bluuebunny/crossref_metadata_2025_split huggingface dataset:
Novel enzymes for biodegradation of polycyclic aromatic hydrocarbons identified by metagenomics and functional analysis in short-term soil microcosm experiments
Authors: Nagy Kinga K. , Takács Kristóf , Németh Imre , Varga Bálint , Grolmusz Vince , Molnár Mónika , Vértessy Beáta G. 
Published: May 2024

AbstractPolycyclic aromatic hydrocarbons (PAHs) are highly toxic, carcinogenic substances. On soils contaminated with PAHs, crop cultivation, animal husbandry and even the survival of microflora in the soil are greatly perturbed, depending on the degree of contamination. Most microorganisms cannot tolerate PAH-contaminated soils, however, some microbial strains can adapt to these harsh conditions and survive on contaminated soils. Analysis of the metagenomes of contaminated environmental samples may lead to discovery of PAH-degrading enzymes suitable for green biotechnology methodologies ranging from biocatalysis to pollution control. In the present study, our goal was to apply a metagenomic data search to identify efficient novel enzymes in remediation of PAH-contaminated soils. The metagenomic hits were further analyzed using a set of bioinformatics tools to select protein sequences predicted to encode well-folded soluble enzymes. Three novel enzymes (two dioxygenases and one peroxidase) were cloned and used in soil remediation microcosms experiments. The experimental design of the present study aimed at evaluating the effectiveness of the novel enzymes on short-term PAH degradation in the soil microcosmos model. The novel enzymes were found to be efficient for degradation of naphthalene and phenanthrene. Adding the inorganic oxidant CaO2 further increased the degrading potential of the novel enzymes for anthracene and pyrene. We conclude that metagenome mining paired with bioinformatic predictions, structural modelling and functional assays constitutes a powerful approach towards novel enzymes for soil remediation.
Biochemical parameters, oxidative stress biomarkers, and anatomopathological changes in Wistar rats treated with 3′-demethoxy-6-O-demethylisoguaiacin and norisoguaiacin
Authors: Flores Jiménez Nancy Guadalupe , Zamorano Martha Manzano , Reséndiz-González Guillermo , Mercado-Márquez Crisóforo , Morales-Álvarez José Francisco , Cuéllar-Ordaz Jorge Alfredo , de-la- Cruz Cruz Héctor Alejandro , Adams-Vázquez Olivia , López-Arellano María Eugenia , Díaz-Torres Roberto , Noguera Patricia Ramírez , Higuera-Piedrahita Rosa Isabel 
Published: May 2024

AbstractArtemisia cina (Ac) is a plant with anthelmintic compounds such as 3′-demethoxy-6-O-demethylisoguaiacin (D) and norisoguaiacin (N). Three major objectives were proposed: (1) To evaluate biochemical parameters in blood (2) to determine the tissue oxidative stress by biomarkers as TBARS and glutathione peroxidase activity, and (3) to evaluate anatomopathological changes in organs such as the brain, liver, kidney, and lung after oral administration of n-hexane extract of Ac and D and N. D and N were administrated following the OECD guides for acute oral toxicity evaluation (Guide 420). Fifty Wistar rats were distributed into ten groups as follows: Group 1 (G1): 4 mg/Kg; G2: 40 mg/Kg; G3: 240 mg/Kg; G4: 1600 mg/Kg of n-hexane extract of Ac. G5: 2 mg/Kg; G6: 20 mg/Kg; G7: 120 mg/Kg; G8: 800 mg/Kg of D and N, G9: water and G10: polyvinylpyrrolidone at 2000 mg/Kg. At 14 days, the rats were euthanized, and the blood, liver, brain, kidney, and lung were taken for biochemical analysis, anatomopathological changes, and TBARS and GSH evaluation. Glucose, cholesterol, and phosphorus were altered. Histopathological analysis showed multifocal neuronal degeneration in the brain (G2). The kidney and lungs had changes in G7. The GSH and TBARS increased in G6 and G7. The TBARS activity was higher in G1 and G2. In conclusion, extract and D and N of Ac did not have damage at therapeutic doses. D, N, and n-hexane extract of A. cina do not cause histopathological damage at pharmaceutical doses. Still, the brain, kidney, and liver are related to biochemical parameters at higher doses. However, compounds are proposed as antioxidant agents.
Combined effect of Poynting-Robertson (P-R) drag, oblateness and radiation on the triangular points in the elliptic restricted three-body problem
Authors: Singh Jagadish , Ashagwu Blessing Samuel 
Published: May 2024

