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Bavadi M, Zhu Z, Zhang B. Evaluation of surfactant-aided polycyclic aromatic hydrocarbon biodegradation by molecular docking and molecular dynamic simulation in the marine environment. CHEMOSPHERE 2024; 358:142171. [PMID: 38714247 DOI: 10.1016/j.chemosphere.2024.142171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 03/27/2024] [Accepted: 04/26/2024] [Indexed: 05/09/2024]
Abstract
Marine oil spills directly cause polycyclic aromatic hydrocarbons (PAHs) pollution and affect marine organisms due to their toxic property. Chemical and bio-based dispersants composed of surfactants and solvents are considered effective oil spill-treating agents. Dispersants enhance oil biodegradation in the marine environment by rapidly increasing their solubility in the water column. However, the effect of dispersants, especially surfactants, on PAHs degradation by enzymes produced by microorganisms has not been studied at the molecular level. The role of the cytochrome P450 (CYP) enzyme in converting contaminants into reactive metabolites during the biodegradation process has been evidenced, but the activity in the presence of surfactants is still ambiguous. Thus, this study focused on the evaluation of the impact of chemical and bio-surfactants (i.e., Tween 80 (TWE) and Surfactin (SUC)) on the biodegradation of naphthalene (NAP), chrysene (CHR), and pyrene (PYR), the representative components of PAHs, with CYP enzyme from microalgae Parachlorella kessleri using molecular docking and molecular dynamics (MD) simulation. The molecular docking analysis revealed that PAHs bound to residues at the CYP active site through hydrophobic interactions for biodegradation. The MD simulation showed that the surfactant addition changed the enzyme conformation in the CYP-PAH complexes to provide more interactions between the enzyme and PAHs. This led to an increase in the enzyme's capability to degrade PAHs. Binding free energy (ΔGBind) calculations confirmed that surfactant treatment could enhance PAHs degradation by the enzyme. The SUC gave a better result on NAP and PYR biodegradation based on ΔGBind, while TWE facilitated the biodegradation of CHR. The research outputs could greatly facilitate evaluating the behaviors of oil spill-treating agents and oil spill response operations in the marine environment.
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Affiliation(s)
- Masoumeh Bavadi
- Faculty of Engineering and Applied Science, Memorial University, St. John's, NL, A1B 3X5, Canada
| | - Zhiwen Zhu
- Oceans Science, Fisheries and Oceans Canada, Ottawa, ON, K1A 0E6, Canada
| | - Baiyu Zhang
- Faculty of Engineering and Applied Science, Memorial University, St. John's, NL, A1B 3X5, Canada.
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Charalampous G, Fragkou E, Kalogerakis N, Antoniou E, Gontikaki E. Diversity links to functionality: Unraveling the impact of pressure disruption and culture medium on crude oil-enriched microbial communities from the deep Eastern Mediterranean Sea. MARINE POLLUTION BULLETIN 2024; 202:116275. [PMID: 38564821 DOI: 10.1016/j.marpolbul.2024.116275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 01/19/2024] [Accepted: 03/17/2024] [Indexed: 04/04/2024]
Abstract
Mesopelagic water from the deep Eastern Mediterranean Sea (EMS) was collected under disrupted (REPRESS) or undisturbed (HP) pressure conditions and was acclimated to oil (OIL) or dispersed-oil (DISPOIL) under in situ pressure and temperature (10 MPa, 14 °C). Decompression resulted in oil-acclimatised microbial communities of lower diversity despite the restoration of in situ pressure conditions during the 1-week incubation. Further biodiversity loss was observed when oil-acclimatised communities were transferred to ONR7 medium to facilitate the isolation of oil-degrading bacteria. Microbial diversity loss impacted the degradation of recalcitrant oil compounds, especially PAHs, as low-abundance taxa, linked with PAH degradation, were outcompeted in the enrichment process. Thalassomonas, Pseudoalteromonas, Halomonas and Alcanivorax were enriched in ONR7 under all experimental conditions. No effect of dispersant application on the microbial community structure was identified. A. venustensis was isolated under all tested conditions suggesting a potential key role of this species in hydrocarbons removal in the deep EMS.
