bluuebunny/crossref_metadata_2025_split huggingface dataset:
Subduction Initiation at the Corner of Small Oceanic Basins
Authors: Dong Miao , Hao Tianyao , Li Yue , Zhang Jian , Fang Gui 
Published: January 2024

AbstractIn Southeast Asia, emerging subduction zones often appear to begin at the corners of small oceanic basins, which have a triangular‐indenter continent–ocean boundary geometry. To investigate the influence of a triangular corner on subduction initiation, we performed a series of three‐dimensional numerical simulations with varying corner angles and base lengths. The results show that the apex of the corner constitutes the initial location of subduction, irrespective of the angle or the extent of the corner. Smaller angle corners are more likely to facilitate subduction initiation. At the same time, wide acute angle corners are difficult to form. Our findings suggest that triangular corner structures may facilitate subduction initiation in smaller basins; however, the role such corners in subduction initiation is limited in larger basins. Our results emphasize the importance of accounting for the three‐dimensional geometry of a subduction zone when examining its subduction dynamics and geological features.
Statistical Characteristics of Total Electron Content Intensifications on Global Ionospheric Maps
Authors: Meng X. , Verkhoglyadova O. P. , Chapman S. C. , Watkins N. W. , Cafolla M. 
Published: January 2024

AbstractGlobal ionospheric total electron content (TEC) maps exhibit TEC intensifications and depletions of various sizes and shapes. Characterizing key features on TEC maps and understanding their dynamic coupling with external drivers can significantly benefit space weather forecasting. However, comprehensive analysis of ionospheric structuring over decades of TEC maps is currently lacking due to large data volume. We develop feature extraction software based on image processing techniques to extract TEC intensification regions, that is, contiguous regions with sufficiently elevated TEC values than surrounding areas, from global TEC maps. Applying the software to the Jet Propulsion Laboratory Global Ionospheric Map data, we generate a TEC intensification data set for years 2003–2022 and carry out a statistical study on the number and strength of TEC intensifications. We find that the majority of the TEC maps (about 86%) are characterized with one or two intensification(s), while the rest of the TEC maps have three or more intensifications. Both the number and strength of TEC intensifications exhibit semi‐annual variation that peaks near equinoxes and dips near solstices, as well as an annual asymmetry with larger values around December solstice compared to June solstice. The number and strength of intensifications increase with enhanced solar extreme‐violet irradiance. The strength of intensifications also increases with elevated geomagnetic activity, but the number of intensifications does not. In addition, the number of intensifications is not correlated with the strength of intensifications.
Impact of hemodilution on flow cytometry based measurable residual disease assessment in acute myeloid leukemia
Authors: Tettero Jesse M. , Heidinga Maaike E. , Mocking Tim R. , Fransen Glenn , Kelder Angèle , Scholten Willemijn J. , Snel Alexander N. , Ngai Lok Lam , Bachas Costa , van de Loosdrecht Arjan A. , Ossenkoppele Gert J. , de Leeuw David C. , Cloos Jacqueline , Janssen Jeroen J. W. M. 
Published: January 2024

AbstractMeasurable residual disease (MRD) measured in the bone marrow (BM) of acute myeloid leukemia (AML) patients after induction chemotherapy is an established prognostic factor. Hemodilution, stemming from peripheral blood (PB) mixing within BM during aspiration, can yield false-negative MRD results. We prospectively examined hemodilution by measuring MRD in BM aspirates obtained from three consecutive 2 mL pulls, along with PB samples. Our results demonstrated a significant decrease in MRD percentages between the first and second pulls (P = 0.025) and between the second and third pulls (P = 0.025), highlighting the impact of hemodilution. Initially, 39% of MRD levels (18/46 leukemia-associated immunophenotypes) exceeded the 0.1% cut-off, decreasing to 30% (14/46) in the third pull. Additionally, we assessed the performance of six published methods and parameters for distinguishing BM from PB samples, addressing or compensating for hemodilution. The most promising results relied on the percentages of CD16dim granulocytic population (scarce in BM) and CD117high mast cells (exclusive to BM). Our findings highlight the importance of estimating hemodilution in MRD assessment to qualify MRD results, particularly near the common 0.1% cut-off. To avoid false-negative results by hemodilution, it is essential to collect high-quality BM aspirations and preferably utilizing the initial pull for MRD testing.
Variation in temperature of peak trait performance constrains adaptation of arthropod populations to climatic warming
Authors: Pawar Samraat , Huxley Paul J. , Smallwood Thomas R. C. , Nesbit Miles L. , Chan Alex H. H. , Shocket Marta S. , Johnson Leah R. , Kontopoulos Dimitrios - Georgios , Cator Lauren J. 
Published: January 2024

