Miracle-dz/UniFAR-FTUs huggingface dataset:
Synergistic Induction of Chicken Antimicrobial Host Defense Peptide Gene Expression by Butyrate and Sugars

Antimicrobial resistance is a major concern to public health demanding effective alternative strategies to disease control and prevention. Modulation of endogenous host defense peptide (HDP) synthesis has emerged as a promising antibiotic alternative approach. This study investigated a potential synergy between sugars and butyrate in inducing HDP gene expression in chickens. Our results revealed that sugars differentially regulated HDP expression in both gene- and sugar-specific manners in chicken HD11 macrophage cells. Among eight mono- and disaccharides tested, all were potent inducers of avian β-defensin 9 (AvBD9) gene (p<0.05), but only galactose, trehalose, and lactose obviously upregulated cathelicidin-B1 (CATHB1) gene expression. The expression of AvBD14 gene, on the other hand, was minimally influenced by sugars. Moreover, all sugars exhibited a strong synergy with butyrate in enhancing AvBD9 expression, while only galactose, trehalose, and lactose were synergistic with butyrate in CATHB1 induction. No synergy in AvBD14 induction was observed between sugars and butyrate. Although lactose augmented the expression of nearly all HDP genes, its synergy with butyrate was only seen with several, but not all, HDP genes. Mucin-2 gene was also synergistically induced by a combination of lactose and butyrate. Furthermore, lactose synergized with butyrate to induce AvBD9 expression in chicken jejunal explants (p<0.05). Mechanistically, hyper-acetylation of histones was observed in response to both butyrate and lactose, relative to individual compounds. Mitogen-activated protein kinase, NF-κB, and cyclic adenosine monophosphate signaling pathways were also found to be involved in butyrate- and lactose-mediated synergy in AvBD9 induction. Collectively, a combination of butyrate and a sugar with both HDP-inducing and barrier protective activities holds the promise to be developed as an alternative to antibiotics for disease control and prevention.
Physiological and Molecular Responses in the Gill of the Swimming Crab Portunus trituberculatus During Long-Term Ammonia Stress

Ammonia is a common environmental stressor encountered during aquaculture, and is a significant concern due to its adverse biological effects on vertebrate and invertebrate including crustaceans. However, little information is available on physiological and molecular responses in crustaceans under long-term ammonia exposure, which often occurs in aquaculture practices. Here, we investigated temporal physiological and molecular responses in the gills, the main ammonia excretion organ, of the swimming crab Portunus trituberculatus following long-term (4 weeks) exposure to three different ammonia nitrogen concentrations (2, 4, and 8 mg l–1), in comparison to seawater (ammonia nitrogen below 0.03 mg l–1). The results revealed that after ammonia stress, the ammonia excretion and detoxification pathways were initially up-regulated. These processes appear compromised as the exposure duration extended, leading to accumulation of hemolymph ammonia, which coincided with the reduction of adenosine 5′-triphosphate (ATP) and adenylate energy charge (AEC). Considering that ammonia excretion and detoxification are highly energy-consuming, the depression of these pathways are, at least partly, associated with disruption of energy homeostasis in gills after prolonged ammonia exposure. Furthermore, our results indicated that long-term ammonia exposure can impair the antioxidant defense and result in increased lipid peroxidation, as well as induce endoplasmic reticulum stress, which in turn lead to apoptosis through p53-bax pathway in gills of the swimming crab. The findings of the present study further our understanding of adverse effects and underlying mechanisms of long-term ammonia in decapods, and provide valuable information for aquaculture management of P. trituberculatus.
Ultrasonic wall loss monitoring of rough surfaces