AbstractThis study investigates the motion of a test particle around triangular equilibrium points in the elliptic restricted three-body problem (ER3BP) under the influence of the two oblate and radiating primaries having Poynting-Robertson (P-R) drag. It is observed that the position of triangular points of the problem is affected by oblateness, radiation pressure, eccentricity, semi-major axis and Poynting-Robertson (P-R) drag. The stability of these points is demonstrated analytically by the Routh-Hurwitz criterion. It is seen that they are unstable under the combined effect of involved parameters. The effect of these parameters on the position of triangular points is examined numerically using the binary systems, 61 Cygni and Archird. The results obtained by these binary systems can be used to broaden the scope of interest in astronomy, astrophysics, space science and celestial mechanics in general.
The influence of obesity, diabetes mellitus and smoking on fuchs endothelial corneal dystrophy (FECD)
Authors: Zwingelberg S. B. , Lautwein B. , Baar T. , Heinzel-Gutenbrunner M. , von Brandenstein M. , Nobacht S. , Matthaei M. , Bachmann B. O. 
Published: May 2024

AbstractTo detect environmental factors, which may be possible risk factors in the disease course of Fuchs’ endothelial corneal dystrophy (FECD). Evaluation of patients with FECD registered in the FECD genetics database of the Center for Ophthalmology, University Hospital Cologne. For the evaluation, disease onset, central corneal thickness, best spectacle corrected visual acuity (BSCVA, logMAR), and modified Krachmer grading (grades 1–6) were correlated with the presence of diabetes mellitus (DM), body mass index (BMI), and smoking behavior. To put the age-related increase in Krachmer grading into perspective, a correction of grading were formed. Depending on the variables studied, differences between groups were examined by Mann–Whitney U test and chi-square test. The significance level was 5%. 403 patients with FECD were included in the analysis. The mean age of the patients was 70.0 ± 10.32 (range 28–96) years. The mean age at diagnosis of those patients was 63.1 ± 13.2 years. The female-to-male ratio was 1.46:1. Patients with a BMI > 30.0 kg/m2 developed FECD significantly earlier than patients with a BMI < 30 kg/m2, p = 0.001. Patients with DM showed significantly more often an Krachmer grade of 5, p = 0.015. Smoking had a negative effect on Krachmer grading (p = 0.024). Using the mediation analysis, the presence of DM correlated Krachmer Grade 5 (p = 0.015), and the presence of DM correlated with BMI > 30.0 kg/m2 (p = 0.012). In addition to smoking and DM our study shows for the first time that obesity may have a negative impact on the development of FECD. Whether dietary interventions and hormones can influence the development or progression of the disease needs to be investigated in future studies.
Observation of neutron emission during acoustic cavitation of deuterated titanium powder
Authors: Fomitchev-Zamilov Max 
Published: May 2024

AbstractPossibility of nuclear reactions in solid state is intriguing for two reasons: (1) It provides a means of studying nuclear processes in conditions that are much different from traditional plasma-filled reactors or particle accelerators; (2) it dramatically lowers the cost and complexity of the experimental setups by eliminating the highly capital intensive components such as plasma/vacuum systems and particle accelerators. In this article we report the observation of neutron emission coincident with acoustic cavitation of deuterated titanium powder suspended in mineral oil. The resulting neutron emission was detected using an assembly of 3He proportional neutron counters. The peak neutron count rate was in excess of 6500 CPM, more than 10,000 times in excess of background. The observed neutron emission was coincident with the application of acoustic influence. The neutrons were present only when secondary acoustic waves originating from the complex bubble interactions inside the reactor constructively interfered resulting in massive, sharp pressure peaks on the order of a few thousand psi. We were able to sustain the neutron production for several hours and repeated the experiment multiple times under various conditions. We hypothesize that the observed neutrons originate from nuclear fusion of deuterium ions dissolved in titanium lattice due to the mechanical action of the impinging cavitation jets, although other processes (such as spallation) still need to be ruled out.
Strategies for multi-case physics-informed neural networks for tube flows: a study using 2D flow scenarios
Authors: Wong Hong Shen , Chan Wei Xuan , Li Bing Huan , Yap Choon Hwai 
Published: May 2024

