Miracle-dz/UniFAR-FTUs huggingface dataset:
Leaf ethanolic extract of Etlingera hemesphaerica Blume mitigates defects in fetal anatomy and endochondral ossification due to mercuric chloride during the post-implantation period in Mus musculus

This study aimed to investigate the effectiveness of leaf ethanolic extract of Etlingera hemisphaerica (LE3H) in reducing defects in fetal anatomy and endochondral ossification in mice induced by HgCl2 during the post-implantation period. Pregnant mice were divided into four groups, each consisting of 10 dams, and received drink and food ad libitum. The first group was administered LE3H (E1), the second one HgCl2 (E2), the third one HgCl2+LE3H (E3), and the fourth was control (E0), administered double-distilled water only. HgCl2 (5 mg/kg bw) was administrated by injection intraperitoneally on gestation day (GD)9 and LE3H (0.39 mg/g bw) was administered by gavage on GD10. The treated and control animals were killed by cervical dislocation on GD18, dissected, and the morphologically normal living fetuses (MNLF) were collected. The MNLF of E0, E1, E2, and E3 from 5 dams were fixed with Bouin solution, and observed using the free hand razor blade technique for soft tissue examination. The remaining MNLF were fixed with 96% ethanol, and then stained with Alizarin Red S and Alcian Blue for ossification examination. Index of length of ossified part (ILOP) of humerus, index of width of ossified part (IWOP) of humerus, ILOP of femur, and IWOP of femur were calculated. E2 had higher cases of anatomical defects (74,6%) than E3 (48.9%), E1 (15.0%), and E0 (0%). E2 had humerus IWOP of 0.82±0.03, which was significantly lower than that of E0 (0.89±0.04) and E1 (0.89±0.03), while that of E1 and E0 was not significantly different from each other. Meanwhile, IWOP in E3 (0.88±0.03) was significantly higher than that in E2, but not different from that in E1 and E0. Thus, LE3H mitigated defects in fetal anatomy and endochondral ossification induced by HgCl2 in mice.
Improving Visualization Design for Effective Multi-Objective Decision Making

Decision-makers across many professions are often required to make multi-objective decisions over increasingly larger volumes of data with several competing criteria. Data visualization is a powerful tool for exploring these complex ‘solution spaces’, but there is limited research on its ability to support multi-objective decisions. In this article, we explore the effects of chart complexity and data volume on decision quality in multi-objective scenarios with complex trade-offs. We look at the impact of four common multidimensional chart types (scatter plot matrices, parallel coordinates plots, heat maps, radar charts), the number of options and dimensions and participant chart usage experience on decision time and accuracy when selecting the ‘optimal option’. As objectively evaluating the quality of multi-objective decisions and the trade-offs involved is challenging, we employ rank- and score-based accuracy metrics. While heat maps demonstrate a time advantage, our findings show no strong performance benefit for one chart type over another for accuracy. We find mixed evidence for the impact of chart complexity on performance, with our results suggesting the existence of a ‘ceiling’ in the number of dimensions considered by participants. This points to a potential limit to data complexity that is useful for decision making. Lastly, participants who use charts frequently performed better, suggesting that users can potentially be trained to effectively use complex visualizations in their decision-making.
Adipose tissue and age-dependent insulin resistance: New insights into WAT browning (Review)

Insulin resistance (IR) is defined as impaired insulin function, reduced glucose uptake and increased glucose production, which can result in type II diabetes, metabolic syndrome and even bone metabolic disorders. A possible reason for the increasing incidence of IR is population aging. Adipose tissue (AT) is an important endocrine organ that serves a crucial role in whole-body energy homeostasis. AT can be divided into white AT (WAT), beige AT and brown AT (BAT). Several mechanisms have been previously associated with age-dependent IR in WAT. However, BAT, a metabolically active tissue, controls the levels of plasma glucose and triglyceride metabolism. Therefore, the present review aimed to summarize the mechanisms of age-dependent IR induced by AT and to determine the role of WAT browning in achieving positive therapeutic outcomes in age-dependent IR.
Molecular docking and oxidation kinetics of 3-phenyl coumarin derivatives by human CYP2A13