Permanently installed ultrasonic thickness monitoring techniques have been shown to be capable of achieving below 100 nanometre standard deviation repeatability under laboratory conditions, far exceeding that of conventional manual ultrasonic inspection techniques. However, it has also been shown that uneven surface conditions that reflect the ultrasonic waves (internal wall roughness) may limit the accuracy of monitoring in practice. Previous studies have reported the uncertainty of ultrasonic measurements taken on different independent realisations of rough surfaces with the same statistical properties. While this is indicative of potential uncertainties, it is important to recognise that real life defect growth (such as corrosion) does not occur in independent instances, but it manifests itself by small random perturbations of the same under-lying surface. Furthermore, in real life applications the accuracy of trend prediction is often more important than thickness accuracy. This paper therefore introd.
Not All That Glitters Is Gold: The Paradox of CO-dependent Hydrogenogenesis in Parageobacillus thermoglucosidasius

The thermophilic bacterium Parageobacillus thermoglucosidasius has recently gained interest due to its ability to catalyze the water gas shift reaction, where the oxidation of carbon monoxide (CO) is linked to the evolution of hydrogen (H2) gas. This phenotype is largely predictable based on the presence of a genomic region coding for a carbon monoxide dehydrogenase (CODH—Coo) and hydrogen evolving hydrogenase (Phc). In this work, seven previously uncharacterized strains were cultivated under 50% CO and 50% air atmosphere. Despite the presence of the coo—phc genes in all seven strains, only one strain, Kp1013, oxidizes CO and yields H2. The genomes of the H2 producing strains contain unique genomic regions that code for proteins involved in nickel transport and the detoxification of catechol, a by-product of a siderophore-mediated iron acquisition system. Combined, the presence of these genomic regions could potentially drive biological water gas shift (WGS) reaction in P. thermoglucosidasius.
Training of Drone Pilots through Virtual Reality Environments under the Gamification Approach in a University Context

Drones have been characterized by their diverse applications in the fields of industry. Nowadays, their use in the context of education is becoming more and more frequent and their popularity has increased due to their affordable cost, variety according to the needs of each user. This implies that users with different capabilities, social and educational contexts need to acquire the necessary skills to pilot drones safely, considering the type of task to be performed and the specific drone. Taking into account these aspects, a gamification approach allows young people to work on their skills to solve real problems under a game mechanic in order to obtain better results. In urban environments, training with a real drone involves physical risks. Therefore, learning to fly drones through virtual reality environments can bring additional advantages, since it is not necessary to have a physical device and can be a fun alternative for learning and acquiring skills. For the creation of these virtual environments, it is important the collaborative work of various stakeholders, from software designers, experts in the handling of drones, and educators in order to provide environments focused on the needs of the user. This work presents design elements under a proposed model for the production of virtual reality environments focused on teaching drone piloting in simulated and real scenarios. The results obtained with the test cases of the proposed environments in a sample of higher education students are presented and the user experience is analyzed for further improvement.
Dynamic Source Localization via Finite-Element Underwater Acoustic Field Estimation

In this paper we address the problem of dynamic source localization in spatially distributed systems governed by Partial Differential Equations (PDEs) which aims to detect and localize a mobile source from a passive array of acoustic sensors. We consider an underwater environment where the space-time dynamics of the source-induced field is modeled by a finite-element (FE) approximation of the full acoustic wave PDE. Based on recent advancements in large-scale state estimation of PDE systems, we present a novel Multiple Model (MM) filtering approach to underwater dynamic source localization. The proposed framework sequentially estimates the acoustic field and the source location by running in parallel a bank of FE-based field estimators, each conditioned to the source being placed in a given element of the FE mesh. We adopt the Ensemble Kalman Filter (EnKF) implementation for computationally efficient estimation of the large-scale acoustic field. The effectiveness of the proposed Finite-Element Multiple Model Ensemble Kalman Filter (FE-MM-EnKF) is demonstrated via simulation experiments in the underwater acoustic environment.
Thermal Analysis of Biological Tissues Exposed To Electromagnetic Fields by Using Pennes' Bio-Heat Transfer Equation

