Hydrocarbon-degrading Bacteria Research Articles

Identification of Catabolic Genes Involved in the Degradation of Used Engine Lubricant- Contaminated Soil by Lysinibacillus odysseyi and Bacillus sp. (in: firmicutes)

This study aimed to identify selected catabolic genes in two indigenous hydrocarbon-degrading bacteria involved in the biodegradation of used engine lubricant-contaminated soil. Used engine lubricant-contaminated and uncontaminated soil samples were collected, and their physicochemical characteristics were evaluated. The results indicated that water holding capacity, potassium, nitrogen, and phosphate were higher in used lubricant-uncontaminated soil than in used lubricant-contaminated soil but vice versa for pH, total carbon, cation exchange, organic carbon, nickel, and lead levels. Culturable heterotrophic and hydrocarbon-utilizing bacterial counts were carried out on both Nutrient agar and Mineral Salt Medium (MSM) amended with used engine lubricant. The counts for heterotrophic bacteria (3.8×108±0.21 cfu/gm) were higher than that of hydrocarbon-utilizing bacteria (2.2×108±0.15 cfu/gm). All isolated bacteria (16) underwent screening for hydrocarbon degradation potential. Lysinibacillus odysseyi and Bacillus sp (in: firmicutes) emerged as the best oil degraders. Further screening of the chromosomal and plasmid DNA of the two bacteria was done to determine the presence and location of some selected catabolic genes (NidA, AlkB, NahH, NahAC, and Alma). The presence of Alkane monooxygenase (AlkB) and Naphthalene dioxygenase (NahAC) genes was confirmed in both isolates, while Pyrene dioxygenase (NidA) was confirmed in Bacillus sp. (in: firmicutes) only. The location of AlkB was confirmed to be both plasmid and chromosome, while NidA and NahAC genes were confirmed to be the plasmid. In conclusion, the soil contaminated with used engine lubricant contained indigenous bacteria, Lysinibacillus odysseyi, and Bacillus sp. (in: firmicutes), the two bacteria with the highest degradation potential, contained catabolic genes, monooxygenase (AlkB), NidA, and dioxygenase (NahAC). Therefore, they are effectively used as engine lubricant degraders, and the possibility of horizontal gene transfer can be used in important industrial applications and is recommended for the bioremediation of petroleum compounds.

Hydrocarbonoclastic Biofilm-Based Microbial Fuel Cells: Exploiting Biofilms at Water-Oil Interface for Renewable Energy and Wastewater Remediation.

Microbial fuel cells (MFCs) represent a promising technology for sustainable energy generation, which leverages the metabolic activities of microorganisms to convert organic substrates into electrical energy. In oil spill scenarios, hydrocarbonoclastic biofilms naturally form at the water-oil interface, creating a distinct environment for microbial activity. In this work, we engineered a novel MFC that harnesses these biofilms by strategically positioning the positive electrode at this critical junction, integrating the biofilm's natural properties into the MFC design. These biofilms, composed of specialized hydrocarbon-degrading bacteria, are vital in supporting electron transfer, significantly enhancing the system's power generation. Next-generation sequencing and scanning electron microscopy were used to characterize the microbial community, revealing a significant enrichment of hydrocarbonoclastic Gammaproteobacteria within the biofilm. Notably, key genera such as Paenalcaligenes, Providencia, and Pseudomonas were identified as dominant members, each contributing to the degradation of complex hydrocarbons and supporting the electrogenic activity of the MFCs. An electrochemical analysis demonstrated that the MFC achieved a stable power output of 51.5 μW under static conditions, with an internal resistance of about 1.05 kΩ. The system showed remarkable long-term stability, which maintained consistent performance over a 5-day testing period, with an average daily energy storage of approximately 216 mJ. Additionally, the MFC effectively recovered after deep discharge cycles, sustaining power output for up to 7.5 h before requiring a recovery period. Overall, the study indicates that MFCs based on hydrocarbonoclastic biofilms provide a dual-functionality system, combining renewable energy generation with environmental remediation, particularly in wastewater treatment. Despite lower power output compared to other hydrocarbon-degrading MFCs, the results highlight the potential of this technology for autonomous sensor networks and other low-power applications, which required sustainable energy sources. Moreover, the hydrocarbonoclastic biofilm-based MFC presented here offer significant potential as a biosensor for real-time monitoring of hydrocarbons and other contaminants in water. The biofilm's electrogenic properties enable the detection of organic compound degradation, positioning this system as ideal for environmental biosensing applications.

