bluuebunny/crossref_metadata_2025_split huggingface dataset:
Claudin-1 as a novel target gene induced in obesity and associated to inflammation, fibrosis, and cell differentiation
Authors: Fernández-García Pablo , Taxerås Siri D , Reyes-Farias Marjorie , González Lorena , Soria-Gondek Andrea , Pellitero Silvia , Tarascó Jordi , Moreno Pau , Sumoy Lauro , Stephens Jacqueline M , Yoo Lindsey G , Galán María , Izquierdo Adriana , Medina-Gómez Gema , Herrero Laura , Corrales Patricia , Villarroya Francesc , Cereijo Rubén , Sánchez-Infantes David 
Published: February 2024

Abstract

Objective
T lymphocytes from visceral and subcutaneous white adipose tissues (vWAT and sWAT, respectively) can have opposing roles in the systemic metabolic changes associated with obesity. However, few studies have focused on this subject. Claudin-1 (CLDN1) is a protein involved canonically in tight junctions and tissue paracellular permeability. We evaluated T-lymphocyte gene expression in vWAT and sWAT and in the whole adipose depots in human samples.

Methods
A Clariom D-based transcriptomic analysis was performed on T lymphocytes magnetically separated from vWAT and sWAT from patients with obesity (Cohort 1; N = 11). Expression of candidate genes resulting from that analysis was determined in whole WAT from individuals with and without obesity (Cohort 2; patients with obesity: N = 13; patients without obesity: N = 14).

Results
We observed transcriptional differences between T lymphocytes from sWAT compared with vWAT. Specifically, CLDN1 expression was found to be dramatically induced in vWAT T cells relative to those isolated from sWAT in patients with obesity. CLDN1 was also induced in obesity in vWAT and its expression correlates with genes involved in inflammation, fibrosis, and adipogenesis.

Conclusion
These results suggest that CLDN1 is a novel marker induced in obesity and differentially expressed in T lymphocytes infiltrated in human vWAT as compared with sWAT. This protein may have a crucial role in the crosstalk between T lymphocytes and other adipose tissue cells and may contribute to inflammation, fibrosis, and alter homeostasis and promote metabolic disease in obesity.
Host and nonhost bacteria support bacteriophage dissemination along mycelia and abiotic dispersal networks
Authors: Périat Claire , Kuhn Thierry , Buffi Matteo , Corona-Ramirez Andrea , Fatton Mathilda , Cailleau Guillaume , Chain Patrick S , Stanley Claire E , Wick Lukas Y , Bindschedler Saskia , Gonzalez Diego , Li Richter Xiang-Yi , Junier Pilar 
Published: February 2024

Abstract
Bacteriophages play a crucial role in shaping bacterial communities, yet the mechanisms by which nonmotile bacteriophages interact with their hosts remain poorly understood. This knowledge gap is especially pronounced in structured environments like soil, where spatial constraints and air-filled zones hinder aqueous diffusion. In soil, hyphae of filamentous microorganisms form a network of ‘fungal highways’ (FHs) that facilitate the dispersal of other microorganisms. We propose that FHs also promote bacteriophage dissemination. Viral particles can diffuse in liquid films surrounding hyphae or be transported by infectable (host) or uninfectable (nonhost) bacterial carriers coexisting on FH networks. To test this, two bacteriophages that infect Pseudomonas putida DSM291 (host) but not KT2440 (nonhost) were used. In the absence of carriers, bacteriophages showed limited diffusion on 3D-printed abiotic networks, but diffusion was significantly improved in Pythium ultimum-formed FHs when the number of connecting hyphae exceeded 20. Transport by both host and nonhost carriers enhanced bacteriophage dissemination. Host carriers were five times more effective in transporting bacteriophages, particularly in FHs with over 30 connecting hyphae. This study enhances our understanding of bacteriophage dissemination in nonsaturated environments like soils, highlighting the importance of biotic networks and bacterial hosts in facilitating this process.
Analysis of the spatio-temporal dynamics of Buxus hyrcana Pojark defoliation using spaceborne satellite data
Authors: Saba Fatemeh , Latifi Hooman , Zoej Mohammad Javad Valadan , Heipke Christian 
Published: February 2024