In this paper, a complete electromagnetic and thermal analysis has been performed based on the Pennes' bioheat transfer equation. Although there are many studies on the solution of Pennes Bio Heat Transfer Equation (BHTE) in the literature, most of these studies are based on numerical methods. In this study, a mathematically different approach is adopted, which makes this study different from other studies in the literature. Moreover, any numerical method is not utilized in this paper. The analytic solutions have been used to investigate the effects of the thermal diffusivity and the temperature-dependent perfusion component on the temperature distribution. The analytical expression obtained can provide a good knowledge of thermal behaviour of living tissues. The results present that; thermal behaviour of any biological tissue can be evaluated with the help of Pennes' BHTE. Also, derived analytic analysis of the BHTE can be used for any tissue. Additionally, the results present that the analytic solution of BHTE is so valuable for the thermal behaviour research of any biological tissue. Topics such as thermal parameters measurement, and clinical therapy can be analysed by utilizing this study.
Energy Expenditure During Extravehicular Activity Through Apollo

Monitoring crew health during manned space missions has always been an important factor to ensure that the astronauts can complete the missions successfully and within safe physiological limits. The necessity of real-time metabolic rate monitoring during extravehicular activities (EVAs) came into question during the Gemini missions, when the energy expenditure required to complete EVA tasks exceeded the life support capabilities for cooling and humidity control and, as a result, crew members ended the EVAs fatigued and overworked. This paper discusses the importance of real-time monitoring of metabolic rate during EVAs, and provides a historical look at energy expenditure during EVAs through the Apollo Program.
Optimum Trajectory Planning for Multi-Rotor UAV Relays with Tilt and Antenna Orientation Variations

Multi-rotor Unmanned Aerial Vehicles (UAVs) need to tilt in order to move; this modifies the UAV's antenna orientation. We consider the scenario where a multi-rotor UAV serves as a communication relay between a Base Station (BS) and another UAV. We propose a framework to generate feasible trajectories for the multi-rotor UAV relay while considering its motion dynamics and the motion-induced changes of the antenna orientation. The UAV relay's trajectory is optimized to maximize the end-to-end number of bits transmitted. Numerical simulations in MATLAB and Gazebo show the benefits of accounting for the antenna orientation variations due to the UAV tilt.
Large-scale application of nutrient recovery from digested sludge as struvite

Struvite precipitation for nutrient recovery from wastewater and sewage sludge has been attracting interest, due to the remarkable fertiliser quality of the product. A method to recover struvite from digested sludge was developed at Stuttgart University, involving first an acidic dissolution of nutrients from digested sludge followed by a precipitation step. The application was first tested in a pilot scale plant and recently upscaled to a semi-industrial size by constructing a recovery plant at a municipal wastewater treatment plant. The study reports on the technical features and the operation of the large-scale plant with a short overview on the pathway leading to the construction, as well as quality of the product.
LeGUI: A Fast and Accurate Graphical User Interface for Automated Detection and Anatomical Localization of Intracranial Electrodes

Accurate anatomical localization of intracranial electrodes is important for identifying the seizure foci in patients with epilepsy and for interpreting effects from cognitive studies employing intracranial electroencephalography. Localization is typically performed by coregistering postimplant computed tomography (CT) with preoperative magnetic resonance imaging (MRI). Electrodes are then detected in the CT, and the corresponding brain region is identified using the MRI. Many existing software packages for electrode localization chain together separate preexisting programs or rely on command line instructions to perform the various localization steps, making them difficult to install and operate for a typical user. Further, many packages provide solutions for some, but not all, of the steps needed for confident localization. We have developed software, Locate electrodes Graphical User Interface (LeGUI), that consists of a single interface to perform all steps needed to localize both surface and depth/penetrating intracranial electrodes, including coregistration of the CT to MRI, normalization of the MRI to the Montreal Neurological Institute template, automated electrode detection for multiple types of electrodes, electrode spacing correction and projection to the brain surface, electrode labeling, and anatomical targeting. The software is written in MATLAB, core image processing is performed using the Statistical Parametric Mapping toolbox, and standalone executable binaries are available for Windows, Mac, and Linux platforms. LeGUI was tested and validated on 51 datasets from two universities. The total user and computational time required to process a single dataset was approximately 1 h. Automatic electrode detection correctly identified 4362 of 4695 surface and depth electrodes with only 71 false positives. Anatomical targeting was verified by comparing electrode locations from LeGUI to locations that were assigned by an experienced neuroanatomist. LeGUI showed a 94% match with the 482 neuroanatomist-assigned locations. LeGUI combines all the features needed for fast and accurate anatomical localization of intracranial electrodes into a single interface, making it a valuable tool for intracranial electrophysiology research.
Relationship Between Sarcopenia and Cardiovascular Diseases in the Elderly: An Overview

