bluuebunny/crossref_metadata_2025_split huggingface dataset:
An intense narrow equatorial jet in Jupiter’s lower stratosphere observed by JWST
Authors: Hueso Ricardo , Sánchez-Lavega Agustín , Fouchet Thierry , de Pater Imke , Antuñano Arrate , Fletcher Leigh N. , Wong Michael H. , Rodríguez-Ovalle Pablo , Sromovsky Lawrence A. , Fry Patrick M. , Orton Glenn S. , Guerlet Sandrine , Irwin Patrick G. J. , Lellouch Emmanuel , Harkett Jake , de Kleer Katherine , Melin Henrik , Hue Vincent , Simon Amy A. , Luszcz-Cook Statia , Sayanagi Kunio M. 
Published: October 2023

AbstractThe atmosphere of Jupiter has east–west zonal jets that alternate as a function of latitude as tracked by cloud motions at tropospheric levels. Above and below the cold tropopause at ~100 mbar, the equatorial atmosphere is covered by hazes at levels where thermal infrared observations used to characterize the dynamics of the stratosphere lose part of their sensitivity. James Webb Space Telescope observations of Jupiter in July 2022 show these hazes in higher detail than ever before and reveal the presence of an intense (140 m s−1) equatorial jet at 100–200 mbar (70 m s−1 faster than the zonal winds at the cloud level) that is confined to ±3° of the equator and is located below stratospheric thermal oscillations that extend at least from 0.1 to 40 mbar and repeat in multiyear cycles. This suggests that the new jet is a deep part of Jupiter’s Equatorial Stratospheric Oscillation and may therefore vary in strength over time.
Freshwater fish diversity in the western Amazon basin shaped by Andean uplift since the Late Cretaceous
Authors: Boschman Lydian M. , Carraro Luca , Cassemiro Fernanda A. S. , de Vries Jorad , Altermatt Florian , Hagen Oskar , Hoorn Carina , Pellissier Loïc 
Published: October 2023

AbstractSouth America is home to the highest freshwater fish biodiversity on Earth, and the hotspot of species richness is located in the western Amazon basin. The location of this hotspot is enigmatic, as it is inconsistent with the pattern observed in river systems across the world of increasing species richness towards a river’s mouth. Here we investigate the role of river capture events caused by Andean mountain building and repeated episodes of flooding in western Amazonia in shaping the modern-day richness pattern of freshwater fishes in South America, and in Amazonia in particular. To this end, we combine a reconstruction of river networks since 80 Ma with a mechanistic model simulating dispersal, allopatric speciation and extinction over the dynamic landscape of rivers and lakes. We show that Andean mountain building and consequent numerous small river capture events in western Amazonia caused freshwater habitats to be highly dynamic, leading to high diversification rates and exceptional richness. The history of marine incursions and lakes, including the Miocene Pebas mega-wetland system in western Amazonia, played a secondary role.
A comparison of neuroelectrophysiology databases
Authors: Subash Priyanka , Gray Alex , Boswell Misque , Cohen Samantha L. , Garner Rachael , Salehi Sana , Fisher Calvary , Hobel Samuel , Ghosh Satrajit , Halchenko Yaroslav , Dichter Benjamin , Poldrack Russell A. , Markiewicz Chris , Hermes Dora , Delorme Arnaud , Makeig Scott , Behan Brendan , Sparks Alana , Arnott Stephen R , Wang Zhengjia , Magnotti John , Beauchamp Michael S. , Pouratian Nader , Toga Arthur W. , Duncan Dominique 
Published: October 2023

AbstractAs data sharing has become more prevalent, three pillars - archives, standards, and analysis tools - have emerged as critical components in facilitating effective data sharing and collaboration. This paper compares four freely available intracranial neuroelectrophysiology data repositories: Data Archive for the BRAIN Initiative (DABI), Distributed Archives for Neurophysiology Data Integration (DANDI), OpenNeuro, and Brain-CODE. The aim of this review is to describe archives that provide researchers with tools to store, share, and reanalyze both human and non-human neurophysiology data based on criteria that are of interest to the neuroscientific community. The Brain Imaging Data Structure (BIDS) and Neurodata Without Borders (NWB) are utilized by these archives to make data more accessible to researchers by implementing a common standard. As the necessity for integrating large-scale analysis into data repository platforms continues to grow within the neuroscientific community, this article will highlight the various analytical and customizable tools developed within the chosen archives that may advance the field of neuroinformatics.
Europe PMC annotated full-text corpus for gene/proteins, diseases and organisms
Authors: Yang Xiao , Saha Shyamasree , Venkatesan Aravind , Tirunagari Santosh , Vartak Vid , McEntyre Johanna 
Published: October 2023

