Transcriptome from Paired Samples Improves the Power of Comprehensive COVID-19 Host-Viral Characterization.

Previous transcriptome profiling studies showed significantly upregulated genes and altered biological pathways in acute COVID-19. However, changes in the transcriptional signatures during a defined time frame are not yet examined and described. The aims of this study included viral metagenomics and evaluation of the total expression in time-matched and tissue-matched paired COVID-19 samples with the analysis of the host splicing profile to reveal potential therapeutic targets. Prospective analysis of paired nasopharyngeal swabs (NPS) and blood (BL) samples from 18 COVID-19 patients with acute and resolved infection performed using Kallisto, Suppa2, Centrifuge, EdgeR, PantherDB, and L1000CDS2 tools. In NPS, we discovered 6 genes with changed splicing and 40 differentially expressed genes (DEG) that yielded 88 altered pathways. Blood samples yielded 15 alternatively spliced genes. Although the unpaired DEG analysis failed, pairing identified 78 genes and 242 altered pathways with meaningful clinical interpretation and new candidate drug combinations with up to 65% overlap. Metagenomics analyses showed SARS-CoV-2 dominance during and after the acute infection, with a significant reduction in NPS (0.008 vs. 0.002, p = 0.019). Even though both NPS and BL give meaningful insights into expression changes, this is the first demonstration of how the power of blood analysis is vastly maximized by pairing. The obtained results essentially showed that pairing is a determinant between a failed and a comprehensive study. Finally, the bioinformatics results prove to be a comprehensive tool for full-action insights, drug development, and infectious disease research when designed properly.

Humoral and Cellular Immune Response after Three Doses of Sinopharm [Vero Cell]-Inactivated COVID-19 Vaccine in Combination with SARS-CoV-2 Infection Leads to Hybrid Immunity.

BACKGROUND: Several vaccines against COVID-19 have been developed and licensed to enhance the immune response against SARS-CoV-2. Similarly, previous infection with SARS-CoV-2 has been shown to provide significant protection against severe infection and hospitalization. METHODS: We investigated the effect of three doses of the Sinopharm vaccine and SARS-CoV-2 infection on the specific immune response in 103 volunteers, measuring neutralizing antibodies, anti-S1 IgG, anti-RBD IgM, anti-N IgM, anti-N IgG antibodies, and INF γ. RESULTS: Our results showed that the presence of cardiovascular diseases increased the level of anti-N-IgG antibodies, while endocrinological diseases decreased the level of neutralizing antibodies and anti-N IgG antibodies, suggesting that these diseases alter the effect of vaccine-induced immunity. In addition, there was a significant decrease in anti-S1 IgG levels at 6 months and in anti-N IgG levels 18 months post-infection, while neutralizing antibodies and INF γ levels were constant at 3, 6, and 18 months post-infection. CONCLUSIONS: Our results confirm the emergence of hybrid immunity, which is the strongest and most durable compared to natural immunity or vaccine-induced immunity. Significant positive correlations were found between humoral and cellular immunity markers: neutralizing antibodies, anti-S1 IgG and anti-N IgG antibodies, and INF γ, indicating a unique coordinated response specific to COVID-19.

Evaluation of Tick Abundance and Pyrethroid Resistance Via Determination of Glutathione-S-Transferases Activity.

Controlling the number of ticks as carriers of infectious diseases is very important. The process is sometimes compromised by activating the protective mechanisms of the tick itself. Glutathione-S-transferases activity (GSTs) was the subject of our investigation of tick abundance after pyrethroid treatment. We determined GSTs activity in ticks collected from six locations in Belgrade before and after pyrethroid treatment and correlated it with the number of ticks in the locations. The results showed that tick abundance correlated with GSTs activity. On the other hand, treatment efficiency was location-dependent, being similar in each particular location in both April (spring) and October (autumn). Our results suggest that GSTs activity reflects the influence of both present local allelochemicals from different environmental seasonal vegetation and applied pyrethroid. We can conclude that by evaluating GSTs activity in ticks from particular locations as well as during the treatment with acaricides tick removal practice could be improved.

Physico-chemical, structural, and adsorption properties of amino-modified starch derivatives for the removal of (in)organic pollutants from aqueous solutions.