Abstract
This study aims to assess the spatio-temporal defoliation dynamics of box tree, one of the few evergreen species of the Hyrcanian Forests. For this, we integrated multi-temporal leaf-off optical Sentinel-2 and radar Sentinel-1 data from 2017 to 2021 with elevation data. A state-of-the-art sample migration approach was used to generate annual reference samples of two categories (defoliated and healthy box tree) for a set of target years 2017–2020. This approach is based on field samples of the reference year 2021 and two similarity measures, the Euclidean distance and the spectral angle distance. The analysis of spectral and radar profiles showed that the migrated samples were well representative of both defoliated and healthy box trees categories. The migrated samples were then used for spatially mapping the two classes using support vector machine classification. The results of support vector machine classification indicated a large extent of box tree mortality. The most significant changes from healthy box trees to defoliated ones, or vice versa, occurred during the years 2017 and 2018. In the consecutive years of 2019, 2020, and 2021, no significant changes in the distribution of healthy or defoliated box trees were observed. The statistical assessment also revealed that mortality of evergreen understory tree species can be mapped with practically sufficient overall accuracies reaching from 84% (in 2017) to 91%–92% (in 2020 and 2021) using spaceborne remote sensing data. This information using freely accessible satellite data can benefit forest managers responsible for monitoring landscapes affected by the box moth and facilitates the identification of optimal control programs.
The Impact of Air Pollution on Physical Functioning Decline and the Benefits of Greenness: Evidence From a Nationwide Cohort Study
Authors: Zhang Ke , He Jie , Chen Zhongyang , Pan Mengnan , Tong Jiahui , Kou Dejian , Liu Feifei , Xiang Hao 
Published: February 2024

Abstract

Background
Physical functional limitations (PFLs) increase the vulnerability of adults, but their pathogenesis remains unclear.

Methods
We conducted a nationwide longitudinal study on 62 749 records from 18 878 adults (aged ≥45) from 28 provinces in China. Risk of PFLs was assessed using a validated 9-item questionnaire. Exposure levels of air pollutants (PM10, PM2.5, and PM1) and greenness (normalized difference vegetation index, NDVI) were estimated using a satellite-based spatiotemporal model. We used the cumulative link mixed effects model to estimate the associations between short-term and long-term exposure to air pollutants, greenness, and risk of PFLs. We employed the interaction effect model to evaluate interactions between air pollutants and greenness.

Results
Participants were 60.9 ± 9.6 years, with an average follow-up of 5.87 (1.65) years. Exposure to air pollution was significantly associated with a higher risk of PFLs. For instance, the odds ratio (OR) associated with each 10 μg/m3 higher in 6-month averaged PM10, PM2.5, and PM1 were 1.025 (95% CI: 1.015–1.035), 1.035 (95% CI: 1.018–1.054), and 1.029 (95% CI: 1.007–1.050), respectively. Conversely, exposure to greenness was associated with decreased risk of PFLs; the OR associated with each 1-unit higher in 1-year averaged NDVI was 0.724 (95% CI: 0.544–0.962). Furthermore, higher greenness levels were found to mitigate the adverse effects of 1-year, 6-month, 1-month averaged PM10, and 1-year averaged PM2.5 on the risk of PFLs.

Conclusions
Air pollution raises the risk of PFLs, whereas greenness could mitigate the adverse effects. Reducing air pollution and enhancing greenness could prevent physical functioning.
Abdominal Body Composition Reference Ranges and Association With Chronic Conditions in an Age- and Sex-Stratified Representative Sample of a Geographically Defined American Population
Authors: Weston Alexander D , Grossardt Brandon R , Garner Hillary W , Kline Timothy L , Chamberlain Alanna M , Allen Alina M , Erickson Bradley J , Rocca Walter A , Rule Andrew D , St. Sauver Jennifer L 
Published: February 2024

Abstract

Background
Body composition can be accurately quantified from abdominal computed tomography (CT) exams and is a predictor for the development of aging-related conditions and for mortality. However, reference ranges for CT-derived body composition measures of obesity, sarcopenia, and bone loss have yet to be defined in the general population.

