Molecular docking and machine learning affinity prediction of compounds identified upon softwood bark extraction to the main protease of the SARS-CoV-2 virus.

Molecular docking of 234 unique compounds identified in the softwood bark (W set) is presented with a focus on their inhibition potential to the main protease of the SARS-CoV-2 virus 3CLpro (6WQF). The docking results are compared with the docking results of 866 COVID19-related compounds (S set). Furthermore, machine learning (ML) prediction of docking scores of the W set is presented using the S set trained TensorFlow, XGBoost, and SchNetPack ML approaches. Docking scores are evaluated with the Autodock 4.2.6 software. Four compounds in the W set achieve a docking score below -13 kcal/mol, with (+)-lariciresinol 9'-p-coumarate (CID 11497085) achieving the best docking score (-15 kcal/mol) within the W and S sets. In addition, 50% of W set docking scores are found below -8 kcal/mol and 25% below -10 kcal/mol. Therefore, the compounds identified in the softwood bark, show potential for antiviral activity upon extraction or further derivatization. The W set molecular docking studies are validated by means of molecular dynamics (five best compounds). The solubility (Log S, ESOL) and druglikeness of the best docking compounds in S and W sets are compared to evaluate the pharmacological potential of compounds identified in softwood bark.

Accelerated and Natural Aging of Cellulose-Based Paper: Py-GC/MS Method.

Samples of papers artificially (2 to 60 days) and naturally (10, 45, and 56 years) aged were studied by the Py-GC/MS method to identify decomposition products. Possible reaction scenarios for cellulose degradation were developed. One of the degradation products is acetic acid, which can (auto)catalyze the cleavage of cellulose ß(1→4)-glycosidic bonds of cellulose polymer chains. However, during 20 s of Py-GC/MS analysis, temperatures of up to 300 °C did not significantly increase or modify the formation of decomposition products of paper components. At 300 °C, the amount of several cellulose decomposition products increased regularly depending on the number of days of artificial aging and natural aging, demonstrated mainly by the generation of 2-furancarboxaldehyde, 5-hydroxymethylfurfural, and levoglucosan and its consecutive dehydration products. No correlation between the amount of lignin decomposition products and the time of aging was found when the pyrolysis was performed at 300 °C and 500 °C. Compounds present in the products of decomposition at 500 °C bear the imprint of the chemical composition of the sampled paper. Pyrograms taken at 300 °C using the Py-GC/MS method can give additional information on the changes in the chemical structure of paper during natural or artificial aging, mainly about the cleavage of ß(1→4)-glycosidic bonds during aging.

Stability of Alum-Containing Paper under Alkaline Conditions.

The present contribution evaluates the methods of degradation and stabilization of alum-containing paper with a focus on the alkaline environment achieved by deacidification procedures. In terms of reviewed subjects, the contribution focuses on alum-rosin sized paper, which is still used as a carrier of knowledge and information; however, it also mentions cellulose itself and other brands of paper. The contribution summarizes the results on the homogeneity of the distribution of alum and rosin in the paper mass and on the paper surface. It provides the knowledge gained in the field of alkaline hydrolysis and oxidation with special regard to transition metal species. It shows the values of alkaline reserves achieved in the main mass-deacidification processes. On the basis of the acquired knowledge, the contribution emphasizes the procedures of paper stabilization. Criteria of "increased mechanical permanence and lifetime prolongation" adopted to evaluate and compare the efficacy of individual mass-deacidification processes were applied and corresponding data are introduced. The contribution also draws attention to the existence of open issues in the area of paper degradation and stabilization.

Considerations on factors influencing the degradation of cellulose in alum-rosin sized paper.

In Europe, the use of aluminium(III) compounds, namely AlK(SO4)2·12H2O and later on Al2(SO4)3·18H2O for hardening gelatin sizes was recorded as early as the 16th century. This review is focused on the critical assessment of published data concerning the following chemical aspects of paper degradation: direct influence of H3O+ ions formed during hydrolysis of aluminium(III) species; influence of low-molecular organic acids formed within degradation processes; influence of pH variation on the redox potential of reactive oxygen species acting as oxidizing agent; consequences of the absorption of gaseous NO2 and SO2 present in the air for paper degradation; involvement of aluminium species in redox radical oxidation catalytic processes; possible effect of the coordination of Al(III) with small radius and high charge on oxygen atoms of cellulose carboxyl or hydroxyl groups. It is indicated how the understanding of the above mentioned effects can help slow down paper degradation.

Spruce Bark-A Source of Polyphenolic Compounds: Optimizing the Operating Conditions of Supercritical Carbon Dioxide Extraction.

The present study described the optimization of the extraction process with carbon dioxide in supercritical state for obtaining extractives, especially polyphenols from softwood bark, Norway spruce (Picea abies (L.) Karst.). Using a full 23 factorial design of experiments, the effect of varying the working parameters on the yield of extractives was studied for the following ranges: temperature 40-100 °C, pressure 1050-9000 psi (7.2-62 MPa), and concentration of EtOH/water co-solvent mixture 40-96.6%. In addition, total phenolics content and the antioxidant capacity of the spruce bark extract were determined. The optimum operating conditions for the yield of extractives were identified as 73 °C, 6465 psi (44.5 MPa), and 58% EtOH/water cosolvent concentration for a yield of 8.92%. The optimum conditions for achieving a total phenolics content of 13.89 mg gallic acid equivalent (GAE)/g dry extract were determined as: 45 °C, 1050 psi (7.2 MPa), and 96.6% EtOH/water mixture.