Abstract CYP2A13 enzyme is expressed in human extrahepatic tissues, while CYP2A6 is a hepatic enzyme. Reactions catalysed by CYP2A13 activate tobacco-specific nitrosamines and some other toxic xenobiotics in lungs. To compare oxidation characteristics and substrate-enzyme active site interactions in CYP2A13 vs CYP2A6, we evaluated CYP2A13 mediated oxidation characteristics of 23 coumarin derivatives and modelled their interactions at the enzyme active site. CYP2A13 did not oxidise six coumarin derivatives to corresponding fluorescent 7-hydroxycoumarins. The Km-values of the other coumarins varied 0.85–97 µM, Vmax-values of the oxidation reaction varied 0.25–60 min−1, and intrinsic clearance varied 26–6190 kL/min*mol CYP2A13). Km of 6-chloro-3-(3-hydroxyphenyl)-coumarin was 0.85 (0.55–1.15 95% confidence limit) µM and Vmax 0.25 (0.23–0.26) min−1, whereas Km of 6-hydroxy-3-(3-hydroxyphenyl)-coumarin was 10.9 (9.9–11.8) µM and Vmax 60 (58–63) min−1. Docking analyses demonstrated that 6-chloro or 6-methoxy and 3-(3-hydroxyphenyl) or 3-(4-trifluoromethylphenyl) substituents of coumarin increased affinity to CYP2A13, whereas 3-triazole or 3-(3-acetate phenyl) or 3-(4-acetate phenyl) substituents decreased it. The active site of CYP2A13 accepts more diversified types of coumarin substrates than the hepatic CYP2A6 enzyme. New sensitive and convenient profluorescent CYP2A13 substrates were identified, such as 6-chloro-3-(3-hydroxyphenyl)-coumarin having high affinity and 6-hydroxy-3-(3-hydroxyphenyl)-coumarin with high intrinsic clearance.
Investigation of Essential Oils of Plectranthus glandulosus Hook f. (Lamiaceae) from Cameroon

Abstract The essential oil of fresh and dried leaves of Plectranthus glandulosus Hook f. [syn. Coleus laxiflorus (Benth.) Roberty] from Cameroon were analysed by GC and GC/MS. The oils were characterized by a high percentage of oxygenated monoterpenes (58.6% and 84.6% respectively) represented by cis-piperitone oxide (3.0% and 35.1%), trans-piperitone oxide (0.5% and 12.6%), fenchone (30.8% and 21.6%) and piperitenone oxide (10.9% and 6.0%). The main monoterpene hydrocarbons were terpinolene (25.2% and 7.7%), limonene (3.2% and 1.7%) and myrcene (2.2% and 1.6%). The sesquiterpene derivatives were found in a very low percentage (< 2.5%), represented mainly by germacrene D (1.4% and 1.0%).
Protein Degradation and RNA Efflux of Viruses Photocatalyzed by Graphene–Tungsten Oxide Composite Under Visible Light Irradiation

Graphene–tungsten oxide composite thin films with sheetlike surface morphology were fabricated and applied in photoinactivation of viruses under visible light irradiation. Using X-ray photoelectron spectroscopy, it was found that the chemically exfoliated graphene oxide sheets incorporated in the tungsten oxide film reduced through a visible light photocatalytic reduction. In addition, annealing the films at 450 °C in air resulted in formation of W–C and W–O—C bonds to obtain graphene–tungsten oxide composite films. The composite films fabricated by this method showed an excellent visible light photocatalytic performance in photoinactivation of bacteriophage MS2 viruses, as compared to tungsten oxide and as-prepared graphene–tungsten oxide films, which contained no W–C and W–O—C bonds. To study the inactivation mechanism of the viruses, breakage of protein capsid and then efflux of the viral RNA enveloped in the protein layer of the viruses were evaluated. The photocatalysis of the viruses on surface of t.
The pharmacological mechanism of Huashi Baidu Formula for the treatment of COVID-19 by combined network pharmacology and molecular docking.

