bluuebunny/crossref_metadata_2025_split huggingface dataset:
Efficacy and Safety of Nasal High-Frequency Oscillation in Preventing Intubation in Very-Low-Birth-Weight Infants with Respiratory Distress Syndrome
Authors: Dang Buu Quoc , Pham Tam Thi Thanh , Nguyen Duc Ninh , Long Nguyen Phuoc , Nguyen Tinh Thu 
Published: May 2024

AbstractBackgroundInvasive mechanical ventilation in very-low-birth-weight infants (VLBWI) was associated with immediate and long-term complications. Nasal high-frequency oscillation (nHFO) has recently become a new non-invasive ventilation (NIV) mode for treating respiratory failure in VLBWI. This study aimed to investigate the safety and efficacy of nHFO as an alternative respiratory support to prevent intubation in VLBWI.MethodsA retrospective analysis was conducted using the clinical data of 42 VLBWIs with respiratory distress syndrome (RDS) who were treated in our department from August 2018 to August 2020 and met the selection criteria.ResultsnHFO was used as a rescue strategy in 32 infants and a prophylactic strategy in 10 infants. It was observed that out of 42 cases, 30 cases (71.4%) were able to avoid intubation within 72 hours, while 23 cases (54.8%) were successfully switched to another NIV mode from nHFO. There was a significant decrease in pCO2 and an increase in pH one hour after using nHFO in the success group. Two cases (4.8%) of feeding intolerance associated with nHFO were noted.ConclusionThis study showed that nHFO as alternative respiratory support for preterm infants with RDS might be safe and effective in reducing the need for intubation.HighlightsInvasive mechanical ventilation in very low-birth-weight infants (VLBWI) was associated with immediate and long-term complications. As a result, there is an increasing focus on researching and applying non-invasive ventilation (NIV).In this study, Nasal high-frequency oscillation (nHFO) in VLBWI with respiratory distress syndrome showed promising efficacy and safety, with 71.4% of cases avoiding intubation within 72 hours. Further, 54.8% of cases were successfully transitioned to another NIV mode from nHFO.Further randomized controlled trials with adequately powered sample sizes are warranted to assess the overall safety and efficacy of nHFO.
Identification of a divalent metal transporter required for cellular iron metabolism in malaria parasites
Authors: Loveridge Kade M. , Sigala Paul A. 
Published: May 2024

ABSTRACTPlasmodium falciparummalaria parasites invade and multiply inside red blood cells (RBCs), the most iron-rich compartment in humans. Like all cells,P. falciparumrequires nutritional iron to support essential metabolic pathways, but the critical mechanisms of iron acquisition and trafficking during RBC infection have remained obscure. Parasites internalize and liberate massive amounts of heme during large-scale digestion of RBC hemoglobin within an acidic food vacuole (FV) but lack a heme oxygenase to release porphyrin-bound iron. Although most FV heme is sequestered into inert hemozoin crystals, prior studies indicate that trace heme escapes biomineralization and is susceptible to non-enzymatic degradation within the oxidizing FV environment to release labile iron. Parasites retain a homolog of divalent metal transporter 1 (DMT1), a known mammalian iron transporter, but its role inP. falciparumiron acquisition has not been tested. Our phylogenetic studies indicate thatP. falciparumDMT1 (PfDMT1) retains conserved molecular features critical for metal transport. We localized this protein to the FV membrane and defined its orientation in an export-competent topology. Conditional knockdown of PfDMT1 expression is lethal to parasites, which display broad cellular defects in iron-dependent functions, including impaired apicoplast biogenesis and mitochondrial polarization. Parasites are selectively rescued from partial PfDMT1 knockdown by supplementation with exogenous iron, but not other metals. These results support a cellular paradigm whereby PfDMT1 is the molecular gatekeeper to essential iron acquisition by blood-stage malaria parasites and suggest that therapeutic targeting of PfDMT1 may be a potent antimalarial strategy.
Two Separated Worlds: on the Preference of Influence in Life Science and Biomedical Research
Authors: Gu Zuguang 
Published: May 2024

