Search Results (44)

Nitrate is a promising enhanced natural attenuation (ENA) material that enhances the microbial degradation of petroleum hydrocarbons by acting as an electron acceptor and nitrogen source. This study evaluated nitrate-containing materials (yeast extract, compound nitrogen fertilizer, and nitrate solutions) in microcosm experiments using gasoline-contaminated aquifer soils. Chemical analysis revealed that yeast extract achieved the highest degradation rate (34.33 mg/(kg·d)), reducing 600 mg/kg of petroleum hydrocarbons to undetectable levels within 18 days. Nitrate materials significantly increased nitrate-reducing activity and upregulated both aerobic/anaerobic hydrocarbon degradation genes, expanding microbial degradation potential. Metagenomic analysis identified Pseudomonas and Achromobacter as dominant genera across treatments, suggesting their critical roles in biodegradation. These findings demonstrate that nitrate-enhanced strategies effectively accelerate hydrocarbon attenuation under facultative anaerobic conditions, offering practical ENA solutions for petroleum-polluted sites. Full article

Most large-scale crude oil spills occur in marine environments. We screened easily propagable/maintainable halophiles to develop agents for the bioremediation of marine spills. A bacterial strain isolated from a polluted region of the Great Salt Lake was characterized and tested for its ability to degrade crude oil. The strain (Salinivibrio costicola) is motile, catalase- and lipase-positive, a facultative anaerobe, and an obligate halophile. Its growth optimum and tolerance ranges are: NaCl (5%, 1.25–10%), pH (8, 6–10), and temperature (22 °C, 4–45 °C). Its genome (3,166,267 bp) consists of two circular chromosomes and a plasmid, containing 3197 genes, including some genes potentially relevant to hydrocarbon metabolism. The strain forms a biofilm but is considered nonpathogenic and is sensitive to some common antibiotics. Lytic bacteriophages infecting the strain are rare in the water samples we tested. The strain survived on desiccated agar media at room temperature for a year, grew optimally in complex media containing 0.1–1% crude oil, but failed to reduce total recoverable petroleum hydrocarbons from crude oil. Thus, a recalcitrant halophile may endure crude oil without mineralizing. Due to some of their advantageous attributes, such strains can be considered for genetic manipulation to develop improved agents for bioremediation. Full article

The present study aimed to comprehensively dissect the petroleum hydrocarbon degradation mechanism of Acinetobacter vivianii KJ-1. The isolated and identified strain was able to proliferate using diesel as the sole carbonaceous substrate. Via comparative genomics, an in-depth analysis was performed to elucidate the genome similarities and disparities between this strain and related strains, thereby uncovering a core genome as well as genes with uncharacterized functions. Transcriptome analysis, carried out under different substrate conditions (C16, diesel, sodium acetate) manifested distinct gene expression modalities. A multitude of genes associated with alkane metabolism were differentially expressed, among which alkB1_1 and alkB1_2 was conspicuously upregulated. Prokaryotic expression of alkB1_1 was implemented, and the enzyme activity of the recombinant protein peaked at a pH level of approximately 7.0 and within a temperature range of 30 to 40 °C. The recombinant strain was shown to possess the ability to degrade n-hexadecane. Collectively, this research not only augments the understanding of the degradation mechanism of A. vivianii KJ-1 but also provides a fundamental basis for developing bioremediation strategies targeting petroleum hydrocarbon-contaminated environments. Full article

Petroleum hydrocarbon contamination has emerged as a significant global environmental issue, severely impacting soil microbial communities and their functions. This study employed high-throughput sequencing to systematically analyze the bacterial community structure and functional genes in soils with varying levels of petroleum hydrocarbon contamination. The results demonstrated that petroleum contamination led to a significant decline in microbial diversity, while enhancing the abundance of specific functional genes, such as those involved in polycyclic aromatic hydrocarbon (PAH) degradation, methane production, and denitrification. Phylogenetic analysis further revealed that microbial communities in highly contaminated soils tended to form highly clustered and specialized groups, while simultaneously promoting the coexistence of phylogenetically distant microorganisms. The Mantel test identified significant correlations between ammonium ion concentration, soil moisture content, and microbial metabolic pathways, particularly those related to petroleum hydrocarbon degradation and denitrification. These findings suggest that petroleum contamination not only disrupts the carbon and nitrogen metabolism balance but also has profound implications for greenhouse gas emissions and nitrogen cycling, potentially destabilizing the ecosystem. This study provides novel insights into the ecological functions of microbial communities in petroleum-contaminated soils and highlights potential key factors for pollution management and ecological restoration. Full article