AbstractThe capacity of arthropod populations to adapt to long-term climatic warming is currently uncertain. Here we combine theory and extensive data to show that the rate of their thermal adaptation to climatic warming will be constrained in two fundamental ways. First, the rate of thermal adaptation of an arthropod population is predicted to be limited by changes in the temperatures at which the performance of four key life-history traits can peak, in a specific order of declining importance: juvenile development, adult fecundity, juvenile mortality and adult mortality. Second, directional thermal adaptation is constrained due to differences in the temperature of the peak performance of these four traits, with these differences expected to persist because of energetic allocation and life-history trade-offs. We compile a new global dataset of 61 diverse arthropod species which provides strong empirical evidence to support these predictions, demonstrating that contemporary populations have indeed evolved under these constraints. Our results provide a basis for using relatively feasible trait measurements to predict the adaptive capacity of diverse arthropod populations to geographic temperature gradients, as well as ongoing and future climatic warming.
An EEG motor imagery dataset for brain computer interface in acute stroke patients
Authors: Liu Haijie , Wei Penghu , Wang Haochong , Lv Xiaodong , Duan Wei , Li Meijie , Zhao Yan , Wang Qingmei , Chen Xinyuan , Shi Gaige , Han Bo , Hao Junwei 
Published: January 2024

AbstractThe brain-computer interface (BCI) is a technology that involves direct communication with parts of the brain and has evolved rapidly in recent years; it has begun to be used in clinical practice, such as for patient rehabilitation. Patient electroencephalography (EEG) datasets are critical for algorithm optimization and clinical applications of BCIs but are rare at present. We collected data from 50 acute stroke patients with wireless portable saline EEG devices during the performance of two tasks: 1) imagining right-handed movements and 2) imagining left-handed movements. The dataset consists of four types of data: 1) the motor imagery instructions, 2) raw recording data, 3) pre-processed data after removing artefacts and other manipulations, and 4) patient characteristics. This is the first open dataset to address left- and right-handed motor imagery in acute stroke patients. We believe that the dataset will be very helpful for analysing brain activation and designing decoding methods that are more applicable for acute stroke patients, which will greatly facilitate research in the field of motor imagery-BCI.
A chromosome-level genome assembly of a deep-sea symbiotic Aplacophora mollusc Chaetoderma sp.
Authors: Wang Yue , Wang Minxiao , Li Jie , Zhang Junlong , Zhang Linlin 
Published: January 2024

AbstractThe worm-shaped, shell-less Caudofoveata is one of the least known groups of molluscs. As early-branching molluscs, the lack of high-quality genomes hinders our understanding of their evolution and ecology. Here, we report a high-quality chromosome-scale genome of Chaetoderma sp. combining PacBio, Illumina, and high-resolution chromosome conformation capture sequencing. The final assembly has a size of 2.45 Gb, with a scaffold N50 length of 141.46 Mb, and is anchored to 17 chromosomes. Gene annotations showed a high level of accuracy and completeness, with 23,675 predicted protein-coding genes and 94.44% of the metazoan conserved genes by BUSCO assessment. We further present 16S rRNA gene amplicon sequencing of the gut microbiota in Chaetoderma sp., which was dominated by the chemoautotrophic bacteria (phylum Gammaproteobacteria). This chromosome-level genome assembly presents the first genome for the Caudofoveata, which constitutes an important resource for studies ranging from molluscan evolution, symposium, to deep-sea adaptation.
Escape behaviors in prey and the evolution of pennaceous plumage in dinosaurs
Authors: Park Jinseok , Son Minyoung , Park Jeongyeol , Bang Sang Yun , Ha Jungmoon , Moon Hyungpil , Lee Yuong-Nam , Lee Sang-im , Jablonski Piotr G. 
Published: January 2024