Use of Deep Eutectic Solvents in Polymer Chemistry-A Review.

This review deals with two overlapping issues, namely polymer chemistry and deep eutectic solvents (DESs). With regard to polymers, specific aspects of synthetic polymers, polymerization processes producing such polymers, and natural cellulose-based nanopolymers are evaluated. As for DESs, their compliance with green chemistry requirements, their basic properties and involvement in polymer chemistry are discussed. In addition to reviewing the state-of-the-art for selected kinds of polymers, the paper reveals further possibilities in the employment of DESs in polymer chemistry. As an example, the significance of DES polarity and polymer polarity to control polymerization processes, modify polymer properties, and synthesize polymers with a specific structure and behavior, is emphasized.

Extraction of value-added components from food industry based and agro-forest biowastes by deep eutectic solvents.

The scientific community, experts in technology and marketing have been seeking cost-competitive and green solvents with good dissolving capacity for the valorisation of biomass and biowaste. Along with traditional solvents and techniques, deep eutectic solvents (DESs) and their bio-analogues, natural deep eutectic solvents (NADESs) are currently emerging as a new class of promising liquid media. In this review, a comprehensive summary of recent contribution of DESs to the processing and valorisation of various kinds of plant and animal based biomass and biowaste is provided. In the field of food industry based and agro-forest waste valorisation, through treatment of the waste, by-products, and natural materials by DESs, several types of compounds, such as flavonoids and other plant phenolics, phenolic acids, stilbenes, tannins, lignans, and lignin were obtained. Extraction of algae by DESs led to isolation mainly of proteins, carbohydrates, lipids and nucleic acids. Vegetable oils, spent oils, residues and by-products of their processing are a rich source of phenolic compounds such as phenolic acids and phenolic alcohols, secoiridoid derivatives (aglycone and ligstroside), lignans (pino and acetoxypinoresinol), flavones (luteolin and apigein), tocopherols and tocotrienols. Dietary fibre serves as a source of lignin, pectic substances, gums, resistant starch, inulin, as well as non-carbohydrate components, e.g., polyphenols, waxes, saponins, cutin, phytates, resistant proteins. Valorisation of wastes originated from animal processing by DESs means obtaining high-value chemicals including amino acids, proteins, bioactive peptides, collagen peptides, albumin etc. Through the valorisation of the mentioned waste types value-added products with potential applications in the pharmaceutical, food and cosmetic industries are produced. The paper gathered data on the used DESs, treated substances and obtained products, together with treatment conditions and the products yields. The evaluation of the state-of-the-art in the field of biowaste valorisation using DESs and NADESs led to conclusions and indication of future prospects and predicted development in this field.

Antibacterial and antifungal activity of phytosterols and methyl dehydroabietate of Norway spruce bark extracts.

The current study focuses on the analysis of in vitro biological activity of extract from bark of Norway spruce (Picea Abies), which can find potential application in food and cosmetic industry and pharmacology. Milled bark was subjected to Soxhlet extraction and supercritical fluid extraction to obtain two ethanol extracts. These extracts were further used to obtain their pre-extracts to n-hexane. It was investigated whether beta-sitosterol exhibits bacteriostatic activity necessary to observe antimicrobial and antifungal activity of methyl dehydroabiatate. This synergic effect and bacteriostatic activity of beta-sitosterol have not been previously reported. The greatest inhibition zone of n-hexane pre-extracts was confirmed in bacterium Pseudomonas aeruginosa (0,9 - 1,5 cm) and yeast Alternaria alternata (0,7 - 1,6 cm). It is novel, the antioxidant, antimicrobial and antifungal activity of spruce bark extracts assessed in terms of food and cosmetic fortification.

Characterization of Klason lignins by reversed-phase high-performance liquid chromatography using wide-pore octadecylsilica and stepwise gradients of dimethylformamide in water.

RP-HPLC using stepwise gradients of N,N-dimethylformamide (DMF) in a phosphate-buffered (pH 3.00) aqueous mobile phase and a wide-pore (30 nm) octadecylsilica column has been applied to the analysis of a variety of lignins--organocell lignin, dioxane lignin, Björkman lignin, and Klason lignins from both softwoods and hardwoods, respectively, in order to demonstrate the usefulness of the approach for their characterization. Tandem combination of spectrophotometric diode array detection and fluorimetric detection was used to acquire more detailed information about the chromatographic behavior of lignins. The results show that a ten-step gradient can reveal distinct features of lignins and humic substances. Combination of good solvating properties of DMF for lignins together with a wide-pore RP sorbent improves surface interactions of the analytes and suppresses the influence of size exclusion effects. Thus it provides reproducibility of characterization profiles and robustness of the method. The calculated repeatability of the retention time of selected peaks was +/- 0.46% RSD. The reproducibility of the data within one week (set of seven data) was +/- 1.1% RSD. These data are also representative of the other well-shaped peaks of analyzed substances.