The present study evaluated the effect of two inoculum concentrations on the degradation of crude oil by Corynebacterium stationis CsPe-1. To this end, two treatment systems were utilized, each containing Davies Minimum Medium, 1% crude oil, and bacterial inoculum at concentrations of 10% and 15%, respectively. The degree of oil biodegradation was determined by evaluating the biochemical oxygen demand (BOD₅), the chemical oxygen demand (COD), the concentration and fractions of oil and grease, and the total petroleum hydrocarbons (TPH). The results indicated that both BOD₅ and COD exhibited an increase after a 20-day treatment period. For the 10% and 15% inoculum concentrations, a statistically significant difference was observed between the initial and final values of oils and fats (p < 0.05). In both systems, the levels of oils and fats decreased by 61%, contrasting with the control system, which exhibited minimal variation. A significant difference (p < 0.05) was observed in the degradation of TPH at the two inoculum concentrations. The findings indicated that the biodegradation of TPH was more efficient with an inoculum of 15%, resulting in a 79.94% reduction in fraction 3 (28–40 carbon chains). Fraction 1 exhibited less degradation, attributable to the toxicity of short-chain n-alkanes. Genomic analysis identified the pcaG and pcaH genes, which have been linked to the degradation of polycyclic aromatic hydrocarbons. This study underscores the biotechnological potential of strain CsPe-1 for the remediation of hydrocarbon-contaminated environments, thereby contributing to the realization of Sustainable Development Goals 14 and 15. Full article

In countries with a long petroleum extraction and processing history, such as Romania, extensive soil areas are often polluted with petroleum and its derivatives, posing significant environmental and human health risks. This study explores the diesel biodegradation potential of two native bacterial consortia isolated from hydrocarbon-polluted soils, focusing on their phenotypic and molecular characteristics, growth kinetics, alkane hydroxylase activity, hydrolase production, and biosurfactant synthesis capabilities. The bacterial consortia, CoP1 and CoP2, were successfully obtained using the standard successive enrichment culture method from two soil samples collected from a region affected by petroleum pollution. The CoP1 and CoP2 consortia demonstrated efficient diesel-degrading capabilities, achieving 50.81−84.32% degradation when cultured in a minimal medium containing 1–10% (v/v) diesel as the sole carbon and energy source. This biodegradation potential was corroborated by their significant alkane hydroxylase activity and the detection of multiple catabolic genes in their genomes. The CoP1 consortium contains at least four catabolic genes (alkB, alkM, todM, ndoM) as well as rhamnosyltransferase 1 genes (rhlAB), while the CoP2 consortium contains only two catabolic genes (ndoM, C23DO). The RND transporter gene (HAE1) was present in both consortia. Secondary metabolites, such as glycolipid-type biosurfactants, as well as extracellular hydrolases (protease, amylase, cellulase, and lipase), were produced by both consortia. The CoP1 and CoP2 consortia demonstrate exceptional efficiency in diesel degradation and biosurfactant production, making them well suited for the bioremediation of soils contaminated with petroleum and its derivatives. Full article

In petroleum-contaminated aquifers, iron (III) serves as an electron acceptor, enabling microbial degradation of organic matter. While previous studies have focused on iron reduction and organic matter degradation under laboratory conditions, research on iron-associated microorganisms in petroleum-contaminated aquifers is limited. To explore the diversity and distribution of such microorganisms in natural settings, this study used metagenomic analysis of an iron-rich, petroleum-contaminated aquifer. Sixteen groundwater samples from both pollution source and background areas were collected for species annotation and functional gene identification. Results show more than 7000 species were identified as iron-reducing microorganisms (IRMs), including several previously well-characterized iron-reducing species (e.g., Geobacter luticola and Geobacter sulfurreducens). However, the majority of IRMs were not found in existing iron-reducing microbial databases. Some of them, such as Sulfurospirillum sp. and Extensimonas perlucida, could be taxonomically classified at the species level, while most were only annotated as unclassified bacteria. In the contamination source zone, these microorganisms proliferated extensively, which led to hydrocarbon degradation predominantly driven by iron reduction in the aquifer. This study enhances our understanding of hydrocarbon-degrading microorganisms and supports the management of petroleum-contaminated sites. Full article