Influence of Environmental Conditions on Bacterial Remediation of Oil-Contaminated Soil: A Case Study at Baiji Refinery

Total Petroleum Hydrocarbons (TPH) are a major environmental pollutant, posing serious risks to soil health and ecosystems. TPH contamination, often resulting from crude oil spills and industrial activities, significantly disrupts soil structure, reduces fertility, and hinders the growth of plants and soil-dwelling organisms. In the environment, TPH compounds persist due to their hydrophobic nature, leading to long-term ecological damage. They can infiltrate groundwater, compromising its purity and presenting health hazards to humans and wildlife. The existence of TPH in soil modifies the population of bacteria, reduces biodiversity, and impedes natural processes such as nutrient cycling. Effective bioremediation techniques, such as microbial degradation, are essential for mitigating the harmful impacts of TPH on soil and the broader environment. This study emphasizes the urgent need for sustainable remediation strategies to restore contaminated soils and protect ecological and human health. This study investigates the influence of environmental circumstances on bacteria employed for the remediation of soil polluted with crude oil, focusing on bacterial strains sourced from the Baiji refinery in Iraq. Microbial rehabilitation is an economical and environmentally sustainable method for decomposing hydrocarbons into simpler molecules, making it an effective method for soil bioremediation. The study monitored biodegradation over seven months, assessing the degradation efficiency of total petroleum hydrocarbons (TPH) using gas chromatography-mass spectrometry (GC-MS). Environmental factors, including temperature, moisture levels, and nutrient availability, were closely monitored to assess their impact on bacterial activity. Ideal moisture range for bacterial growth and hydrocarbon degradation is often cited as 40% to 60% of the soil's WHC. Too much water can reduce oxygen availability in the soil, inhibiting aerobic bacterial growth, while too little water can limit microbial metabolism. Temperature affects bacterial metabolism and the rate of hydrocarbon degradation. Most hydrocarbon-degrading bacteria thrive in mesophilic conditions. The ideal temperature range for TPH degradation by bacteria is generally between 25°C and 35°C. At temperatures below 15°C, microbial activity and degradation rates slow significantly, while temperatures above 40°C can inhibit bacterial growth or even kill the microbes. The results revealed that the moisture: 40%–60% of soil's water-holding capacity and temperature 25°C–35°C maintaining these conditions promotes the optimal breakdown of hydrocarbons in bioremediation efforts. The results revealed significant degradation of crude oil, with a reduction of 40 initial compounds in untreated samples to 25-35 compounds in treated samples. The biodegradation rates increased steadily over time, with a removal efficiency reaching 72.38% by the end of the experiment. Additionally, the study demonstrated that environmental conditions, particularly temperature and moisture, play a pivotal role in optimizing bacterial degradation activity. These findings underscore the potential of bacteria in bioremediation efforts and the necessity of optimal environmental conditions, such as controlled temperature, moisture content, and nutrient levels, are essential for maximizing the efficiency of crude oil degradation in contaminated soils.

Novel oil-associated bacteria in Arctic seawater exposed to different nutrient biostimulation regimes.

The Arctic Ocean is an oligotrophic ecosystem facing escalating threats of oil spills as ship traffic increases owing to climate change-induced sea ice retreat. Biostimulation is an oil spill mitigation strategy that involves introducing bioavailable nutrients to enhance crude oil biodegradation by endemic oil-degrading microbes. For bioremediation to offer a viable response for future oil spill mitigation in extreme Arctic conditions, a better understanding of the effects of nutrient addition on Arctic marine microorganisms is needed. Controlled experiments tracking microbial populations revealed a significant decline in community diversity along with changes in microbial community composition. Notably, differential abundance analysis highlighted the significant enrichment of the unexpected genera Lacinutrix, Halarcobacter and Candidatus Pseudothioglobus. These groups are not normally associated with hydrocarbon biodegradation, despite closer inspection of genomes from closely related isolates confirming the potential for hydrocarbon metabolism. Co-occurrence analysis further revealed significant associations between these genera and well-known hydrocarbon-degrading bacteria, suggesting potential synergistic interactions during oil biodegradation. While these findings broaden our understanding of how biostimulation promotes enrichment of endemic hydrocarbon-degrading genera, further research is needed to fully assess the suitability of nutrient addition as a stand-alone oil spill mitigation strategy in this sensitive and remote polar marine ecosystem.