AbstractNamed entity recognition (NER) is a widely used text-mining and natural language processing (NLP) subtask. In recent years, deep learning methods have superseded traditional dictionary- and rule-based NER approaches. A high-quality dataset is essential to fully leverage recent deep learning advancements. While several gold-standard corpora for biomedical entities in abstracts exist, only a few are based on full-text research articles. The Europe PMC literature database routinely annotates Gene/Proteins, Diseases, and Organisms entities. To transition this pipeline from a dictionary-based to a machine learning-based approach, we have developed a human-annotated full-text corpus for these entities, comprising 300 full-text open-access research articles. Over 72,000 mentions of biomedical concepts have been identified within approximately 114,000 sentences. This article describes the corpus and details how to access and reuse this open community resource.
Observed increases in North Atlantic tropical cyclone peak intensification rates
Authors: Garner Andra J. 
Published: October 2023

AbstractQuickly intensifying tropical cyclones (TCs) are exceptionally hazardous for Atlantic coastlines. An analysis of observed maximum changes in wind speed for Atlantic TCs from 1971 to 2020 indicates that TC intensification rates have already changed as anthropogenic greenhouse gas emissions have warmed the planet and oceans. Mean maximum TC intensification rates are up to 28.7% greater in a modern era (2001–2020) compared to a historical era (1971–1990). In the modern era, it is about as likely for TCs to intensify by at least 50 kts in 24 h, and more likely for TCs to intensify by at least 20 kts within 24 h than it was for TCs to intensify by these amounts in 36 h in the historical era. Finally, the number of TCs that intensify from a Category 1 hurricane (or weaker) into a major hurricane within 36 h has more than doubled in the modern era relative to the historical era. Significance tests suggest that it would have been statistically impossible to observe the number of TCs that intensified in this way during the modern era if rates of intensification had not changed from the historical era.
Privately vertically mining of sequential patterns based on differential privacy with high efficiency and utility
Authors: Liang Wenjuan , Zhang Wenke , Liang Songtao , Yuan Caihong 
Published: October 2023

AbstractSequential pattern mining is one of the fundamental tools for many important data analysis tasks, such as web browsing behavior analysis. Based on frequent patterns, decision-makers can obtain both economic gains and social values. Sequential data, on the other hand, frequently contain sensitive information, and directly analyzing these data will raise user concerns from a privacy perspective. Differential privacy (DP), as the most popular privacy model, has been employed to address this privacy concern. Most existing DP-Solutions are designed to combine horizontal sequence pattern mining algorithms with differential privacy. Due to the inefficiency of horizontal algorithms, their DP-Solutions cannot ensure high efficiency and accuracy while offering a high privacy guarantee. Therefore, we proposed privVertical, a new private sequence pattern mining scheme combining the vertical mining algorithm with differential privacy to achieve the above objective. Unlike DP-solutions based on horizontal algorithms, privVertical can promote efficiency by avoiding performing costly database scans or costly projection database constructions. Moreover, to promote accuracy, a differentially private hash MapList (called privHashMap) is designed to record frequent concurrency items and their noisy support based on the Sparse Vector Technique. PrivHashMap is used to pre-pruning excessive infrequent candidate sequences in private mining, and Sparse Vector Technique is used to promote the accuracy of PrivHashMap. After pruning these invalid candidate sequences, less noise is required to achieve the same level of privacy, increasing the accuracy of private mining. Theoretical privacy analysis proves privVertical satisfies $$\varepsilon$$
ε
-differential privacy. Experiments show that privVertical achieves higher accuracy and efficiency while achieving the same privacy level.
Comparison of early and late 68Ga-FAPI-46-PET in 33 patients with possible recurrence of pancreatic ductal adenocarcinomas
Authors: Hoppner Jorge , van Genabith Levin , Hielscher Thomas , Heger Ulrike , Sperling Lucas , Colbatzky Teresa , Gutjahr Ewgenija , Lang Matthias , Pausch Thomas , Spektor Anna-Maria , Glatting Frederik M. , Liermann Jakob , Hackert Thilo , Kratochwil Clemens , Giesel Frederik L. , Haberkorn Uwe , Röhrich Manuel 
Published: October 2023