Bioremediation, involving the strategic use of microorganisms, has proven to be a cost-effective alternative for restoring areas impacted by persistent contaminants such as polycyclic aromatic hydrocarbons (PAHs). In this context, the aim of this study was to explore hydrocarbon-degrading microbial consortia by prospecting native species from soils contaminated with blends of diesel and biodiesel (20% biodiesel/80% diesel). After enrichment in a minimal medium containing diesel oil as the sole carbon source and based on 16S rRNA, Calmodulin and β-tubulin gene sequencing, seven fungi and 12 bacteria were identified. The drop collapse test indicated that all fungal and four bacterial strains were capable of producing biosurfactants with a surface tension reduction of ≥20%. Quantitative analysis of extracellular laccase production revealed superior enzyme activity among the bacterial strains, particularly for Stenotrophomonas maltophilia P05R11. Following antagonistic testing, four compatible consortia were formulated. The degradation analysis of PAHs and TPH (C5–C40) present in diesel oil revealed a significantly higher degradation capacity for the consortia compared to isolated strains. The best results were observed for a mixed bacterial-fungal consortium, composed of Trichoderma koningiopsis P05R2, Serratia marcescens P10R19 and Burkholderia cepacia P05R9, with a degradation spectrum of ≥91% for all eleven PAHs analyzed, removing 93.61% of total PAHs, and 93.52% of TPH (C5–C40). Furthermore, this study presents the first report of T. koningiopsis as a candidate for bioremediation of petroleum hydrocarbons. Full article

The negative ecological impact of industrialization, which involves the use of petroleum products and dyes in the environment, has prompted research into effective, sustainable, and economically beneficial green technologies. For green remediation primarily based on active microbial metabolites, these microbes are typically from relevant sources. Active microbial metabolite production and genetic systems involved in xenobiotic degradation provide these microbes with the advantage of survival and proliferation in polluted ecological niches. In this study, we evaluated the ability of wheat root-associated L. fusiformis MGMM7 to degrade xenobiotic contaminants such as crude oil, phenol, and azo dyes. We sequenced the whole genome of MGMM7 and provided insights into the genomic structure of related strains isolated from contaminated sources. The results revealed that influenced by its isolation source, L. fusiformis MGMM7 demonstrated remediation and plant growth-promoting abilities in soil polluted with crude oil. Lysinibacillus fusiformis MGMM7 degraded up to 44.55 ± 5.47% crude oil and reduced its toxicity in contaminated soil experiments with garden cress (Lepidium sativum L.). Additionally, L. fusiformis MGMM7 demonstrated a significant ability to degrade Congo Red azo dye (200 mg/L), reducing its concentration by over 60% under both static and shaking cultivation conditions. However, the highest degradation efficiency was observed under shaking conditions. Genomic comparison among L. fusiformis strains revealed almost identical genomic profiles associated with xenobiotic assimilation. Genomic relatedness using Average Nucleotide Identity (ANI) and digital DNA–DNA hybridization (DDH) revealed that MGMM7 is distantly related to TZA38, Cu-15, and HJ.T1. Furthermore, subsystem distribution and pangenome analysis emphasized the distinctive features of MGMM7, including functional genes in its chromosome and plasmid, as well as the presence of unique genes involved in PAH assimilation, such as phnC/T/E, which is involved in phosphonate biodegradation, and nemA, which is involved in benzoate degradation and reductive degradation of N-ethylmaleimide. These findings highlight the potential properties of petroleum-degrading microorganisms isolated from non-contaminated rhizospheres and offer genomic insights into their functional diversity for xenobiotic remediation. Full article