AbstractWe introduced a new metric, “citation enrichment”, to measure country-to-country influence using citation data. This metric evaluates the degree to which a country prefers to cite another country compared to a random citation process. We applied the citation enrichment method to over 12 million publications in the life science and biomedical fields and we have the following key findings: 1) The global scientific landscape is divided into two separated worlds where developed Western countries exhibit an overall mutual under-influence with the rest of the world; 2) Within each world, countries form clusters based on their mutual citation preferences, with these groupings strongly associated with their geographical and cultural proximity; 3) The two worlds exhibit distinct patterns of the influence balance among countries, revealing underlying mechanisms that drive influence dynamics. We have constructed a comprehensive world map of scientific influence which greatly enhances the deep understanding of the international exchange of scientific knowledge. The citation enrichment metric is developed under a well-defined statistical framework and has the potential to be extended into a versatile and powerful tool for bibliometrics and related research fields.
Micro-CT Based Description ofDorsetichthys bechei(Actinopterygii: Teleostei): Cranial Anatomy of an Iconic Early Teleost
Authors: Atterby Jake , Friedman Matt , Giles Sam 
Published: May 2024

AbstractTeleost fishes comprise more than 36,000 living vertebrate species and occupy a wide range of aquatic ecosystems. Despite their overwhelming success, extinct taxa outside of the living radiation—stem teleosts—remain poorly understood.Dorsetichthys becheiis an Early Jurassic stem teleost of historic importance. AlthoughD. becheiis well described, its proximity to the teleost crown and relationships with other stem teleosts is challenging due to previous associations with the wastebasket assemblage known as “pholidophorids”. Here we present a new, three-dimensionally preserved specimen ofDorsetichthys becheifrom the Blue Lias Formation (Sinemurian) Lyme Regis, UK. High-resolution CT scanning of this specimen plus additional material reveals previously unknown internal morphological information, including of the jaw and palate, hyoid arch, and gill skeleton. Importantly, this previously undescribed articulated specimen permits description of the external dermal skeleton and internal endoskeleton for the same individual, clarifying past accounts drawing on composite descriptions of two- and three-dimensionally preserved specimens. We confirm the presence of important teleost synapomorphies such as a mobile premaxilla and quadratojugal process. However, contrasting previous accounts, we find no evidence for dorsal and ventral hypohyals or a postarticular process of the lower jaw. We also confirm the presence of a prearticular. The presence of a mobile upper jaw, elaborate gill rakers and reduced dentition also support a possible facultative filter feeding ecology. These new anatomical data support removal ofD. becheifrom Pholidophoridae and Pholidophoriformes as currently defined but indicate that finer-scale patterns of relationships among more crownward members of the teleost stem are some way from being resolved.
Gekko geckoas a model organism for understanding aspects of laryngeal vocal evolution
Authors: Gutjahr Ruth , Kéver Loïc , Jonsson Thorin , Ontiveros Daniela Talamantes , Chagnaud Boris P , Herrel Anthony 
Published: May 2024

AbstractThe ability to communicate through vocalization plays a key role in the survival of animals across all vertebrate groups. While avian reptiles have received much attention relating to their stunning sound repertoire, non-avian reptiles have been wrongfully assumed to have less elaborate vocalization types and little is known about the biomechanics of sound production and their underlying neural pathways. We investigated alarm calls ofGekko geckousing audio and cineradiographic recordings of their alarm calls. Acoustic analysis revealed three distinct call types: a sinusoidal call type (type 1), a train-like call type, characterized by distinct pulse trains (type 3), and an intermediary type, which showed both sinusoidal and pulse train components (type 2). Kinematic analysis of cineradiographic recordings showed that laryngeal movements differ significantly between respiratory and vocal behavior: during respiration, animals repeatedly moved their jaws to partially open their mouths, which was accompanied by small glottal movements. During vocalization, the glottis was pulled back, contrasting with what has previously been reported.In-vitroretrograde tracing of the nerve innervating the laryngeal constrictor and dilator muscles revealed round to fusiform motoneurons in the hindbrain-spinal cord transition ipsilateral to the labeled nerve. Taken together, our observations provide insight into the alarm calls generated byG. gecko, the biomechanics of this sound generation and the underlying organization of motoneurons involved in the generation of vocalizations. Our observations suggest thatG. geckomay be an excellent non-avian reptile model organism for enhancing our understanding of the evolution of vertebrate vocalization.Summary StatementInvestigation ofGekko geckoalarm calls revealed distinct call types, during which the larynx is being pulled back by muscles innervated by motoneurons located in the hindbrain.
Neuronal protein phosphatase 1β regulates glutamate release, cortical myelination, node of Ranvier formation, and action potential propagation in the optic nerve
Authors: McKee Cody , Foley Karl , Andersh Katherine M. , Marola Olivia J. , Wadzinski Brian , Libby Richard T. , Shrager Peter , Xia Houhui 
Published: May 2024

