bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysing food groups and nutrient intake in adults who met and did not meet the daily recommended vegetable intake of 350 g: the 2016 National Health and Nutrition Survey in Japan
Authors: Yuan Xiaoyi , Tajima Ryoko , Matsumoto Mai , Fujiwara Aya , Aoyama Tomoko , Okada Chika , Okada Emiko , Takimoto Hidemi 
Published: March 2024

Abstract
This study aimed to compare the differences in the intake of food groups and nutrients between Japanese adults who consumed the recommended daily vegetable intake (350 g/day) and those who did not. Dietary information was obtained from one-day dietary records collected from the 2016 National Health and Nutrition Survey, which was conducted in 46 prefectures in Japan. The participants aged ≥20 years (n = 21,606; 53.8% women) were classified into the < and ≥350 g/day groups. Inter-group differences for 17 food groups and 27 nutrients were assessed as percentages of consumers (food groups only) and energy-adjusted intake (units/MJ/d or % of total energy intake). Overall, 29% of participants consumed ≥350 g/day of vegetables. The ≥350 g/day group had a higher percentage of consumers and energy-adjusted intakes for all vegetable subgroups than the <350 g/day group. For other food groups, the ≥350 g/day group had higher percentages of consumers for all food groups, except for cereals, eggs, and condiments and seasonings, which showed no significant differences. However, the ≥350 g/day group had a significantly higher energy-adjusted intake for potatoes and other tubers, mushrooms, meats, and condiments and seasonings but a significantly lower value for cereals, eggs, savoury snacks and confectionaries, and beverages. The ≥350 g/day group had a significantly higher intake of almost all (25/27) nutrients, including sodium, than the <350 g/day group. Participants with vegetable intake ≥350 g/day might have a more favourable intake of food groups and nutrients; however, watching for salt intake is necessary when promoting vegetable intake.
Otogenic brain complications: a systematic review and meta-analysis
Authors: Gkrinia Eleni , Brotis Alexandros G , Vallianou Kyriaki , Ntziovara Anna Maria , Hajiioannou Jiannis 
Published: March 2024

AbstractObjectiveThis study aimed to form astute deductions regarding the presentation, treatment and mortality of otogenic brain complications.MethodsA systematic literature search of four medical databases (PubMed, Embase, Web of Science and Scopus) was conducted. Studies associated with otogenic brain complications were considered eligible. Fixed- and random-effects model meta-analysis was developed to assess the proportion estimate for each outcome individually.ResultsTwenty-eight studies, with 1650 patients in total, were included. In 66 per cent of patients there was a known history of chronic otitis media. The most common symptoms were purulent otorrhoea (84 per cent), headache (65 per cent) and otalgia (45 per cent). A brain abscess was observed in 49 per cent of patients, followed by meningitis (34 per cent) and sinus thrombosis (22 per cent). A combination of surgical and conservative therapy was chosen in 84.3 per cent of cases and the mortality rate approached 11.1 per cent.ConclusionOtogenic brain complications are a possibly life-threatening condition. Prompt imaging examination may set the final diagnosis and lead to an effective treatment.
Integrative research of Mediterranean climate regions: a global call to action
Authors: Arranz Ignasi , Batllori Enric , Linares Cristina , Ripple William J. , Bonada Núria 
Published: March 2024

SummaryMediterranean climate regions (hereafter ‘Med-regions’) cover small areas globally but harbour a wide diversity of ecosystems that are under serious threat due to current global climate change. Despite intensive research and conservation efforts in freshwater, marine and terrestrial ecosystems to prevent the consequences of habitat fragmentation, overfishing and changes in fire regimes and heatwaves, there is still no global consensus on how to conserve and manage Med-region ecosystems. We define integrative research as an interdisciplinary approach with common concepts and metrics enabling a better understanding of the general mechanisms underlying ecosystems. Building upon existing literature that promotes integrative research in Med-region ecosystems, we advocate for a more integrative approach that takes into consideration cross-ecosystem generalities and common resilience mechanisms. We propose examples of potential studies for implementing such integrative research, including: (1) integrative research across ecosystems; (2) integrative research across Med-regions; and (3) integrative research across political boundaries. We then offer recommendations for promoting integrative studies, including leveraging biodiversity data, establishing working groups in research syntheses and testing theoretical frameworks. Promoting integrative research in Med-regions would enable and facilitate the roadmap towards a better understanding of Med-region ecosystems’ responses to natural and anthropogenic disturbances and the identification of ecological baselines. We seek to foster future research synergies to identify tipping points across ecosystems and aid in determining desired future conditions in Med-regions globally.
Genetic and phenotypic evidence of the predictive validity of preschool parent reports of hyperactivity/impulsivity and inattention
Authors: Dionne Ginette , Mascheretti Sara , Feng Bei , Paradis Hélène , Brendgen Mara , Vitaro Frank , Tremblay Richard , Boivin Michel 
Published: March 2024

