position and interaction pattern of the tail tube proteins determine the atypical long rigid tail of R4C, and further provide negative charge distribution within the tail tube. A ratchet mechanism assists in DNA transmission, which is initiated by an absorption device that structurally resembles the phage-like particle, RcGTA. Overall, these results provide in-depth knowledge into the intact structure and underlining DNA delivery mechanism for the ecologically important siphophages.
A pharmacoproteomic landscape of organotypic intervention responses in Gram-negative sepsis
Authors: Mohanty Tirthankar , Karlsson Christofer A. Q. , Chao Yashuan , Malmström Erik , Bratanis Eleni , Grentzmann Andrietta , Mørch Martina , Nizet Victor , Malmström Lars , Linder Adam , Shannon Oonagh , Malmström Johan 
Published: June 2023

AbstractSepsis is the major cause of mortality across intensive care units globally, yet details of accompanying pathological molecular events remain unclear. This knowledge gap has resulted in ineffective biomarker development and suboptimal treatment regimens to prevent and manage organ dysfunction/damage. Here, we used pharmacoproteomics to score time-dependent treatment impact in a murine Escherichia coli sepsis model after administering beta-lactam antibiotic meropenem (Mem) and/or the immunomodulatory glucocorticoid methylprednisolone (Gcc). Three distinct proteome response patterns were identified, which depended on the underlying proteotype for each organ. Gcc enhanced some positive proteome responses of Mem, including superior reduction of the inflammatory response in kidneys and partial restoration of sepsis-induced metabolic dysfunction. Mem introduced sepsis-independent perturbations in the mitochondrial proteome that Gcc counteracted. We provide a strategy for the quantitative and organotypic assessment of treatment effects of candidate therapies in relationship to dosing, timing, and potential synergistic intervention combinations during sepsis.
Spatiotemporal resolution of germinal center Tfh cell differentiation and divergence from central memory CD4+ T cell fate
Authors: Zhu Fangming , McMonigle Ryan J. , Schroeder Andrew R. , Xia Xianyou , Figge David , Greer Braxton D. , González-Avalos Edahí , Sialer Diego O. , Wang Yin-Hu , Chandler Kelly M. , Getzler Adam J. , Brown Emily R. , Xiao Changchun , Kutsch Olaf , Harada Yohsuke , Pipkin Matthew E. , Hu Hui 
Published: June 2023

AbstractFollicular helper T (Tfh) cells are essential for germinal center (GC) B cell responses. However, it is not clear which PD-1+CXCR5+Bcl6+CD4+ T cells will differentiate into PD-1hiCXCR5hiBcl6hi GC-Tfh cells and how GC-Tfh cell differentiation is regulated. Here, we report that the sustained Tigit expression in PD-1+CXCR5+CD4+ T cells marks the precursor Tfh (pre-Tfh) to GC-Tfh transition, whereas Tigit–PD-1+CXCR5+CD4+ T cells upregulate IL-7Rα to become CXCR5+CD4+ T memory cells with or without CCR7. We demonstrate that pre-Tfh cells undergo substantial further differentiation at the transcriptome and chromatin accessibility levels to become GC-Tfh cells. The transcription factor c-Maf appears critical in governing the pre-Tfh to GC-Tfh transition, and we identify Plekho1 as a stage-specific downstream factor regulating the GC-Tfh competitive fitness. In summary, our work identifies an important marker and regulatory mechanism of PD-1+CXCR5+CD4+ T cells during their developmental choice between memory T cell fate and GC-Tfh cell differentiation.
Snowflake-inspired and blink-driven flexible piezoelectric contact lenses for effective corneal injury repair
Authors: Yao Guang , Mo Xiaoyi , Liu Shanshan , Wang Qian , Xie Maowen , Lou Wenhao , Chen Shiyan , Pan Taisong , Chen Ke , Yao Dezhong , Lin Yuan 
Published: June 2023

AbstractThe cornea is a tissue susceptible to various injuries and traumas with a complicated cascade repair process, in which conserving its integrity and clarity is critical to restoring visual function. Enhancing the endogenous electric field is recognized as an effective method of accelerating corneal injury repair. However, current equipment limitations and implementation complexities hinder its widespread adoption. Here, we propose a snowflake-inspired, blink-driven flexible piezoelectric contact lens that can convert mechanical blink motions into a unidirectional pulsed electric field for direct application to moderate corneal injury repair. The device is validated on mouse and rabbit models with different relative corneal alkali burn ratios to modulate the microenvironment, alleviate stromal fibrosis, promote orderly epithelial arrangement and differentiation, and restore corneal clarity. Within an 8-day intervention, the corneal clarity of mice and rabbits improves by more than 50%, and the repair rate of mouse and rabbit corneas increases by over 52%. Mechanistically, the device intervention is advantageous in blocking growth factors’ signaling pathways specifically involved in stromal fibrosis whilst preserving and harnessing the signaling pathways required for indispensable epithelial metabolism. This work put forward an efficient and orderly corneal therapeutic technology utilizing artificial endogenous-strengthened signals generated by spontaneous body activities.
Non disseminative nano-strategy against in vivo Staphylococcus aureus biofilms
Authors: Pinto Rita M. , Yazdani Saleh , Seabra Catarina Leal , De Jonge Martine , Izci Mukaddes , Cruz Rebeca , Casal Susana , Soenen Stefaan J. , Reis Salette , Nunes Cláudia , Van Dijck Patrick 
Published: June 2023

AbstractStaphylococcus aureus is considered a high priority pathogen by the World Health Organization due to its high prevalence and the potential to form biofilms. Currently, the available treatments for S. aureus biofilm-associated infections do not target the extracellular polymeric substances (EPS) matrix. This matrix is a physical barrier to bactericidal agents, contributing to the increase of antimicrobial tolerance. The present work proposes the development of lipid nanoparticles encapsulating caspofungin (CAS) as a matrix-disruptive nanosystem. The nanoparticles were functionalized with D-amino acids to target the matrix. In a multi-target nano-strategy against S. aureus biofilms, CAS-loaded nanoparticles were combined with a moxifloxacin-loaded nanosystem, as an adjuvant to promote the EPS matrix disruption. In vitro and in vivo studies showed biofilm reduction after combining the two nanosystems. Besides, the combinatory therapy showed no signs of bacterial dissemination into vital organs of mice, while dissemination was observed for the treatment with the free compounds. Additionally, the in vivo biodistribution of the two nanosystems revealed their potential to reach and accumulate in the biofilm region, after intraperitoneal administration. Thus, this nano-strategy based on the encapsulation of matrix-disruptive and antibacterial agents is a promising approach to fight S. aureus biofilms.