Miracle-dz/UniFAR-FTUs huggingface dataset:
An Overview of Artificial Olfaction Systems with a Focus on Surface Plasmon Resonance for the Analysis of Volatile Organic Compounds

The last three decades have witnessed an increasing demand for novel analytical tools for the analysis of gases including odorants and volatile organic compounds (VOCs) in various domains. Traditional techniques such as gas chromatography coupled with mass spectrometry, although very efficient, present several drawbacks. Such a context has incited the research and industrial communities to work on the development of alternative technologies such as artificial olfaction systems, including gas sensors, olfactory biosensors and electronic noses (eNs). A wide variety of these systems have been designed using chemiresistive, electrochemical, acoustic or optical transducers. Among optical transduction systems, surface plasmon resonance (SPR) has been extensively studied thanks to its attractive features (high sensitivity, label free, real-time measurements). In this paper, we present an overview of the advances in the development of artificial olfaction systems with a focus on their development based on propagating SPR with different coupling configurations, including prism coupler, wave guide, and grating.
Hepatoprotective effect of Opuntia dillenii seed oil on CCl4 induced acute liver damage in rat

Objective: To investigate the hepatoprotective effect of Opuntia dillenii seed oil (ODSO) on CCl4 provoked liver injury in rat. Methods: Animals were treated orally with ODSO at a concentration of 2 mL/kg, once daily for one week before the first intraperitoneal injection of CCl4, and thereafter the administration of the oil was continued for 7 days until the introduction of the second injection of CCl4. Fourteen hours after the last dose of CCl4, rats were sacrificed, and the relative liver weight, weight gain, alkaline phosphatase, aspartate amino transferase, alanine aminotransferase, direct bilirubin, total bilirubin, triglycerides, total cholesterol, very low density lipoprotein, low density lipoprotein, high density lipoprotein, plasmatic glucose, urea, creatinine, acid uric and malondialdehyde were determined. Results: The significant increase was found in relative liver weight and plasma levels of alanine aminotransferase, aspartate amino transferase, alkaline phosphatase, total bilirubin, direct bilirubin, triglycerides, very low-density lipoprotein, urea, uric acid and malondialdehyde. Likewise, the significant decrease was indicated in the weight gain and the level of glucose plasmatic, and high-density lipoprotein levels in CCl4 produced liver injury in rats were re-established to normal levels when treated with ODSO. While, no change was observed in the total cholesterol, low-density lipoprotein and creatinine in all animals. Conclusions: We conclude that the ODSO has a protective effect on CCl4-mediated liver injury. Hence, we suggest its inclusion as a preventive control of liver disorders.
The Seasonal Influence of Invasive Shrubs on Light and Temperature in an Eastern Deciduous Forest Understory

ABSTRACT Invasive shrubs are flourishing in temperate, deciduous forest understories of eastern North America where resources, especially light, are limited. However, understory light is more available before the overstory canopy leaves emerge in the spring and after fall senescence. Extended leaf phenology of invasive shrubs in the spring and fall compared to native shrubs and the overstory canopy is conspicuous, as well as higher foliage abundance of invasive compared to native shrubs. Extended leaf phenology of invasive shrubs provides photosynthetic benefits, but also seasonally novel shade. Light and temperature regulate life history characteristics across taxa and influence ecosystem processes. Here, a long-term invasive shrub removal experiment is used to quantify the effect on light and air temperature over 3–4 y. There was a pattern of reduced maximum air temperature in the presence of invasive shrubs during the growing season of most years. We find less light energy infiltration (lumens m–2) below invasive shrubs than native shrubs with mean differences largest in the spring (–1981 [–2604, –1380], a 26.8% reduction relative to below natives). Differences diminish through summer (–1038 [–1221, –845]), fall (–547 [–660, –429]), and winter (–257 [–372, –151]). Invasive shrubs also filter more photosynthetically active radiation than natives (58.4 [38.5, 78.7] µmol m–2 s–1, a 39.4% reduction), but seasonal differences were not detected indicating denser canopy structure for invasive shrubs throughout the year. When compared to the native understory community, the presence of invasive shrubs seasonally reduces temperature and light availability near the forest floor, which could affect resident plant and animal species.
The ontogeny of exploratory object manipulation behaviour in wild orangutans

