bluuebunny/crossref_metadata_2025_split huggingface dataset:
Inhibition of TFF3 synergizes with c-MET inhibitors to decrease the CSC-like phenotype and metastatic burden in ER+HER2+ mammary carcinoma
Authors: He Chuyu , Wang Xuejuan , Chiou Yi-Shiou , Basappa Basappa , Zhu Tao , Pandey Vijay , Lobie Peter E. 
Published: February 2025

Abstract
The interaction between HER2 and ERα signaling pathways contributes to resistance to anti-estrogen and HER2-targeted therapies, presenting substantial treatment challenges in ER-positive (ER+) HER2-positive (HER2+) mammary carcinoma (MC). Trefoil Factor-3 (TFF3) has been reported to mediate resistance to both anti-estrogen and anti-HER2 targeted therapies in ER+ and ER+HER2+ MC, respectively. Herein, the function and mechanism of TFF3 in ER+HER2+ MC were delineated; and novel combinatorial therapeutic strategies were identified. Elevated expression of TFF3 promoted the oncogenicity of ER+HER2+ MC cells, including enhanced cell proliferation, survival, anchorage-independent growth, 3D growth, cancer stem cell-like (CSC-like) phenotype, migration, invasion, and xenograft growth. Targeting TFF3 with an interfering RNA plasmid or a small-molecule inhibitor (AMPC) inhibited these oncogenic characteristics, highlighting the therapeutic potential of targeting TFF3 in ER+HER2+ MC. Furthermore, a high-throughput combinatorial anti-cancer compound library screening revealed that AMPC preferentially synergized with receptor tyrosine kinase c-MET inhibitors (c-METis) to reduce cell survival and the CSC-like phenotype. The combination of AMPC and c-METis also synergistically suppressed the in vivo growth of ER+HER2+ MC cell-derived xenografts and abrogated lung metastasis. Mechanistically, TFF3 was observed to activate c-MET signaling through a positive-feedback loop to enhance the CSC-like phenotype of ER+HER2+ MC. Therefore, proof of concept is provided herein that antagonizing of TFF3 is a promising therapeutic strategy in combination with c-MET inhibition for the treatment of ER+HER2+ MC.
The tetracycline resistome is shaped by selection for specific resistance mechanisms by each antibiotic generation
Authors: Blake Kevin S. , Xue Yao-Peng , Gillespie Vincent J. , Fishbein Skye R. S. , Tolia Niraj H. , Wencewicz Timothy A. , Dantas Gautam 
Published: February 2025

Abstract
The history of clinical resistance to tetracycline antibiotics is characterized by cycles whereby the deployment of a new generation of drug molecules is quickly followed by the discovery of a new mechanism of resistance. This suggests mechanism-specific selection by each tetracycline generation; however, the evolutionary dynamics of this remain unclear. Here, we evaluate 24 recombinant Escherichia coli strains expressing tetracycline resistance genes from each mechanism (efflux pumps, ribosomal protection proteins, and enzymatic inactivation) in the context of each tetracycline generation. We employ a high-throughput barcode sequencing protocol that can discriminate between strains in mixed culture and quantify their relative abundances. We find that each mechanism is preferentially selected for by specific antibiotic generations, leading to their expansion. Remarkably, the minimum inhibitory concentration associated with individual genes is secondary to resistance mechanism for inter-mechanism relative fitness, but it does explain intra-mechanism relative fitness. These patterns match the history of clinical deployment of tetracycline drugs and resistance discovery in pathogens.
Three-dimensional mapping of the altermagnetic spin splitting in CrSb
Authors: Yang Guowei , Li Zhanghuan , Yang Sai , Li Jiyuan , Zheng Hao , Zhu Weifan , Pan Ze , Xu Yifu , Cao Saizheng , Zhao Wenxuan , Jana Anupam , Zhang Jiawen , Ye Mao , Song Yu , Hu Lun-Hui , Yang Lexian , Fujii Jun , Vobornik Ivana , Shi Ming , Yuan Huiqiu , Zhang Yongjun , Xu Yuanfeng , Liu Yang 
Published: February 2025