Methods
We identified a population-representative sample of 4 900 persons aged 20 to 89 years who underwent an abdominal CT exam from 2010 to 2020. The sample was constructed using propensity score matching an age and sex stratified sample of persons residing in the 27-county region of Southern Minnesota and Western Wisconsin. The matching included race, ethnicity, education level, region of residence, and the presence of 20 chronic conditions. We used a validated deep learning based algorithm to calculate subcutaneous adipose tissue area, visceral adipose tissue area, skeletal muscle area, skeletal muscle density, vertebral bone area, and vertebral bone density from a CT abdominal section.

Results
We report CT-based body composition reference ranges on 4 649 persons representative of our geographic region. Older age was associated with a decrease in skeletal muscle area and density, and an increase in visceral adiposity. All chronic conditions were associated with a statistically significant difference in at least one body composition biomarker. The presence of a chronic condition was generally associated with greater subcutaneous and visceral adiposity, and lower muscle density and vertebrae bone density.

Conclusions
We report reference ranges for CT-based body composition biomarkers in a population-representative cohort of 4 649 persons by age, sex, body mass index, and chronic conditions.
Chromosome-level genome of the poultry shaft louse Menopon gallinae provides insight into the host-switching and adaptive evolution of parasitic lice
Authors: Xu Ye , Ma Ling , Liu Shanlin , Liang Yanxin , Liu Qiaoqiao , He Zhixin , Tian Li , Duan Yuange , Cai Wanzhi , Li Hu , Song Fan 
Published: February 2024

Abstract

Background
Lice (Psocodea: Phthiraptera) are one important group of parasites that infects birds and mammals. It is believed that the ancestor of parasitic lice originated on the ancient avian host, and ancient mammals acquired these parasites via host-switching from birds. Here we present the first chromosome-level genome of Menopon gallinae in Amblycera (earliest diverging lineage of parasitic lice). We explore the transition of louse host-switching from birds to mammals at the genomic level by identifying numerous idiosyncratic genomic variations.

Results
The assembled genome is 155 Mb in length, with a contig N50 of 27.42 Mb. Hi-C scaffolding assigned 97% of the bases to 5 chromosomes. The genome of M. gallinae retains a basal insect repertoire of 11,950 protein-coding genes. By comparing the genomes of lice to those of multiple representative insects in other orders, we discovered that gene families of digestion, detoxification, and immunity-related are generally conserved between bird lice and mammal lice, while mammal lice have undergone a significant reduction in genes related to chemosensory systems and temperature. This suggests that mammal lice have lost some of these genes through the adaption to environment and temperatures after host-switching. Furthermore, 7 genes related to hematophagy were positively selected in mammal lice, suggesting their involvement in the hematophagous behavior.

Conclusions
Our high-quality genome of M. gallinae provides a valuable resource for comparative genomic research in Phthiraptera and facilitates further studies on adaptive evolution of host-switching within parasitic lice.
Socializing Warlord Democrats: Analyzing Violent Discursive Practices in Post-Civil War Politics
Authors: Sjöstedt Roxanna , Kovacs Mimmi Söderberg , Themnér Anders , Persson Henrik 
Published: February 2024

Abstract
Across the world, so-called warlord democrats (WDs) – former military or political leaders of armed groups who subsequently enter formal electoral politics – strongly influence the dynamics and trajectory of post-civil war politics. However, scholarship on war-to-peace transitions and post-conflict politics have often failed to pay attention to the agency of these important actors. This article rectifies this oversight, and thereby adds to the overarching scholarly debate on what enhances or hampers democratic processes after violent conflict. It makes two main contributions. First, by putting an explicit focus on the individual level of analysis and on the agency of WDs, the article opens up an avenue of research that previously has been black-boxed. Second, it demonstrates that the assumptions of socialization theory are particular suitable for enhancing our understanding of variations in the agency of WDs and their impact on post-conflict electoral politics. A novel analytical framework that refines the concept guides the empirical examination of the socialization processes of two WDs over time: Julius Maada Bio, the ex-junta leader who became President of Sierra Leone and Prince Johnson, the ex-warlord in Liberia who became Senator and presidential candidate. The findings suggest that the socialization theory holds promise as a new perspective on the study of WDs, but the theory may also need additional conceptual development and adjustment when applied outside its traditional empirical context and at the individual levels of analysis. Specifically, we find that the democratic socialization of our selected WDs display the characteristics of hybrid socialization, where conflicting normative frameworks result in lopsided socialization processes. But more research is needed on how to empirically distinguish between cost-benefit calculations and a logic of appropriateness, the long-term implications of hybrid socialization, and how to theoretically reconcile individual level socialization processes with that of states or groups.
Host associations of Culex panocossa (Diptera: Culicidae) in southern Florida and its implications for arbovirus transmission
Authors: Sloyer Kristin E , Reeves Lawrence E , Burkett-Cadena Nathan D 
Published: February 2024