AbstractPrecise regulation of protein phosphorylation is critical for many cellular processes, and dysfunction in this process has been linked to various neurological disorders and diseases. Protein phosphatase 1 (PP1) is a ubiquitously expressed serine/threonine phosphatase with three major isoforms, (α, β, γ) and hundreds of known substrates. Previously, we reported that PP1α and PP1γ are essential for the known role of PP1 in synaptic physiology and learning/memory, while PP1β displayed a surprising opposing function.De novomutations in PP1β cause neurodevelopmental disorders in humans, but the mechanisms involved are currently unknown. A Cre-Lox system was used to delete PP1β specifically in neurons in order to study its effects on developing mice. These animals fail to survive to 3 postnatal weeks, and exhibit deficits in cortical myelination and glutamate release. There was defective compound action potential (CAP) propagation in the optic nerve of the null mice, which was traced to a deficit in the formation of nodes of Ranvier. Finally, it was found that phosphorylation of the PP1β-specific substrate, myosin light chain 2 (MLC2), is significantly enhanced in PP1β null optic nerves. Several novel importantin vivoroles of PP1β in neurons were discovered, and these data will aid future investigations in delineating the mechanisms by whichde novomutations in PP1β lead to intellectual and developmental delays in patients.
Transcription elongation is dictated by single residues in the histone core domain
Authors: Harvey Zachary H. , Stevens Kathryn M. , Warnecke Tobias , Berger Frédéric 
Published: May 2024

AbstractThe chromatin fiber is thought to suppress transcription in eukaryotes by acting as a structural barrier. However, once begun, transcription can readily proceed on chromatin, suggesting this model is insufficient. Here, we establish that the ultra-conserved core domain of the ancestral histone H2A.Z dictates transcription elongation via direct interaction of its loop 2 region with the RNAPII subunit Spt6, rather than biophysical changes to chromatin. Interrogating H2A.Z sequences representing more than a billion years of eukaryotic evolution in a single synthetic host, we show that Spt6 can distinguish even single-residue substitutions within their loop 2, driving either super-repressed or -activated transcriptional states. Our results place the histone core domain at the origin of eukaryotic gene expression, establishing its transformative power to shape transcription.
HIGH THROUGHPUT QUANTITATION OF HUMAN NEUTROPHIL RECRUITMENT AND FUNCTIONAL RESPONSES IN AN AIR-BLOOD BARRIER ARRAY
Authors: Viola Hannah , Chen Liang-Hsin , Jo Seongbin , Washington Kendra , Selva Cauviya , Li Andrea , Feng Daniel , Giacalone Vincent , Stephenson Susan T. , Cottrill Kirsten , Mohammed Ahmad , Williams Evelyn , Qu Xianggui , Lam Wilbur , Ng Nga Lee , Fitzpatrick Anne , Grunwell Jocelyn , Tirouvanziam Rabindra , Takayama Shuichi 
Published: May 2024