BACKGROUND Huashi Baidu Formula (HSBDF) is a traditional Chinese medicine formula consisting of fourteen parts, which has been proven effective for treating coronavirus disease 2019 (COVID-19) clinically. However, the therapeutic mechanism of the effect of HSBDF on COVID-19 remains unclear. METHODS The components and action targets of HSBDF were searched in the TCMSP, YaTCM, PubChem, and TargetNet databases. Disease targets related to ACE2 were screened in single-cell sequence data of colon epithelial cells from other reports. The therapeutic targets of HSBDF for COVID-19 were obtained by integrated analysis, and the protein-protein interaction was analyzed using the STRING database. The Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) processes were analyzed using the OmicsBean and Metascape databases. The communication between networks [component-target (C-T) network, component-target-pathway (C-T-P) network, herb-target (H-T) network, target-pathway (T-P) network, and meridian-tropism (M-T) network] was constructed by Cytoscape software. The Cloud computing molecular docking platform was used to verify the molecular docking. RESULTS The obtained 223 active ingredients and 358 targets of HSBDF. The 5,555 COVID-19 disease targets related to ACE2 were extracted, and 84 compound-disease common targets were found, of which the principal targets included ACE, ESR1, ADRA1A, and HDAC1. A total of 3,946 items were seized by GO enrichment analysis, mainly related to metabolism, protein binding, cellular response to the stimulus, and receptor activity. The enriched KEGG pathways screened 46 signaling pathways, including the reninangiotensin system, the renin secretion, NF-kappa B pathway, the arachidonic acid metabolism, and the AMPK signaling pathway. The molecular docking results showed that the bioactive components of HSBDF have an excellent binding ability with main proteins related to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). CONCLUSIONS HSBDF might act on SARS-CoV-2 through multiple components, targets, and pathways. Here we reveal preliminary results of the mechanism of action of HSBDF on SARS-CoV-2, providing a theoretical basis for future clinical applications.
Reduction of COD and ammoniacal nitrogen from stabilized landfill leachate by using green mussel and zeolite as composite adsorbent

ABSTRACT Landfill leachate is a liquid generated due to rainwater percolation through the waste in a landfill or dumping site that may contain high levels of organic matter, both biodegradable and non-biodegradable, which are the major sources of water pollution. Chemical oxygen demand (COD) and Ammoniacal Nitrogen (NH3-N) contents have been relevant indicators of severity and pollution potential of landfill leachate. The reductions of COD and NH3-N were investigated in this study using different combinations of media ratios of green mussel (GM) and zeolite (ZEO). Generally, ZEO is considered as a renowned adsorbent but with a relatively high in cost. In Malaysia, mussel shell is abundantly available as a by-product from the seafood industry, is regarded as waste, and is mostly left at the dumpsite to naturally deteriorate. Its quality and availability make GMs a cost-effective material. In this research study, leachate samples were characterized and found to contain high concentrations of COD and NH3-N. The adsorption process was conducted to find out the best combination media ratio between GM and ZEO. The removing efficiency was determined at different amounts of composite media ratios. The optimal adsorbent mixture ratios between (GM: ZEO) of 1.0:3.0 and 1.5:2.5 were considered as a more efficient technique in removing COD and NH3-N compared to exploiting these adsorbents individually. The optimal extenuation removal reduction was found at an approximately 65% of COD and 78% of NH3-N. The adsorption Isotherm Langmuir model exhibited a better fit with high regression coefficient for COD (R2 = 0.9998) and NH3-N (R2 = 0.9875), respectively. This means that the combination of GM: ZEO adsorption of landfill leachate in this analysis is homogeneous with the monolayer. The mixture of GMs and ZEO was observed to provide an alternative medium for the reduction of COD and NH3-N with comparatively lower cost. Implications: The concentration of organic constituents (COD) and ammoniacal nitrogen in stabilized landfill leachate have significantly strong influences of human health and the environment. The combination of mixing media green mussel and zeolite adsorbent enhancing organic constituents (COD) and ammoniacal nitrogen reduction efficiency from leachate. This would be greatly applicable in future research as well as conventionally minimizing high cost materials like zeolite, thereby lowering the operating cost of leachate treatment.
Porcine Sapovirus-Induced Tight Junction Dissociation via Activation of the RhoA/ROCK/MLC Signaling Pathway