AbstractFluid dynamics computations for tube-like geometries are crucial in biomedical evaluations of vascular and airways fluid dynamics. Physics-Informed Neural Networks (PINNs) have emerged as a promising alternative to traditional computational fluid dynamics (CFD) methods. However, vanilla PINNs often demand longer training times than conventional CFD methods for each specific flow scenario, limiting their widespread use. To address this, multi-case PINN approach has been proposed, where varied geometry cases are parameterized and pre-trained on the PINN. This allows for quick generation of flow results in unseen geometries. In this study, we compare three network architectures to optimize the multi-case PINN through experiments on a series of idealized 2D stenotic tube flows. The evaluated architectures include the ‘Mixed Network’, treating case parameters as additional dimensions in the vanilla PINN architecture; the “Hypernetwork”, incorporating case parameters into a side network that computes weights in the main PINN network; and the “Modes” network, where case parameters input into a side network contribute to the final output via an inner product, similar to DeepONet. Results confirm the viability of the multi-case parametric PINN approach, with the Modes network exhibiting superior performance in terms of accuracy, convergence efficiency, and computational speed. To further enhance the multi-case PINN, we explored two strategies. First, incorporating coordinate parameters relevant to tube geometry, such as distance to wall and centerline distance, as inputs to PINN, significantly enhanced accuracy and reduced computational burden. Second, the addition of extra loss terms, enforcing zero derivatives of existing physics constraints in the PINN (similar to gPINN), improved the performance of the Mixed Network and Hypernetwork, but not that of the Modes network. In conclusion, our work identified strategies crucial for future scaling up to 3D, wider geometry ranges, and additional flow conditions, ultimately aiming towards clinical utility.
Lifestyle and metabolic risk factors, and diabetes mellitus prevalence in European countries from three waves of the European Health Interview Survey
Authors: Kovács Nóra , Shahin Balqees , Andrade Carlos Alexandre Soares , Mahrouseh Nour , Varga Orsolya 
Published: May 2024

AbstractPopulation shift towards healthier lifestyles can help reduce the burden of type 2 diabetes mellitus (DM), therefore understanding and monitoring the lifestyle-related risk factors are crucial for setting up effective preventive strategies and disease management. The present study aimed to explore the changes in prevalence of DM and major risk factors including smoking, physical activity, fruit and vegetable consumption, as well as body mass index (BMI) over three waves of European Health Interview Survey, and to investigate the association between risk factors and presence of DM across 11 European Union member states. Poisson regression models were used to evaluate the association between risk factors and DM, adjusted for demographic and socioeconomic variables. The estimated age-standardized prevalence of DM increased from 7.01% in 2009 to 7.96% in 2019, with substantial increase in subgroups with higher BMI and unhealthy lifestyle including physically inactive people, or current smokers. Obesity and overweight and physical inactivity were significantly associated with DM in all survey waves. Our findings underline that obesity prevention and weight loss promotion along with physical activity promotion are the subject of lifestyle interventions to reduce the burden of DM in EU member states.
Treg-derived TGF-β1 dampens cGAS-STING signaling to downregulate the expression of class I MHC complex in multiple myeloma
Authors: Zhang Disi , Zhan Dong , Zhang Rui , Sun Yunyan , Duan Ci , Yang Jiapeng , Wei Jia , Li Xianshi , Lu Yanqi , Lai Xun 
Published: May 2024

AbstractMultiple myeloma (MM) progression involves diminished tumor antigen presentation and an immunosuppressive microenvironment, characterized by diminished expression of major histocompatibility complexes (MHC) class I molecule and elevated programmed death ligand 1 (PDL1) in MM cells, along with an enriched population of regulatory T cells (Tregs). To investigate Treg's influence on MM cells, we established a co-culture system using Tregs from MM patients and the MM cell lines (MM.1S and SK-MM-1) in vitro and assessed the effects of intervening in the relevant pathways connecting Tregs and MM cells in vivo. In vitro, Tregs induced transforming growth factor beta-1 (TGF-β1) production, downregulated MHC I members, and increased PDL1 expression in MM cells. Treg-derived TGF-β1 suppressed the cGAS-STING pathway, contributing to the loss of MHC I molecule expression and PDL1 upregulation. Correspondingly, neutralizing TGF-β1 or activating the cGAS-STING pathway restored MHC I and PDL1 expression, effectively countering the pro-tumorigenic effect of Tregs on MM cells in vivo. These data elucidated how Tregs influence tumor antigen presentation and immunosuppressive signal in MM cells, potentially providing therapeutic strategies, such as neutralizing TGF-β1 or activating the cGAS-STING pathway, to address the immune escape and immunosuppressive dynamics in MM.
Spatial utilization of historical topographic map and its application in land reconstruction of ancient Chinese urban land use
Authors: Wan Zhiwei , Wu Hongqi 
Published: May 2024

