bluuebunny/crossref_metadata_2025_split huggingface dataset:
Polarity-driven three-dimensional spontaneous rotation of a cell doublet
Authors: Lu Linjie , Guyomar Tristan , Vagne Quentin , Berthoz Rémi , Torres-Sánchez Alejandro , Lieb Michèle , Martin-Lemaitre Cecilie , van Unen Kobus , Honigmann Alf , Pertz Olivier , Riveline Daniel , Salbreux Guillaume 
Published: May 2024

AbstractMechanical interactions between cells play a fundamental role in the self-organization of organisms. How these interactions drive coordinated cell movement in three dimensions remains unclear. Here we report that cell doublets embedded in a three-dimensional extracellular matrix undergo spontaneous rotations. We investigate the rotation mechanism and find that it is driven by a polarized distribution of myosin within cell cortices. The mismatched orientation of this polarized distribution breaks the doublet mirror symmetry. In addition, cells adhere at their interface through adherens junctions and with the extracellular matrix through focal contacts near myosin clusters. We use a physical theory describing the doublet as two interacting active surfaces to show that rotation is driven by myosin-generated gradients of active tension whose profiles are dictated by interacting cell polarity axes. We also show that three-dimensional shape symmetries are related to broken symmetries of the myosin distribution in cortices. To test for the rotation mechanism, we suppress myosin clusters using laser ablation and generate new myosin clusters by optogenetics. Our work clarifies how polarity-oriented active mechanical forces drive collective cell motion in three dimensions.
Laser-driven high-energy proton beams from cascaded acceleration regimes
Authors: Ziegler Tim , Göthel Ilja , Assenbaum Stefan , Bernert Constantin , Brack Florian-Emanuel , Cowan Thomas E. , Dover Nicholas P. , Gaus Lennart , Kluge Thomas , Kraft Stephan , Kroll Florian , Metzkes-Ng Josefine , Nishiuchi Mamiko , Prencipe Irene , Püschel Thomas , Rehwald Martin , Reimold Marvin , Schlenvoigt Hans-Peter , Umlandt Marvin E. P. , Vescovi Milenko , Schramm Ulrich , Zeil Karl 
Published: May 2024

AbstractLaser-driven ion accelerators can deliver high-energy, high-peak current beams and are thus attracting attention as a compact alternative to conventional accelerators. However, achieving sufficiently high energy levels suitable for applications such as radiation therapy remains a challenge for laser-driven ion accelerators. Here we generate proton beams with a spectrally separated high-energy component of up to 150 MeV by irradiating solid-density plastic foil targets with ultrashort laser pulses from a repetitive petawatt laser. The preceding laser light heats the target, leading to the onset of relativistically induced transparency upon main pulse arrival. The laser peak then penetrates the initially opaque target and triggers proton acceleration through a cascade of different mechanisms, as revealed by three-dimensional particle-in-cell simulations. The transparency of the target can be used to identify the high-performance domain, making it a suitable feedback parameter for automated laser and target optimization to enhance stability of plasma accelerators in the future.
Single-cell mtDNA dynamics in tumors is driven by coregulation of nuclear and mitochondrial genomes
Authors: Kim Minsoo , Gorelick Alexander N. , Vàzquez-García Ignacio , Williams Marc J. , Salehi Sohrab , Shi Hongyu , Weiner Adam C. , Ceglia Nick , Funnell Tyler , Park Tricia , Boscenco Sonia , O’Flanagan Ciara H. , Jiang Hui , Grewal Diljot , Tang Cerise , Rusk Nicole , Gammage Payam A. , McPherson Andrew , Aparicio Sam , Shah Sohrab P. , Reznik Ed 
Published: May 2024