Bioremediation is a promising strategy to remove crude oil contaminants. However, limited studies explored the potential of bacterial consortia on crude oil biodegradation in high salinity soil. In this study, four halotolerant strains (Pseudoxanthomonas sp. S1-2, Bacillus sp. S2-A, Dietzia sp. CN-3, and Acinetobacter sp. HC8-3S), with strong environmental tolerance (temperature, pH, and salinity), distinctive crude oil degradation, and beneficial biosurfactant production, were combined to construct a bacterial consortium. The inoculation of the consortium successfully degraded 97.1% of total petroleum hydrocarbons in 10 days, with notable removal of alkanes, cycloalkanes, branched alkanes, and aromatic hydrocarbons. Functional optimization showed that this consortium degraded crude oil effectively in a broad range of temperature (20–37 °C), pH (6–9), and salinity (0–100 g/L). In salt-enriched crude-oil-contaminated soil microcosms, the simultaneous treatment of bioaugmentation and biostimulation achieved the highest crude oil degradation rate of 568.6 mg/kg/d, compared to treatments involving abiotic factors, natural attenuation, biostimulation, and bioaugmentation after 60 days. Real-time PCR targeting the 16S rRNA and alkB genes showed the good adaptability and stability of this consortium. The degradation property of the constructed bacterial consortium and the engineered consortium strategy may have potential use in the bioremediation of crude oil pollution in high-salinity soil. Full article

The efficient and green remediation of petroleum hydrocarbon (PH) contamination has emerged as a viable strategy for environmental management. Here, we investigated the interaction between arsenic and PH degradation by Rhodococcus sp. 2021 under their combined pollution. The strain exhibited disparate responses to varying concentrations and valences of arsenic. The elevated concentration of arsenic (>100 mg/L) facilitated the degradation of PHs, and there was a positive correlation between arsenic-promoted degradation of PHs and their carbon-chain length. The degradation of PHs changed with arsenic conditions as follows: trivalent arsenic groups > pentavalent arsenic groups > arsenic-free groups (control). Arsenite and arsenate significantly promoted the gene expression of arsenic metabolism and alkane degrading. But unlike arsenite, arsenate also significantly promoted the gene expression of phosphate metabolism. And arsenite promoted the up-regulation of the expression of genes involved in the process of PHs oxidation and fatty acid oxidation. These results highlight the potential of Rhodococcus sp. 2021 in the remediation of combined total petroleum hydrocarbon (TPH) and heavy metal pollution, providing new insights into the green and sustainable bioremediation of combined pollution of organic matters such as PHs and heavy metals/heavy metal-like elements such as arsenic. Full article

Plastic pollution has become a global environmental problem, and the large number of microorganisms attached to plastic debris in the environment has become a hot topic due to their rapid response to pollutants and environmental changes. In this study, we used high-throughput sequencing to investigate the microbial community structure of and explore the metagenome in the biofilm of two types of plastic debris, polystyrene (PS) and polyethylene terephthalate (PET), and compared them with a water sample collected at the sampling site. The phylum Proteobacteria dominated both the PET and PS samples, at 93.43% and 65.95%, respectively. The metagenome data indicated that the biofilm is enriched with a number of hydrocarbon (petroleum, microplastics, etc.) degrading genes. Our results show that the type of plastic determined the bacterial community structure of the biofilm, while the environment had relatively little effect. Full article