AbstractNumerous non-avian dinosaurs possessed pennaceous feathers on their forelimbs (proto-wings) and tail. Their functions remain unclear. We propose that these pennaceous feathers were used in displays to flush hiding prey through stimulation of sensory-neural escape pathways in prey, allowing the dinosaurs to pursue the flushed prey. We evaluated the escape behavior of grasshoppers to hypothetical visual flush-displays by a robotic dinosaur, and we recorded neurophysiological responses of grasshoppers’ escape pathway to computer animations of the hypothetical flush-displays by dinosaurs. We show that the prey of dinosaurs would have fled more often when proto-wings were present, especially distally and with contrasting patterns, and when caudal plumage, especially of a large area, was used during the hypothetical flush-displays. The reinforcing loop between flush and pursue functions could have contributed to the evolution of larger and stiffer feathers for faster running, maneuverability, and stronger flush-displays, promoting foraging based on the flush-pursue strategy. The flush-pursue hypothesis can explain the presence and distribution of the pennaceous feathers, plumage color contrasts, as well as a number of other features observed in early pennaraptorans. This scenario highlights that sensory-neural processes underlying prey’s antipredatory reactions may contribute to the origin of major evolutionary innovations in predators.
Monitoring phosphorylation and acetylation of CRISPR-mediated HiBiT-tagged endogenous proteins
Authors: Alves Juliano , Schwinn Marie , Machleidt Thomas , Goueli Said A. , Cali James J. , Zegzouti Hicham 
Published: January 2024

AbstractIntracellular pathways transduce signals through changes in post-translational modifications (PTMs) of effector proteins. Among the approaches used to monitor PTM changes are immunoassays and overexpression of recombinant reporter genes. Genome editing by CRISPR/Cas9 provides a new means to monitor PTM changes by inserting reporters onto target endogenous genes while preserving native biology. Ideally, the reporter should be small in order not to interfere with the processes mediated by the target while sensitive enough to detect tightly expressed proteins. HiBiT is a 1.3 kDa reporter peptide capable of generating bioluminescence through complementation with LgBiT, an 18 kDa subunit derived from NanoLuc. Using HiBiT CRISPR/Cas9-modified cell lines in combination with fluorescent antibodies, we developed a HiBiT-BRET immunoassay (a.k.a. Immuno-BRET). This is a homogeneous immunoassay capable of monitoring post-translational modifications on diverse protein targets. Its usefulness was demonstrated for the detection of phosphorylation of multiple signaling pathway targets (EGFR, STAT3, MAPK8 and c-MET), as well as chromatin containing histone H3 acetylation on lysine 9 and 27. These results demonstrate the ability to efficiently monitor endogenous biological processes modulated by post-translational modifications using a small bioluminescent peptide tag and fluorescent antibodies, providing sensitive quantitation of the response dynamics to multiple stimuli.
A prospective, multicentre, registry study of RECO in the endovascular treatment of acute ischaemic stroke
Authors: Ding Yunlong , Zhai Tingting , Chen Ronghua , Chen Fangshu , Cheng Yanbo , Zhu Shiguang , Liu Yajie , Xiao Guodong , Zhang Yunfeng , Liu Yan , Miao Zhongrong , Niu Jiali 
Published: January 2024

AbstractThe RECO is a novel endovascular treatment (EVT) device that adjusts the distance between two mesh segments to axially hold the thrombus. We organized this postmarket study to assess the safety and performance of RECO in acute ischaemic stroke (AIS) patients with large vessel occlusion (LVO). This was a single-arm prospective multicentre study that enrolled patients as first-line patients treated with RECO at 9 stroke centres. The primary outcome measures included functional independence at 90 days (mRS 0–2), symptomatic intracranial haemorrhage (sICH), time from puncture to recanalization and time from symptom onset to recanalization. The secondary outcome measures were a modified thrombolysis in cerebral infarction (mTICI) score of 2b or 3 after the first attempt and at the end of the procedure and the all-cause mortality rate within 90 days. From May 22, 2020, to July 30, 2022, a total of 268 consecutive patients were enrolled in the registry. The median puncture-to-recanalization time was 64 (IQR, 45–92), and the symptom onset-to-recanalization time was 328 min (IQR, 228–469). RECO achieved successful reperfusion (mTICI 2b-3) after the first pass in 133 of 268 patients (49.6%). At the end of the operation, 96.6% of the patients reached mTICI 2b-3, and 97.4% of the patients ultimately achieved successful reperfusion. Sixteen (7.2%) patients had sICH. A total of 132 (49.3%) patients achieved functional independence at 90 days, and the all-cause mortality rate within 90 days was 17.5%. In this clinical experience, the RECO device achieved a high rate of complete recanalization with a good safety profile and favourable 90-day clinical outcomes.Clinical trial registration: URL: https://www.clinicaltrials.gov/; Unique identifier: NCT04840719.
Modeling forecast errors for microgrid operation using Gaussian process regression
Authors: Yoo Yeuntae , Jung Seungmin 
Published: January 2024