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Affiliation(s)
- Georgia Charalampous
- School of Chemical and Environmental Engineering, Technical University of Crete, Chania, Greece; Institute of Geoenergy, Foundation for Research and Technology Hellas, Chania, Greece.
| | - Efsevia Fragkou
- School of Chemical and Environmental Engineering, Technical University of Crete, Chania, Greece; Institute of Geoenergy, Foundation for Research and Technology Hellas, Chania, Greece
| | - Nicolas Kalogerakis
- School of Chemical and Environmental Engineering, Technical University of Crete, Chania, Greece; Institute of Geoenergy, Foundation for Research and Technology Hellas, Chania, Greece
| | - Eleftheria Antoniou
- School of Chemical and Environmental Engineering, Technical University of Crete, Chania, Greece; School of Mineral Resources Engineering, Technical University of Crete, Chania, Greece
| | - Evangelia Gontikaki
- Institute of Geoenergy, Foundation for Research and Technology Hellas, Chania, Greece.
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Lenchi N, Ahmedi WNEH, Llirós M. Simultaneous removal of crude oil and heavy metals by highly adapted bacterial strain Cutibacterium sp. NL2 isolated from Algerian oilfield. Int Microbiol 2024; 27:615-630. [PMID: 37582845 DOI: 10.1007/s10123-023-00419-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 07/24/2023] [Accepted: 08/08/2023] [Indexed: 08/17/2023]
Abstract
Investigating the ability of bacteria to simultaneously enhance hydrocarbon removal and reduce heavy metals' toxicity is necessary to design more effective bioremediation strategies. A bacterium (NL2 strain) isolated from an Algerian oilfield was cultivated on crude oil as sole carbon and energy sources. Molecular analyses of the 16S rRNA gene sequence placed the strain within the Cutibacterium genera. This isolate was able to tolerate up to 60% of crude oil as sole carbon source. Chemical analyses (GC-MS) evidenced that strain NL2 was able to degrade 92.22% of crude oil (at optimal growing conditions: pH 10, 44 °C, 50 g L-1 NaCl, and 20% of crude oil (v/v) as sole carbon source) in only 7 days. NL2 isolate was also able to produce biosurfactants with reduction of surface tension of growing media (29.4 mN m-1). On the other hand, NL2 strain was able to tolerate high lead (Pb) and copper (Cu) concentrations (up to 60 mM). In fact, NL2 cultivated in the presence of 20% of crude oil, and 0.48 mM of Pb was able to reduce Pb concentration by a 41.36%. In turn, when cultivated on high Pb concentration (15 mM), the strain was able to remove 35.19% of it and 86.25% of crude oil, both in a time frame of 7 days. Our findings suggest that Cutibacterium strain NL2 is able to efficiently use and remove a wide range of crude oil substrates in presence of high Pb concentration. Accordingly, NL2 strain is of extreme interest from a biotechnological standpoint.
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Affiliation(s)
- Nesrine Lenchi
- Department of Natural and Life Sciences, Faculty of Sciences, University Algiers 1 BenYoucef Benkhedda, Algiers, Algeria.
- Bioinformatics, Applied Microbiology and Biomolecules Laboratory, Faculty of Sciences, University of M'Hamed Bougara of Boumerdès, Boumerdes, Algeria.
| | - Wissam Nour El Houda Ahmedi
- Department of Natural and Life Sciences, Faculty of Sciences, University Algiers 1 BenYoucef Benkhedda, Algiers, Algeria
| | - Marc Llirós
- Bioinformatics and Bioimaging (BI-SQUARED) Research Group, Faculty of Sciences, Technology and Engineering, Universitat de Vic - Universitat Central de Catalunya, Vic, Catalunya, Spain
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Thacharodi A, Hassan S, Singh T, Mandal R, Chinnadurai J, Khan HA, Hussain MA, Brindhadevi K, Pugazhendhi A. Bioremediation of polycyclic aromatic hydrocarbons: An updated microbiological review. CHEMOSPHERE 2023; 328:138498. [PMID: 36996919 DOI: 10.1016/j.chemosphere.2023.138498] [Citation(s) in RCA: 17] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2023] [Revised: 03/08/2023] [Accepted: 03/21/2023] [Indexed: 06/19/2023]
Abstract
A class of organic priority pollutants known as PAHs is of critical public health and environmental concern due to its carcinogenic properties as well as its genotoxic, mutagenic, and cytotoxic properties. Research to eliminate PAHs from the environment has increased significantly due to awareness about their negative effects on the environment and human health. Various environmental factors, including nutrients, microorganisms present and their abundance, and the nature and chemical properties of the PAH affect the biodegradation of PAHs. A large spectrum of bacteria, fungi, and algae have ability to degrade PAHs with the biodegradation capacity of bacteria and fungi receiving the most attention. A considerable amount of research has been conducted in the last few decades on analyzing microbial communities for their genomic organization, enzymatic and biochemical properties capable of degrading PAH. While it is true that PAH degrading microorganisms offer potential for recovering damaged ecosystems in a cost-efficient way, new advances are needed to make these microbes more robust and successful at eliminating toxic chemicals. By optimizing some factors like adsorption, bioavailability and mass transfer of PAHs, microorganisms in their natural habitat could be greatly improved to biodegrade PAHs. This review aims to comprehensively discuss the latest findings and address the current wealth of knowledge in the microbial bioremediation of PAHs. Additionally, recent breakthroughs in PAH degradation are discussed in order to facilitate a broader understanding of the bioremediation of PAHs in the environment.