AbstractThe extent of cell-to-cell variation in tumor mitochondrial DNA (mtDNA) copy number and genotype, and the phenotypic and evolutionary consequences of such variation, are poorly characterized. Here we use amplification-free single-cell whole-genome sequencing (Direct Library Prep (DLP+)) to simultaneously assay mtDNA copy number and nuclear DNA (nuDNA) in 72,275 single cells derived from immortalized cell lines, patient-derived xenografts and primary human tumors. Cells typically contained thousands of mtDNA copies, but variation in mtDNA copy number was extensive and strongly associated with cell size. Pervasive whole-genome doubling events in nuDNA associated with stoichiometrically balanced adaptations in mtDNA copy number, implying that mtDNA-to-nuDNA ratio, rather than mtDNA copy number itself, mediated downstream phenotypes. Finally, multimodal analysis of DLP+ and single-cell RNA sequencing identified both somatic loss-of-function and germline noncoding variants in mtDNA linked to heteroplasmy-dependent changes in mtDNA copy number and mitochondrial transcription, revealing phenotypic adaptations to disrupted nuclear/mitochondrial balance.
Investigating the growth promotion potential of biochar on pea (Pisum sativum) plants under saline conditions
Authors: Fareed Shahid , Haider Arslan , Ramzan Tahrim , Ahmad Muhammad , Younis Aqsa , Zulfiqar Usman , Rehman Hafeez ur , Waraich Ejaz Ahmad , Abbas Adeel , Chaudhary Talha , Soufan Walid 
Published: May 2024

AbstractPea, member of the plant family Leguminosae, play a pivotal role in global food security as essential legumes. However, their production faces challenges stemming from the detrimental impacts of abiotic stressors, leading to a concerning decline in output. Salinity stress is one of the major factors that limiting the growth and productivity of pea. However, biochar amendment in soil has a potential role in alleviating the oxidative damage caused by salinity stress. The purpose of the study was to evaluate the potential role of biochar amendment in soil that may mitigate the adverse effect of salinity stress on pea. The treatments of this study were, (a) Pea varieties; (i) V1 = Meteor and V2 = Green Grass, Salinity Stress, (b) Control (0 mM) and (ii) Salinity (80 mM) (c) Biochar applications; (i) Control, (ii) 8 g/kg soil (56 g) and (iii) 16 g/kg soil (112 g). Salinity stress demonstrated a considerable reduction in morphological parameters as Shoot and root length decreased by (29% and 47%), fresh weight and dry weight of shoot and root by (85, 63%) and (49, 68%), as well as area of leaf reduced by (71%) among both varieties. Photosynthetic pigments (chlorophyll a, b, and carotenoid contents decreased under 80 mM salinity up to (41, 63, 55 and 76%) in both varieties as compared to control. Exposure of pea plants to salinity stress increased the oxidative damage by enhancing hydrogen peroxide and malondialdehyde content by (79 and 89%), while amendment of biochar reduced their activities as, (56% and 59%) in both varieties. The activities of catalase (CAT), superoxide dismutase (SOD), and peroxidase (POD) were increased by biochar applications under salinity stress as, (49, 59, and 86%) as well as non-enzymatic antioxidants as, anthocyanin and flavonoids improved by (112 and 67%). Organic osmolytes such as total soluble proteins, sugars, and glycine betaine were increased up to (57, 83, and 140%) by biochar amendment. Among uptake of mineral ions, shoot and root Na+ uptake was greater (144 and 73%) in saline-stressed plants as compared to control, while shoot and root Ca2+ and K+ were greater up to (175, 119%) and (77, 146%) in biochar-treated plants. Overall findings revealed that 16 g/kg soil (112 g) biochar was found to be effective in reducing salinity toxicity by causing reduction in reactive oxygen species and root and shoot Na+ ions uptake and improving growth, physiological and anti-oxidative activities in pea plants (Fig. 1).
Statistical analysis on the incidence and predictors of death among second-line ART patients in public hospitals of North Wollo and Waghemira Zones, Ethiopia, 2021
Authors: Kidie Atitegeb Abera , Masresha Seteamlak Adane , Bizuneh Fassikaw Kebede 
Published: May 2024