Abstract Abstract In human infants, exploratory object manipulation is a major vehicle for cognitive stimulation as well as an important way to learn about objects and basic physical concepts in general. The development of human infants’ exploratory object manipulation follows distinct developmental patterns. So far, the degree of evolutionary continuity of this developmental process remains unclear. We investigated the development of exploratory object manipulations in wild orangutans. Our data included 3200 exploration events collected on 13 immatures between the ages of 0.5 and 13 years, at the Suaq Balimbing monitoring station in Indonesia. Our results identify several parallels between the development of exploratory behaviour in humans and orangutans: on top of a highly similar overall age trajectory, we found an increase in variability of the actions used, an increase in the number of body parts involved in each event, and an overall decrease of mouthing of the objects. All in all, our results show that orangutans progress through a developmental sequence of different aspects of exploration behaviour. In combination with previous findings from captivity, our results also provide evidence that exploratory object manipulations reflect cognitive development and might function as a means of cognitive stimulation not just in humans but across the great apes.
Air pollution in Vietnam during the COVID-19 social isolation, evidence of reduction in human activities

ABSTRACT The COVID-19 (COronaVIrus Disease) pandemic has been spreading globally and social isolation has been implemented as an effective solution to limit the spread of the pandemic before vaccines are developed successfully. The reduction of human activities during social isolation is leading to an improvement in air quality being observed worldwide. In this study, we analysed satellite TROPOMI (TROPOspheric Monitoring Instrument) NO2 (Nitrogen Dioxide) and OMI (Ozone Monitoring Instrument) NO2 products obtained from Sentinel-5P and Aura satellites, respectively, during the social isolation from 1 April 2020 to 22 April 2020 in Vietnam where air pollution is a serious environmental issue. Both TROPOMI and OMI NO2 have shown low agreement with local on-ground NO2 concentration (the correlation coefficient r equals 0.4 and 0.3 in 2020, respectively) but have had moderate correlation with each other in 2020 (r equals 0.81 for two annual averaged maps). In addition, the moderate available data ratio over cloudy northern areas were observed, especially for TROPOMI datasets. During social isolation, the national average NO2 decreased by 9.3% for TROPOMI and 7.2% for OMI, respectively, in comparison with the same periods in the previous years. The reduction was stronger in the North than in the South and lasted for one more month after the lockdown period. The decrease of NO2 density during the lockdown was observed strongly in urban areas associated with dense population, traffic density, and industrial zones. Further analysis of NO2 density for Ho Chi Minh city revealed a decreasing trend of NO2 during social isolation (16.62% and 11.77% compared with the previous month and the same period in 2019, respectively). Furthermore, we used a random forest model to estimate the NO2 density (normal life situations) based on daily meteorological data at station. During social isolation, NO2 density observed in Ho Chi Minh city decreased by 26% down to that of normal life situations. The NO2 reduction has shown strong anthropogenic impact on air pollution over the study area. Besides, the first use of TROPOMI and OMI NO2 products together has highlighted potentials of satellite observation for air quality monitoring and analysis in Vietnam where on-ground measurements are very limited.
Electrical Behavior and Microstructural Features of Electric Field-Assisted and Conventionally Sintered 3 mol% Yttria-Stabilized Zirconia

ZrO2: 3 mol% Y2O3 (3YSZ) polycrystalline pellets were sintered at 1400 °C and by applying an alternating current (AC) electric field at 1000 °C. An alumina sample holder with platinum wires for connecting the sample to a power supply was designed for the electric field-assisted sintering experiments. The apparent density was evaluated with the Archimedes technique, the grain size distribution by analysis of scanning electron microscopy images, and the electrical behavior by the impedance spectroscopy technique. Sintering with the application of AC electric fields to 3YSZ enhances its ionic conductivity. An explanation is proposed, based on the dissolution back to the bulk of chemical species, which are depleted at the grain boundaries, leading to an increase in the oxygen vacancy concentration. For the enhancement of the grain boundary conductivity, an explanation is given based on the diminution of the concentration of depleted chemical species, which migrate to the bulk. This migration leads to a decrease of the potential barrier of the space charge region, known to be responsible for blocking the oxide ions through the intergranular region. Moreover, the heterogeneity of the distribution of the grain sizes is ascribed to the skin effect, the tendency of the AC current density to be largest near the surface, decreasing towards the bulk.
The sense of presence: lessons from virtual reality