AbstractThe historical topographic map preserves rich geographic information and can provide direct assistance for the reconstruction of various geographic elements. Based on the historical data of cities throughout the Qing Dynasty, the land use scale data of cities across the country was obtained using GIS and urban perimeter conversion models. This study combines city information and city circumference records from the historical maps and archives of the late Qing Dynasty to quantitatively reconstruct the use patterns of ancient China’s urban land at a spatial resolution of 1° × 1°. Uncertainty analysis of the reconstruction results was conducted using modern remote sensing image data as the validation data set. The results showed the following. (1) During the late Qing Dynasty, the total area of urban land in the various provinces and regions was 1456.015 km2. The maximum value was 208.691 km2 in Beijing-Tianjin-Hebei, the minimum value was 1.713 km2 in Qinghai, and the average value was 56.001 km2. (2) The results of grid reconstruction show that among the 398 grids with urban land distribution, the maximum value is 64.099 km2/grid, the minimum value is 0.013 km2/grid, and the average value is 3.658 km2/grid. (3) Of all the grids with urban land, the urban land grid to the west of the Hu Line accounts for 12.5% and the east to 87.5%. (4) During the late Qing Dynasty, urban land use in China was primarily concentrated in agriculturally developed areas such as the North China Plain, the Central Plains, Jiangnan, and the Sichuan-Chongqing region. (6) The results of a kernel density estimation showed that there were obviously three core areas of urban land agglomeration in China during the late Qing Dynasty: the North China Plain-Central Plains, the Jiangsu-Shanghai-Zhejiang-Anhui area, and the Sichuan-Chongqing urban core area. This study provides basic data for urban land use during historical periods and provides a basis for the quantitative reconstruction of relevant urban land data for historical archives.
A comparative study on the dose–effect of low-dose radiation based on microdosimetric analysis and single-cell sequencing technology
Authors: Wang Yidi , Gao Jin , Tang Bo , Mo Wei , Gao Han , Guo Jiahao , Kong Xianghui , Zhang Wenyue , Yin Yuchen , Jiao Yang , Sun Liang 
Published: May 2024

AbstractThe biological mechanisms triggered by low-dose exposure still need to be explored in depth. In this study, the potential mechanisms of low-dose radiation when irradiating the BEAS-2B cell lines with a Cs-137 gamma-ray source were investigated through simulations and experiments. Monolayer cell population models were constructed for simulating and analyzing distributions of nucleus-specific energy within cell populations combined with the Monte Carlo method and microdosimetric analysis. Furthermore, the 10 × Genomics single-cell sequencing technology was employed to capture the heterogeneity of individual cell responses to low-dose radiation in the same irradiated sample. The numerical uncertainties can be found both in the specific energy distribution in microdosimetry and in differential gene expressions in radiation cytogenetics. Subsequently, the distribution of nucleus-specific energy was compared with the distribution of differential gene expressions to guide the selection of differential genes bioinformatics analysis. Dose inhomogeneity is pronounced at low doses, where an increase in dose corresponds to a decrease in the dispersion of cellular-specific energy distribution. Multiple screening of differential genes by microdosimetric features and statistical analysis indicate a number of potential pathways induced by low-dose exposure. It also provides a novel perspective on the selection of sensitive biomarkers that respond to low-dose radiation.
Sericin promotes chondrogenic proliferation and differentiation via glycolysis and Smad2/3 TGF-β signaling inductions and alleviates inflammation in three-dimensional models
Authors: Fongsodsri Kamonpan , Tiyasatkulkovit Wacharaporn , Chaisri Urai , Reamtong Onrapak , Adisakwattana Poom , Supasai Suangsuda , Kanjanapruthipong Tapanee , Sukphopetch Passanesh , Aramwit Pornanong , Ampawong Sumate 
Published: May 2024