Abstract
To determine the validity of parent reports (PRs) of ADHD in preschoolers, we assessed hyperactivity/impulsivity (HI) and inattention (IN) in 1114 twins with PRs at 1.5, 2.5, 4, 5, 14, 15, and 17 years, and teacher-reports at 6, 7, 9, 10, and 12. We examined if preschool PRs (1) predict high HI/IN trajectories, and (2) capture genetic contributions to HI/IN into adolescence. Group-based trajectory analyses identified three 6–17 years trajectories for both HI and IN, including small groups with high HI (N = 88, 10.4%, 77% boys) and IN (N = 158, 17.3%, 75% boys). Controlling for sex, each unit of HI PRs starting at 1.5 years and at 4 years for IN, increased more than 2-fold the risk of belonging to the high trajectory, with incremental contributions (Odds Ratios = 2.5–4.5) at subsequent ages. Quantitative genetic analyses showed that genetic contributions underlying preschool PRs accounted for up to a quarter and a third of the heritability of later HI and IN, respectively. Genes underlying 1.5-year HI and 4-year IN contributed to 6 of 8 later HI and IN time-points and largely explained the corresponding phenotypic correlations. Results provide phenotypic and genetic evidence that preschool parent reports of HI and IN are valid means to predict developmental risk of ADHD.
The credit-augmented Divisia aggregates and the monetary business cycle
Authors: Serletis Apostolos , Xu Libo 
Published: March 2024

Abstract
We follow Belongia and Ireland (2021) and investigate the role that the Center for Financial Stability credit card-augmented Divisia monetary aggregates could play in monetary policy and business cycle analysis. We use Bayesian methods to estimate a structural VAR under priors that reflect Keynesian channels of monetary transmission, but produce posterior distributions for the structural parameters consistent with classical channels. We also find that valuable information is contained in the credit-augmented Divisia monetary aggregates and that they perform even better than the conventional Divisia aggregates, in terms of highlighting the role of the money supply in aggregate demand.
Magma Evolution During Main‐Phase Continental Flood Basalt Volcanism: A Case for Recharge‐Evacuation‐Assimilation‐Fractional Crystallization in the Ethiopian Low‐Ti Province
Authors: Krans S. R. , Rooney T. O. , Kappelman J. W. , Yirgu G. , Ayalew D. 
Published: March 2024

AbstractLavas erupted in Continental Flood Basalt (CFB) provinces are not primary magmas; they are differentiated products that result from large volumes of melt migrating and stalling in the lithosphere prior to eruption, resulting in complex liquid lines of descent. Geochemical models can be used to constrain the various influencers of magma differentiation (recharge, assimilation, fractional crystallization (FC), eruption, and mixing). Temporal constraints for changes in plumbing system dynamics are recorded in the petrography and stratigraphy of the erupted lava flows. This study focuses on the flow‐stratigraphy preserved within the Oligocene Ethiopian low‐Ti flood basalt province, located on the NW Ethiopian Plateau. We present new bulk rock geochemistry from 107 lavas and interpret these data within a petrostratigraphic framework. Our model results suggest that both a deep (∼0.6 GPa) and shallow (<0.2 GPa) magmatic system are active throughout the main phase of volcanism. Our recharge evacuation assimilation and fractional crystallization models (REAFC) show that during the main phase of magmatism evacuation from both the deep (65%) and shallow (55%) systems reached an apex. During the terminal phases, magma evacuation from the deeper system ceases while evacuation from the shallow system is much reduced (25%). The degree of crustal contamination predicted by REAFC (4%–10%) is lower than previous estimates determined for this region using assimilation with FC only models (12%–25%). Our study highlights the importance of evaluating petrography while interpreting geochemical models in CFB.
Optical Characterization of Marine Aerosols Using a Morphologically Realistic Model With Varying Water Content: Implications for Lidar Applications and Passive Polarimetric Remote Sensing
Authors: Kahnert M. , Kanngießer F. 
Published: March 2024

