bluuebunny/crossref_metadata_2025_split huggingface dataset:
Meat food fraud risk in Chinese markets 2012–2021
Authors: Li Xiaoman , Zang Mingwu , Li Dan , Zhang Kaihua , Zhang Zheqi , Wang Shouwei 
Published: April 2023

AbstractFood fraud is a major concern worldwide, and the majority of cases include meat adulteration or fraud. Many incidences of food fraud have been identified for meat products both in China and abroad over the last decade. We created a meat food fraud risk database compiled from 1987 pieces of information recorded by official circular information and media reports in China from 2012 to 2021. The data covered livestock, poultry, by-products, and various processed meat products. We conducted a summary analysis of meat food fraud incidents by researching fraud types, regional distribution, adulterants and categories involved, categories and sub-categories of foods, risk links and locations, etc. The findings can be used not only to analyze meat food safety situations and study the burden of food fraud but also help to promote the efficiency of detection and rapid screening, along with improving prevention and regulation of adulteration in the meat supply chain markets.
High-throughput spatiotemporal monitoring of single-cell secretions via plasmonic microwell arrays
Authors: Ansaryan Saeid , Liu Yen-Cheng , Li Xiaokang , Economou Augoustina Maria , Eberhardt Christiane Sigrid , Jandus Camilla , Altug Hatice 
Published: April 2023

AbstractMethods for the analysis of cell secretions at the single-cell level only provide semiquantitative endpoint readouts. Here we describe a microwell array for the real-time spatiotemporal monitoring of extracellular secretions from hundreds of single cells in parallel. The microwell array incorporates a gold substrate with arrays of nanometric holes functionalized with receptors for a specific analyte, and is illuminated with light spectrally overlapping with the device’s spectrum of extraordinary optical transmission. Spectral shifts in surface plasmon resonance resulting from analyte–receptor bindings around a secreting cell are recorded by a camera as variations in the intensity of the transmitted light while machine-learning-assisted cell tracking eliminates the influence of cell movements. We used the microwell array to characterize the antibody-secretion profiles of hybridoma cells and of a rare subset of antibody-secreting cells sorted from human donor peripheral blood mononuclear cells. High-throughput measurements of spatiotemporal secretory profiles at the single-cell level will aid the study of the physiological mechanisms governing protein secretion.
Fortuitously compatible protein surfaces primed allosteric control in cyanobacterial photoprotection
Authors: Steube Niklas , Moldenhauer Marcus , Weiland Paul , Saman Dominik , Kilb Alexandra , Ramírez Rojas Adán A. , Garg Sriram G. , Schindler Daniel , Graumann Peter L. , Benesch Justin L. P. , Bange Gert , Friedrich Thomas , Hochberg Georg K. A. 
Published: April 2023

AbstractHighly specific interactions between proteins are a fundamental prerequisite for life, but how they evolve remains an unsolved problem. In particular, interactions between initially unrelated proteins require that they evolve matching surfaces. It is unclear whether such surface compatibilities can only be built by selection in small incremental steps, or whether they can also emerge fortuitously. Here, we used molecular phylogenetics, ancestral sequence reconstruction and biophysical characterization of resurrected proteins to retrace the evolution of an allosteric interaction between two proteins that act in the cyanobacterial photoprotection system. We show that this interaction between the orange carotenoid protein (OCP) and its unrelated regulator, the fluorescence recovery protein (FRP), evolved when a precursor of FRP was horizontally acquired by cyanobacteria. FRP’s precursors could already interact with and regulate OCP even before these proteins first encountered each other in an ancestral cyanobacterium. The OCP–FRP interaction exploits an ancient dimer interface in OCP, which also predates the recruitment of FRP into the photoprotection system. Together, our work shows how evolution can fashion complex regulatory systems easily out of pre-existing components.
Multi-proxy constraints on Atlantic circulation dynamics since the last ice age
Authors: Pöppelmeier Frerk , Jeltsch-Thömmes Aurich , Lippold Jörg , Joos Fortunat , Stocker Thomas F. 
Published: April 2023