ABSTRACT The sense of presence—or the sense of “being there”—is a poorly understood phenomenon, especially in the case of “unseen others,” e.g., God. We used the tools of virtual reality (VR) to explore the effects of active imagination in creating a sense of presence of an ambiguously real other. We found that adding a visual representation was more effective than verbal language alone in evoking a sense of social presence in a ten-minute intervention, that a proclivity for absorption enhanced the sense of social and environmental presence, and that a sense of social presence was associated with a sense of responsive interaction. We present our data together with a critical analysis of the literature on perceptual presence and conclude by suggesting that presence is best understood as the product of a collaboration between a perceiving subject and the environment within which they are embedded. This study serves as an example of a novel approach that bridges different scientific literatures, methods, and disciplines to study religious experience.
Telmisartan Restricts Chikungunya Virus Infection In Vitro and In Vivo through the AT1/PPAR-γ/MAPKs Pathways

Chikungunya virus (CHIKV) has reemerged as a global public health threat. The inflammatory pathways of the renin-angiotensin system (RAS) and peroxisome proliferator-activated receptor-gamma (PPAR-γ) are usually involved in viral infections. ABSTRACT Chikungunya virus (CHIKV) has reemerged as a global public health threat. The inflammatory pathways of the renin-angiotensin system (RAS) and peroxisome proliferator-activated receptor-gamma (PPAR-γ) are usually involved in viral infections. Thus, telmisartan (TM), which is known to block the angiotensin 1 (AT1) receptor and activate PPAR-γ, was investigated for activity against CHIKV. The anti-CHIKV effect of TM was investigated in vitro (Vero cells, RAW 264.7 cells, and human peripheral blood mononuclear cells [hPBMCs]) and in vivo (C57BL/6 mice). TM was found to abrogate CHIKV infection efficiently (50% inhibitory concentration (IC50) of 15.34 to 20.89 μM in the Vero cells and RAW 264.7 cells, respectively). Viral RNA and proteins were reduced remarkably. Additionally, TM interfered in the early and late stages of the CHIKV life cycle with efficacy during pretreatment and posttreatment. Moreover, the agonist of the AT1 receptor and an antagonist of PPAR-γ increased CHIKV infection, suggesting that the antiviral potential of TM occurs through modulating host factors. In addition, reduced activation of all major mitogen-activated protein kinases (MAPKs), NF-κB (p65), and cytokines by TM occurred through the inflammatory axis and supported the fact that the anti-CHIKV efficacy of TM is partly mediated through the AT1/PPAR-γ/MAPKs pathways. Interestingly, at a human equivalent dose, TM abrogated CHIKV infection and inflammation significantly, leading to reduced clinical scores and complete survival of C57BL/6 mice. Additionally, TM reduced infection in hPBMC-derived monocyte-macrophage populations in vitro. Hence, TM was found to reduce CHIKV infection by targeting both viral and host factors. Considering its safety and in vivo efficacy, it can be a suitable candidate in the future for repurposing against CHIKV.
A machine-learning approach for detection of local brain networks and marginally weak signals identifies novel AD/MCI differentiating connectomic neuroimaging biomarkers