In this study, an environmentally sustainable process of crystal violet, congo red, methylene blue, brilliant green, Pb2+, Cd2+, and Zn2+ ions adsorption from aqueous solutions onto amino-modified starch derivatives was investigated. The degree of substitution, elemental analysis, swelling capacity, solubility, and FTIR, XRD, and SEM techniques were used to characterize the adsorbents. The influence of pH, contact time, temperature, and initial concentration has been studied to optimize the adsorption conditions. The amino-modified starch was the most effective in removing crystal violet (CV) (65.31-80.46 %) and Pb2+ (67.44-80.33 %) within the optimal adsorption conditions (pH 5, 10 mg dm-3, 25 °C, 180 min). The adsorption of CV could be described by both Langmuir and Freundlich adsorption isotherms, while the adsorption of Pb2+ ions was better described by the Langmuir isotherm. The pseudo-second order model can be used to describe the adsorption kinetics of CV and Pb2+ on all tested samples. The thermodynamic study indicated that the adsorption of CV was exothermic, while the Pb2+ adsorption was endothermic. The simultaneous removal of CV and Pb2+ from the binary mixture has shown their competitive behavior. Thus, the amino-modified starch is a promising eco-friendly adsorbent for the removal of dyes and heavy metals from polluted water.

Adsorption of estrone, 17ß-estradiol, and 17α-ethinylestradiol from water onto modified multi-walled carbon nanotubes, carbon cryogel, and carbonized hydrothermal carbon.

Carbon materials of different structural and textural properties (multi-walled carbon nanotubes, carbon cryogel, and carbonized hydrothermal carbon) were used as adsorbents for the removal of estrone, 17ß-estradiol, and 17α-ethinylestradiol from aqueous solutions. Chemical modification and/or activation were applied to alter surface characteristics and to increase the adsorption and desorption efficiency of carbon materials. Surfaces of treated and untreated carbon materials were characterized through the examination of the textural properties, the nature of surface functional groups, and surface acidity. It was found that the adsorption capacity of tested carbon materials is not directly proportional to the specific surface area and the content of surface oxygen groups. However, a high ratio of surface mesoporosity affected the adsorption process most prominently, by increasing adsorption capacity and the rate of the adsorption process. Adsorption of estrone, 17ß-estradiol, and 17α-ethinylestradiol followed pseudo-second-order kinetic model, while the equilibrium adsorption data were best fitted with the Langmuir isotherm model. Calculated mean adsorption energy values, along with the thermodynamic parameters, indicated that removal of selected hormones was dominated by the physisorption mechanism. High values of adsorption efficiency (88-100 %) and Langmuir adsorption capacities (29.45-194.7 mg/g) imply that examined materials, especially mesoporous carbon cryogel and multi-walled carbon nanotubes, can be used as powerful adsorbents for relatively fast removal of estrogen hormones from water.

Factor structure of the Self-Regulation Questionnaire among adult learners from Poland, Serbia, Slovakia, and the Czech Republic.

BACKGROUND: One of the most significant human qualities is the ability to develop, implement, and flexibly maintain planned behaviour in order to achieve one's goals. Self-regulation has become a relatively well-researched area in the field of psychology and pedagogy. However, empirically valid and reliable instrument is still missing across European context. The primary goal of this research was to analyze the psychometric properties of the Czech version of the Self-Regulation Questionnaire (SRQ-CZ) among adult learners from Poland, Serbia, Slovakia, and the Czech Republic. OBJECTIVE: The aim of the present study was to examine the factor structure and psychometric properties of the SRQ-CZ validated in the Czech educational context in a multi-cultural sample. METHODS: A total of 1711 adult learners from European countries including Poland, Serbia, Slovakia, and the Czech Republic completed the SRQ-CZ. The first step to reviewing the validity of the SRQ-CZ included testing face validity. Furthermore, exploratory factor analysis (EFA) was performed on half the sample and confirmatory factor analysis (CFA) on the other half. Measurement invariance was conducted across gender, age, and country followed by the evaluation of the reliability of the final instrument. RESULTS: EFA showed that a three-factor structure best fit the data. The originally proposed Impulse Control and Self-Direction are merged into one distinct factor, while Decision Making and Goal Orientation comprise the other two. Goodness-of-fit statistics yielded from CFA showed a good fit for the model, introducing a reliable and measurement invariant instrument. CONCLUSION: The present study used a diverse multi-cultural sample to explore the factorial structure and psychometric properties of the SRQ-CZ. A three-factor model was obtained as the result of the exploratory and confirmatory factor analyses. Further analysis aiming at measurement invariance, comparing the sample according to gender, age, and country, led to satisfactory results. The only exception was a lack of model fit in the case of Serbia. Although further psychometric evaluation of the SRQ-CZ is still needed, the presented results constitute significant findings, confirming instrument validity and utility as a measure of generalized self-regulation capacity across adult learners in European educational context.

