bluuebunny/crossref_metadata_2025_split huggingface dataset:
Occurrence and diversity of stem nodulation in Aeschynomene and Sesbania legumes from wetlands of Madagascar
Authors: Manantsoa Faustin F. , Rakotoarisoa Marrino F. , Chaintreuil Clémence , Razakatiana Adamson T. E. , Gressent Frédéric , Pervent Marjorie , Bourge Mickaël , Andrianandrasana Martial D. , Nouwen Nico , Randriambanona Herizo , Ramanankierana Heriniaina , Arrighi Jean-François 
Published: February 2024

AbstractLegumes have the ability to establish a nitrogen-fixing symbiosis with soil rhizobia that they house in specific organs, the nodules. In most rhizobium-legume interactions, nodulation occurs on the root. However, certain tropical legumes growing in wetlands possess a unique trait: the capacity to form rhizobia-harbouring nodules on the stem. Despite the originality of the stem nodulation process, its occurrence and diversity in waterlogging-tolerant legumes remains underexplored, impeding a comprehensive analysis of its genetics and biology. Here, we aimed at filling this gap by surveying stem nodulation in legume species-rich wetlands of Madagascar. Stem nodulation was readily observed in eight hydrophytic species of the legume genera, Aeschynomene and Sesbania, for which significant variations in stem nodule density and morphology was documented. Among these species, A. evenia, which is used as genetic model to study the rhizobial symbiosis, was found to be frequently stem-nodulated. Two other Aeschynomene species, A. cristata and A. uniflora, were evidenced to display a profuse stem-nodulation as occurs in S. rostrata. These findings extend our knowledge on legumes species that are endowed with stem nodulation and further indicate that A. evenia, A. cristata, A. uniflora and S. rostrata are of special interest for the study of stem nodulation. As such, these legume species represent opportunities to investigate different modalities of the nitrogen-fixing symbiosis and this knowledge could provide cues for the engineering of nitrogen-fixation in non-legume crops.
Semi-automated approaches for interrogating spatial heterogeneity of tissue samples
Authors: Navikas Vytautas , Kowal Joanna , Rodriguez Daniel , Rivest François , Brajkovic Saska , Cassano Marco , Dupouy Diego 
Published: February 2024

AbstractTissues are spatially orchestrated ecosystems composed of heterogeneous cell populations and non-cellular elements. Tissue components’ interactions shape the biological processes that govern homeostasis and disease, thus comprehensive insights into tissues’ composition are crucial for understanding their biology. Recently, advancements in the spatial biology field enabled the in-depth analyses of tissue architecture at single-cell resolution, while preserving the structural context. The increasing number of biomarkers analyzed, together with whole tissue imaging, generate datasets approaching several hundreds of gigabytes in size, which are rich sources of valuable knowledge but require investments in infrastructure and resources for extracting quantitative information. The analysis of multiplex whole-tissue images requires extensive training and experience in data analysis. Here, we showcase how a set of open-source tools can allow semi-automated image data extraction to study the spatial composition of tissues with a focus on tumor microenvironment (TME). With the use of Lunaphore COMET platform, we interrogated lung cancer specimens where we examined the expression of 20 biomarkers. Subsequently, the tissue composition was interrogated using an in-house optimized nuclei detection algorithm followed by a newly developed image artifact exclusion approach. Thereafter, the data was processed using several publicly available tools, highlighting the compatibility of COMET-derived data with currently available image analysis frameworks. In summary, we showcased an innovative semi-automated workflow that highlights the ease of adoption of multiplex imaging to explore TME composition at single-cell resolution using a simple slide in, data out approach. Our workflow is easily transferrable to various cohorts of specimens to provide a toolset for spatial cellular dissection of the tissue composition.
Weak evidence of density dependent population regulation when using the ability of two simple density dependent models to predict population size
Authors: Gebreyohannes Demissew T. , Houlahan Jeff E. 
Published: February 2024