AbstractRetrieving the physical properties and water content of marine aerosols requires understanding the links between the particles' optical and microphysical properties. By using a morphologically realistic model with varying salt mass fractions fm, describing the transition from irregularly shaped, dry salt crystals to brine‐coated geometries, optical properties relevant to polarimetric remote sensing are computed at wavelengths of 532 and 1,064 nm. The extinction cross section and its color ratio depend on particle size, but are insensitive to changes in fm; thus, measured extinction coefficients at two wavelengths contain information on both particle number and size. The lidar ratio's dependence on both size and wavelength has implications for inverting the lidar equation. The results suggest that active observations of the backscattering cross section's color ratio and the depolarization ratio, as well as, passive observations of the degree of linear polarization offer avenues to obtain the water content of marine aerosols.
Tilting‐Axis Anisotropic Tomography and Subduction Dynamics of the Java‐Banda Arc
Authors: Xie Fan , Wang Zewei , Zhao Dapeng , Gao Rui , Chen Xiaofei 
Published: March 2024

AbstractThe 180° curvature of the Banda arc at the eastern end of the Java‐Banda subduction zone reflects complicated geodynamic processes. A detailed investigation of its anisotropic structure would reveal its subduction dynamics, further resolving the controversial issue on how the highly arcuate Banda arc formed. We apply tilting‐axis anisotropic tomography to obtain a high‐resolution 3‐D anisotropic model beneath the Java‐Banda region. Our results show significant differences between Java and Banda in the pattern of anisotropy in both the subducting slab and its surrounding mantle, which reflect two distinctly different deformation modes in the two domains. Our results support the single‐slab subduction model for the Banda region. In addition, trench‐normal and upright fast‐velocity‐planes appear in the deep upper mantle, which may indicate material migrations in the big mantle wedge. Fast‐velocity‐planes in the shallow mantle exhibit a toroidal distribution, reflecting past counter‐clockwise rotation and asthenospheric material extrusion.
Occurrence Frequency of Global Atmospheric River (AR) Events: A Data Fusion Analysis of 12 Identification Data Sets
Authors: Wang Hong‐Ru , Li Fang‐Fang , Grigorev Georgii V. , Yao Zhan‐Yu , Ge Dong , Wang Guang‐Qian , Qiu Jun 
Published: March 2024

AbstractThe atmospheric river (AR) is a long, narrow, and transient corridor of strong horizontal water vapor transport. Various AR detection methods have been proposed, which have introduced significant uncertainty to the identified AR characteristics. This study has designed a data fusion algorithm to merge 12 data sets of different global and regional AR identification algorithms published by the Atmospheric River Tracking Method Intercomparison Project (ARTMIP) covering the period from 1980 to 2016. It aims to conduct frequency statistics to further research the global distribution, interannual variation, the trends in poleward shifting, and the impacted factors of AR occurrence. The quantitative results indicate an overall increasing trend in interannual variation, with a more pronounced growth trend observed in the oceanic region between 40 and 60ºS. Additionally, the study identifies a poleward shift in the peak latitude of AR occurrence frequency, with speeds of 0.589° and 0.769° per decade in the Northern and Southern Hemispheres, respectively. This shift may be associated with the tropical poleward expansion. Upon examining the relationship between AR frequency and sea surface temperature (SST) as well as zonal wind, the study finds that distinct dominant factors influence AR in different regions. AR events near the 30°N/S ocean are influenced more significantly by zonal wind than by SST. These findings shed light on the global characteristics of AR occurrences and provide insights into the factors governing their variability across different areas.
A Complex Interplay Between Pluton Emplacement, Tectonic Deformation, and Plate Kinematics in the Cretaceous Sierra Nevada Magmatic Arc, California
Authors: Tomek Filip , Žák Jiří , Verner Kryštof , Ježek Josef , Paterson Scott R. 
Published: March 2024