Novel, active, and uncultured hydrocarbon-degrading microbes in the ocean.

Given the vast quantity of oil and gas input to the marine environment annually, hydrocarbon degradation by marine microorganisms is an essential ecosystem service. Linkages between taxonomy and hydrocarbon degradation capabilities are largely based on cultivation studies, leaving a knowledge gap regarding the intrinsic ability of uncultured marine microbes to degrade hydrocarbons. To address this knowledge gap, metagenomic sequence data from the Deepwater Horizon (DWH) oil spill deep-sea plume was assembled to which metagenomic and metatranscriptomic reads were mapped. Assembly and binning produced new DWH metagenome-assembled genomes that were evaluated along with their close relatives, all of which are from the marine environment (38 total). These analyses revealed globally distributed hydrocarbon-degrading microbes with clade-specific substrate degradation potentials that have not been reported previously. For example, methane oxidation capabilities were identified in all Cycloclasticus. Furthermore, all Bermanella encoded and expressed genes for non-gaseous n-alkane degradation; however, DWH Bermanella encoded alkane hydroxylase, not alkane 1-monooxygenase. All but one previously unrecognized DWH plume member in the SAR324 and UBA11654 have the capacity for aromatic hydrocarbon degradation. In contrast, Colwellia were diverse in the hydrocarbon substrates they could degrade. All clades encoded nutrient acquisition strategies and response to cold temperatures, while sensory and acquisition capabilities were clade specific. These novel insights regarding hydrocarbon degradation by uncultured planktonic microbes provides missing data, allowing for better prediction of the fate of oil and gas when hydrocarbons are input to the ocean, leading to a greater understanding of the ecological consequences to the marine environment.IMPORTANCEMicrobial degradation of hydrocarbons is a critically important process promoting ecosystem health, yet much of what is known about this process is based on physiological experiments with a few hydrocarbon substrates and cultured microbes. Thus, the ability to degrade the diversity of hydrocarbons that comprise oil and gas by microbes in the environment, particularly in the ocean, is not well characterized. Therefore, this study aimed to utilize non-cultivation-based 'omics data to explore novel genomes of uncultured marine microbes involved in degradation of oil and gas. Analyses of newly assembled metagenomic data and previously existing genomes from other marine data sets, with metagenomic and metatranscriptomic read recruitment, revealed globally distributed hydrocarbon-degrading marine microbes with clade-specific substrate degradation potentials that have not been previously reported. This new understanding of oil and gas degradation by uncultured marine microbes suggested that the global ocean harbors a diversity of hydrocarbon-degrading bacteria, which can act as primary agents regulating ecosystem health.

Screening oil tank bottom sludge microbial community for identification of native efficient hydrocarbon-degrading bacteria for bioremediation purposes

Screening oil tank bottom sludge microbial community for identification of native efficient hydrocarbon-degrading bacteria for bioremediation purposes

Heterotrophic activity and hydrocarbon degradation in crude oil-contaminated coastal soil augmented with indigenous biosurfactant producing Pseudomonas sp.

The enhanced bioremediation of the petroleum-contaminated soil from the Ibeno coastal area was investigated using standard microbiological and biotechnological methods. Soil samples were simulated with 200ml, 400ml, and 800ml of Bonny Light crude oil representing 5%, 10%, and 20 % contamination levels respectively, and allowed to mimic natural crude oil degradation for 48 hours. The contaminated soil was bioaugmented with 15 ml of 24-hour culture of potent biosurfactant-producing bacteria – Pseudomonas aeruginosa with a viable cell count of 2.6 x 103 CFU/ml and monitored for 12 weeks. Analysis of the fate of the hydrocarbon contamination in soil augmented with the biosurfactant-producing pseudomonad revealed that the degradation of total petroleum hydrocarbon (TPH) and polycyclic aromatic hydrocarbons (PAHs) was faster in augmented soils. At the end of the degradation, the augmentation process induced a reduction in the TPH content and PAH levels of soil exposed to 20% contamination from 32.85 mg/kg to 15.14 mg/kg and from 16.34 mg/kg to 5.35 mg/kg respectively. These represent 45.9% and 32.7% remediation rates of TPH and PAH, respectively. The findings of this study also indicate that bioaugmentation of crude oil-contaminated soil with a culture of P. aeruginosa, does not only influence the density of heterotrophic and hydrocarbon-degrading bacteria in the soil but increases the natural attenuation potentials of the contaminated soil.