AbstractAcquired immune deficiency virus, caused by the human immunodeficiency virus, is a significant global health concern. Sub-Saharan Africa particularly Ethiopia faces a high prevalence of human immunodeficiency virus. In low-income settings like Ethiopia, early mortality rates are elevated due to severe opportunistic infections and advanced disease at Anti-retroviral treatment initiation. Despite available treatments, delayed treatment initiation among Human Immunodeficiency Virus -infected individuals in Africa, including Ethiopia, leads to disease progression and increased mortality risk. This study aimed to identify the factors contributing to the death of HIV patients under treatment at second line regimen in public hospitals of North Wollo and Waghemira Zones. A retrospective cohort study with 474 patients was conducted in selected hospitals of North Wollo and Waghemira Zones. A parametric Weibull regression model was employed, and the adjusted hazard ratio served as the measure of association. Variables significantly affected the outcome of the study was determined at a p-value < 0.05, along with a 95% confidence interval for the variables. The patients were within the average age of 38.6(standard deviation ± 12.5) years and majority (45.57%) had no formal education. The overall death incidence rate among second-line anti-retroviral treatment patients was 1.98 per 100-person years [95% CI 1.4—2.9%]. Poor adherence to antiretroviral treatment, male gender, and being underweight significantly increased the hazard of death. Conversely, increased anti-retroviral treatment duration had a significant and negative impact, reducing the hazard of death among patients. The study reveals a high incidence of death among second line anti-retroviral treatment users. Independent predictors include poor adherence, male gender, and underweight status, all significantly increasing the risk of death. On the positive side, the hazard of death decreases with longer anti-retroviral treatment duration. A critical concern and counseling should be given for better ART adherence, to change their nutritional status and for males.
Long-lasting negativity in the left motoric brain structures during word memory inhibition in the Think/No-Think paradigm
Authors: Vitkova Viktoriya , Ristori Dominique , Cheron Guy , Bazan Ariane , Cebolla Ana Maria 
Published: May 2024

AbstractIn this study, we investigated the electrical brain responses in a high-density EEG array (64 electrodes) elicited specifically by the word memory cue in the Think/No-Think paradigm in 46 participants. In a first step, we corroborated previous findings demonstrating sustained and reduced brain electrical frontal and parietal late potentials elicited by memory cues following the No-Think (NT) instructions as compared to the Think (T) instructions. The topographical analysis revealed that such reduction was significant 1000 ms after memory cue onset and that it was long-lasting for 1000 ms. In a second step, we estimated the underlying brain generators with a distributed method (swLORETA) which does not preconceive any localization in the gray matter. This method revealed that the cognitive process related to the inhibition of memory retrieval involved classical motoric cerebral structures with the left primary motor cortex (M1, BA4), thalamus, and premotor cortex (BA6). Also, the right frontal-polar cortex was involved in the T condition which we interpreted as an indication of its role in the maintaining of a cognitive set during remembering, by the selection of one cognitive mode of processing, Think, over the other, No-Think, across extended periods of time, as it might be necessary for the successful execution of the Think/No-Think task.
The value of linear and non-linear quantitative EEG analysis in paediatric epilepsy surgery: a machine learning approach
Authors: Mercier Mattia , Pepi Chiara , Carfi-Pavia Giusy , De Benedictis Alessandro , Espagnet Maria Camilla Rossi , Pirani Greta , Vigevano Federico , Marras Carlo Efisio , Specchio Nicola , De Palma Luca 
Published: May 2024

AbstractEpilepsy surgery is effective for patients with medication-resistant seizures, however 20–40% of them are not seizure free after surgery. Aim of this study is to evaluate the role of linear and non-linear EEG features to predict post-surgical outcome. We included 123 paediatric patients who underwent epilepsy surgery at Bambino Gesù Children Hospital (January 2009–April 2020). All patients had long term video-EEG monitoring. We analysed 1-min scalp interictal EEG (wakefulness and sleep) and extracted 13 linear and non-linear EEG features (power spectral density (PSD), Hjorth, approximate entropy, permutation entropy, Lyapunov and Hurst value). We used a logistic regression (LR) as feature selection process. To quantify the correlation between EEG features and surgical outcome we used an artificial neural network (ANN) model with 18 architectures. LR revealed a significant correlation between PSD of alpha band (sleep), Mobility index (sleep) and the Hurst value (sleep and awake) with outcome. The fifty-four ANN models gave a range of accuracy (46–65%) in predicting outcome. Within the fifty-four ANN models, we found a higher accuracy (64.8% ± 7.6%) in seizure outcome prediction, using features selected by LR. The combination of PSD of alpha band, mobility and the Hurst value positively correlate with good surgical outcome.
The effect of diversity on disease reverses from dilution to amplification in a 22-year biodiversity × N × CO2 experiment
Authors: Strauss Alexander T. , Hobbie Sarah E. , Reich Peter B. , Seabloom Eric W. , Borer Elizabeth T. 
Published: May 2024