With the advent of population aging, aging-related diseases have become a challenge for governments worldwide. Sarcopenia has defined as a clinical syndrome associated with age-related loss such as skeletal muscle mass, strength, function, and physical performance. It is commonly seen in elderly patients with chronic diseases. Changes in lean mass are common critical determinants in the pathophysiology and progression of cardiovascular diseases (CVDs). Sarcopenia may be one of the most important causes of poor physical function and decreased cardiopulmonary function in elderly patients with CVDs. Sarcopenia may induce CVDs through common pathogenic pathways such as malnutrition, physical inactivity, insulin resistance, inflammation; these mechanisms interact. In this study, we aimed to investigate the relationship between sarcopenia and CVDs in the elderly. Further research is urgently needed to understand better the relationship, pathophysiology, clinical presentation, diagnostic criteria, and mechanisms of sarcopenia and CVDs, which may shed light on potential interventions to improve clinical outcomes and provide greater insight into the disorders above.
NFAT5 Controls the Integrity of Epidermis

The skin protects the human body against dehydration and harmful challenges. Keratinocytes (KCs) are the most abundant epidermal cells, and it is anticipated that KC-mediated transport of Na+ ions creates a physiological barrier of high osmolality against the external environment. Here, we studied the role of NFAT5, a transcription factor whose activity is controlled by osmotic stress in KCs. Cultured KCs from adult mice were found to secrete more than 300 proteins, and upon NFAT5 ablation, the secretion of several matrix proteinases, including metalloproteinase-3 (Mmp3) and kallikrein-related peptidase 7 (Klk7), was markedly enhanced. An increase in Mmp3 and Klk7 RNA levels was also detected in transcriptomes of Nfat5-/- KCs, along with increases of numerous members of the ‘Epidermal Differentiation Complex’ (EDC), such as small proline-rich (Sprr) and S100 proteins. NFAT5 and Mmp3 as well as NFAT5 and Klk7 are co-expressed in the basal KCs of fetal and adult epidermis but not in basal KCs of newborn (NB) mice. The poor NFAT5 expression in NB KCs is correlated with a strong increase in Mmp3 and Klk7 expression in KCs of NB mice. These data suggests that, along with the fragile epidermis of adult Nfat5-/- mice, NFAT5 keeps in check the expression of matrix proteases in epidermis. The NFAT5-mediated control of matrix proteases in epidermis contributes to the manifold changes in skin development in embryos before and during birth, and to the integrity of epidermis in adults.
Conformational Changes in a Macrolide Antibiotic Binding Protein From Mycobacterium smegmatis Upon ADP Binding

Rv3197 (MABP-1), a non-canonical ABC protein in Mycobacterium tuberculosis, has ATPase activity and confers inducible resistance to the macrolide family of antibiotics. Here we have shown that MSMEG_1954, the homolog of Rv3197 in M. smegmatis, has a similar function of conferring macrolide resistance. Crystal structures of apo-MSMEG_1954 (form1 and form 2) and MSMEG_1954 in complex with ADP have been determined. These three structures show that MSMEG_1954 has at least two different conformations we identify as closed state (MSMEG_1954-form 1) and open state (MSMEG_1954-form 2 and MSMEG_1954-ADP). Structural superimposition shows that the MSMEG_1954-form 2 and MSMEG_1954-ADP complex have similar conformation to that observed for MABP-1 and MABP-1-erythromicin complex structure. However, the antibiotic binding pocket in MSMEG_1954-form 1 is completely blocked by the N-terminal accessory domain. When bound by ADP, the N-terminal accessory domain undergoes conformational change, which results in the open of the antibiotic binding pocket. Because of the degradation of N terminal accessory domain in MSMSG_1954-form 2, it is likely to represent a transitional state between MSMEG_1954-form 1 and MSMEG_1954-ADP complex structure.
Mild Anemia May Affect Thyroid Function in Pregnant Chinese Women During the First Trimester