Cascading sulfur cycling in simulated oil sands pit lake water cap mesocosms transitioning from oxic to euxinic conditions

Base Mine Lake (BML), the first full-scale demonstration of oil sands tailings pit lake reclamation technology, is experiencing expansive, episodic hypolimnetic euxinia resulting in greater sulfur biogeochemical cycling within the water cap. Here, Fluid Fine Tailings (FFT)-water mesocosm experiments simulating the in situ BML summer hypolimnetic oxic-euxinic transition determined sulfur biogeochemical processes and their controlling factors. While mesocosm water caps without FFT amendments experienced limited geochemical and microbial changes during the experimental period, FFT-amended mesocosm water caps evidenced three successive stages of S speciation in ∼30 days: (S1) rising expansion of water cap euxinia from FFT to water surface; enabling (S2) rapid sulfate (SO42−) reduction and sulfide production directly within the water column; fostering (S3) generation and subsequent consumption of sulfur oxidation intermediate compounds (SOI). Identified key SOI, elemental S and thiosulfate, support subsequent SOI oxidation, reduction, and/or disproportionation processes in the system. Dominant water cap microbes shifted from methanotrophs and denitrifying/iron-reducing bacteria to functionally versatile sulfur-reducing bacteria (SRB) comprising sulfate-reducing bacteria (Desulfovibrionales) and SOI-reducing/disproportionating bacteria (Campylobacterales and Desulfobulbales). The observed microbial shift is driven by decreasing [SO42−] and organic aromaticity, with putative hydrocarbon-degrading bacteria providing electron donors for SRB. Comparison between unsterile and sterile water treatments further underscores the biogeochemical readiness of the in situ water cap to enhance oxidant depletion, euxinia expansion and establishment of water cap SRB communities aided by FFT migration of anaerobes. Results here identify the collective influence of FFT and water cap microbial communities on water cap euxinia expansion associated with sequential S reactions that are controlled by concentrations of oxidants, labile organic substrates and S species. This emphasizes the necessity of understanding this complex S cycling in assessing BML water cap O2 persistence.

Biodegradation of oily waste sludge using vermiremediation and composting process bioaugmentated with isolated hydrocarbon-degrading bacteria: Performance and ecotoxicity assessment

Degradation of petroleum hydrocarbons (PHs) contents of oily waste sludge (OWS) is necessary in order to prevent the related environmental pollution. The present study aimed to investigate the degradation of total petroleum hydrocarbons (TPHs) from OWS using bioaugmentated composting (BC) with hydrocarbon-degrading bacterial consortium (HDBC) as pre-treatment followed by vermicomposting (VC) by Eisenia fetida. After isolating two indigenous bacterial strains from OWS, the ability of their consortium in degradation of crude oil was tested in Bushnell-Haas medium (BHM). Then, biodegradation of OWS was measured in the VC alone, BC alone, simultaneous BC and VC (BCVC), and BC followed by VC (BCFVC) containing high levels (30 g/kg) of TPHs. Toxicity tests including the mortality of mature earthworms and the numbers of juveniles were conducted at the TPHs of 0–40 g/kg. The obtained results indicated that the HDBC removed 18–64 % of TPHs of crude oil (1–5 %) in BHM after 7 days of incubation. After a period of 12 weeks, the removal rates of TPHs in the VC, BC, BCVC, and BCFVC experiments were 23.7, 79.5, 85.2, and 91.8 %, respectively, verifying the efficacy of simultaneous application of HDBC and worms in bioremediation of OWS. The TPHs contents of OWS exhibited toxic effects on E. fetida at some concentrations and the median lethal concentration (LC50) of TPHs was computed to be 14.5 g/kg after 28 days. This study demonstrated the effectiveness of composting bioaugmentated with HDBC as a pre-treatment step followed by vermicomposting in bioremediation of OWS.