AbstractThe relation of plate kinematics to the structural record of arc plutons and their host rocks is complex and still not fully understood. We address this issue through a combination of field mapping, structural analysis, anisotropy of magnetic susceptibility analysis, and fabric modeling in the Late Cretaceous Tuolumne Intrusive Complex, Sierra Nevada, California. A pattern of anti‐clockwise rotation from ∼NNW–SSE to WNW–ESE steep foliations and change in fabric ellipsoid shape from oblate to prolate was revealed in successively emplaced Kuna Crest (∼95–92 Ma), Half Dome (∼92–89 Ma), and Cathedral Peak (∼89–84 Ma) granodiorites. The numerical model indicates that the Kuna Crest was emplaced in a transpressional setting with an angle of convergence α = 60–40°, whereas the Half Dome and Cathedral Peak required simultaneous vertical constriction overprinted by transpression with α = 35–15°. This transition, which occurred at ∼92 Ma, is accompanied by a shallowing of the lineation plunge observed also in other ∼88–84 Ma central Sierra Nevada plutons. Provided that the Cretaceous Sierra Nevada arc was constructed during overall dextral transpression, these transitions reflect significant changes in kinematics, where ∼107–92 Ma plutons were emplaced during pure shear‐dominated transpression, which was followed by a transition to wrench‐dominated transpression recorded in ∼92–84 Ma plutons. Such a transition in kinematics is explained as a result of progressively increasing obliquity of the relative convergence of the Farallon plate subducting beneath the North American continental margin, in agreement with most paleogeographic reconstructions.
Key homeobox transcription factors regulate the development of the firefly’s adult light organ and bioluminescence
Authors: Fu Xinhua , Zhu Xinlei 
Published: March 2024

AbstractAdult fireflies exhibit unique flashing courtship signals, emitted by specialized light organs, which develop mostly independently from larval light organs during the pupal stage. The mechanisms of adult light organ development have not been thoroughly studied until now. Here we show that key homeobox transcription factors AlABD-B and AlUNC-4 regulate the development of adult light organs and bioluminescence in the firefly Aquatica leii. Interference with the expression of AlAbd-B and AlUnc-4 genes results in undeveloped or non-luminescent adult light organs. AlABD-B regulates AlUnc-4, and they interact with each other. AlABD-B and AlUNC-4 activate the expression of the luciferase gene AlLuc1 and some peroxins. Four peroxins are involved in the import of AlLUC1 into peroxisomes. Our study provides key insights into the development of adult light organs and flash signal control in fireflies.
Lactate dehydrogenase A regulates tumor-macrophage symbiosis to promote glioblastoma progression
Authors: Khan Fatima , Lin Yiyun , Ali Heba , Pang Lizhi , Dunterman Madeline , Hsu Wen-Hao , Frenis Katie , Grant Rowe R. , Wainwright Derek A. , McCortney Kathleen , Billingham Leah K. , Miska Jason , Horbinski Craig , Lesniak Maciej S. , Chen Peiwen 
Published: March 2024

AbstractAbundant macrophage infiltration and altered tumor metabolism are two key hallmarks of glioblastoma. By screening a cluster of metabolic small-molecule compounds, we show that inhibiting glioblastoma cell glycolysis impairs macrophage migration and lactate dehydrogenase inhibitor stiripentol emerges as the top hit. Combined profiling and functional studies demonstrate that lactate dehydrogenase A (LDHA)-directed extracellular signal-regulated kinase (ERK) pathway activates yes-associated protein 1 (YAP1)/ signal transducer and activator of transcription 3 (STAT3) transcriptional co-activators in glioblastoma cells to upregulate C-C motif chemokine ligand 2 (CCL2) and CCL7, which recruit macrophages into the tumor microenvironment. Reciprocally, infiltrating macrophages produce LDHA-containing extracellular vesicles to promote glioblastoma cell glycolysis, proliferation, and survival. Genetic and pharmacological inhibition of LDHA-mediated tumor-macrophage symbiosis markedly suppresses tumor progression and macrophage infiltration in glioblastoma mouse models. Analysis of tumor and plasma samples of glioblastoma patients confirms that LDHA and its downstream signals are potential biomarkers correlating positively with macrophage density. Thus, LDHA-mediated tumor-macrophage symbiosis provides therapeutic targets for glioblastoma.
Machine learning-aided design and screening of an emergent protein function in synthetic cells
Authors: Kohyama Shunshi , Frohn Béla P. , Babl Leon , Schwille Petra 
Published: March 2024