AbstractPlant disease often increases with N, decreases with CO2, and increases as biodiversity is lost (i.e., the dilution effect). Additionally, all these factors can indirectly alter disease by changing host biomass and hence density-dependent disease transmission. Yet over long periods of time as communities undergo compositional changes, these biomass-mediated pathways might fade, intensify, or even reverse in direction. Using a field experiment that has manipulated N, CO2, and species richness for over 20 years, we compared severity of a specialist rust fungus (Puccinia andropogonis) on its grass host (Andropogon gerardii) shortly after the experiment began (1999) and twenty years later (2019). Between these two sampling periods, two decades apart, we found that disease severity consistently increased with N and decreased with CO2. However, the relationship between diversity and disease reversed from a dilution effect in 1999 (more severe disease in monocultures) to an amplification effect in 2019 (more severe disease in mixtures). The best explanation for this reversal centered on host density (i.e., aboveground biomass), which was initially highest in monoculture, but became highest in mixtures two decades later. Thus, the diversity-disease pattern reversed, but disease consistently increased with host biomass. These results highlight the consistency of N and CO2 as drivers of plant disease in the Anthropocene and emphasize the critical role of host biomass—despite potentially variable effects of diversity—for relationships between biodiversity and disease.
Different association of atherogenic index of plasma with the risk of high platelet reactivity according to the presentation of acute myocardial infarction
Authors: Won Ki-Bum , Kim Hyeon Jeong , Cho Jun Hwan , Lee Sang Yup , Her Ae-Young , Kim Byeong-Keuk , Joo Hyung Joon , Park Yongwhi , Chang Kiyuk , Song Young Bin , Ahn Sung Gyun , Suh Jung-Won , Cho Jung Rae , Kim Hyo-Soo , Kim Moo Hyun , Lim Do-Sun , Kim Sang-Wook , Jeong Young-Hoon , Shin Eun-Seok 
Published: May 2024

AbstractThis study evaluated the association of atherogenic index of plasma (AIP) with platelet reactivity and clinical outcomes according to acute myocardial infarction (AMI). The composite of 3-year adverse outcomes of all-cause death, myocardial infarction, and cerebrovascular accident was evaluated in 10,735 patients after successful percutaneous coronary intervention with drug-eluting stents. AIP was defined as the base 10 logarithm of the ratio of triglyceride to high-density lipoprotein cholesterol concentration. High platelet reactivity (HPR) was defined as ≥ 252 P2Y12 reactivity unit. An increase of AIP (per-0.1 unit) was related to the decreased risk of HPR [odds ratio (OR) 0.97, 95% confidence interval (CI) 0.96–0.99; P = 0.001] in non-AMI patients, not in AMI patients (OR 0.98, 95% CI 0.96–1.01; P = 0.138). The HPR was associated with the increased risk of composite outcomes in both non-AMI and AMI patients (all-P < 0.05). AIP levels were not independently associated with the risk of composite outcomes in both patients with non-AMI and AMI. In conclusion, an inverse association between AIP and the risk of HPR was observed in patients with non-AMI. This suggests that the association between plasma atherogenicity and platelet reactivity may play a substantial role in the development of AMI.Trial registration: NCT04734028.
Scaling of damage mechanism for additively manufactured alloys at very high cycle fatigue
Authors: Voloskov B. S. , Bannikov M. V. , Bayandin Y. V. , Naimark O. B. , Sergeichev I. V. 
Published: May 2024

AbstractA comparative analysis of fracture mechanisms in high- and very high- cycle fatigue (HCF, VHCF) regimes was carried out based on the results of multifractal analysis of the fracture surfaces of additively manufactured 316L stainless steel samples. In terms of scale invariants, the morphology of fracture surfaces in HCF and VHCF regimes inside and outside the fine granular area is shown. The analysis demonstrated that chaotic patterns of relief formation prevail in the crack initiation zone of VHCF samples. However, there is a self-similar relief with a pronounced correlation in the crack propagation area. The relief of the crack growth areas for HCF and VHCF samples are similar to each other.
An in-silico modeling approach to separate exogenous and endogenous plasma insulin appearance, with application to inhaled insulin
Authors: Piersanti Agnese , Pacini Giovanni , Tura Andrea , D’Argenio David Z. , Morettini Micaela 
Published: May 2024