Mechanism of A. oleivorans S4 treating soluble phosphorus deficiency and hydrocarbon contamination simultaneously

Both soluble phosphorus (P) deficiency and petroleum hydrocarbon contamination represent challenges in soil environments. While phosphate-solubilizing bacteria and hydrocarbon-degrading bacteria have been identified and employed in environmental bioremediation, the bacteria co-adapted to soluble P deficiency and hydrocarbon contamination has rarely been reported. This study explored the ability of Acinetobacter oleivorans S4 (A. oleivorans S4) to solubilize phosphate using n-hexadecane (H), glucose (G), and a mixed carbon source (HG) in tricalcium phosphate (TCP) medium. A. oleivorans S4 exhibited robust growth in H-TCP, releasing 31 mg L−1 of soluble P. Conversely, A. oleivorans S4 barely grew in G-TCP, releasing 654 mg L−1 of soluble P. In HG-TCP, biomass surpassed that in H-TCP, with phosphate release comparable to that in G-TCP. HPLC analysis revealed a small amount of TCA cycle acids in H-TCP and a large amount of gluconate in G-TCP and HG-TCP. Transcriptomic analysis showed elevated expression of genes associated with alkane degradation, P starvation, N utilization, and trehalose synthesis in H-TCP, revealing the molecular co-adaptation mechanism of A. oleivorans S4. Furthermore, the addition of glucose enhanced alkane degradation, P and N utilization, and reduced trehalose synthesis. It indicated that incomplete glucose metabolism may provide energy for other reactions, and the increase in soluble P mediated by gluconate may alleviate oxidative stress. Overall, A. oleivorans S4 proves promising for remediating soluble P-deficient and hydrocarbon-contaminated environments, and glucose stimulates its transformation into a super phosphate-solubilizing bacterium.

Response Characteristics of the Community Structure and Metabolic Genes of Oil-Recovery Bacteria after Targeted Activation of Petroleum Hydrocarbon-Degrading Bacteria in Low-Permeability Oil Reservoirs.

The microbial enhanced oil recovery (MEOR) process has been identified as a promising alternative to conventional enhanced oil recovery methods because it is eco-friendly and economically advantageous. However, the knowledge about the composition and diversity of microbial communities in artificially regulated reservoirs, especially after activating petroleum hydrocarbon-degrading bacteria (PHDB) by injecting exogenous nutrients, is still insufficient. This study utilized a combination of high-throughput sequencing and metagenomics technology to reveal the structural evolution characteristics of the indigenous microbial community in the reservoir during the PHDB activated for enhanced oil recovery, as well as the response relationship between the expression of its oil production functional genes and crude oil biodegradation. Results showed that Pseudomonas (>75%) gradually evolves into a stable dominant microbial community in the reservoir during the activation of PHDB. Besides, the gene expression and KEGG pathways after crude oil undergoes biodegradation by PHDB show that the number of genes related to petroleum hydrocarbon metabolism dominates the metabolism (21.98%). Meanwhile, a preliminary schematic diagram was drawn to illustrate the evolution mechanism of the EOR metabolic pathway after the targeted activation of PHDB. Additionally, it was found that the abundance of hydrocarbon-degrading enzymes increased significantly, and the activity of alcohol dehydrogenase was higher than that of aldehyde dehydrogenase and monooxygenase after PHDB activation. These research results not only filled in and expanded the theoretical knowledge of MEOR based on artificial interference or regulation of reservoir oil-recovery functional microbial community structure but also provided guidance for the future application of MEOR technology in oil field operations.