AbstractMicrogrids, denoting small-scale and self-sustaining grids, constitute a pivotal component in future power systems with a high penetration of renewable generators. The inherent uncertainty tied to renewable power generation, typified by photovoltaic and wind turbine systems, necessitates counterbalancing mechanisms. These mechanisms encompass Energy storage systems or conventional thermal fossil-fuel generators imbued with heightened flexibility. Addressing the uncertainty stemming from renewable generators mandates a cost-effective assessment and operational strategy for said compensatory devices. To this end, myriad uncertainty factors warrant scrutiny, conceivably concretized into a unified probability distribution function (PDF) that takes into account their temporal inter-dependencies. Diverse uncertainty factors, characterized by varying marginal distributions and scales, can be assimilated into a multivariate probability distribution through a conversion to normal distributions via rank correlation. However, with the escalation in the number of uncertainty factors embraced within a microgrid context, the endeavour becomes notably intricate when aiming to define conditional probability distributions originating from joint PDFs. This paper presents a method proposing the modelling of net-load forecast error distribution, considering the interplay among uncertainty factors. The approach introduces a data-driven Gaussian process regression technique for training and validating conditional PDFs among these uncertainty factors. Notably, this approach facilitates the transformation of said factors into normal distributions while preserving their inherent marginal characteristics. The resultant conditional density function, as per the proposed methodology, exhibits enhanced suitability for estimating net-load error distribution. Consequently, the conditional density function stemming from this proposed approach demonstrates superior aptitude in approximating the distribution of net load error.
The effect of intentional summer flooding for mosquito control on the nitrogen dynamics of impounded Avicennia germinans mangrove forests
Authors: Laanbroek H. J. , Rains M. C. , Verhoeven J. T. A. , Whigham D. F. 
Published: January 2024

AbstractCoastal wetlands such as mangrove forests are breeding grounds for nuisance-causing insects. Rotational Impoundment Management (RIM) for mosquito control involves annual summer inundation of impounded mangrove forests with estuarine water during the summer half year. However, in addition to controlling mosquitos, RIM may change biogeochemical pathways. This study set out to investigate how RIM quantitatively affects physicochemical soil characteristics and potential nitrifying and denitrifying activities (PNA and PDA), which are key in the global nitrogen cycle. Before and after the implementation of RIM, soil samples were collected annually in habitats differing in size and abundance of black mangroves (Avicennia germinans) in an impoundment with RIM and in an adjacent impoundment with a more open connection to the lagoon. Compared to the non-managed impoundment, soil moisture content, total nitrogen and PDA increased, while salinity decreased after the start of annual summer flooding, but only in the dwarf habitat. In the sparse and dense habitats, total nitrogen and PDA increased independently of summer flooding, whereas soil moisture content and salinity were not affected by RIM. Labile organic nitrogen increased only in the RIM impoundment, irrespective of the habitat type. PNA was generally not affected with time, except in the dwarf habitat in the absence of intentional summer flooding where it increased. Changes in the non-managed impoundment adjacent to the RIM impoundment demonstrate the importance of groundwater exchange in linked ecosystems. The consequences of interventions in the management of mangrove impoundments and adjacent forests for the nitrogen budget are discussed.
Transcriptional characterization of iPSC-derived microglia as a model for therapeutic development in neurodegeneration
Authors: Ramaswami Gokul , Yuva-Aydemir Yeliz , Akerberg Brynn , Matthews Bryan , Williams Jenna , Golczer Gabriel , Huang Jiaqi , Al Abdullatif Ali , Huh Dann , Burkly Linda C. , Engle Sandra J. , Grossman Iris , Sehgal Alfica , Sigova Alla A. , Fremeau Robert T. , Liu Yuting , Bumcrot David 
Published: January 2024