Comparison and Sensitivity Evaluation of Three Different Commercial Real-Time Quantitative PCR Kits for SARS-CoV-2 Detection.

Real-time reverse transcription polymerase chain reaction (RT-qPCR) is the most sensitive and specific assay and, therefore, is the "gold standard" diagnostic method for the diagnosis of SARS-CoV-2 infection. The aim of this study was to compare and analyze the detection performance of three different commercially available SARS-CoV-2 nucleic acid detection kits: Sansure Biotech, GeneFinderTM, and TaqPathTM on 354 randomly selected samples from hospitalized COVID-19 patients. All PCR reactions were performed using the same RNA isolates and one real-time PCR machine. The final result of the three evaluated kits was not statistically different (p = 0.107), and also had a strong positive association and high Cohen's κ coefficient. In contrast, the average Ct values that refer to the ORF1ab and N gene amplification were significantly different (p < 0.001 and p < 0.001, respectively), with the lowest obtained by the TaqPathTM for the ORF1ab and by the Sansure Biotech for the N gene. The results show a high similarity in the analytical sensitivities for SARS-CoV-2 detection, which indicates that the diagnostic accuracy of the three assays is comparable. However, the SanSure Biotech kit showed a bit better diagnostic performance. Our findings suggest that the imperative for improvement should address the determination of cut-off Ct values and rapid modification of the primer sets along with the appearance of new variants.

A green approach to starch modification by solvent-free method with betaine hydrochloride.

In this study, a novel simple and eco-efficient, semi-dry method with a spray system for starch modification has been developed. Compared to conventional semi-dry methods, this method does not use solvents so that no slurry or semi-liquid mixture is obtained, the material is in a moisted/semi-moisted state. The modification of starch was performed using betaine hydrochloride (BHC) as the cationic reagent, and the characteristics of such starch derivates were compared with cationic starches obtained using glycidyltrimethylammonium chloride (GTMAC). Due to the instability, toxicity, and high cost of the most commonly used GTMAC, it should be replaced with more eco-friendly reagents, such as BHC, which is derived from betaine found in most green plants (e.g., spinach - Spinacia oleracea, beets - Beta vulgaris). The influence of processing conditions such as temperature, concentration of cationic reagents, presence and concentration of natural plasticizers/catalyst on physico-chemical and structural properties of cationic starches have also been studied. The cationic degree varied from 0.045-0.204 for the starch-BHC samples and within the range of 0.066-0.245 for the starch-GTMAC samples. The modification of starch with cationic reagents resulted in an increased solubility and swelling capacity, followed by decreased viscosity of the modified starches.

Effect of the Degree of Conversion on Mechanical Properties and Monomer Elution from Self-, Dual- and Light-Cured Core Composites.

The objective of this work was to measure and correlate the degree of conversion (DC), mechanical properties and monomer elution from self-, dual- and light-cured core composites. Five samples of each of the following materials were prepared for each test: Clearfil (Core, Photo Core, Automix), Bisco (Core-Flo, Light-Core and Bis-Core). DC was determined using FTIR, compressive and flexural strength and modulus of elasticity using a universal testing machine and microhardness using Vickers hardness. Elution was measured using HPLC. One-way ANOVA with Tukey's post-test and Pearson's correlation were used to statistically analyze the data. DC of Clearfil-Dual (70.1%) and Clerafil-Photo (66.8%) were higher than Clearfil-Self (55.4%) and all Bisco materials (51.4-55.3%). Flexural strength of Clearfilwas higher than that of Bisco composites. The Microhardness of Clearfil-Dual (119.8VHN) and Clearfil-Photo (118.0VHN) were higher compared to other materials. The greatest elution was detected from self-cured materials. DC positively correlated to microhardness and compressive/flexural strength and negatively to BisGMA elution. Clearfil-Photo and Automix showed higher conversion, lower monomer elution and, generally, better mechanical properties. Self-cured composites should not be recommended for routine clinical use as their performance was inferior to dual- and light-cured composites. Microhardness may be used as an indicator of elution.

Application of waste cotton yarn as adsorbent of heavy metal ions from single and mixed solutions.