AbstractThe relative importance of density dependence regulation in natural population fluctuations has long been debated. The concept of density dependence implies that current abundance is determined by historical abundance. We have developed four models—two density dependent and two density independent—to predict population size one year beyond the training set and used predictive performance on more than 16,000 populations from 14 datasets to compare the understanding captured by those models. For 4 of 14 datasets the density dependent models make better predictions (i.e., density dependent regulated) than either of the density independent models. However, neither of the density dependent models is statistically significantly superior to density independent models for any of the 14 datasets. We conclude that the evidence for widespread density dependent population regulation in the forms represented by these two simple density-dependent models is weak. However, the density dependent models used here—the Logistic and Gompertz models—are simple representations of how population density might regulate natural populations and only examine density-dependent effects on population size. A comprehensive assessment of the relative importance of density-dependent population regulation will require testing the predictive ability of a wider range of density-dependent models including models examining effects on population characteristics other than population size.
Perception of temporal synchrony not a prerequisite for multisensory integration
Authors: Jertberg Robert M. , Begeer Sander , Geurts Hilde M. , Chakrabarti Bhismadev , Van der Burg Erik 
Published: February 2024

AbstractTemporal alignment is often viewed as the most essential cue the brain can use to integrate information from across sensory modalities. However, the importance of conscious perception of synchrony to multisensory integration is a controversial topic. Conversely, the influence of cross-modal incongruence of higher level stimulus features such as phonetics on temporal processing is poorly understood. To explore the nuances of this relationship between temporal processing and multisensory integration, we presented 101 participants (ranging from 19 to 73 years of age) with stimuli designed to elicit the McGurk/MacDonald illusion (either matched or mismatched pairs of phonemes and visemes) with varying degrees of stimulus onset asynchrony between the visual and auditory streams. We asked them to indicate which syllable they perceived and whether the video and audio were synchronized on each trial. We found that participants often experienced the illusion despite not perceiving the stimuli as synchronous, and the same phonetic incongruence that produced the illusion also led to significant interference in simultaneity judgments. These findings challenge the longstanding assumption that perception of synchrony is a prerequisite to multisensory integration, support a more flexible view of multisensory integration, and suggest a complex, reciprocal relationship between temporal and multisensory processing.
The Tuning in to Kids parenting program delivered online improves emotion socialization and child behavior in a first randomized controlled trial
Authors: Burkhardt Susan C. A. , Röösli Patrizia , Müller Xenia 
Published: February 2024

AbstractEmotion-focused parenting interventions have only rarely been evaluated systematically in Europe. This study investigates the effectiveness of “Tuning in to Kids” (TIK) from Australia delivered online in a randomized controlled trial. TIK is a six-week emotion-focused group parenting program that has shown to improve many aspects of parent emotion socialization as well as child problem behavior in several different countries across cultures. Parents (N = 141) of children between 3 and 6 years of age were included in the study and randomly assigned to an intervention and wait-list control group. The intervention was delivered online due to the worldwide COVID-19 pandemic in spring 2021 (intervention group) and one year later (control group) in Switzerland. Parents’ beliefs about emotions, their reported reactions to the child’s negative emotions, family emotional climate, and child behavior (internalizing and externalizing) improved after the intervention and stayed better until the 6 months follow-up in the intervention group, but not in the wait-list controls. Adherence to the program was very high. This study shows that parent emotion socialization practice is changeable with small effects even on child behavior and even after online delivery. This possibly makes Tuning in to Kids a promising emotion-focused parenting intervention when delivered online as an interactive group webinar.
Severe COVID-19 and long COVID are associated with high expression of STING, cGAS and IFN-α
Authors: Queiroz Maria Alice Freitas , Brito Wandrey Roberto dos Santos , Pereira Keise Adrielle Santos , Pereira Leonn Mendes Soares , Amoras Ednelza da Silva Graça , Lima Sandra Souza , Santos Erika Ferreira dos , Costa Flávia Póvoa da , Sarges Kevin Matheus Lima de , Cantanhede Marcos Henrique Damasceno , Brito Mioni Thieli Figueiredo Magalhães d , Silva Andréa Luciana Soares da , Leite Mauro de Meira , Viana Maria de Nazaré do Socorro de Almei , Rodrigues Fabíola Brasil Barbosa , Silva Rosilene da , Viana Giselle Maria Rachid , Chaves Tânia do Socorro Souza , Veríssimo Adriana de Oliveira Lameira , Carvalho Mayara da Silva , Henriques Daniele Freitas , Silva Carla Pinheiro da , Nunes Juliana Abreu Lima , Costa Iran Barros , Cayres-Vallinoto Izaura Maria Vieira , Brasil-Costa Igor , Quaresma Juarez Antônio Simões , Falcão Luiz Fábio Magno , Santos Eduardo José Melo dos , Vallinoto Antonio Carlos Rosário 
Published: February 2024