AbstractUncertainties persist in the understanding of the Atlantic meridional overturning circulation and its response to external perturbations such as freshwater or radiative forcing. Abrupt reduction of the Atlantic circulation is considered a climate tipping point that may have been crossed when Earth’s climate was propelled out of the last ice age. However, the evolution of the circulation since the Last Glacial Maximum (22–18 thousand years ago) remains insufficiently constrained due to model and proxy limitations. Here we leverage information from both a compilation of proxy records that track various aspects of the circulation and climate model simulations to constrain the Atlantic circulation over the past 20,000 years. We find a coherent picture of a shallow and weak Atlantic overturning circulation during the Last Glacial Maximum that reconciles apparently conflicting proxy evidence. Model–data comparison of the last deglaciation—starting from this new, multiple constrained glacial state—indicates a muted response during Heinrich Stadial 1 and that water mass geometry did not fully adjust to the strong reduction in overturning circulation during the comparably short Younger Dryas period. This demonstrates that the relationship between freshwater forcing and Atlantic overturning strength is strongly dependent on the climatic and oceanic background state.
Ectopic expression of a mechanosensitive channel confers spatiotemporal resolution to ultrasound stimulations of neurons for visual restoration
Authors: Cadoni Sara , Demené Charlie , Alcala Ignacio , Provansal Matthieu , Nguyen Diep , Nelidova Dasha , Labernède Guillaume , Lubetzki Jules , Goulet Ruben , Burban Emma , Dégardin Julie , Simonutti Manuel , Gauvain Gregory , Arcizet Fabrice , Marre Olivier , Dalkara Deniz , Roska Botond , Sahel José Alain , Tanter Mickael , Picaud Serge 
Published: April 2023

AbstractRemote and precisely controlled activation of the brain is a fundamental challenge in the development of brain–machine interfaces for neurological treatments. Low-frequency ultrasound stimulation can be used to modulate neuronal activity deep in the brain, especially after expressing ultrasound-sensitive proteins. But so far, no study has described an ultrasound-mediated activation strategy whose spatiotemporal resolution and acoustic intensity are compatible with the mandatory needs of brain–machine interfaces, particularly for visual restoration. Here we combined the expression of large-conductance mechanosensitive ion channels with uncustomary high-frequency ultrasonic stimulation to activate retinal or cortical neurons over millisecond durations at a spatiotemporal resolution and acoustic energy deposit compatible with vision restoration. The in vivo sonogenetic activation of the visual cortex generated a behaviour associated with light perception. Our findings demonstrate that sonogenetics can deliver millisecond pattern presentations via an approach less invasive than current brain–machine interfaces for visual restoration.
Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics
Authors: Huffman R. Gray , Leduc Andrew , Wichmann Christoph , Di Gioia Marco , Borriello Francesco , Specht Harrison , Derks Jason , Khan Saad , Khoury Luke , Emmott Edward , Petelski Aleksandra A. , Perlman David H. , Cox Jürgen , Zanoni Ivan , Slavov Nikolai 
Published: April 2023

AbstractMajor aims of single-cell proteomics include increasing the consistency, sensitivity and depth of protein quantification, especially for proteins and modifications of biological interest. Here, to simultaneously advance all these aims, we developed prioritized Single-Cell ProtEomics (pSCoPE). pSCoPE consistently analyzes thousands of prioritized peptides across all single cells (thus increasing data completeness) while maximizing instrument time spent analyzing identifiable peptides, thus increasing proteome depth. These strategies increased the sensitivity, data completeness and proteome coverage over twofold. The gains enabled quantifying protein variation in untreated and lipopolysaccharide-treated primary macrophages. Within each condition, proteins covaried within functional sets, including phagosome maturation and proton transport, similarly across both treatment conditions. This covariation is coupled to phenotypic variability in endocytic activity. pSCoPE also enabled quantifying proteolytic products, suggesting a gradient of cathepsin activities within a treatment condition. pSCoPE is freely available and widely applicable, especially for analyzing proteins of interest without sacrificing proteome coverage. Support for pSCoPE is available at http://scp.slavovlab.net/pSCoPE.
Hippocampal spatio-predictive cognitive maps adaptively guide reward generalization
Authors: Garvert Mona M. , Saanum Tankred , Schulz Eric , Schuck Nicolas W. , Doeller Christian F. 
Published: April 2023

