Polycyclic aromatic hydrocarbons (PAHs) are chemically recalcitrant carcinogenic and mutagenic compounds with primarily anthropogenic origin. The investigation of the effects of emissions from energy enterprises on soil microbiomes is of a high priority for modern soil science. In this study, metagenomic profiling of technogenic contaminated soils was carried out based on bioinformatic analysis of shotgun metagenome data with PAH-degrading genes identification. The use of prokaryotic consortia has been often used as one of the bio-remediation approaches to degrade PAHs with different molecular weight. Since the process of PAH degradation predominantly includes non-culturable or yet-to-be cultured species, metagenomic approaches are highly recommended for studying the composition and metabolic abilities of microbial communities. In this study, whole metagenome shotgun sequencing of DNA from two soils with varying PAH levels was performed. In the control site, the total content of 12 priority PAHs was 262 µg kg⁻¹. The background soil levels in the polluted site for PAHs with 3 or more rings exceeded this, at 800 µg kg⁻¹. The abundance of genes and taxa associated with PAH degradation in these two sites were estimated. Despite differences in PAH concentrations up to 1200 µg kg⁻¹, individual and operon-organized PAH degradation genes were almost equally abundant and diverse in pristine and highly contaminated areas. The most numerous taxa in both spots were actinobacteria from Terrabacteria group. In addition to well-known PAH degraders such as Gordonia and Rhodococcus, genes corresponding to the PAH degradation were found in Azoarcus, Burkholderia and Variovorax. The data shows non-specificity and multifunctionality of metabolic pathways encoded in the genes of PAH-degrading microorganisms.

Bacterial nanocellulose (BNC) is being considered as a potential replacement for microcrystalline cellulose as a food additive and a source of dietary fiber due to its unique properties. However, studies on the risks of consuming BNC in food are limited, and it is not yet approved for use in food in the US, EU, and Russia. Aim: This study aims to perform a toxicological and hygienic assessment of the safety of BNC in a subacute 8-week administration in rats. Methods: BNC was administered to male Wistar rats in doses of 0, 1.0, 10.0, and 100 mg/kg body weight for 8 weeks. Various parameters such as anxiety levels, cognitive function, organ masses, blood serum and liver biochemistry, oxidative stress markers, vitamin levels, antioxidant gene expression, and liver and kidney histology were evaluated. Results: Low and medium doses of BNC increased anxiety levels and liver glutathione, while high doses led to elevated LDL cholesterol, creatinine, and uric acid levels. Liver tissue showed signs of degeneration at high doses. BNC did not significantly affect vitamin levels. Conclusion: The adverse effects of BNC are either not dose-dependent or fall within normal physiological ranges. Any effects on rats are likely due to micronutrient deficiencies or impacts on intestinal microbiota.

In the Republic of Kazakhstan (one of the top 10 oil-producing countries in the world), the remediation of oil pollution found in unproductive soils under the conditions of a sharply continental arid climate is a highly relevant problem. The aims of this work are to study the biodegradation capacity of the gray soil of the ‘Daulet Asia’ landfill, assess the degradative potential of indigenous oil-degrading strains and changes in the composition of the soil microbial community. Analytical chemistry methods, distillation and chromatographic mass spectrometry were used for oil analysis; gravimetry and IR spectroscopy were used to evaluate oil degradation. Standard microbiological techniques were employed to isolate and cultivate microorganisms and metagenomic sequencing was carried out using Oxford Nanopore technology. Raw data processing and subsequent analysis were performed using modern software packages. Three isolated strains of interest were identified based on the analysis of 16S rRNA gene fragment sequences. The studied soil has low biodegradation capacity (oil loss was 6.2% on day 60), possibly due to the low abundance and weak activity of indigenous hydrocarbon-oxidizing microorganisms. The taxonomic composition of the microbiome in the studied soil suggests some potential for oil degradation. Assessment of the effectiveness of oil degradation by the indigenous microbiome indicates that this potential can be realized only marginally in situ. Isolated oil-degrading strains were identified as belonging to the Rhodococcus and Kocuria genera. Effective oil removal from the studied soil requires the introduction of active microorganisms (e.g., as part of biopreparations). Considering the characteristics of the hot arid climate, for bioremediation of contaminated sierozems of Southern Kazakhstan, it is advisable to use halotolerant oil-degrading microorganisms with a wide temperature range that are capable of degrading hydrocarbons under moisture deficiency.