AbstractThe aim of this study was to develop a dynamic model-based approach to separately quantify the exogenous and endogenous contributions to total plasma insulin concentration and to apply it to assess the effects of inhaled-insulin administration on endogenous insulin secretion during a meal test. A three-step dynamic in-silico modeling approach was developed to estimate the two insulin contributions of total plasma insulin in a group of 21 healthy subjects who underwent two equivalent standardized meal tests on separate days, one of which preceded by inhalation of a Technosphere® Insulin dose (22U or 20U). In the 30–120 min test interval, the calculated endogenous insulin component showed a divergence in the time course between the test with and without inhaled insulin. Moreover, the supra-basal area-under-the-curve of endogenous insulin in the test with inhaled insulin was significantly lower than that in the test without (2.1 ± 1.7 × 104 pmol·min/L vs 4.2 ± 1.8 × 104 pmol·min/L, p < 0.01). The percentage of exogenous insulin reaching the plasma, relative to the inhaled dose, was 42 ± 21%. The proposed in-silico approach separates exogenous and endogenous insulin contributions to total plasma insulin, provides individual bioavailability estimates, and can be used to assess the effect of inhaled insulin on endogenous insulin secretion during a meal.
Cell type specific long non-coding RNA targets identified by integrative analysis of single-cell and bulk colorectal cancer transcriptomes
Authors: Mihaljevic Ante , Rubin Philip D. , Chouvardas Panagiotis , Esposito Roberta 
Published: May 2024

AbstractLong non-coding RNAs (lncRNAs) represent an emerging class of genes which play significant and diverse roles in human cancers. Nevertheless, the functional repertoires of lncRNAs in cancer cell subtypes remains unknown since most studies are focused on protein coding genes. Here, we explored the contribution of lncRNAs in Colorectal Cancer (CRC) heterogeneity. We analyzed 49′436 single-cells from 29 CRC patients and showed that lncRNAs are significantly more cell type specific compared to protein-coding genes. We identified 996 lncRNAs strongly enriched in epithelial cells. Among these, 98 were found to be differentially expressed in tumor samples compared to normal controls, when integrating 270 bulk CRC profiles. We validated the upregulation of two of them (CASC19 and LINC00460) in CRC cell lines and showed their involvement in CRC proliferation by CRISPR-Cas9 knock down experiments. This study highlights a list of novel RNA targets for potential CRC therapeutics, substantiated through experimental validation.
Association between serum vitamin A and body mass index in adolescents from NHANES 1999 to 2006
Authors: Su Xiaoqi , Patel Nishant , Zhu Shanliang , Zhou Xin , Chen Ye , Chen Jun , Mo Xuming 
Published: May 2024

AbstractVitamin A plays a pivotal role in health, particularly in regulating fat metabolism. Despite its significance, research into the direct relationship between vitamin A levels and obesity, especially among adolescents, is sparse. This study aims to explore this association within the adolescent population in the United States. This cross-sectional study analyzed the National Health and Nutrition Examination Survey (NHANES) data from 1999 to 2006, with 8218 participants. The levels of vitamin A in the serum were determined based on utilizing high-performance liquid chromatography with photodiode array detection. The relationship between serum vitamin A concentrations and body mass index (BMI) was evaluated using weighted multiple linear regression models, incorporating subgroup analyses by sex and race/ethnicity to provide nuanced insights. A positive correlation was observed between serum vitamin A levels and BMI, with BMI increasing progressively across vitamin A quartiles (P < 0.001). Using the lowest quartile of serum vitamin A as a reference, the BMI of the highest quartile of serum vitamin A was 1.236 times higher (95% CI 0.888, 1.585). Subgroup analyses revealed that this positive association persisted across different genders and racial/ethnic groups (P < 0.001). Notably, smooth curve fitting and saturation threshold analysis unveiled an inverted U-shaped relationship between serum vitamin A and BMI among female adolescents, non-Hispanic Whites, Mexican Americans, and other races/ethnicities groups. Our study substantiates the association between serum vitamin A levels and the risk of obesity/overweight status in adolescents. The findings suggest the potential serum vitamin A is an early biomarker for identifying obesity risk, although further studies are needed to determine to clarify its role as a contributing factor to obesity. This study contributes to the understanding of nutritional influences on adolescent obesity, highlighting the need for targeted interventions based on serum biomarkers.