AbstractThe brain forms cognitive maps of relational knowledge—an organizing principle thought to underlie our ability to generalize and make inferences. However, how can a relevant map be selected in situations where a stimulus is embedded in multiple relational structures? Here, we find that both spatial and predictive cognitive maps influence generalization in a choice task, where spatial location determines reward magnitude. Mirroring behavior, the hippocampus not only builds a map of spatial relationships but also encodes the experienced transition structure. As the task progresses, participants’ choices become more influenced by spatial relationships, reflected in a strengthening of the spatial map and a weakening of the predictive map. This change is driven by orbitofrontal cortex, which represents the degree to which an outcome is consistent with the spatial rather than the predictive map and updates hippocampal representations accordingly. Taken together, this demonstrates how hippocampal cognitive maps are used and updated flexibly for inference.
Reconstruction of incomplete X-ray diffraction pole figures of oligocrystalline materials using deep learning
Authors: Meier David , Ragunathan Rishan , Degener Sebastian , Liehr Alexander , Vollmer Malte , Niendorf Thomas , Sick Bernhard 
Published: April 2023

AbstractX-ray diffraction crystallography allows non-destructive examination of crystal structures. Furthermore, it has low requirements regarding surface preparation, especially compared to electron backscatter diffraction. However, up to now, X-ray diffraction has been highly time-consuming in standard laboratory conditions since intensities on multiple lattice planes have to be recorded by rotating and tilting. Furthermore, examining oligocrystalline materials is challenging due to the limited number of diffraction spots. Moreover, commonly used evaluation methods for crystallographic orientation analysis need multiple lattice planes for a reliable pole figure reconstruction. In this article, we propose a deep-learning-based method for oligocrystalline specimens, i.e., specimens with up to three grains of arbitrary crystal orientations. Our approach allows faster experimentation due to accurate reconstructions of pole figure regions, which we did not probe experimentally. In contrast to other methods, the pole figure is reconstructed based on only a single incomplete pole figure. To speed up the development of our proposed method and for usage in other machine learning algorithms, we introduce a GPU-based simulation for data generation. Furthermore, we present a pole widths standardization technique using a custom deep learning architecture that makes algorithms more robust against influences from the experiment setup and material.
Energy transfer in Carreau Yasuda liquid influenced by engine oil with Magnetic dipole using tri-hybrid nanoparticles
Authors: Bilal Muhammad , Ullah Ikram , Alam Mohammad Mahtab , Shah Syed Irfan , Eldin Sayed M. 
Published: April 2023

AbstractThe aim of the current analysis is to evaluate the significances of magnetic dipole and heat transmission through ternary hybrid Carreau Yasuda nanoliquid flow across a vertical stretching sheet. The ternary compositions of Al2O3, SiO2, and TiO2 nanoparticles (nps) in the Carreau Yasuda fluid are used to prepare the ternary hybrid nanofluid (Thnf). The heat transfer and velocity are observed in context of heat source/sink and Darcy Forchhemier effect. Mathematically, the flow scenario has been expressed in form of the nonlinear system of PDEs for fluid velocity and energy propagation. The obtained set of PDEs are transform into ODEs through suitable replacements. The obtained dimensionless equations are computationally solved with the help of the parametric continuation method. It has been observed that the accumulation of Al2O3, SiO2 and TiO2-nps to the engine oil, improves the energy and momentum profiles. Furthermore, as compared to nanofluid and hybrid nanofluid, ternary hybrid nanofluid have a greater tendency to boost the thermal energy transfer. The fluid velocity lowers with the outcome of the ferrohydrodynamic interaction term, while enhances with the inclusion of nano particulates (Al2O3, SiO2 and TiO2).
The immune cell landscape and response of Marek’s disease resistant and susceptible chickens infected with Marek’s disease virus
Authors: Warren Wesley C. , Rice Edward S. , Meyer Ashley , Hearn Cari J. , Steep Alec , Hunt Henry D. , Monson Melissa S. , Lamont Susan J. , Cheng Hans H. 
Published: April 2023