AbstractDysregulated neutrophil recruitment drives many pulmonary diseases, but most preclinical screening methods are unsuited to evaluate pulmonary neutrophilia, limiting progress towards therapeutics. Namely, high throughput therapeutic screening systems typically exclude critical neutrophilic pathophysiology, including blood-to-lung recruitment, dysfunctional activation, and resulting impacts on the air-blood barrier. To meet the conflicting demands of physiological complexity and high throughput, we developed an assay of 96-well Leukocyte recruitment in an Air-Blood Barrier Array (L-ABBA-96) that enablesin vivo-like neutrophil recruitment compatible with downstream phenotyping by automated flow cytometry. We modeled acute respiratory distress syndrome (ARDS) with neutrophil recruitment to 20 ng/mL epithelial-side interleukin 8 (IL-8) and found a dose dependent reduction in recruitment with physiologic doses of baricitinib, a JAK1/2 inhibitor recently FDA-approved for severe COVID-19 ARDS. Additionally, neutrophil recruitment to patient-derived cystic fibrosis sputum supernatant induced disease-mimetic recruitment and activation of healthy donor neutrophils and upregulated endothelial e-selectin. Compared to 24-well assays, the L-ABBA-96 reduces required patient sample volumes by 25 times per well and quadruples throughput per plate. Compared to microfluidic assays, the L-ABBA-96 recruits two orders of magnitude more neutrophils per well, enabling downstream flow cytometry and other standard biochemical assays. This novel pairing of high-throughputin vitromodeling of organ-level lung function with parallel high-throughput leukocyte phenotyping substantially advances opportunities for pathophysiological studies, personalized medicine, and drug testing applications.
LAGOS-US LANDSAT: Remotely sensed water quality estimates for U.S. lakes over 4 ha from 1984 to 2020
Authors: Hanly Patrick J. , Webster Katherine E. , Soranno Patricia A. 
Published: May 2024

AbstractBroad-scale, long-term studies of water quality (WQ) are critical to understanding global-scale pressures on inland waters, yet they are rare. This data product, LAGOS-US LANDSAT, addresses this gap by providing remote sensing-derived WQ estimates from machine learning models trained on in situ data of six essential WQ variables for 136,977 lakes in the continental US from 1984-2020. The dataset includes: (a) 45,867,023 sets of whole-lake water reflectances for six individual bands and 15 band ratios; (b) 740,627 matchups with in situ data for lake WQ data for chlorophyll, Secchi depth, true color, dissolved organic carbon, total suspended solids, and turbidity; and, (c) predictions from each reflectance set for all six WQ variables across the 37 yr period. Variance explained for the predictions ranged from 20.7% for TSS to 63.7% for Secchi. Data extraction from individual scenes was quality-controlled based on cloud-cover and pixel quality, and we tested and validated key parts of the workflow to inform future water quality studies using the Landsat platform.
Single-cell morphology encodes functional subtypes of senescence in aging human dermal fibroblasts
Authors: Kamat Pratik , Macaluso Nico , Min Chanhong , Li Yukang , Agrawal Anshika , Winston Aaron , Pan Lauren , Starich Bartholomew , Stewart Teasia , Wu Pei-Hsun , Fan Jean , Walston Jeremy , Phillip Jude M. 
Published: May 2024

ABSTRACTCellular senescence is an established driver of aging, exhibiting context-dependent phenotypes across multiple biological length-scales. Despite its mechanistic importance, profiling senescence within cell populations is challenging. This is in part due to the limitations of current biomarkers to robustly identify senescent cells across biological settings, and the heterogeneous, non-binary phenotypes exhibited by senescent cells. Using a panel of primary dermal fibroblasts, we combined live single-cell imaging, machine learning, multiple senescence induction conditions, and multiple protein-based senescence biomarkers to show the emergence of functional subtypes of senescence. Leveraging single-cell morphologies, we defined eleven distinct morphology clusters, with the abundance of cells in each cluster being dependent on the mode of senescence induction, the time post-induction, and the age of the donor. Of these eleven clusters, we identified threebona-fidesenescence subtypes (C7, C10, C11), with C10 showing the strongest age-dependence across a cohort of fifty aging individuals. To determine the functional significance of these senescence subtypes, we profiled their responses to senotherapies, specifically focusing on Dasatinib + Quercetin (D+Q). Results indicated subtype-dependent responses, with senescent cells in C7 being most responsive to D+Q. Altogether, we provide a robust single-cell framework to identify and classify functional senescence subtypes with applications for next-generation senotherapy screens, and the potential to explain heterogeneous senescence phenotypes across biological settings based on the presence and abundance of distinct senescence subtypes.
Retinoic acid signaling suppresses chondrocyte identity during cartilage development and regeneration
Authors: Arata Claire , Paul Sandeep , Schindler Simone , Thiruppathy Mathi , Flath Mackenzie , Giovannone Dion , Hammer Zack , Subramanie Dev , Crump J. Gage 
Published: May 2024