AbstractPositron emission tomography with 68Gallium (68Ga) labeled inhibitors of fibroblast activation protein (68Ga-FAPI-PET) is a promising imaging technique for patients with recurrent pancreatic ductal adenocarcinomas (PDAC). To date, it is not clear if different acquisition timepoints for 68Ga-FAPI-PET may result in comparable imaging information and if repetitive 68Ga-FAPI-PET imaging may add diagnostic value to single timepoint acquisition for recurrent PDAC. Here we analyzed retrospectively early (20 min p.i.) and late (60 min p.i.) 68Ga-FAPI-PET imaging using FAPI-46 of 33 patients with possible recurrence of PDAC concerning detection rates and uptake over time of local recurrences, metastases, inflammatory lesions of the pancreas, cholestatic lesions of the liver and reactive tissue. 33 patients with histologically confirmed PDAC after complete or partial resection of the pancreas and possible recurrence were examined by 68Ga-FAPI-46-PET acquired 20- and 60-min post injection (p.i.) of the radiotracer. FAPI-positive lesions were classified as local recurrences, metastases, inflammatory lesions of the pancreas (ILP), cholestatic lesions of the liver and reactive tissue based on histology, PET- and CT-morphology and clinical information. Lesions were contoured, and standardized uptake values (SUVmax and SUVmean) and target-to-background ratios (TBR) were analyzed for both acquisition timepoints. In total, 152 FAPI-positive lesions (22 local relapses, 47 metastases, 26 inflammatory lesions of the pancreas, 28 reactive tissues, and 29 cholestatic lesions) were detected. Detection rates for the early and late acquisition of 68Ga-FAPI-46-PET were almost identical except cholestatic lesions, which showed a higher detection rate at early imaging. SUV parameters and TBRs of ILP significantly decreased over time. Cholestatic lesions showed a tendency towards decreasing uptake. All other types of lesions showed relatively stable uptake over time. Early and late acquisition of 68Ga-FAPI-PET results in comparable imaging information in patients with possible recurrence of PDAC. Two timepoint imaging offers additional diagnostic potential concerning differential diagnoses.
Tuning aminopolycarboxylate chelators for efficient complexation of trivalent actinides
Authors: Pilgrim Corey D. , Grimes Travis S. , Smith Clayn , Heathman Colt R. , Mathew Jopaul , Jansone-Popova Santa , Roy Santanu , Ray Debmalya , Bryantsev Vyacheslav S. , Zalupski Peter R. 
Published: October 2023

AbstractThe complexation of trivalent lanthanides and minor actinides (Am3+, Cm3+, and Cf3+) by the acyclic aminopolycarboxylate chelators 6,6′-((ethane-1,2-diylbis–((carboxymethyl)azanediyl))bis–(methylene))dipicolinic acid (H4octapa) and 6,6'-((((4-(1-(2-(2-(2-hydroxyethoxy)ethoxy)ethyl)-1H-1,2,3-triazol-4-yl)pyridine-2,6-diyl)bis–(methylene))bis–((carboxymethyl)azanediyl))bis–(methylene)) dipicolinic acid (H4pypa-peg) were studied using potentiometry, spectroscopy, competitive complexation liquid–liquid extraction, and ab initio molecular dynamics simulations. Two studied reagents are strong multidentate chelators, well-suited for applications seeking radiometal coordination for in-vivo delivery and f-element isolation. The previously reported H4octapa forms a compact coordination packet, while H4pypa-peg is less sterically constrained due to the presence of central pyridine ring. The solubility of H4octapa is limited in a non-complexing high ionic strength perchlorate media. However, the introduction of a polyethylene glycol group in H4pypa-peg increased the solubility without influencing its ability to complex the lanthanides and minor actinides in solution.
Novel approach toward the understanding of genetic diversity based on the two types of amino acid repeats in Erwinia amylovora
Authors: Ham Hyeonheui , Park Dong Suk 
Published: October 2023