AbstractGenetically resistant or susceptible chickens to Marek’s disease (MD) have been widely used models to identify the molecular determinants of these phenotypes. However, these prior studies lacked the basic identification and understanding of immune cell types that could be translated toward improved MD control. To gain insights into specific immune cell types and their responses to Marek’s disease virus (MDV) infection, we used single-cell RNA sequencing (scRNAseq) on splenic cells from MD resistant and susceptible birds. In total, 14,378 cells formed clusters that identified various immune cell types. Lymphocytes, specifically T cell subtypes, were the most abundant with significant proportional changes in some subtypes upon infection. The largest number of differentially expressed genes (DEG) response was seen in granulocytes, while macrophage DEGs differed in directionality by subtype and line. Among the most DEG in almost all immune cell types were granzyme and granulysin, both associated with cell-perforating processes. Protein interactive network analyses revealed multiple overlapping canonical pathways within both lymphoid and myeloid cell lineages. This initial estimation of the chicken immune cell type landscape and its accompanying response will greatly aid efforts in identifying specific cell types and improving our knowledge of host response to viral infection.
Photosynthetic efficiency of perennial ryegrass (Lolium perenne L.) seedlings in response to Ni and Cd stress
Authors: Dąbrowski Piotr , Keutgen Anna Jadwiga , Keutgen Norbert , Sierka Edyta , Baczewska-Dąbrowska Aneta Helena , Mojski Jacek , Pawluśkiewicz Bogumiła , Sieczko Leszek , Kalaji Hazem M. 
Published: April 2023

AbstractPerennial ryegrass is a grass species used to establish lawns in urban areas where pollution is a major environmental problems. Cadmium (Cd) and nickel (Ni) contribute significantly to these pollutants and may cause photosynthetic limitation. The main objective of this work was to perform a comprehensive analysis of photosynthetic efficiency of perennial ryegrass seedlings under Cd and Ni stress. Some of the main indices of photosynthetic efficiency (prompt and delayed chlorophyll-a fluorescence signals and modulated reflectance at 820 nm) were compared with growth parameters. Two cultivars were tested: 'Niga' and 'Nira'. A decrease in photosystem (PS) II and PSI activity was observed. This was due to an increase in nonradiative dissipation of the PSII antenna, a decrease in PSII antenna size, or a decrease in the number of photosynthetic complexes with fully closed PSII RCs. Efficiency of electron transport was decreased. The effect on the modulated reflectance signal could indicate a restriction in electron flow from PSII to PSI. The correlation between photosynthetic efficiency parameters, such as Area, Fo, Fm, and Fv, and growth parameters, confirmed that some photosynthetic efficiency parameters can be used as indicators for early detection of heavy metal effects.
A novel method for ZnO@NiO core–shell nanoparticle synthesis using pulse laser ablation in liquid and plasma jet techniques
Authors: Imran Hadeel J. , Hubeatir Kadhim A. , Aadim Kadhim A. 
Published: April 2023

AbstractGiven their versatile nature and wide range of possible applications, core–shell nanoparticles (NPs) have received considerable attention. This paper proposes a novel method for synthesizing ZnO@NiO core–shell nanoparticles using a hybrid technique. The characterization demonstrates the successful formation of ZnO@NiO core–shell nanoparticles, which have an average crystal size of 13.059 nm. The results indicate that the prepared NPs have excellent antibacterial activity against both Gram-negative and Gram-positive bacteria. This behavior is primarily caused by the accumulation of ZnO@NiO NPs on the bacteria's surface, which results in cytotoxic bacteria and a relatively increased ZnO, resulting in cell death. Moreover, the use of a ZnO@NiO core–shell material will prevent the bacteria from nourishing themselves in the culture medium, among many other reasons. Finally, the PLAL is an easily scalable, cost-effective, and environmentally friendly method for the synthesis of NPs, and the prepared core–shell NPs could be used in other biological applications such as drug delivery, cancer treatment, and further biomedical functionalization.
Computational framework of cobalt ferrite and silver-based hybrid nanofluid over a rotating disk and cone: a comparative study
Authors: Farooq Umar , Waqas Hassan , Fatima Nahid , Imran Muhammad , Noreen Sobia , Bariq Abdul , Akgül Ali , Galal Ahmed M. 
Published: April 2023