AbstractKnee osteoarthritis is a chronic joint disease mainly characterized by cartilage degeneration. The treatment is challenging due to the lack of blood vessels and nerve supplies in cartilaginous tissue, causing a prominent limitation of regenerative capacity. Hence, we investigated the cellular promotional and anti-inflammatory effects of sericin, Bombyx mori-derived protein, on three-dimensional chondrogenic ATDC5 cell models. The results revealed that a high concentration of sericin promoted chondrogenic proliferation and differentiation and enhanced matrix production through the increment of glycosaminoglycans, COL2A1, COL X, and ALP expressions. SOX-9 and COL2A1 gene expressions were notably elevated in sericin treatment. The proteomic analysis demonstrated the upregulation of phosphoglycerate mutase 1 and triosephosphate isomerase, a glycolytic enzyme member, reflecting the proliferative enhancement of sericin. The differentiation capacity of sericin was indicated by the increased expressions of procollagen12a1, collagen10a1, rab1A, periostin, galectin-1, and collagen6a3 proteins. Sericin influenced the differentiation capacity via the TGF-β signaling pathway by upregulating Smad2 and Smad3 while downregulating Smad1, BMP2, and BMP4. Importantly, sericin exhibited an anti-inflammatory effect by reducing IL-1β, TNF-α, and MMP-1 expressions and accelerating COL2A1 production in the early inflammatory stage. In conclusion, sericin demonstrates potential in promoting chondrogenic proliferation and differentiation, enhancing cartilaginous matrix synthesis through glycolysis and TGF-β signaling pathways, and exhibiting anti-inflammatory properties.
A simple protocol to establish a conditionally immortalized mouse podocyte cell line
Authors: Huang Yujiao , Geng Jie , Wang Mengdan , Liu Wenbin , Hu Haikun , Shi Wei , Li Mei , Huo Guiyang , Huang Guangrui , Xu Anlong 
Published: May 2024

AbstractPodocytes are specialized terminally differentiated cells in the glomerulus that are the primary target cells in many glomerular diseases. However, the current podocyte cell lines suffer from prolonged in vitro differentiation and limited survival time, which impede research progress. Therefore, it is necessary to establish a cell line that exhibits superior performance and characteristics. We propose a simple protocol to obtain an immortalized mouse podocyte cell (MPC) line from suckling mouse kidneys. Primary podocytes were cultured in vitro and infected with the SV40 tsA58 gene to obtain immortalized MPCs. The podocytes were characterized using Western blotting and quantitative real-time PCR. Podocyte injury was examined using the Cell Counting Kit-8 assay and flow cytometry. First, we successfully isolated an MPC line and identified 39 °C as the optimal differentiation temperature. Compared to undifferentiated MPCs, the expression of WT1 and synaptopodin was upregulated in differentiated MPCs. Second, the MPCs ceased proliferating at a nonpermissive temperature after day 4, and podocyte-specific proteins were expressed normally after at least 15 passages. Finally, podocyte injury models were induced to simulate podocyte injury in vitro. In summary, we provide a simple and popularized protocol to establish a conditionally immortalized MPC, which is a powerful tool for the study of podocytes.
Hospital costs of robotic-assisted and open treatment of large ventral hernias
Authors: Sabbatini Flaminia , La Regina Davide , Murgante Testa Nicole , Senatore Anna Maria , Saporito Andrea , Pini Ramon , Mongelli Francesco 
Published: May 2024

AbstractRobotic-assisted treatment of ventral hernia offers many advantages, however, studies reported higher costs for robotic surgery compared to other surgical techniques. We aimed at comparing hospital costs in patients undergoing large ventral hernia repair with either robotic or open surgery. We searched from a prospectively maintained database patients who underwent robotic or open surgery for the treatment of the large ventral hernias from January 2016 to December 2022. The primary endpoint was to assess costs in both groups. For eligible patients, data was extracted and analyzed using a propensity score-matching. Sixty-seven patients were retrieved from our database. Thirty-four underwent robotic-assisted surgery and 33 open surgery. Mean age was 66.4 ± 4.1 years, 50% of patients were male. After a propensity score-matching, a similar total cost of EUR 18,297 ± 8,435 vs. 18,024 ± 7514 (p = 0.913) in robotic-assisted and open surgery groups was noted. Direct and indirect costs were similar in both groups. Robotic surgery showed higher operatory theatre-related costs (EUR 7532 ± 2,091 vs. 3351 ± 1872, p < 0.001), which were compensated by shorter hospital stay-related costs (EUR 4265 ± 4366 vs. 7373 ± 4698, p = 0.032). In the treatment of large ventral hernia, robotic surgery had higher operatory theatre-related costs, however, they were fully compensated by shorter hospital stays and resulting in similar total costs.