AbstractMicroglia are the resident immune cells in the brain that play a key role in driving neuroinflammation, a hallmark of neurodegenerative disorders. Inducible microglia-like cells have been developed as an in vitro platform for molecular and therapeutic hypothesis generation and testing. However, there has been no systematic assessment of similarity of these cells to primary human microglia along with their responsiveness to external cues expected of primary cells in the brain. In this study, we performed transcriptional characterization of commercially available human inducible pluripotent stem cell (iPSC)-derived microglia-like (iMGL) cells by bulk and single cell RNA sequencing to assess their similarity with primary human microglia. To evaluate their stimulation responsiveness, iMGL cells were treated with Liver X Receptor (LXR) pathway agonists and their transcriptional responses characterized by bulk and single cell RNA sequencing. Bulk transcriptome analyses demonstrate that iMGL cells have a similar overall expression profile to freshly isolated human primary microglia and express many key microglial transcription factors and functional and disease-associated genes. Notably, at the single-cell level, iMGL cells exhibit distinct transcriptional subpopulations, representing both homeostatic and activated states present in normal and diseased primary microglia. Treatment of iMGL cells with LXR pathway agonists induces robust transcriptional changes in lipid metabolism and cell cycle at the bulk level. At the single cell level, we observe heterogeneity in responses between cell subpopulations in homeostatic and activated states and deconvolute bulk expression changes into their corresponding single cell states. In summary, our results demonstrate that iMGL cells exhibit a complex transcriptional profile and responsiveness, reminiscent of in vivo microglia, and thus represent a promising model system for therapeutic development in neurodegeneration.
Effects of host-associated low-temperature probiotics in olive flounder (Paralichthys olivaceus) aquaculture
Authors: Lee Su-Jeong , Noh Da-In , Lee Young-Sun , Hasan Md Tawheed , Hur Sang Woo , Lee Seunghan , Jeong Seong-Mok , Lee Jong Min , Lee Eun-Woo , Kim Kang-Woong , Jang Won Je 
Published: January 2024

AbstractThis study investigated the effects of supplementation of low-temperature probiotics isolated from the intestines of olive flounder on the growth performance, digestibility, and regulation of intestinal microbiota and the expression of genes related to growth, immunity, and apoptosis in olive flounder. Bacteria showing high growth at approximately 15–20 °C, which is the temperature of olive flounder culture, were isolated and confirmed to be Pseudomonas species through 16S rRNA gene sequence analysis. Whole-genome sequencing revealed that the strain has a 6,195,122 bp single circular chromosome and a guanine–cytosine content of 59.9%. In the feeding trial, supplementation with 1 × 108 CFU/g of the isolate strain positively modulated growth performances, digestive enzyme activity, and gut microbiota composition of olive flounder. RT-qPCR for the comparison of growth, immunity, and apoptosis-related gene expression levels showed no significant differences between the groups. Therefore, the isolated host-associated low-temperature probiotics improved the growth performance of olive flounder by causing positive changes in digestive activity and intestinal microbial composition without affecting host gene expression.
Efficacy of golimumab in patients with refractory non-infectious panuveitis
Authors: Tungsattayathitthan Usanee , Tesavibul Nattaporn , Choopong Pitipol , Treeratsakulchai Chaipat , Ngathaweesuk Yaninsiri , Sanphan Wilawan , Boonsopon Sutasinee 
Published: January 2024

AbstractThis study investigated the efficacy of golimumab in the management of refractory non-infectious panuveitis. Nineteen patients (38 eyes; mean age, 31 years) were retrospectively reviewed between June 2016 and June 2022. All patients had bilateral eye involvement and Behçet’s disease was the most common diagnosis (57.9%). Compared to the period before golimumab treatment, the rate of uveitis relapses after golimumab treatment significantly decreased from 1.73 to 0.62 events per person-years (incidence ratio 0.33, 95% confidence interval 0.19–0.57, P < 0.001). After golimumab therapy, 12 patients (63.2%) were able to reduce the number or dosage of immunosuppressive drugs, and the median dosage of systemic corticosteroids was reduced from 15.0 to 7.5 mg/d (P = 0.013) compared to baseline. The median logMAR visual acuity improved from 0.9 at baseline to 0.6 at the last visit (P = 0.006). Golimumab demonstrated efficacy against refractory non-infectious panuveitis in terms of a corticosteroid-sparing effect and reduced the rate of uveitis relapses to approximately one-third.