AbstractThe cGAS-STING pathway appears to contribute to dysregulated inflammation during coronavirus disease 2019 (COVID-19); however, inflammatory factors related to long COVID are still being investigated. In the present study, we evaluated the association of cGAS and STING gene expression levels and plasma IFN-α, TNF-α and IL-6 levels with COVID-19 severity in acute infection and long COVID, based on analysis of blood samples from 148 individuals, 87 with acute COVID-19 and 61 in the post-COVID-19 period. Quantification of gene expression was performed by real-time PCR, and cytokine levels were quantified by ELISA and flow cytometry. In acute COVID-19, cGAS, STING, IFN-α, TNF-α, and IL-6 levels were higher in patients with severe disease than in those with nonsevere manifestations (p < 0.05). Long COVID was associated with elevated cGAS, STING and IFN-α levels (p < 0.05). Activation of the cGAS-STING pathway may contribute to an intense systemic inflammatory state in severe COVID-19 and, after infection resolution, induce an autoinflammatory disease in some tissues, resulting in long COVID.
Study on blasting fragmentation mechanism of burnt rock in open-pit coal mine
Authors: Jia Zheng-Zhao , Li Hong-Jie , Li Wei , Yan Jie , Wang Xiao-He 
Published: February 2024

AbstractA large number of burnt rocks in some open-pit mines in Xinjiang, Inner Mongolia and Ningxia have a great influence on the blasting effect. For this kind of rock, through the analysis of physical and chemical changes, combined with ANSYS/LS-DYNA and PFC 2D numerical simulation software, a burnt rock model with multiple joint cracks and irregular distribution is constructed to simulate the blasting process of burnt rock under the combined action of stress wave and detonation gas. The results show that the fracture of rock mass affects the propagation of blasting cracks in the fracture area, resulting in stress concentration and stress hindrance. The action time of stress wave is reduced, and the energy of blasting gas is partially absorbed by the fracture, resulting in uneven stress on the burnt rock bench and seriously affecting the bench blasting effect.
Elucidating hepatocellular carcinoma progression: a novel prognostic miRNA–mRNA network and signature analysis
Authors: Wang Fei , Kang Xichun , Li Yaoqi , Lu Jianhua , Liu Xiling , Yan Huimin 
Published: February 2024

AbstractThere is increasing evidence that miRNAs play an important role in the prognosis of HCC. There is currently a lack of acknowledged models that accurately predict patient prognosis. The aim of this study is to create a miRNA-based model to precisely forecast a patient’s prognosis and a miRNA–mRNA network to investigate the function of a targeted mRNA. TCGA miRNA dataset and survival data of HCC patients were downloaded for differential analysis. The outcomes of variance analysis were subjected to univariate and multivariate Cox regression analyses and LASSO analysis. We constructed and visualized prognosis-related models and subsequently used violin plots to probe the function of miRNAs in tumor cells. We predicted the target mRNAs added those to the String database, built PPI protein interaction networks, and screened those mRNA using Cytoscape. The hub mRNA was subjected to GO and KEGG analysis to determine its biological role. Six of them were associated with prognosis: hsa-miR-139-3p, hsa-miR-139-5p, hsa-miR-101-3p, hsa-miR-30d-5p, hsa-miR-5003-3p, and hsa-miR-6844. The prognostic model was highly predictive and consistently performs, with the C index exceeding 0.7 after 1, 3, and 5 years. The model estimated significant differences in the Kaplan–Meier plotter and the model could predict patient prognosis independently of clinical indicators. A relatively stable miRNA prognostic model for HCC patients was constructed, and the model was highly accurate in predicting patients with good stability over 5 years. The miRNA–mRNA network was constructed to explore the function of mRNA.
Human kinesin-5 KIF11 drives the helical motion of anti-parallel and parallel microtubules around each other
Authors: Meißner Laura , Niese Lukas , Schüring Irene , Mitra Aniruddha , Diez Stefan 
Published: February 2024