AbstractErwinia amylovora is a notorious plant pathogenic bacterium of global concern that has devastated the apple and pear production industry worldwide. Nevertheless, the approaches available currently to understand the genetic diversity of E. amylovora remain unsatisfactory because of the lack of a trustworthy index and data covering the globally occurring E. amylovora strains; thus, their origin and distribution pattern remains ambiguous. Therefore, there is a growing need for robust approaches for obtaining this information via the comparison of the genomic structure of Amygdaloideae-infecting strains to understand their genetic diversity and distribution. Here, the whole-genome sequences of 245 E. amylovora strains available from the NCBI database were compared to identify intraspecific genes for use as an improved index for the simple classification of E. amylovora strains regarding their distribution. Finally, we discovered two kinds of strain-typing protein-encoding genes, i.e., the SAM-dependent methyltransferase and electron transport complex subunit RsxC. Interestingly, both of these proteins carried an amino acid repeat in these strains: SAM-dependent methyltransferase comprised a single-amino-acid repeat (asparagine), whereas RsxC carried a 40-amino-acid repeat, which was differentially distributed among the strains. These noteworthy findings and approaches may enable the exploration of the genetic diversity of E. amylovora from a global perspective.
Tamm–Horsfall protein in humane urine: sex-dependent differences in the excretion and N-glycosylation pattern
Authors: Mo Boris , Scharf Birte , Gutheil Christian , Letzel Matthias C. , Hensel Andreas 
Published: October 2023

AbstractTamm–Horsfall protein (THP) is a highly N-glycosylated protein from epithelial cells of the ascending limb of Henle loop. It is secreted into the urine as part of the innate immune response against uropathogenic pathogens. As women are more likely to suffer from urinary tract infections, biomedical studies were conducted to investigate sex-differences in THP excretion, as well as differences in the THP N-glycosylation pattern. A total of 238 volunteers (92 men, 146 women, 69 with hormonal contraceptives) participated in this study, providing urine samples. Women showed a clear tendency to have higher THP concentration and excretion rates than men (p < 0.16). Regular intake of hormonal contraceptives had no significant influence on urinary THP concentration compared to no regular intake. The individual N-glycosylation pattern of THP in urine samples from randomly selected individuals (10 female, 10 male) was investigated after enzymatic release and MS analysis of the oligosaccharides. Female subjects tended to have an increased proportion of oligomannose type N-glycans and non-fucosylated glycans, whereas men had an increased proportion of fucosylated complex-type glycans. The higher level of oligomannose-type glycans in THP from women might be explained by a self-defence mechanism to overcome the higher infections pressure by the female anatomical properties.
Nucleus-forming vibriophage cocktail reduces shrimp mortality in the presence of pathogenic bacteria
Authors: Thammatinna Khrongkhwan , Sinprasertporn Ammara , Naknaen Ampapan , Samernate Thanadon , Nuanpirom Jiratchaya , Chanwong Parinda , Somboonwiwat Kunlaya , Pogliano Joe , Sathapondecha Ponsit , Thawonsuwan Jumroensri , Nonejuie Poochit , Chaikeeratisak Vorrapon 
Published: October 2023

AbstractThe global aquaculture industry has suffered significant losses due to the outbreak of Acute Hepatopancreatic Necrosis Disease (AHPND) caused byVibrio parahaemolyticus. Since the use of antibiotics as control agents has not been shown to be effective, an alternative anti-infective regimen, such as phage therapy, has been proposed. Here, we employed high-throughput screening for potential phages from 98 seawater samples and obtained 14 phages exhibiting diverse host specificity patterns against pathogenic VPAHPNDstrains. Among others, twoChimallinviridaephages, designated Eric and Ariel, exhibited the widest host spectrum against vibrios. In vitro and in vivo studies revealed that a cocktail derived from these two nucleus-forming vibriophages prolonged the bacterial regrowth of various pathogenic VPAHPNDstrains and reduced shrimp mortality from VPAHPNDinfection. This research highlights the use of high-throughput phage screening that leads to the formulation of a nucleus-forming phage cocktail applicable for bacterial infection treatment in aquaculture.
Magnetically retrievable nanocatalyst Fe3O4@CPTMO@dithizone-Ni for the fabrication of 4H-benzo[h]chromenes under green medium
Authors: Bibak Sepideh , Poursattar Marjani Ahmad 
Published: October 2023