PSaV, one of the most important enteric pathogens, is known to disrupt TJ integrity to expose its buried coreceptor occludin in polarized LLC-PK cells. However, the cellular signaling pathways that facilitate TJ dissociation are not yet completely understood. ABSTRACT Tight junctions (TJs) are a major barrier and also an important portal of entry for different pathogens. Porcine sapovirus (PSaV) induces early disruption of the TJ integrity of polarized LLC-PK cells, allowing it to bind to the buried occludin coreceptors hidden beneath the TJs on the basolateral surface. However, the signaling pathways involved in the PSaV-induced TJ dissociation are not yet known. Here, we found that the RhoA/Rho-associated protein kinase (ROCK)/myosin light chain (MLC) signaling pathway was activated in polarized LLC-PK cells during the early infection of PSaV Cowden strain in the presence of bile acid. Specific inhibitors of RhoA, ROCK, and MLC restored PSaV-induced reduction of transepithelial resistance, increase of paracellular flux, intracellular translocation of occludin, and lateral membrane lipid diffusion. Moreover, each inhibitor significantly reduced PSaV replication, as evidenced by reductions in viral protein synthesis, genome copy number, and progeny viruses. The protein kinase C (PKC)/myosin light chain kinase (MLCK) and RhoA/ROCK/MLC phosphatase (MYPT) signaling pathways, which are known to dissociate TJs, were not activated during early PSaV infection. Among the aforementioned signaling pathways, the RhoA/ROCK/MLC signaling pathway was only activated by PSaV in the absence of bile acid, and specific inhibitors of this signaling pathway restored early TJ dissociation. Our findings demonstrate that PSaV binding to cell surface receptors activates the RhoA/ROCK/MLC signaling pathway, which in turn disrupts TJ integrity via contraction of the actomyosin ring. Our study contributes to understanding how PSaV enters the cells and will aid in developing efficient and affordable therapies against PSaV and other calicivirus infections. IMPORTANCE PSaV, one of the most important enteric pathogens, is known to disrupt TJ integrity to expose its buried coreceptor occludin in polarized LLC-PK cells. However, the cellular signaling pathways that facilitate TJ dissociation are not yet completely understood. Here, we demonstrate that early infection with PSaV in polarized LLC-PK cells in either the presence or absence of bile acids activates the RhoA/ROCK/MLC signaling pathway, whose inhibitors reverse the early PSaV infection-induced dissociation of TJs and reduce PSaV replication. However, early PSaV infection did not activate the PKC/MLCK and RhoA/ROCK/MYPT signaling pathways, which are also known to dissociate TJs. This study provides a better understanding of the mechanism involved in early PSaV infection-induced disruption of TJs, which is important for controlling or preventing PSaV and other calicivirus infections.
A Gas‐Phase and Surface Kinetics Model for Silicon Epitaxial Growth with SiH2Cl2 in an RTCVD Reactor

Silicon epitaxial growth with SiH[sub 2]Cl[sub 2] (DCS) is modeled within a realistic thermal-fluid environment using a detailed reaction mechanism. The proposed reaction mechanism includes both gas-phase and surface reactions. It accounts for surface-adsorbed species and individual surface coverages to predict deposition rates. The predicted deposition rates are compared to measured growth rates at different temperatures, pressures, and DCS flow rates. The agreement between predicted and measured growth rates is found to be very good. The suggested reaction mechanism is based on two reaction pathways. First, DCS adsorbs directly on the Si surface and decomposes there while desorbing H[sub 2], HCl, and SiCl[sub 2]. Second, at temperatures above 800 C the thermal activation gets high enough to allow the pyrolysis of DCS to SiCl[sub 2] and H[sub 2] in the gas phase. The generated SiCl[sub 2] reacts on the silicon surface, representing the second deposition pathway. The two reaction pathways are valid for all temperatures. The dominance of one or the other pathway at a given temperature results self-consistently from the different thermal activation of the individual chemical reactions involved.
He II Line 4686 a as Wavelength Standard for Fourier Transform Spectrometer

We report the experimental work for the determination of wavelength standard to validate the measurements of Fourier transform spectrometer. A dc run hollow-cathode discharge with two anodes on either sides of a cathode is designed for the p recise measurements of He II lines at 4686 A. The Doppler width and ion-drift shift were measured by using each anode alternatively wh ich changes the direction of electric field fro m 0 o to 180 o . The stability of He II line has been investigated and comparable precision with respect to previous work has been obtained. Excellent wavelength accuracy with relative uncertainty in line position of the order of 10 8 is within reach of single point calibration factor.
Facile Fabrication of Superhydrophobic Sponge with Selective Absorption and Collection of Oil from Water