Bioremediation of crude oil polluted surface water using specialised alginate-based nanocomposite beads loaded with hydrocarbon-degrading bacteria and inorganic nutrients

This study explored the elimination of petroleum from river water using matrix-bound composites of iron oxide nanoparticles (IONPs) decorated on biochar with immobilized hydrocarbon-degrading bacteria (HCB) and monoammonium phosphate (MAP) at 10%v/v pollution levels. The beads containing biochar and IONPs (BCNP) showed better pollutant removal than those with biochar alone (BC). The treatment with beads containing biochar, IONPs, HCB and MAP had the highest removal efficiency for TPH (98.5%) and PAH (93.7%) and the lowest biodegradation half-lives. The removal efficiency for TPH and PAH was greater in the treatment microcosms than in the controls with significant differences (p ≤ 0.05) between the two groups. TPH and PAH elimination levels differed significantly (p ≤ 0.05) between systems with the BC bead and those with the BCNP beads. The study revealed a steady increase in the abundance of the total cultivable heterotrophic bacteria and cultivable hydrocarbon utilizing bacteria in the treatment microcosms after an initial decline, with strong negative correlation between bacterial abundance and TPH and PAH concentrations based on r values (0.5 − 1.0) and shared variances obtained. Bacillus, Pseudomonas and Klebsiella pneumoniae dominated as the drivers of the bioremediation process while organic acids and esters (25.0%) and ketones (14.3%) were the main biodegradation metabolite groups.

Catabolic gene indices of hydrocarbon diminution in Ultisol treated with cropped Bacillus altitudinis-amendments

This study evaluated catabolic gene expression as an index of hydrocarbon breakdown in ultisol treated with Bacillus altitudinis-Cropped Biofertilizers derived from Biosolid and Brewer Spent Grain (BSG) using phenotypic and molecular methods. We observed significant reductions in Total Petroleum Hydrocarbons (TPH) concentrations with both amendments, albeit the biosolid based amendment was markedly more effective. Concurrently, there was a substantial increase in hydrocarbon-degrading bacteria. Notably, the bulk of Operational Taxonomic Units (OTUs) in biosolid (95.77 %) and BSG (93.00 %) amended Ultisol were Proteobacteria, Acidobacteria, Actinobacteria, and Planctomycetes, which are key players in hydrocarbon bioremediation. We observed the presence of eleven hydrocarbon-degrading genes through M5nr analysis. These genes encompass essential catalysts for aliphatic hydrocarbon degradation and hydrocarbon desulfurization. Notably, these enzymes/genes include Bacterial Flavin-bound Monooxygenase (AlmA), Alkane Monooxygenase (AlkM), Alpha Ketoglutarate Dependent Dioxygenase (alkB), Propane Monooxygenase (PrM), Cytochrome P450 (cP450), Methane Monooxygenase/Ammonia Monooxygenase (MMO/AMO) subunits A, B, and C, Alkane Sulfonate Monooxygenase (ssuD), Alkane Sulfonates Transport System Permease Protein (ssuC), Dibenzothiophene Monooxygenase (dszC), Dibenzothiophene-Sulfone Monooxygenase (dszA), and Dibenzothiophene-5,5-Dioxide Monooxygenase (dszB). These genes play pivotal roles in the degradation of aliphatic hydrocarbons and hydrocarbon desulfurization. Interestingly, unique gene expression patterns were observed for each amendment, with Actinomycetales and Bulkhoderiales orders expressing the majority of identified genes. These findings have revealed the amendment-specific microbial and genetic alterations and, the diversity and potential of the annotated genes induced by the Bacillus altitudinis-Cropped Biofertilizers (biosolid and BSG amendments) for effective remediation of hydrocarbon-contaminated soils.

Genetically modified indigenous Pseudomonas aeruginosa drove bacterial community to change positively toward microbial enhanced oil recovery applications.

Microbial enhanced oil recovery (MEOR) is cost-effective and eco-friendly for oil exploitation. Genetically modified biosurfactants-producing high-yield strains are promising for ex-situ MEOR. However, can they survive and produce biosurfactants in petroleum reservoirs for in-situ MEOR? What is their effect on the native bacterial community? A genetically modified indigenous biosurfactants-producing strain Pseudomonas aeruginosa PrhlAB was bioaugmented in simulated reservoir environments. Pseudomonas aeruginosa PrhlAB could stably colonize in simulated reservoirs. Biosurfactants (200mg l-1) were produced in simulated reservoirs after bio-augmenting strain PrhlAB. The surface tension of fluid was reduced to 32.1 mN m-1. Crude oil was emulsified with an emulsification index of 60.1%. Bio-augmenting strain PrhlAB stimulated the MEOR-related microbial activities. Hydrocarbon-degrading bacteria and biosurfactants-producing bacteria were activated, while the hydrogen sulfide-producing bacteria were inhibited. Bio-augmenting P. aeruginosa PrhlAB reduced the diversity of bacterial community, and gradually simplified the species composition. Bacteria with oil displacement potential became dominant genera, such as Shewanella, Pseudomonas, and Arcobacter. Culture-based and sequence-based analyses reveal that genetically modified biosurfactants-producing strain P. aeruginosa PrhlAB are promising for in-situ MEOR as well.