In this study, waste cotton yarn was used for the removal of Pb (II), Cd (II), Cr (III), and As (V) from aqueous solution. Adsorption of heavy metal ions was tested from single ion solutions, while competitive studies were performed using two- and four-ion mixtures. In order to change the structure of the material, cotton yarn was modified by sodium hydroxide solution. The surface of raw and modified cotton yarn were characterized using scanning electron microscopy, Fourier transform infrared spectroscopy, and streaming potential method for determination of an isoelectric point. Sorption studies were performed on the basis of pH, kinetics, isotherms, and desorption results. It has been shown that waste cotton yarn modification, typically, does not improve the sorption capacity of the material and that the unmodified material could be used for the removal of examined heavy metal ions. Selectivity was in order Pb > Cd > Cr > As. Desorption studies have indicated to the possible reusability of the sorbent only in the case of Pb removal. A potential application of spent waste sorbent for the soil quality improvement has been considered.

Surface characteristics and antibacterial activity of a silver-doped carbon monolith.

A carbon monolith with a silver coating was prepared and its antimicrobial behaviour in a flow system was examined. The functional groups on the surface of the carbon monolith were determined by temperature-programmed desorption and Boehm's method, and the point of zero charge was determined by mass titration. The specific surface area was examined by N2 adsorption using the Brunauer, Emmett and Teller (BET) method. As a test for the surface activity, the deposition of silver from an aqueous solution of a silver salt was used. The morphology and structure of the silver coatings were characterized by scanning electron microscopy and x-ray diffraction. The resistance to the attrition of the silver deposited on the carbon monolith was tested. The antimicrobial activity of the carbon monolith with a silver coating was determined using standard microbiological methods. Carbon monolith samples with a silver coating showed good antimicrobial activity against Escherichia coli, Staphylococcus aureus and Candida albicans, and are therefore suitable for water purification, particularly as personal disposable water filters with a limited capacity.

Solid-phase extraction of multi-class pharmaceuticals from environmental water samples onto modified multi-walled carbon nanotubes followed by LC-MS/MS.

In this paper, pristine and chemically treated multi-walled carbon nanotubes (MWCNTs) were employed as solid-phase extraction sorbents for the isolation and enrichment of multi-class pharmaceuticals from the surface water and groundwater, prior to liquid chromatography-tandem mass spectrometry analysis. Thirteen pharmaceuticals that belong to different therapeutical classes (erythromycin, azithromycin, sulfamethoxazole, diazepam, lorazepam, carbamazepine, metoprolol, bisoprolol, enalapril, cilazapril, simvastatin, clopidogrel, diclofenac) and two metabolites of metamizole (4-acetylaminoantipyrine and 4-formylaminoantipyrine) were selected for this study. The influence of chemical treatment on MWCNT surface characteristics and extraction efficiency was studied, and it was shown that HCl treatment of MWCNT leads to a decrease in the amount of surface oxygen groups and at the same time favorably affects the efficiency toward extraction of selected pharmaceuticals. After the optimization of the SPE procedure, the following conditions were chosen: 50 mg of HCl-treated MCWNT as a sorbent, 100 mL of water sample at pH 6, and 15 mL of the methanol-dichloromethane mixture (1:1, v/v) as eluent. Under optimal conditions, high recoveries (79-119%), as well as low detection (0.2 to 103 ng L-1) and quantitation (0.5-345 ng L-1) limits, were obtained. The optimized method was applied to the analysis of five surface water and two groundwater samples, and three pharmaceuticals were detected, the antiepileptic drug carbamazepine and two metabolites of antipyretic metamizole.

Biosorption of heavy metal ions from aqueous solutions by short hemp fibers: Effect of chemical composition.

Sorption potential of waste short hemp fibers for Pb(2+), Cd(2+) and Zn(2+) ions from aqueous media was explored. In order to assess the influence of hemp fiber chemical composition on their heavy metals sorption potential, lignin and hemicelluloses were removed selectively by chemical modification. The degree of fiber swelling and water retention value were determined in order to evaluate the change in accessibility of the cell wall components to aqueous solutions due to the fiber modification. The effects of initial ion concentration, contact time and cosorption were studied in batch sorption experiments. The obtained results show that when the content of either lignin or hemicelluloses is progressively reduced by chemical treatment, the sorption properties of hemp fibers are improved. Short hemp fibers are capable of sorbing metal ions (Pb(2+), Cd(2+) and Zn(2+)) from single as well as from ternary metal ion solutions. The maximum total uptake capacities for Pb(2+), Cd(2+) and Zn(2+) ions from single solutions are the same, i.e. 0.078mmol/g, and from ternary mixture 0.074, 0.035 and 0.035mmol/g, respectively.