Introduction A computationally fast machine learning method is introduced for uncovering the wholebrain voxel-level connectomic spectra that differentiates different status of Alzheimer’s disease (AD). The method is applied to the Alzheimer’s Disease Neuroimaging Initiative (ADNI) Fluorinefluorodeoxyglucose Positron Emission Tomography (FDG-PET) imaging and clinical data and identified novel AD/MCI differentiating connectomic neuroimaging biomarkers. Methods A divide-and-conquer algorithm is introduced for detect informative local brain networks at voxel level and whole-brain scale. The connection information within the local networks is integrated into the node voxels, which makes detection of the marginally weak signals possible. Prediction accuracy is significantly improved by incorporating the local brain networks and marginally weak signals. Results Brain connectomic structures differentiating AD and mild cognitive impairment (MCI), AD and healthy, and MIC and healthy were discovered. We identified novel AD/MCI-associated neuroimaging biomarkers by integrating local brain networks and marginally weak signals. For example, networkbased signals in paracentral lobule (p-value=6.1e-5), olfactory cortex (p-value=4.6e-5), caudate nucleus (1.8e-3) and precentral gyrus (1.8e-3) are informative in differentiating AD and MCI. Connections between calcarine sulcus and lingual gyrus (p-value=0.049), between parahippocampal gyrus and Amygdala (p-value=0.025), between rolandic opercula and insula lobes (p-values=0.0028 and 0.0026). An overall prediction accuracy of 95.3% was achieved by integrating the selected local brain networks and marginally weak signals, compared to 84.0% by not considering the inter-voxel connections and using marginally strong signals only. Conclusion (i) The connectomic structures differentiating AD and MCI are significantly different to that differentiating MCI and healthy, which may indicate different neuronal etiology for AD and MCI. (ii) Many neuroimaging biomarkers exert their effects on the outcome diseases through their connections to other markers. Integrating such connections can help identify novel neuroimaging biomarkers and improve disease prediction accuracy.
Detection and quantification of the vacuolar H+ATPase using the Legionella effector protein SidK

Acidification of secretory and endocytic organelles is required for proper receptor recycling, membrane traffic, protein degradation, and solute transport. Proton-pumping vacuolar ATPases (V-ATPases) are responsible for this luminal acidification, which increases progressively as secretory and endocytic vesicles mature. An increasing density of V-ATPase complexes is thought to account for the gradual decrease in pH, but available reagents have not been sufficiently sensitive nor specific to test this hypothesis. We introduce a new probe to localize and quantify V-ATPases in eukaryotic cells. The probe is derived from SidK, a Legionella pneumophila effector protein that binds to the V-ATPase A subunit. We generated plasmids encoding fluorescent chimeras of SidK1-278, and labeled recombinant SidK1-278 with AlexaFluor-568 to visualize and quantify V-ATPases with high specificity in live and fixed cells, respectively. We show that V-ATPases are acquired progressively during phagosome maturation, that they distribute in discrete membrane subdomains, and that their density in lysosomes depends on the subcellular localization of the lysosome.
A method for the generation of pseudovirus particles bearing SARS coronavirus spike protein in high yields

The ongoing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic has threatened human health and the global economy. Development of additional vaccines and therapeutics is urgently required, but such development with live virus must be conducted with biosafety level 3 confinement. Pseudotyped viruses have been widely adopted for studies of virus entry and pharmaceutical development to overcome this restriction. Here we describe a modified protocol to generate vesicular stomatitis virus (VSV) pseudotyped with SARS-CoV or SARS-CoV-2 spike protein in high yield. We found that a large proportion of pseudovirions produced with the conventional transient expression system lacked coronavirus spike protein at their surface as a result of inhibition of parental VSV infection by overexpression of this protein. Establishment of stable cell lines with an optimal expression level of coronavirus spike protein allowed the efficient production of progeny pseudoviruses decorated with spike protein. This improved VSV pseudovirus production method should facilitate studies of coronavirus entry and development of antiviral agents.
The Potential of Shortening the Adaptation of Nellore Cattle to High-Concentrate Diets Using Only Virginiamycin as Sole Feed Additive