A simple vapor-phase deposition process has been developed to fabricate a superhydrophobic and superoleophilic sponge using ordinary commercial polyurethane sponges. The simultaneous properties of superhydrophobicity and superoleophilicity enable the sponge to float on the water surface and selectively absorb oil from water. Its uptake capacities of different oils (motor oil, lubricating oil, pump oil, silicone oil, and soybean oil) in the oil–water mixtures were all above 20 g/g. The absorbed oil could be collected by squeezing the sponge, and the recovered sponge could be reused in oil–water separation for many cycles while still maintaining a high capacity. This is helpful for realizing the proper disposal of the oil and avoiding secondary pollution. A similar experiment was performed using the as-prepared sponge to remove petroleum from contaminated water. The results suggest that our material might find practical applications in the cleanup of oil spills and the removal of organic pollutants from wat.
Effects of ploughing frequency and compost on soil aggregate stability in a cotton–maize (Gossypium hirsutum‐Zea mays) rotation in Burkina Faso

Cropping systems have a strong influence on soil structural characteristics, including aggregate stability. An experiment combining compost (Co) and mineral fertilizer inputs with different tillage frequencies was conducted in a cotton–maize rotation system on two soil types (Lixisol and Luvisol) in Burkina Faso. The objective was to investigate an alternative soil fertility management regime that protects soil structure for cotton and maize production. We tested the hypothesis that organic fertilizer applications and reduced ploughing frequency can improve aggregate stability. The effects of reduced tillage (RT; ox‐ploughing/hand hoe scarifying the next year) and annual ox‐ploughing (AP) combined with Co and no compost (nCo) applications on the stability of soil aggregates subjected to wet sieving, were assessed. In the second year of the experiment (maize), the macroaggregate stability in the RT plots was 87% higher than in the AP plots on the Lixisol, 26% higher on the Luvisol. In the third year (cotton) the difference in treatment effects was less. The treatments influenced macroaggregate stability in the year of scarification, and the microaggregate stability in the year they were ploughed. We concluded that a soil management regime, with ploughing only every second year and with compost as well as mineral fertilizer inputs, is appropriate to replace the common practice of annual ploughing with application of mineral fertilizers in this cotton–maize cropping system.
Draft Genome Sequence of the Type Strain Bacillus subtilis subsp. subtilis DSM10

The Bacillus subtilis subsp. subtilis type strain DSM10 has been used as a reference in various studies. However, detailed information about the genome has not been available. Therefore, whole-genome sequencing was performed, and the sequence was compared with that of the related B. subtilis strain NCIB3610. ABSTRACT The Bacillus subtilis subsp. subtilis type strain DSM10 has been used as a reference in various studies. However, detailed information about the genome has not been available. Therefore, whole-genome sequencing was performed, and the sequence was compared with that of the related B. subtilis strain NCIB3610.
Effects of Fertility Amendments on Weed Growth and Weed–Crop Competition: A Review

Abstract Macronutrient inputs to annual cropping systems can benefit weeds as well as crops, sometimes decreasing or eliminating the benefits of fertilization. This interaction between fertility management and integrated weed management is becoming increasingly important as these fields increase their focus on efficiency and prevention, respectively. The risk of increased weed competition reflects the fact that weed biomass and height may be highly responsive to nitrogen, phosphorus, and/or potassium. This generalization is supported by monoculture studies of species such as redroot pigweed (Amaranthus retroflexus L.), common lambsquarters (Chenopodium album L.), and barnyardgrass [Echinochloa crus-galli (L.) P. Beauv. ] and by ecological theory. However, field studies indicate variation in the effects of macronutrients on weed–crop competition and crop yield, even within species groups. To address challenges in interpreting, comparing, and extrapolating from these diverse reports, we propose a conceptual framework that summarizes the mechanisms underlying observed variation within and between studies. This framework highlights functional traits and trends that help predict yield outcomes in binary weed–crop interactions. Important factors include timing of emergence, maximum heights of the weed and crop, and relative responsiveness to the added nutrient. We also survey recent work on the effects of nutrient source (e.g., the composition of organic amendments) on weed–crop competition. Because different sources vary in their nutrient release dynamics and supplied nutrient ratios, they may have dramatically different effects on weed–crop competition and crop yield. Finally, we offer a guide to best practices for studies of fertility effects on weed–crop competition. Although this review highlights several topics requiring further research, including fertility effects on multispecies interactions and interactions with other environmental factors, emerging methods offer considerable promise. Ultimately, an improved understanding of nutrient effects on weed–crop competition will contribute to the efficient and effective management of diverse cropping systems.