AbstractDuring mitosis, motor proteins and microtubule-associated protein organize the spindle apparatus by cross-linking and sliding microtubules. Kinesin-5 plays a vital role in spindle formation and maintenance, potentially inducing twist in the spindle fibers. The off-axis power stroke of kinesin-5 could generate this twist, but its implications in microtubule organization remain unclear. Here, we investigate 3D microtubule-microtubule sliding mediated by the human kinesin-5, KIF11, and found that the motor caused right-handed helical motion of anti-parallel microtubules around each other. The sidestepping ratio increased with reduced ATP concentration, indicating that forward and sideways stepping of the motor are not strictly coupled. Further, the microtubule-microtubule distance (motor extension) during sliding decreased with increasing sliding velocity. Intriguingly, parallel microtubules cross-linked by KIF11 orbited without forward motion, with nearly full motor extension. Altering the length of the neck linker increased the forward velocity and pitch of microtubules in anti-parallel overlaps. Taken together, we suggest that helical motion and orbiting of microtubules, driven by KIF11, contributes to flexible and context-dependent filament organization, as well as torque regulation within the mitotic spindle.
Integrative analysis of metabolism subtypes and identification of prognostic metabolism-related genes for glioblastoma
Authors: Li Jiahui , Wei Yutian , Liu Jiali , Cheng Shupeng , Zhang Xia , Qiu Huaide , Li Jianan , He Chuan 
Published: February 2024

Abstract
Increasing evidence has demonstrated that cancer cell metabolism is a critical factor in tumor development and progression; however, its role in glioblastoma (GBM) remains limited. In the present study, we classified GBM into three metabolism subtypes (MC1, MC2, and MC3) through cluster analysis of 153 GBM samples from the RNA-sequencing data of The Cancer Genome Atlas (TCGA) based on 2752 metabolism-related genes (MRGs). We further explored the prognostic value, metabolic signatures, immune infiltration, and immunotherapy sensitivity of the three metabolism subtypes. Moreover, the metabolism scoring model was established to quantify the different metabolic characteristics of the patients. Results showed that MC3, which is associated with a favorable survival outcome, had higher proportions of isocitrate dehydrogenase (IDH) mutations and lower tumor purity and proliferation. The MC1 subtype, which is associated with the worst prognosis, shows a higher number of segments and homologous recombination defects and significantly lower mRNA expression-based stemness index (mRNAsi) and epigenetic-regulation-based mRNAsi. The MC2 subtype has the highest T-cell exclusion score, indicating a high likelihood of immune escape. The results were validated using an independent dataset. Five MRGs (ACSL1, NDUFA2, CYP1B1, SLC11A1, and COX6B1) correlated with survival outcomes were identified based on metabolism-related co-expression module analysis. Laboratory-based validation tests further showed the expression of these MRGs in GBM tissues and how their expression influences cell function. The results provide a reference for developing clinical management approaches and treatments for GBM.
TIM‐Net: A multi‐label classification network for TCM tongue images fusing global‐local features
Authors: Zhang Xinfeng , Shao Jie , Bian Haonan , Li Hui , Jia Maoshen , Liu Xiaomin 
Published: February 2024

AbstractCombining the extracted tongue features with other medical indicators can effectively judge the diseases of patients. The previous work usually only analyzes a certain feature of the tongue body and is unable to extract multiple features simultaneously. In this study, a multi‐label classification network named TIM‐Net is proposed, which integrates global and local features to achieve multi‐label intelligent diagnosis of Chinese medicine tongue images. First, a feature extraction network based on ResNet is proposed to capture the features of tongue images more sufficiently. Then, a multi‐label classification algorithm fusing global and local features is proposed, and targeted screening operations are carried out on the class‐related feature maps based on global confidence. In addition, a logical masking algorithm is proposed to ensure that the local features can only correct the feature labels they represent, and do not interfere with other feature labels. The classification accuracy is further improved by using local feature confidence and correcting the global classification results. Finally, the experimental results indicate that the classification accuracy of the tongue images is gradually improved through optimizing the feature extraction network and fusing local features, and it exceeds other state‐of‐the‐art multi‐label classification networks.
Study on high voltage (5 V) spinel lithium manganese oxide LiNi0.5Mn1.5O4 by doping niobium
Authors: Li Wei , Wang Xiaotao , Wu Dan , Kong Dehao , Wu Han , Mang Lai , Liao Bo , Tegus O. , Cao Yongjun , Haschuluu Oimod 
Published: February 2024