The immobilisation of bacteria on biochar has shown potential for enhanced remediation of petroleum hydrocarbon-contaminated soil. However, there is a lack of knowledge regarding the effect of bacterial immobilisation on biosolids-derived biochar for the remediation of diesel-contaminated soil. This current study aimed to assess the impact of the immobilisation of an autochthonous hydrocarbonoclastic bacteria, Ochrobacterium sp. (BIB) on biosolids-derived biochar for the remediation of diesel-contaminated soil. Additionally, the effect of fertiliser application on the efficacy of the BIB treatment was investigated. Biochar (BC) application alone led to significantly higher hydrocarbon removal than the control treatment at all sampling times (4887–11,589 mg/kg higher). When Ochrobacterium sp. was immobilised on biochar (BIB), the hydrocarbon removal was greater than BC by 5533 mg/kg and 1607 mg/kg at weeks 10 and 22, respectively. However, when BIB was co-applied with fertiliser (BIBF), hydrocarbon removal was lower than BIB alone by 6987–11,767 mg/kg. Quantitative PCR (q-PCR) analysis revealed that the gene related to Ochrobacterium sp. was higher in BIB than in the BC treatment, which likely contributed to higher hydrocarbon removal in the BIB treatment. The results of the q-PCR analysis for the presence of alkB genes and FTIR analysis suggest that the degradation of alkane contributed to hydrocarbon removal. The findings of this study demonstrate that bacterial immobilisation on biosolids-derived biochar is a promising technique for the remediation of diesel-contaminated soil. Future studies should focus on optimising the immobilisation process for enhanced hydrocarbon removal. Full article

A massive volume of produced water (PW) generated in the process of oil extraction must be treated effectively due to its threat to the ecosystems and human health. Different biological treatment technologies have been used in wastewater treatment plant (WWTP) systems to treat PW. However, their influence on treatment performance has not been investigated. In this study, three PW treatment plants (PWTPs) with different treatment technologies were compared in the following aspects: microbial community structure and assembly, functional genes, and the spread of antibiotic resistance genes (ARGs). The results indicated that different biological treatment technologies led to the variations in the diversity and composition of the microbial community. Phylogenetic bin-based null model analysis (iCAMP) revealed that different treatment technologies deterministically drove the assembly of microbial communities, especially the genera associated with the removal of petroleum hydrocarbons. The results of the metagenomic analysis showed that the genes related to the degradation of alkanes and aromatic hydrocarbons were the most abundant in PWTP3, suggesting it had the highest petroleum degradation potential. In addition, the highest abundance of ARGs in PWTP1 indicated the potential facilitation of ARG dissemination in activated sludge systems. Network analysis indicated that the dissemination of ARGs in the PWTPs might be mediated by transposases. Full article

Intensive human activity in the Arctic region leads to hydrocarbon pollution of reservoirs and soils. Isolation of bacteria capable of growing at low temperatures and degrading oil and petroleum products is of scientific and practical value. The aim of this work was to study the physiology and growth in oil at temperatures below 0 °C of four strains of bacteria of the genera Pseudomonas, Rhodococcus, Arthrobacter, and Sphingomonas—previously isolated from diesel-contaminated soils of the Franz Josef Land archipelago—as well as genomic analysis of the Sphingomonas sp. AR_OL41 strain. The studied strains grew on hydrocarbons at temperatures from −1.5 °C to 35 °C in the presence of 0–8% NaCl (w/v). Growth at a negative temperature was accompanied by visual changes in the size of cells as well as a narrowing of the spectrum of utilized n-alkanes. The studied strains were psychrotolerant, degraded natural biopolymers (xylan, chitin) and n-alkanes of petroleum, and converted phosphates into a soluble form. The ability to degrade n-alkanes is rare in members of the genus Sphingomonas. To understand how the Sphingomonas sp. AR_OL41 strain has adapted to a cold, diesel-contaminated environment, its genome was sequenced and analyzed. The Illumina HiSeq 2500 platform was used for AR_OL41 genome strain sequencing. The genome analysis of the AR_OL41 strain showed the presence of genes encoding enzymes of n-alkane oxidation, pyruvate metabolism, desaturation of membrane lipids, and the formation of exopolysaccharides, confirming the adaptation of the strain to hydrocarbon pollution and low habitat temperature. Average nucleotide identity and digital DNA–DNA hybridization values for genomes of the AR_OL41 strain with that of the phylogenetically relative Sphingomonas alpine DSM 22537^T strain were 81.9% and 20.9%, respectively, which allows the AR_OL41 strain to be assigned to a new species of the genus Sphingomonas. Phenomenological observations and genomic analysis indicate the possible participation of the studied strains in the self-purification of Arctic soils from hydrocarbons and their potential for biotechnological application in bioremediation of low-temperature environments. Full article