AbstractThe dominant characteristics of hybrid nanofluids, including rapid heat transfer rates, superior electrical and thermal conductivity, and low cost, have effectively piqued the interest of global researchers. The current study will look at the impacts of a silver and cobalt ferrite-based hybrid nanofluid with MHD between a revolving disk and cone. The collection of partial differentiable equations is converted into a set of ODEs via similarity transformations. We used the Homotopy analysis approach from the BVPh 2.0 package to solve the ordinary differential equations. The volume proportion of nanoparticles increases and the temperature distribution profile also increased. It is more efficient for metallurgical, medicinal, and electrical applications. Furthermore, the antibacterial capabilities of silver nanoparticles might be used to restrict the growth of bacteria. A circulating disc with a stationary cone has been identified to provide the optimal cooling of the cone disc device while maintaining the outer edge temperature constant. This study's findings might be useful in materials science and engineering. The usage of hybrid nanofluid in heat transfer and heat pumps, coolants in manufacturing and production, producing cooling, refrigerators, solar thermal collectors, and heating, air conditioning, and climate control applications are only a few examples.
Systematic pan-cancer analysis identifies SLC35C1 as an immunological and prognostic biomarker
Authors: Xie Mingchen , Wang Fuxu , Chen Bing , Wu Zeyu , Chen Ci , Xu Jian 
Published: April 2023

AbstractGDP-amylose transporter protein 1 (SLC35C1) plays an important role in many types of cancer. Therefore, it is clinically important to further investigate the expression profile of SLC35C1 in human tumors to provide new molecular clues for the pathogenesis of glioma. In this study, we performed a comprehensive pan-cancer analysis of SLC35C1 using a series of bioinformatics approaches and validated its differential tissue expression and biological function. The results showed that SLC35C1 was aberrantly expressed in different types of tumors and significantly correlated with overall survival (OS) and progression-free interval (PFI). More importantly, the expression level of SLC35C1 was closely correlated with Tumor Microenvironment (TME), immune infiltration and immune-related genes. In addition, we found that SLC35C1 expression was also closely related to Tumor Mutation Burden (TMB), Microsatellite Instability (MSI) and antitumor drug sensitivity in various cancer types. Functional bioinformatics analysis indicated that SLC35C1 may be involved in multiple signaling pathways and biological processes in glioma. Based on SLC35C1 expression, a risk factor model was found to predict OS of glioma. In addition, in vitro experiments showed that SLC35C1 knockdown significantly inhibited the proliferation, migration and invasive ability of glioma cells, while SLC35C1 overexpression promoted proliferation, migration, invasion and colony formation of glioma cells. Finally, quantitative real-time PCR confirmed that SLC35C1 was highly expressed in gliomas.
Characteristics and response of subretinal hyperreflective material to anti-vascular endothelial growth factor in myopic choroidal neovascularization
Authors: Huang Chien-Jung , Hsia Yun , Wang Shih-Wen , Ma I.-Hsin , Tsui Mei-Chi , Hung Kuo-Chi , Ho Tzyy-Chang 
Published: April 2023

AbstractThis retrospective study evaluated the characteristics and response of subretinal hyperreflective material (SHRM) to anti-vascular endothelial growth factor (VEGF) treatment in eyes with myopic choroidal neovascularization (CNV). The visual acuity (VA) was assessed at 3, 6, and 12 months after initiating anti-VEGF treatment in 116 patients (119 eyes) with SHRM and myopic CNV. Multimodal imaging, including color fundus photography, fluorescein angiography (FA), and optical coherence tomography angiography (OCT-A), were performed. We compared type 2 neovascularization (NV) (n = 64), subretinal hyperreflective exudation (SHE) (n = 37), NV with hemorrhage (n = 15), and fibrosis (n = 3). The type 2 NV group, and NV with hemorrhage groups showed significant VA improvement after 12 months of treatment (p < 0.05 in both groups); the SHE group failed to show improvement (p = 0.366). All groups showed a significant reduction in central foveal thickness after 12 months of treatment (all p < 0.05). The SHE group had a significantly higher incidence of interrupted ellipsoid zone than the other groups (p < 0.05). Myopic CNV can present as SHRM on OCT-A. Visual prognoses vary in different SHRM types. OCT-A and FA may help predict the outcomes of different subtypes of myopic CNV. SHE is predictive of outer retinal layer atrophy in patients with various SHRM types.