Abstract
Altermagnetism, a kind of collinear magnetism that is characterized by a momentum-dependent band and spin splitting without net magnetization, has recently attracted considerable interest. Finding altermagnetic materials with large splitting near the Fermi level necessarily requires three-dimensional k-space mapping. While this is crucial for spintronic applications and emergent phenomena, it remains challenging. Here, using synchrotron-based angle-resolved photoemission spectroscopy (ARPES), spin-resolved ARPES and model calculations, we uncover a large altermagnetic splitting, up to ~1.0 eV, near the Fermi level in CrSb. We verify its bulk-type g-wave altermagnetism through systematic three-dimensional k-space mapping, which unambiguously reveals the altermagnetic symmetry and associated nodal planes. Spin-resolved ARPES measurements further verify the spin polarizations of the split bands near Fermi level. Tight-binding model analysis indicates that the large altermagnetic splitting arises from strong third-nearest-neighbor hopping mediated by Sb ions. The large band/spin splitting near Fermi level in metallic CrSb, together with its high T

N
(up to 705 K) and simple spin configuration, paves the way for exploring emergent phenomena and spintronic applications based on altermagnets.
Tissue shear as a cue for aligning planar polarity in the developing Drosophila wing
Authors: Tan Su Ee , Strutt David 
Published: February 2025

Abstract
Planar polarity establishment in epithelia requires interpretation of directional tissue-level information at cellular and molecular levels. Mechanical forces exerted during tissue morphogenesis are emerging as crucial tissue-level directional cues, yet the mechanisms by which they regulate planar polarity are poorly understood. Using the Drosophila pupal wing, we confirm that tissue stress promotes proximal-distal (PD) planar polarity alignment. Moreover, high tissue stress anisotropy can reduce the rate of accumulation and lower the stability on cell junctions of the core planar polarity protein Frizzled (Fz). Notably, under high tissue stress anisotropy, we see an increased gradient of cell flow, characterised by differential velocities across adjacent cell rows. This promotes core protein turnover at cell-cell contacts parallel to the flow direction, possibly via dissociation of transmembrane complexes by shear forces. We propose that gradients of cell flow play a critical role in establishing and maintaining PD-oriented polarity alignment in the developing pupal wing.
A single-nucleus RNA sequencing atlas of the postnatal retina of the shark Scyliorhinus canicula
Authors: Vidal-Vázquez Nicolás , Hernández-Núñez Ismael , Carballo-Pacoret Pablo , Salisbury Sarah , Villamayor Paula R. , Hervas-Sotomayor Francisca , Yuan Xuefei , Lamanna Francesco , Schneider Céline , Schmidt Julia , Mazan Sylvie , Kaessmann Henrik , Adrio Fátima , Robledo Diego , Barreiro-Iglesias Antón , Candal Eva 
Published: February 2025

Abstract
The retina, whose basic cellular structure is highly conserved across vertebrates, constitutes an accessible system for studying the central nervous system. In recent years, single-cell RNA sequencing studies have uncovered cellular diversity in the retina of a variety of species, providing new insights on retinal evolution and development. However, similar data in cartilaginous fishes, the sister group to all other extant jawed vertebrates, are still lacking. Here, we present a single-nucleus RNA sequencing atlas of the postnatal retina of the catshark Scyliorhinus canicula, consisting of the expression profiles for 17,438 individual cells from three female, juvenile catshark specimens. Unsupervised clustering revealed 22 distinct cell types comprising all major retinal cell classes, as well as retinal progenitor cells (whose presence reflects the persistence of proliferative activity in postnatal stages in sharks) and oligodendrocytes. Thus, our dataset serves as a foundation for further studies on the development and function of the catshark retina. Moreover, integration of our atlas with data from other species will allow for a better understanding of vertebrate retinal evolution.
Excited states of mono- and biruthenium(II) complexes adsorbed on nanocrystalline titanium dioxide studied by electroabsorption spectroscopy
Authors: Pelczarski Daniel , Gierczyk Błażej , Zalas Maciej , Makowska-Janusik Malgorzata , Stampor Waldemar 
Published: February 2025