AbstractThe effect of niobium ions with high‐valence doping on high‐voltage LiNi0.5Mn1.5O4 (LNMO) materials was investigated. LiNi0.5Mn1.5−xNbxO4 was prepared by doping high‐valent niobium ions into LiNi0.5Mn1.5O4 material using the organic assisted combustion method. The experimental samples were characterized by scanning electron microscopy (SEM), transmission electron microscopy (TEM), X‐ray diffraction (XRD), X‐ray photoelectron spectroscopy (XPS), electrochemical impedance (EI), and cyclic voltammetry (CV) analysis. The experimental results show that ‐doping with high‐valence niobium ions changes the orientation of the crystal plane growth of spinel particles, and the morphology of these particles changes from the octahedral shape before doping to the spherical shape after doping. With the increase in doping amount, the crystal structure changes gradually, resulting in the Li0.96Nb1.01O3 impurity phase. The doping of high valence‐niobium ions increases the content of Mn3+ in the material, resulting in the appearance of a 4 V discharge platform and the formation of a 4.7 and 4 V discharge platforms. The doping of Nb can improve the cycling stability of LiNi0.5Mn1.5O4 material, but the specific capacity of the material is reduced.
100 Years of Thrombotic Thrombocytopenic Purpura: A Story of Death and Life
Authors: Lämmle Bernhard , Vanhoorelbeke Karen , Kremer Hovinga Johanna A. , Knöbl Paul 
Published: February 2024

AbstractOne hundred years ago, in 1924, the first description of a patient with a disease, now known as thrombotic thrombocytopenic purpura (TTP) was published by Dr. Eli Moschcowitz. In honor of this report, this article, written by distinguished specialists in TTP, reviews the increase in scientific knowledge on this disease during the last 100 years. It covers the scientific progress from plasma therapy, the first beneficial treatment for TTP, to the elucidation of the pathophysiology, the discovery of ADAMTS13, the development of assays and targeted therapies up to the modern treatment concepts, that improved the outcome of TTP from an incurable disease to a well understood and treatable disorder.
How I Teach It: robotische Chirurgie am oberen Gastrointestinaltrakt
Authors: Baecker Justus , Hummel Richard 
Published: February 2024

ZusammenfassungIm vorliegenden Manuskript stellen wir unser Konzept zur Ausbildung in der robotischen Chirurgie des oberen Gastrointestinaltraktes vor. Das hier vorgestellte Ausbildungskonzept fokussiert sich auf die beiden chirurgischen „Benutzergruppen“, (Table Assists) und Fachärzt*innen (Operateur*innen), und stellt separat die Kernaspekte des Trainings der jeweiligen Gruppe vor.Für Table Assists stellen wir Möglichkeiten für die frühzeitige Einbindung in die Robotik dar und stellen unseren Ansatz zur Erlernung von ersten Schritten in der Vorbereitung der Operation, der Assistenz während der Operation, der Kommunikation als Schlüsselfaktor in der robotischen Chirurgie sowie des alternativen Trainings vor.Für Fachärzt*innen, welche die eigenständige Durchführung robotischer Eingriffe erlernen sollen, diskutieren wir das virtuelle Training mittels SimNow Trainer und den von uns präferierten frühen klinischen Einsatz. Weiter stellen wir Möglichkeiten der Assistenz wie das Dual-Console-Setup und das Telestration-System vor. Abschließend präsentieren wir unser Trainingskonzept zur Entwicklung robotischer operativer Fertigkeiten im oberen Gastrointestinaltrakt durch eine Kombination aus Teilschritten und steigendem Schwierigkeitsgrad der Eingriffe. Essenziell hierbei ist aus unserer Sicht, die Stepstones der Roboterchirurgie zu vermitteln und sicher zu beherrschen. Hierzu muss das Training strukturiert und regelmäßig erfolgen, sodass Schritt für Schritt komplexere Teilschritte und Eingriffe übernommen werden können.