Feedlot cattle are usually adapted to high-concentrate diets containing sodium monensin (MON) in more than 14 days. However, for finishing diets with lower energy content, the use of MON during adaptation may hold dry matter intake (DMI), and virginiamycin (VM) may be an alternative. This study was designed to determine the potential of shortening the adaptation of Nellore cattle to high-concentrate diets using only VM as a sole feed additive relative to feedlot performance, feeding behavior, and ruminal and cecum morphometrics. The experiment was designed as a completely randomized block replicated six times (four animals/pen) in which 120 Nellore bulls (390.4 ± 19.0 kg) were fed in 30 pens for 111 days according to the following treatments: (1) MON and adaptation for 14 days (MON14), (2) MON + VM and adaptation for 14 days (MONVM14), (3) VM and adaptation for 14 days (VM14), (4) VM and adaptation for 9 days (VM9), and (5) VM and adaptation for 6 days (VM6). At the end of the adaptation, 30 animals (n = 1 per pen) were randomly slaughtered for rumen and cecum evaluations. The remaining 90 bulls were harvested at the end of the study. No effects of treatments were observed (P < 0.10) for final body weight, average daily gain (ADG), and hot carcass weight (HCW). Cattle fed VM14 presented a greater (P ≤ 0.03) DMI, expressed as percent of body weight (BW), than animals fed either MON14 or MONVM14; however, cattle fed either MON14 or MONVM14 improved (P ≤ 0.02) the gain-to-feed ratio (G/F) by 10.4 or 8.1%, respectively, when compared to bulls fed VM14. Bulls fed VM14 had smaller (P < 0.05) papillae area (0.34 vs. 0.42 cm2) and rumen absorptive surface area (28.9 vs. 33.8 cm2) than those fed MON14. The shortening of the adaptation period linearly decreased the 12th rib fat (P = 0.02) and biceps femoris fat daily gain (P = 0.02) of Nellore bulls fed only VM, which linearly decreased the final biceps femoris fat thickness (P < 0.01). Feedlot cattle fed VM as a sole feed additive should not be adapted to high-concentrate diets in less than 14 days. Regardless of either adaptation length or feed additive, feedlot cattle need at least 14 days to adapt to finishing diets.
LncRNA GAS5 as miR-26a-5p Sponge Regulates the PTEN/PI3K/Akt Axis and Affects Extracellular Matrix Synthesis in Degenerative Nucleus Pulposus Cells in vitro

The role of lncRNA growth arrest specific 5 (GAS5) in degenerative nucleus pulposus cell (NPC) apoptosis has been reported, but the mechanism of GAS5 in extracellular matrix (ECM) synthesis in intervertebral disc degeneration (IDD) remains unknown. We aimed to investigate the mechanism of GAS5 in ECM synthesis in degenerative NPCs. GAS5 expression was measured in degenerative NPCs (CP-H170) and normal NPCs (CP-H097). siRNA-mediated GAS5 knockdown was transfected to NPCs to detect cell viability and the expression of ECM-related genes (Collagen II, aggrecan, Collagen I, and MMP-3). Subcellular localization of GAS5 was analyzed. The downstream gene and pathway of GAS5 in degenerative NPCs were explored. As our results indicated, lncRNA GAS5 was upregulated in degenerative NPCs. Silencing GAS5 improved the viability of degenerative NPCs and increased ECM synthesis. GAS5 was mainly located in the cytoplasm of NPCs. LncRNA GAS5 sponged miR-26a-5p to regulate PTEN. Overexpression of miR-26a-5p promoted ECM synthesis in degenerative NPCs. Akt inhibitor LY294002 reversed the promotion of silencing GAS5 on ECM synthesis of degenerative NPCs. In conclusion, lncRNA GAS5 sponged miR-26a-5p to upregulate PTEN and inhibit the PI3K/Akt pathway, thus inhibiting ECM synthesis of degenerative NPCs.
Paenarthrobacter sp. GOM3 Is a Novel Marine Species With Monoaromatic Degradation Relevance

Paenarthrobacter sp. GOM3, which is a strain that represents a new species-specific context within the genus Paenarthrobacter, is clearly a branched member independent of any group described thus far. This strain was recovered from marine sediments in the Gulf of Mexico, and despite being isolated from a consortium capable of growing with phenanthrene as a sole carbon source, this strain could not grow successfully in the presence of this substrate alone. We hypothesized that the GOM3 strain could participate in the assimilation of intermediate metabolites for the degradation of aromatic compounds. To date, there are no experimental reports of Paenarthrobacter species that degrade polycyclic aromatic hydrocarbons (PAHs) or their intermediate metabolites. In this work, we report genomic and experimental evidence of metabolic benzoate, gentisate, and protocatechuate degradation by Paenarthrobacter sp. GOM3. Gentisate was the preferred substrate with the highest volumetric consumption rate, and genomic analysis revealed that this strain possesses multiple gene copies for the specific transport of gentisate. Furthermore, upon analyzing the GOM3 genome, we found five different dioxygenases involved in the activation of aromatic compounds, suggesting its potential for complete remediation of PAH-contaminated sites in combination with strains capable of assimilating the upper PAH degradation pathway. Additionally, this strain was characterized experimentally for its pathogenic potential and in silico for its antimicrobial resistance. An overview of the potential ecological role of this strain in the context of other members of this taxonomic clade is also reported.