Abstract
Comprehensive characterization of the lowest energy electronic excited states for mono- and binuclear Ru(II) complexes containing bipyridine ligands has been performed by electroabsorption (EA) spectroscopy. The EA spectra of Ru complexes sensitizing a TiO2 semiconductor were compared with the spectra of these complexes in the form of solid neat films, both of which parametrized within the Liptay theory. The extracted values of relevant parameters, relating to molecular dipoles after optical MLCT (metal-to-ligand-charge-transfer) excitation, exhibit a clearly noticeable increase for Ru complexes adsorbed on TiO2, but they are too small to be attributed to excitation associated with the direct transfer of an electron from the dye adsorbate to the TiO2 semiconductor. Due to the difficulties arising from standard analysis based on Liptay formalism, we have for the first time successfully reproduced the EA spectra of the Ru/TiO2 systems using the time-dependent density functional (TDDFT) calculations, incorporating into the Hamiltonian a term describing the interaction of a molecule with the local electric field it experiences from the TiO2 structure and the neighboring Ru complex molecules, without additional assumptions about the lineshape of the EA signal. The implications of these results are briefly discussed in the context of dye-sensitized solar cells.
Movement traits important to conservation and fisheries management: an example with red snapper
Authors: Lowerre-Barbieri Susan K. , Wall Kara , Friess Claudia , Keenan Sean , Lembke Chad , Tarnecki Joseph , Williams-Grove Laura Jay , Patterson William F. 
Published: February 2025

Abstract
Site fidelity, space use, and dispersal are commonly estimated with acoustic telemetry (AT) to help inform management and conservation. These behaviors can change with age, habitat and environmental conditions and our ability to accurately estimate them is affected by a study’s inference power (design components that affect how accurately detection data represents a species’ movements). Red snapper (Lutjanus campechanus) have been extensively studied with AT over a range of time periods and regions, although primarily at artificial reefs (AR). Here, we use large (> 12 km2) acoustic positioning arrays to monitor a study area with low-relief hard bottom, a reef ledge, and an AR. Annual fidelity to the study area was estimated to be 54%, but estimates were affected by fate uncertainty and model choice. Emigration increased with storms and in early summer. Abundance was greatest at small habitat patches but space use did not scale with patch size. Although uncommon, long-distance movements and connectivity between habitats occurred, with a maximum dispersal of 206 km. Previous red snapper AT studies varied greatly in array size, study duration, and number of fish tracked, impacting inference power. This made it difficult to compare results and highlights the need for greater standardization in AT methods.
Effect of some growth substances application on growth and seasonal yield of acid lime trees (Citrus aurantifolia Swingle) in Delta
Authors: Abobatta Waleed Fouad , Khodier Mahmoud A. , Ismail Hassan S. H. 
Published: February 2025

Abstract
This work aims to investigate the impact of chitosan and hydrogen peroxide on the growth and seasonal yield of lime trees cultivated in commercial orchards in Qalyubiyya Governorate, Egypt, during the 2021 & 2022 seasons. The treatments include foliar spraying of two concentrations of CHI (100 & 200 ppm) and H2O2 (2 & 4 cm/L), either individually or in combination, at two distinct times, one month after fruit set (1st week of September) and after two months. The hypothesis was that applying chitosan and hydrogen peroxide would improve tree growth, fruit quality, and total production. The obtained results indicated that the combinations of CHI with H2O2 improved tree growth, leaf mineral composition, seasonal yield, and fruit quality parameters. CHI at 200 ppm + H2O2 at 4 cm/L was the most efficient treatment and achieved the largest tree canopy. Treatment of 100 ppm CHI with 2 cm/L H2O2 showed superior yield in terms of tree yield (23.56 & 29.64 kg/tree), total production (8.15 & 9.16 t/ha) compared to other treatments. Likewise, combinations of CHI and H2O2 improved fruit characteristics. Findings of this study demonstrated that the foliar application of CHI with H2O2 could be a promising application to improve seasonal lemon yield and fruit quality in commercial orchards.
Evaluation of humoral immune response and milk antibody transfer in calves and lactating cows vaccinated with inactivated H5 avian influenza vaccine
Authors: Abousenna Mohamed Samy , Shafik Nermeen G. , Abotaleb Mahmoud M. 
Published: February 2025