Abstract
Culex panocossa, Dyar and Knab, an important enzootic vector of Venezuelan equine encephalitis virus subtype ID in Central and South America, was found to have invaded and become established in southern Florida in 2016. No information is currently available regarding the ecology of this invasive mosquito in the United States. Here, we use PCR-based blood meal analysis to investigate vertebrate host associations of Cx. panocossa from Florida to provide information necessary for determining the potential importance of this mosquito for arbovirus transmission in the United States. Culex panocossa fed mainly upon birds (49.5%) but took a substantial fraction of blood meals from mammals (33.3%) and reptiles (17.1%). By feeding upon amplifying hosts of Everglades virus (hispid cotton rat) and eastern equine encephalitis virus (wading birds) and humans, Cx. panocossa could act as a bridge vector for these pathogenic Alphaviruses in Florida, potentially resulting in increased human disease.
Fusariosis in burn patients: A systematic review of case reports
Authors: Piccoli Paola , Lucini Fabíola , Al-Hatmi Abdullah M S , Rossato Luana 
Published: February 2024

Abstract
Burns can cause skin damage, facilitating the entry of fungi and other microorganisms into the body, leading to infections. Fusarium is a fungus capable of infecting individuals with burn injuries. Diagnosing and treating Fusarium infections in burn patients can be challenging due to the manifestation of nonspecific symptoms. This study aims to investigate case reports and case series from published literature describing Fusarium infection in burned patients, in order to assess treatment regimens, clinical outcomes, and make recommendations for future management. We conducted searches on Web of Science, PubMed, ScienceDirect, and Medline for all case reports and case series containing keywords ‘Burn’, ‘Burns’, ‘Burned’, ‘Fusarium’, or ‘Fusariosis’ in the title or abstract. All burn patients who developed Fusarium fungal infections between January 1974 and March 2023 were included in the study. Demographic and clinical data were analyzed retrospectivity. The final analysis incorporates 24 case reports encompassing a total of 87 burn patients with Fusarium infection. Patient ages ranged from one to 85 years, with the majority being male (53%). The median percentage of burn surface area was 78%, and the skin in the face, upper limbs, and lower limbs were the most commonly infected sites. Fungal infections appeared around 10 days after the burn injury on average. The majority of the patients were identified through culture or histopathology. The Fusarium dimerum species complex, which was found in nine patients, was the most frequently identified Fusarium species complex. Amphotericin B was the most preferred treatment drug, followed by voriconazole, and 62% of patients underwent debridement. In our study, 23 patients (37%) died from fungal infections. Implementing early and effective treatment protocols targeting Fusarium spp. in burn treatment units can significantly reduce mortality rates. It is critical to enhance the understanding of fusariosis epidemiology and emphasize the importance of maintaining a high clinical suspicion for this condition in burn patients.
ERGO-ML: comparing IllustrisTNG and HSC galaxy images via contrastive learning
Authors: Eisert Lukas , Bottrell Connor , Pillepich Annalisa , Shimakawa Rhythm , Rodriguez-Gomez Vicente , Nelson Dylan , Angeloudi Eirini , Huertas-Company Marc 
Published: February 2024