AbstractRecently, utilization of Machine Learning (ML) has led to astonishing progress in computational protein design, bringing into reach the targeted engineering of proteins for industrial and biomedical applications. However, the design of proteins for emergent functions of core relevance to cells, such as the ability to spatiotemporally self-organize and thereby structure the cellular space, is still extremely challenging. While on the generative side conditional generative models and multi-state design are on the rise, for emergent functions there is a lack of tailored screening methods as typically needed in a protein design project, both computational and experimental. Here we describe a proof-of-principle of how such screening, in silico and in vitro, can be achieved for ML-generated variants of a protein that forms intracellular spatiotemporal patterns. For computational screening we use a structure-based divide-and-conquer approach to find the most promising candidates, while for the subsequent in vitro screening we use synthetic cell-mimics as established by Bottom-Up Synthetic Biology. We then show that the best screened candidate can indeed completely substitute the wildtype gene in Escherichia coli. These results raise great hopes for the next level of synthetic biology, where ML-designed synthetic proteins will be used to engineer cellular functions.
Riboformer: a deep learning framework for predicting context-dependent translation dynamics
Authors: Shao Bin , Yan Jiawei , Zhang Jing , Liu Lili , Chen Ye , Buskirk Allen R. 
Published: March 2024

AbstractTranslation elongation is essential for maintaining cellular proteostasis, and alterations in the translational landscape are associated with a range of diseases. Ribosome profiling allows detailed measurements of translation at the genome scale. However, it remains unclear how to disentangle biological variations from technical artifacts in these data and identify sequence determinants of translation dysregulation. Here we present Riboformer, a deep learning-based framework for modeling context-dependent changes in translation dynamics. Riboformer leverages the transformer architecture to accurately predict ribosome densities at codon resolution. When trained on an unbiased dataset, Riboformer corrects experimental artifacts in previously unseen datasets, which reveals subtle differences in synonymous codon translation and uncovers a bottleneck in translation elongation. Further, we show that Riboformer can be combined with in silico mutagenesis to identify sequence motifs that contribute to ribosome stalling across various biological contexts, including aging and viral infection. Our tool offers a context-aware and interpretable approach for standardizing ribosome profiling datasets and elucidating the regulatory basis of translation kinetics.
DJ-1 protects proteins from acylation by catalyzing the hydrolysis of highly reactive cyclic 3-phosphoglyceric anhydride
Authors: Akhmadi Aizhan , Yeskendir Adilkhan , Dey Nelly , Mussakhmetov Arman , Shatkenova Zariat , Kulyyassov Arman , Andreeva Anna , Utepbergenov Darkhan 
Published: March 2024

AbstractMutations in the human PARK7 gene that encodes protein DJ-1 lead to familial Parkinsonism due to loss of dopaminergic neurons. However, the molecular function of DJ-1 underpinning its cytoprotective effects are unclear. Recently, DJ-1 has been shown to prevent acylation of amino groups of proteins and metabolites by 1,3-bisphosphoglycerate. This acylation is indirect and thought to proceed via the formation of an unstable intermediate, presumably a cyclic 3-phosphoglyceric anhydride (cPGA). Several lines of evidence indicate that DJ-1 destroys cPGA, however this enzymatic activity has not been directly demonstrated. Here, we report simple and effective procedures for synthesis and quantitation of cPGA and present a comprehensive characterization of this highly reactive acylating electrophile. We demonstrate that DJ-1 is an efficient cPGA hydrolase with kcat/Km = 5.9 × 106 M−1s−1. Experiments with DJ-1-null cells reveal that DJ-1 protects against accumulation of 3-phosphoglyceroyl-lysine residues in proteins. Our results establish a definitive cytoprotective function for DJ-1 that uses catalytic hydrolysis of cPGA to mitigate the damage from this glycolytic byproduct.