AbstractIn the research, the core–shell procedure synthesized a novel magnetically separable heterogeneous nanocatalyst with high stability named Fe3O4@CPTMO@dithizone-Ni. In this method, Fe3O4 was modified as a magnetic core using surfactant (SDS) and polyethylene glycol (PEG) coating; after functionalizing the magnetic nanoparticles with 3-chloropropyl-tri-methoxysilane and dithizone, Ni metal was immobilized. The prepared catalyst was identified and specified utilizing diverse physicochemical techniques involving FT-IR, XRD, SEM, EMA, BET, ICP, EDS, TGA, Raman, and TEM. In the following, to vouch for the efficiency of the obtaining catalyst for the green synthesis of 4H-benzo[h]chromenes utilizing the three-component, one-pot condensation reaction of α-naphthol, aryl glyoxal, and malononitrile as precursors were evaluated. The catalyst exhibited high recyclability with a slight reduction in activity at least eight series without a substantial decrease in stability and efficiency. The synthesized nanocatalyst was evaluated in various conditions such as different solvents, etc. the best of these conditions is the initial concentration of 30 mg of nanocatalyst with water as a solvent in 3 min with 98% yield. The prominent merits of the present research include easy separation of the catalyst without centrifugation, high-accessible raw precursors, cost-effectiveness, environmental friendliness, green reaction status, quick reaction, and excellent product yields.
New design of high-power in-motion inductive charger for low power pulsation
Authors: Shaier Ahmed A. , Mohamed Ahmed A. S. , Metwally Hamid , Selem Sameh I. 
Published: October 2023

AbstractThe magnetic coupler is the most vital component for charging EV wirelessly. Through it, the output power can be transported from the transmitter to the receiver by means of electromagnetic fields. Therefore, this manuscript presents a proposed design of a magnetic coupler in the form of Double-D (DD) on both sides, which is suitable for in-motion inductive charging. This charger is capable of transferring power of 200-kW through an airgap of 250 mm with an efficiency of 91.88% and an operating frequency of 85 kHz. Computational modeling is conducted to obtain the magnetic coupler and the compensation parameters of the proposed system. The appropriate dimensions of the coils, magnetic and metallic shielding are obtained by using the finite element model (FEM). The effect of misalignments on the self and mutual inductances of the two coils (Lp, Ls, M), the output power (Po), and the transmission efficiency (η) is studied in case of one and two coils at transmitter side. The output power in the distance between the two transmitter coils (d) is improved by controlling the operating frequency, adding magnetizable concrete (MC), or both together. These techniques have proven effectiveness in improving the output power by 45.15% for small d and 72.51% for large d. In addition, the efficiency improved by 15.95% for small d and 60.76% for large d. Moreover, these improvement cases were compared in terms of size, weight and cost for a 100-m driving track.
Biochemical and structural basis of mercuric reductase, GbsMerA, from Gelidibacter salicanalis PAMC21136
Authors: Pardhe Bashu Dev , Lee Min Ju , Lee Jun Hyuck , Do Hackwon , Oh Tae-Jin 
Published: October 2023

AbstractHeavy metals, including mercury, are non-biodegradable and highly toxic to microorganisms even at low concentrations. Understanding the mechanisms underlying the environmental adaptability of microorganisms with Hg resistance holds promise for their use in Hg bioremediation. We characterizedGbsMerA, a mercury reductase belonging to the mercury-resistant operon ofGelidibacter salicanalisPAMC21136, and found its maximum activity of 474.7 µmol/min/mg in reducing Hg+2. In the presence of Ag and Mn, the enzyme exhibited moderate activity as 236.5 µmol/min/mg and 69 µmol/min/mg, respectively.GbsMerA exhibited optimal activity at pH 7.0 and a temperature of 60 °C. Moreover, the crystal structure ofGbsMerA and structural comparison with homologues indicated thatGbsMerA contains residues, Tyr437´ and Asp47, which may be responsible for metal transfer at thesi-face by providing a hydroxyl group (−OH) to abstract a proton from the thiol group of cysteine. The complex structure with NADPH indicated that Y174 in there-face can change its side chain direction upon NADPH binding, indicating that Y174 may have a role as a gate for NADPH binding. Moreover, the heterologous host expressingGbsMerA (pGbsMerA) is more resistant to Hg toxicity when compared to the host lackingGbsMerA. Overall, this study provides a background for understanding the catalytic mechanism and Hg detoxification byGbsMerA and suggests the application of genetically engineeredE. colistrains for environmental Hg removal.