ABSTRACT
Modern cosmological hydrodynamical galaxy simulations provide tens of thousands of reasonably realistic synthetic galaxies across cosmic time. However, quantitatively assessing the level of realism of simulated universes in comparison to the real one is difficult. In this paper of the Extracting Reality from Galaxy Observables with Machine Learning series, we utilize contrastive learning to directly compare a large sample of simulated and observed galaxies based on their stellar-light images. This eliminates the need to specify summary statistics and allows to exploit the whole information content of the observations. We produce survey-realistic galaxy mock data sets resembling real Hyper Suprime-Cam (HSC) observations using the cosmological simulations TNG50 and TNG100. Our focus is on galaxies with stellar masses between 109 and 1012 M⊙ at z = 0.1–0.4. This allows us to evaluate the realism of the simulated TNG galaxies in comparison to actual HSC observations. We apply the self-supervised contrastive learning method Nearest Neighbour Contrastive Learning to the images from both simulated and observed data sets (g-, r-, i-bands). This results in a 256-dimensional representation space, encoding all relevant observable galaxy properties. First, this allows us to identify simulated galaxies that closely resemble real ones by seeking similar images in this multidimensional space. Even more powerful, we quantify the alignment between the representations of these two image sets, finding that the majority (≳ 70 per cent) of the TNG galaxies align well with observed HSC images. However, a subset of simulated galaxies with larger sizes, steeper Sérsic profiles, smaller Sérsic ellipticities, and larger asymmetries appears unrealistic. We also demonstrate the utility of our derived image representations by inferring properties of real HSC galaxies using simulated TNG galaxies as the ground truth.
Probing the accretion geometry of the atoll source 4U 1702−429 in different spectral states with NICER, NuSTAR, and AstroSat
Authors: Banerjee Srimanta , Homan Jeroen 
Published: February 2024

ABSTRACT
We perform a comprehensive spectral study of a carefully selected sample (total exposure ∼50.5 ks) of NICER observations of the atoll neutron star low-mass X-ray binary 4U 1702−429. Our sample encompasses nearly all classical spectral states found within the NICER data set. We require two thermal emission components, originating from the accretion disc and the boundary layer, to describe the soft state spectra in the energy band 0.3–10.0 keV. In contrast, in our model, only the disc component directly contributes to the intermediate/hard state. Additionally, we use a thermally Comptonized component (or a power law with pegged normalization) to represent the hard coronal emission in the soft and intermediate/hard state spectra. The boundary layer emerges as the principal source providing soft seed photons for Comptonization across all spectral states. In contrast to a previously held assertion regarding this source, our analyses reveal a decrease in the inner disc temperature coupled with the retreat of the inner disc from the neutron star surface as the source evolves from the soft to the intermediate/hard state. The reflection features are either absent or weak (∼3σ–4σ) in all these observations. Further investigation using broad-band NuSTAR (3.0–50.0 keV) and AstroSat spectra (1.3–25.0 keV) shows a slightly stronger iron emission line (∼5.8σ) in the NuSTAR spectra. However, this feature is not significantly detected in the AstroSat observation. The AstroSat data suggest a highly ionized disc, explaining the absence of reflection features. In the case of NuSTAR, a truncated disc is likely responsible for the weak reflection features.
Artificial-intelligence-driven measurements of brain metastases’ response to SRS compare favorably with current manual standards of assessment
Authors: Prezelski Kayla , Hsu Dylan G , del Balzo Luke , Heller Erica , Ma Jennifer , Pike Luke R G , Ballangrud Åse , Aristophanous Michalis 
Published: February 2024

Abstract

Background
Evaluation of treatment response for brain metastases (BMs) following stereotactic radiosurgery (SRS) becomes complex as the number of treated BMs increases. This study uses artificial intelligence (AI) to track BMs after SRS and validates its output compared with manual measurements.

Methods
Patients with BMs who received at least one course of SRS and followed up with MRI scans were retrospectively identified. A tool for automated detection, segmentation, and tracking of intracranial metastases on longitudinal imaging, MEtastasis Tracking with Repeated Observations (METRO), was applied to the dataset. The longest three-dimensional (3D) diameter identified with METRO was compared with manual measurements of maximum axial BM diameter, and their correlation was analyzed. Change in size of the measured BM identified with METRO after SRS treatment was used to classify BMs as responding, or not responding, to treatment, and its accuracy was determined relative to manual measurements.

Results
From 71 patients, 176 BMs were identified and measured with METRO and manual methods. Based on a one-to-one correlation analysis, the correlation coefficient was R2 = 0.76 (P = .0001). Using modified BM response classifications of BM change in size, the longest 3D diameter data identified with METRO had a sensitivity of 0.72 and a specificity of 0.95 in identifying lesions that responded to SRS, when using manual axial diameter measurements as the ground truth.

Conclusions
Using AI to automatically measure and track BM volumes following SRS treatment, this study showed a strong correlation between AI-driven measurements and the current clinically used method: manual axial diameter measurements.