Abstract
The detection of Highly Pathogenic Avian Influenza (HPAI) A(H5N1) in dairy cattle in the United States has raised concerns about human exposure. This study evaluated the efficacy of various doses of an inactivated H5 AI vaccine in cattle and assessed antibody transfer in milk against a recent bovine isolate of HPAI A(H5N1, clade 2.3.4.4b). Calves were inoculated with different vaccine doses, while lactating cows received the vaccine four weeks later. The humoral immune response was measured using the Hemagglutination Inhibition (HI) test and ELISA. Results showed a dose-dependent immune response, with higher doses producing stronger and more sustained antibody levels. Group 1 maintained a stable HI titer of 6 log2, while Groups 2, 3, and 4 peaked at 8, 9, and 9 log2, respectively, by the fourth week post-vaccination. Milk antibody transfer was observed, with strong positive responses in milk samples by the second week post-vaccination. The ID Screen ELISA demonstrated higher sensitivity for detecting antibodies in milk compared to serum. The immune response to the AI vaccine differed from responses to other vaccines used in cattle such as Foot and Mouth Disease Virus (FMDV) and Lumpy Skin Disease Virus (LSDV), indicating the need for optimizing vaccine dosage and formulation, including adjuvant and antigen content. Future research should extend the monitoring period, increase sample sizes, and explore different vaccine formulations to develop effective vaccination strategies for cattle. These findings highlight the potential for using inactivated H5 AI vaccines in cattle to enhance immune protection and facilitate antibody transfer through milk.
Integrating petrophysical characterization and reservoir evaluation of the Kafr ELSheikh formation in Sapphire field, Nile Delta, Egypt
Authors: Sobih Naiem Souilam , El Nagar Ahmed Ahmed , Abbas Ali Elsayed , Shehab Samir 
Published: February 2025

Abstract
This study aims to integrate petrophysical characterization and reservoir evaluation for optimizing field development. The focus is on the Kafr Elsheikh formation, using iso-parametric maps to analyze key reservoir parameters such as effective porosity, shale content, net-pay thickness, permeability, hydrocarbon saturation, and water saturation across lateral sections. Petrophysical characterization is essential for understanding the reservoir quality and productivity potential. The study evaluates four wells—Sapphire 1, Sapphire-Da, Sapphire-Deep 1, and Sapphire-Dh—using well logs, including gamma ray, caliper, density, neutron, and resistivity, recorded in Las files. These wells are crucial for assessing the reservoir potential and development path of the Sapphire Field. Findings reveal that the Kafr Elsheikh formation has significant reservoir potential, with effective porosity ranging from 14 to 34%, water saturation between 15% and 45%, gas saturation from 55 to 85%, and net-pay thickness from 0.46 m to 23.8 m. Lithological analysis shows a composition of sandstone and shale within the formation. The developmental trajectory of Sapphire Field indicates increases in effective porosity and hydrocarbon saturation towards the central and northwest-southeast directions. Sapphire Da is identified as the most promising well, with 85% saturation, 29% effective porosity, and a net-pay thickness of 14.04 m. The study underscores the hydrocarbon reserves in the Kafr Elsheikh formation and advocates for further exploration and development wells to enhance productivity. Insights from iso-parametric maps are vital for future exploration and development within the Sapphire Field.
Longitudinal characterization reveals behavioral impairments in aged APP knock in mouse models
Authors: Blackmer-Raynolds Lisa , Lipson Lyndsey D. , Fraccaroli Isabel , Krout Ian N. , Chang Jianjun , Sampson Timothy Robert 
Published: February 2025

Abstract
APP knock-in (KI) mice serve as an exciting new model system to understand amyloid beta (Aβ) pathology, overcoming many of the limitations of previous overexpression-based model systems. The APPSAA mouse model (containing the humanized APP with three familial Alzheimer’s disease mutations) and the APPWT control (containing wildtype humanized APP) are the first commercially available APP KI mice within the United States. While APPSAA mice have been shown to develop progressive Aβ pathology and neuroinflammation, the age at which behavioral and cognitive impairments begin to develop has yet to be described. Therefore, we performed an in-depth longitudinal study over 16 months, assessing cognition in these two strains, as well as assessments of motor function. While no cognitive deficits are observed in either genotype throughout the first year of life, 16-month-old APPSAA, but not APPWT mice show initial signs of spatial memory decline. In addition, both genotypes display impaired motor function at the same age. Together, this data identifies a timeframe where behavioral deficits appear, providing an essential foundation for future studies using these model systems.
Incommensurable matter-wave jets in quasi-1D geometry
Authors: Mežnaršič Tadej , Žitko Rok , Gosar Katja , Pirman Jure , Arh Katja , Jug Matevž , Zupanič Erik , Jeglič Peter 
Published: February 2025