Plant growth-promoting rhizospheric bacteria (PGPR) are well known for their significant roles in agriculture and the environment. In our previous study, 23 chalky soil bacterial isolates were obtained from the rhizosphere of Chamaecytisus ruthenicus. In total, seven out of them were reported for their potential effect on plant growth. However, the identification and further characterization of those chalky soil bacteria have not been completed yet. Therefore, the purpose of the present study is to identify and characterize chalky soil rhizospheric bacteria (seven previously investigated and one additional bacteria). A total of eight bacterial isolates were cultured in LB and other growth media to investigate their morphological behavior, antibiotic sensitivity or resistance status, and their effect on plant growth. Moreover, 16S rRNA gene sequencing was used to identify those potent bacterial isolates. The results of the present study demonstrate that all bacterial isolates obtained stable morphology in the three types of growth media. However, four bacterial isolates (Z11, Z12, Z15 and Z44) showed color change. The antibiotic test result also revealed that all the tested bacterial isolates except Z11 and Z24 were resistant to both ampicillin (10 μg) and oxacillin (1 μg), whereas all bacterial isolates were sensitive to polymyxin (300 units), amoxicillin (20 μg), vancomycin (30 μg), ceftazidime (30 μg), erythromycin (15 μg), ciprofloxacin (5 μg), bacitracin (10 units) and streptomycin (30 μg). The result of the growth stimulation effect revealed that few bacterial isolates had a stimulation effect on the germination rate of oats and lentils, on the shoot length of maize and oats, on the root length of wheats, maize and lentils, on the fresh weight of wheats and oats or on the dry weight of oat seeds. Furthermore, the 16S rRNA gene sequence analysis result revealed that the bacterial isolates belonged to Streptomycetes spp. and Jantinobacterium sp. To conclude, the potential chalky soil rhizospheric bacteria have a substantial impact on agriculture and the environment.

Plant growth-promoting (PGPR) bacteria are beneficial soil bacteria that enhance plant growth against biotic and abiotic stress. Numerous studies have been carried out over the past three decades on the isolation and characterization of rhizospheric bacteria. However, no studies have been conducted on the bacteria present in the rhizosphere of the wild legume plant Chamacytisus ruthenicus when growing in chalky soil. The purpose of this study was to evaluate the abundance of culturable bacteria, assess the morphology of the bacterial cells, profile the chalky soil bacterial community, and characterize its ability to stimulate plant growth. Three soil samples were collected in January at a temperature of 2–4 °C. The first sample was taken from the topsoil, the second sample from the soil 15 cm beneath the surface, and the third sample from the rhizosphere. The results of the study revealed that the abundances of bacteria in the first, second, and third soil samples were 4.25 × 10⁸ cfu/g, 3.58 × 10⁸ cfu/g, and 10.1 × 10⁷ cfu/g, respectively. Furthermore, a total of 23 rhizospheric bacteria were isolated based on differences in their morphological characteristics. The 16S rRNA soil profiling result showed that bacteria belonging to Proteobacteria, Actinobacteria, Gemmatimonadetes, Acidobacteria, and Bacteroidetes were the most dominant groups in the community. Six bacterial isolates (Z10, Z11, Z12, Z15, Z26, and Z44) were chosen to examine the inhibition effects on phytopathogenic microbes and their ability to promote plant growth. The bacterial isolates Z11 and Z15 showed good inhibition against all tested phytopathogenic fungi, while bacterial isolates Z10, Z12, Z15, Z26, and Z44 showed stimulatory effects on the length and fresh weight of the shoots and roots of wheat, maize, and oat seeds. In conclusion, the present study is the first report of chalky soil-associated bacteria found in the rhizosphere of the wild legume plant in the Belgorod region of Russia.

Phenol and its chlorinated derivatives are introduced into the environment with wastewater effluents from various industries, becoming toxic pollutants. Phenol-degrading bacteria are important objects of research; among them, representatives of the genus Rhodoccocus are often highlighted as promising. Strain 7Ba was isolated by enrichment culture. A new isolate was characterized using culturing, biochemistry, high-throughput sequencing, microscopy (including electron microscopy), and functional genome analysis. Rhodococcus erythropolis strain 7Ba is able to grow on phenol and chlorophenols without losing its properties during long-term storage. It was shown that strain 7Ba is able to form viable but nonculturable (VBNC) forms during long-term storage under nutrient limitation, preserving both cell viability and the ability to degrade phenols. The ultrastructural organization of the vegetative forms of cells and VBNC forms was characterized. The following distinctive features were found: modifications (thickening) of cell membranes, cell size reduction, nucleoid condensation. Functional analysis of the genome showed the presence of genes for the degradation of alkanes, and two branches of the β-ketoadipate pathway for the degradation of aromatic compounds. Also, the genome of strain 7Ba contains several copies of Rpf (resuscitation promoting factor) genes, a resuscitation factor of resting bacterial forms. The new isolate strain 7Ba is a promising biotechnological agent that can not only utilize toxic aromatic compounds but also remain viable during long-term storage. For this reason, its further application as an agent for bioremediation can be successful under changing conditions of climate and given the deficiency of nutrient compounds in nature. Minor biostimulation will allow the strain to recover its metabolic activity and effectively degrade pollution.