Kajian Penggunaan Bakteri Bacillus subtilis dalam Penanganan Tumpahan Minyak Mentah

The global demand for energy is driving increased exploration, production and processing of crude oil, increasing the risk of oil spills during these processes and contaminating marine habitats and biota. As hazardous and toxic substances, oil spills require effective and comprehensive management. Bioremediation uses the metabolism of microbes to break down hydrocarbons and convert contaminants into harmless compounds. One species of hydrocarbon-degrading bacteria suitable for bioremediation is Bacillus subtilis. Its adaptability to changes in temperature, salinity, and oxygen levels, as well as its resistance to environmental stress, make it an ideal choice for bioremediation as a sustainable and efficient solution to oil pollution in marine ecosystems. This study aims to explore the potential use of Bacillus subtilis as an alternative for managing crude oil spills, particularly in Indonesian waters.

Structure and composition of microbial communities in the water column from Southern Gulf of Mexico and detection of putative hydrocarbon-degrading microorganisms.

This study assessed the bacterioplankton community and its relationship with environmental variables, including total petroleum hydrocarbon (TPH) concentration, in the Yucatan shelf area of the Southern Gulf of Mexico. Beta diversity analyses based on 16S rRNA sequences indicated variations in the bacterioplankton community structure among sampling sites. PERMANOVA indicated that these variations could be mainly related to changes in depth (5 to 180 m), dissolved oxygen concentration (2.06 to 5.93 mg L-1), and chlorophyll-a concentration (0.184 to 7.65 mg m3). Moreover, SIMPER and one-way ANOVA analyses showed that the shifts in the relative abundances of Synechococcus and Prochlorococcus were related to changes in microbial community composition and chlorophyll-a values. Despite the low TPH content measured in the studied sites (0.01 to 0.86 μL L-1), putative hydrocarbon-degrading bacteria such as Alteromonas, Acinetobacter, Balneola, Erythrobacter, Oleibacter, Roseibacillus, and the MWH-UniP1 aquatic group were detected. The relatively high copy number of the alkB gene detected in the water column by qPCR and the enrichment of hydrocarbon-degrading bacteria obtained during lab crude oil tests exhibited the potential of bacterioplankton communities from the Yucatan shelf to respond to potential hydrocarbon impacts in this important area of the Gulf Mexico.

Naphthalene-Degrading Bacteria with Potential for Remediating Marine Environments

Brazil is one of the largest oil producers in the world, and petroleum exploration is predominant in marine environments, mainly in the city of Rio de Janeiro. These environments become vulnerable to oil spills, which can be remedied by petroleum hydrocarbon-degrading bacteria. To better understand the distribution of polycyclic aromatic hydrocarbon (PAH)-degrading bacteria in these marine environments, water samples were collected from eight beaches (Arpoador, Grumari, Vermelha, Sahy, Itacuruçá, Itaipuaçu, Ferradura, and Itaipu) along the Rio de Janeiro coastline and further contaminated with 0.1% naphthalene, used as a PAH model. Naphthalene-enriched bacteria were isolated in marine agar, identified using 16S rRNA sequencing, and tested for emulsification and naphthalene degradation. Thirty-five different genera were observed among the 231 isolates, most belonging to Proteobacteria. Some genera were found in at least half of the studied beaches, such as Mesoflavibacter, Muricauda, Alteromonas, Salipiger, Pseudooceanicola, and Celeribacter, while others were found in only a few water samples. Seventeen and 18 strains were considered to be positive for naphthalene degradation and emulsification, respectively, making them the most promising strains for naphthalene bioremediation. Five of these strains were positive for both degradation and emulsification. This study contributes to the selection of potential candidates for further studies on the remediation of PAHs in tropical marine environments worldwide.