Background Pregnant women are often susceptible to anemia, which can damage the thyroid gland. However, compared with moderate and severe anemia, less attention has been paid to mild anemia. The purpose of this study was to evaluate the effect of mild anemia on the thyroid function in pregnant women during the first trimester. Methods A total of 1,761 women in the first trimester of their pregnancy were enrolled from Shenyang, China, and divided into mild anemia and normal control groups based on their hemoglobin levels. Thyroid-stimulating hormone (TSH), free thyroxine (FT4), and free triiodothyronine (FT3) levels were compared between the two groups. Results The TSH levels of pregnant women with mild anemia were higher than those of pregnant women without mild anemia (p < 0.05). Normal control women were selected to set new reference intervals for TSH, FT3, and FT4 levels during the first trimester, which were 0.11–4.13 mIU/l, 3.45–5.47 pmol/l, and 7.96–16.54 pmol/l, respectively. The upper limit of TSH 4.13 mU/l is close to the upper limit 4.0 mU/l recommended in the 2017 American Thyroid Association (ATA) guidelines, indicating that exclusion of mild anemia may reduce the difference in reference values from different regions. Mild anemia was related to 4.40 times odds of abnormally TSH levels (95% CI: 2.84, 6.76) and 5.87 increased odds of abnormal FT3 (95% CI: 3.89, 8.85). The proportion of hypothyroidism and subclinical hypothyroidism in patients with mild anemia was higher than that in those without anemia (0.6% vs. 0, p = 0.009; 12.1% vs. 1.9%, p < 0.001). Mild anemia was related to 7.61 times increased odds of subclinical hypothyroidism (95% CI: 4.53, 12.90). Conclusions Mild anemia may affect thyroid function during the first trimester, which highlights the importance of excluding mild anemia confounding when establishing a locally derived specific reference interval for early pregnancy.
The Consideration of Future Consequences Scale Among Malaysian Young Adults: A Psychometric Evaluation

Background: The consideration of future consequences (CFC) determines the extent to which individuals consider the potential future outcomes of their current behavior. The significance of assessing the CFC scale’s validation in different contexts has been acknowledged by the previous studies. While the majority of the studies have been conducted in western countries, no study has been conducted in Malaysia. The aim of the current study was to validate a Malaysian version of the CFC scale among Malaysian young adults. Methods: The methodological cross-sectional approach was adopted in this study. The study recruited 529 young adults (age range from 25 to 40) who fulfilled the inclusion criteria of the paper survey. Construct validity was assessed using content validity, convergent validity, and discriminant validity. Cronbach’s alpha, McDonald’s omega, and average inter-item correlation (AIC) were used to assess the scale’s internal consistency. Also, composite reliability (CR) and maximal reliability (MaxR) were used to assess the construct reliability. Measurement invariance was tested across gender. Results: The findings of the exploratory factor analysis indicated that the Malaysian version of the CFC scale has a two-factor structure (i.e., CFC-Future and CFC-Immediate) with 10-item explaining 61.682% of the total variance. The confirmatory factor analysis (CFA) supported the two-factor structure of the CFC scale with good construct validity. The internal consistency and CR were acceptable. [The Cronbach’s alpha, McDonald’s omega, and CR for CFC-I were 0.901 (CI 95%: 0.881–918), 0.901, and 0.887, respectively. Also, these parameters for CFC-F were 0.867 (CI 95%: 0.838–891), 0.868, and 0.867, respectively]. Conclusion: We found acceptable psychometric evidence for the 10-item two-factors CFC scale used in the context of young adults in Malaysia. The validated instrument can be used in future studies to assess young adults’ CFC tendency and CFC-related behavior in Malaysia.