Abstract
Bose-Einstein condensates subjected to modulation of the interaction between atoms exhibit the emergence of density waves and matter-wave jets with a velocity proportional to the square root of the modulation frequency. Matter-wave jets have been studied in two- and one-dimensional systems showing that for sufficiently strong modulation additional higher harmonic matter-wave jets emerge. Here we report the experimental observation of incommensurable “golden”

$$\frac{1+\sqrt{5}}{2}$$

1
+

5

2

matter-wave jets in a Bose-Einstein condensate exposed to a single frequency interaction modulation. We study the formation of higher-order jets in quasi-one-dimensional geometry with numerical one dimensional (1D) Gross-Pitaevskii equation simulation. We explore the process of jet formation experimentally and theoretically for a wide range of modulation amplitudes and frequencies and establish a phase diagram delineating different regimes of jet formation. The observation of incommensurate jets provides a new route to an aperiodic density modulation of the condensate without employing an external potential.
Impact of 3D model simplifications on the determination of numerical accuracy of the radar cross‐section in aerial target recognition issues
Authors: Bużantowicz Witold , Walenczykowska Marta 
Published: February 2025

AbstractMethod of moments is one of the most useful approaches for radar cross‐section (RCS) simulation, allowing, that is, the computation of the scattering of real objects from 3D models. However, it is limited by computer memory and computation time. In this paper, the authors explore the question of the balance between the possible acceptable level of 3D model simplification and the time benefit associated with a decrease in computational overhead due to the reduction of the model geometry complexity. A spatial volume‐based RCS characterisation quality index is proposed to help determine the level of simplification to achieve a significant reduction in computation time while maintaining an acceptable level of similarity. The authors present the results of the calculations performed for perfectly conducted sphere 3D models with varying levels of geometry simplification for which a simple analytical solution exists. Furthermore, the results of the computations performed for a generic missile model set are shown. Possible areas of the application of the proposed approach are also considered.
Environmental effects on nearby debris discs
Authors: Heras A. M. , Eiroa C. , del Burgo C. , Marshall J. P. , Montesinos B. 
Published: February 2025

Aims. We investigate the influence of the interstellar medium (ISM) on debris discs using a statistical approach. We probe the effect of the ISM on debris disc occurrence rates and on the morphologies of the discs.
Methods. We used results from the Herschel Space Observatory DUNES and DEBRIS surveys of 295 nearby FGK dwarf stars imaged at 100 µm and 160 µm. Most of the 48 debris discs in this sample have small optical depths, making them more likely to be affected by the ISM compared to optically thick discs. Since the stars in our sample are located within the Local Interstellar Cloud, we can infer that their debris discs encounter similar conditions. This allows us to use the stellar space velocity, in particular the U component, as a single indicator of the forces that can act on the debris disc dust grains when they interact with the ISM. Because older stars show a larger dispersion of space velocity values, we investigated the impact of the debris disc ages on our results.
Results. The observed debris disc occurrence rates seem to depend on the stellar space velocities, as expected under the hypothesis that stars with higher space velocities have a higher probability of losing their circumstellar dust. The percentage of sources with debris discs in our sample reaches a maximum of ≈25% for stars with low space velocity component values, |Urel|, relative to the local ISM, and decreases monotonically for larger |Urel| values down to the 10% level. A decrease in the average disc fractional luminosity as a function of |Urel| is also observed. These dependences do not disappear after accounting for the reported higher dispersion of U values with age. In extended discs, the impact of the ISM could also explain the links observed between the stellar space velocities and the debris disc’s projected ellipticities, position angles, and radii. The fractional luminosities of the debris discs appear to be correlated with their position angles, suggesting that the effect of the ISM on the dust content depends on the disc orientation. Although these indications may not be fully conclusive on their own, they collectively reinforce the hypothesis that the ISM influences the occurrence rates and morphologies of debris discs, thereby motivating additional research on the impact of the environment.