Exploring changes in microplastic-associated bacterial communities with time, location, and polymer type in Liusha Bay, China

Microplastics have become a widespread concern within marine environments and are particularly evident in aquaculture regions that are characterized by plastic accumulation. This study employed 16 S rDNA sequencing to investigate the dynamic succession of microbial communities colonizing polyvinyl chloride (PVC), polystyrene (PS), and polyamide (PA) microplastics in seawater, when subjected to varying exposure durations in the Liusha Bay aquaculture region. Results revealed that the composition of microplastics microbial communities varied remarkably across geographical locations and exposure times. With an increase in exposure duration, both the diversity and richness of bacterial communities colonizing microplastics significantly increased, microbial communities show adaptations to the plastisphere. The type of microplastics had a significant effect on the community structure characteristicsof bacteria attached to their surfaces, with inconsistent trends in the relative abundance of different genera on different substrates. Notably, microplastic surfaces harbored a significant abundance of hydrocarbon-degrading bacteria, exemplified by Erythrobacter. These findings underscore the potential of microplastics as unique microbial niches. Meanwhile, long-term exposure experiments also offer the possibility of screening for plastic-degrading bacteria. In addition, the presence of the pathogenic bacterium Vibrio was detected in all microplastic samples, implying that microplastics could serve as carriers for pathogenic dissemination. This underscores the urgency of addressing the risk posed by the proliferation of harmful bacteria on microplastic surfaces. Overall, this study enhances our understanding of microbial community dynamics on microplastics under diverse conditions. It contributes to the broader comprehension of plastisphere microbial ecosystems in the marine environment, thereby addressing critical environmental implications.

Broad-spectrum hydrocarbon-degrading microbes in the global ocean metagenomes

Understanding the diversity and functions of hydrocarbon-degrading microorganisms in marine environments is crucial for both advancing knowledge of biogeochemical processes and improving bioremediation methods. In this study, we leveraged nearly 20,000 metagenome-assembled genomes (MAGs), recovered from a wide array of marine samples across the global oceans, to map the diversity of aerobic hydrocarbon-degrading microorganisms. A broad bacterial diversity was uncovered, with a notable preference for degrading aliphatic hydrocarbons over aromatic ones, primarily within Proteobacteria and Actinobacteriota. Three types of broad-spectrum hydrocarbon-degrading bacteria were identified for their ability to degrade various hydrocarbons and possession of multiple copies of hydrocarbon biodegradation genes. These bacteria demonstrate extensive metabolic versatility, aiding their survival and adaptability in diverse environmental conditions. Evidence of gene duplication and horizontal gene transfer in these microbes suggested a potential enhancement in the diversity of hydrocarbon-degrading bacteria. Positive correlations were observed between the abundances of hydrocarbon-degrading genes and environmental parameters such as temperature (−5 to 35 °C) and salinity (20 to 42 PSU). Overall, our findings offer valuable insights into marine hydrocarbon-degrading microorganisms and suggest considerations for selecting microbial strains for oil pollution remediation.

Inoculum of Pseudomonas sp. D_192 significantly alters the prokaryotic community in simulated liquid paraffin-contaminated seawater environment

The investigation involved the utilization of coastal water microcosms that simulated hydrocarbon pollution with liquid paraffin over a duration of 56 days. An inoculum of Pseudomonas sp. D_192 (P_D192), possessing oil degradability, was introduced into the microcosms to examine the impact of externally fortified bacteria within the background medium on the prokaryotic community during the treatment of hydrocarbon pollution in seawater. Significant disparities in alpha/beta diversity and prokaryotic community composition were observed between microcosms with and without the addition of P_D192 inoculum. The introduction of the P_D192 inoculum was found to expedite the degradation of hydrocarbon pollutants by enhancing the relative abundance of petroleum hydrocarbon-degrading bacteria (especially Alcanivorax sp.) and fortifying metabolic functions associated with xenobiotics biodegradation and hydrocarbon degradation metabolism. Furthermore, the co-occurrence network of the microcosm with P_D192 inoculum exhibited a higher number of positive correlations, indicating an augmentation of facilitative interactions under the influence of Pseudomonas sp. D_192 inoculum.