AbstractCartilage is a dynamic tissue during development, repair, and disease. Within developing endochondral bones, chondrocytes at growth plate edges transition to osteoblasts, adipocytes, and other connective tissue in the marrow cavity, and in diseases such as Multiple Osteochondromas (MO) chondrocytes form abnormally around growth plates and contribute to ectopic bone. On the other hand, the inability to form new chondrocytes to maintain damaged joints contributes to the high incidence of osteoarthritis. In order to assess the ability of zebrafish to regenerate cartilage, we developed a nitroreductase-based cartilage ablation model. Following ablation at larval to adult stages, we observed new chondrocytes forming around the dead cartilage matrix, with cartilage outgrowths in ablated endochondral bones resembling the exostoses of MO. By generating a perichondrium-restrictedhyal4:GFPtransgenic line, we show that new chondrocytes arise from the perichondrium surrounding the ablated cartilage. In addition, we observe enriched expression of the retinoic acid (RA) synthesis genealdh1a2in the perichondrium following ablation, and the RA degrading enzyme genecyp26b1in newly forming chondrocytes. Consistent with RA signaling suppressing chondrogenesis, treatment with the RA receptor gamma agonist palovarotene, which has been used to treat MO, prevented ablation-induced chondrogenesis. Although we find that BMP signaling is also required for ablation-induced chondrogenesis, we show a distinct role for RA signaling in suppressingsox9aexpression and chondrogenesis. Moreover, palovarotene resulted in a near complete loss of growth plates in uninjured zebrafish, which was due to the precocious dedifferentiation and exit of chondrocytes from the growth plate. Our findings suggest a common chondrocyte suppressive role of RA signaling within the developing growth plates and regenerating perichondrium, which may explain the growth plate defects observed when using RA agonists to treat MO.
aniSNA : An R package to assess bias and uncertainty in social networks obtained from animals sampled via direct observations or satellite telemetry
Authors: Kaur Prabhleen , Ciuti Simone , Reinking Adele K. , Beck Jeffrey L. , Salter-Townshend Michael 
Published: May 2024

AbstractAnimal social network analysis using GPS telemetry datasets provides insights into group dynamics, social structure, and interactions of the animal communities. It aids conservation by characterizing key aspects of animal sociality - including spatially explicit information on where sociality occurs (e.g., habitats, migratory corridors), contributing to informed management strategies for wildlife populations. The aniSNA package provides functions to assess and leverage data collected by sampling a subset of an animal population to perform social network analysis. The methodologies offered in this package are compatible with a variety of location and grouping data, collected through various means (e.g., direct observations, biologgers), however, they are particularly well suited to autocorrelated data streams such as data collected through GPS telemetry radio collars. The techniques assess the data’s suitability to extract reliable statistical inferences from social networks and compute uncertainty estimates around the network metrics in the scenario where a fraction of the population is monitored. The package functions are user-friendly and allow for the implementation of pre-network data permutations for auto-correlated data streams, sensitivity analysis under downsampling, bootstrapping to establish confidence intervals for global and node-level network metrics, and correlation and regression analysis to assess the robustness of node-level network metrics. Using this package, animal ecologists will be able to compute social network metrics, both at the population and individual level, assess their reliability, and use such metrics in further analyses, e.g., to study social network variation within and across populations or link individual sociality to life history. This software also has plotting features that allow for visual interpretation of the findings.
Comprehensive Usability Evaluation and Performance Overview of Pathpoint® Outcomes Software
Authors: Subramaniyan Balamurugan , Naqvi Atlas , Mohamud Muna , Mahapatra Piyush 
Published: May 2024

AbstractThis research evaluates the usability of Pathpoint® Outcomes Software, aligning with IEC 62366-1:2015 standards to ensure rigour and accuracy. The study involved diverse user groups like Healthcare Professionals and the General Population to provide varied perspectives. The study focused on the software’s usability, safety, and effectiveness, which are crucial to user experience, satisfaction, and performance. Any potential risks to users or patient data were identified to ensure safety standards. The software’s effectiveness was assessed, considering its accuracy, reliability, and efficiency. The study used both quantitative metrics and qualitative feedback for a balanced evaluation. It also aimed to identify and mitigate potential use errors, enhancing the software’s usability, safety, and effectiveness.