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Affiliation(s)
- Aswin Thacharodi
- Department of Biochemistry, University of Otago, Dunedin, 9054, New Zealand
| | - Saqib Hassan
- Division of Non-Communicable Diseases, Indian Council of Medical Research (ICMR), New Delhi, 110029, India; Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, 605014, India
| | - Tripti Singh
- Department of Biotechnology, Jaypee Institute of Information Technology, Noida, Uttar Pradesh, 201309, India
| | - Ramkrishna Mandal
- Department of Chemistry, University of Otago, Dunedin, 9054, New Zealand
| | - Jeganathan Chinnadurai
- Department of Research and Development, Dr. Thacharodi's Laboratories, No. 24, 5th Cross, Thanthaiperiyar Nagar, Ellapillaichavadi, Puducherry, 605005, India
| | - Hilal Ahmad Khan
- Department of Chemistry, Pondicherry University, Puducherry, 605014, India
| | - Mir Ashiq Hussain
- Department of Chemistry, Pondicherry University, Puducherry, 605014, India
| | - Kathirvel Brindhadevi
- Center for Transdisciplinary Research (CFTR), Department of Pharmacology, Saveetha Dental College, Saveetha Institute of Medical and Technical Sciences, Saveetha University, Chennai, India
| | - Arivalagan Pugazhendhi
- School of Engineering, Lebanese American University, Byblos, Lebanon; University Centre for Research & Development, Department of Civil Engineering, Chandigarh University, Mohali,140103, India.
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Gabriel AD, Amparado RF, Lubguban AA, Bacosa HP. Riverine Microplastic Pollution: Insights from Cagayan de Oro River, Philippines. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2023; 20:6132. [PMID: 37372718 DOI: 10.3390/ijerph20126132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Revised: 05/27/2023] [Accepted: 06/12/2023] [Indexed: 06/29/2023]
Abstract
Rivers are vital water sources for humans and homes for aquatic organisms. Conversely, they are well known as the route of plastics into the ocean. Despite being the world's number one emitter of riverine plastics into the ocean, microplastics (MPs), or plastic particles less than 5 mm, in the Philippines' rivers are relatively unexplored. Water samples were collected from six sampling stations along the river channel of the Cagayan de Oro River, one of the largest rivers in Northern Mindanao, Philippines. The extracted microplastics' abundance, distribution, and characteristics were analyzed using a stereomicroscope and Fourier transform infrared spectroscopy (FTIR). The results showed a mean concentration of 300 items/m3 of MPs dominated by blue-colored (59%), fiber (63%), 0.3-0.5 mm (44%), and polyacetylene (48%) particles. The highest concentration of microplastics was recorded near the mouth of the river, and the lowest was in the middle area. The findings indicated a significant difference in MP concentration at the sampling stations. This study is the first assessment of microplastic in a river in Mindanao. The results of this study will aid in formulating mitigation strategies for reducing riverine plastic emissions.
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Affiliation(s)
- Aiza D Gabriel
- Environmental Science Graduate Program, Department of Biological Sciences, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
| | - Ruben F Amparado
- Environmental Science Graduate Program, Department of Biological Sciences, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
- Premier Research Institute of Science and Mathematics, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
| | - Arnold A Lubguban
- Department of Chemical Engineering and Technology, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
- Environmental Pollution and Innovation Laboratory, Center for Sustainable Polymers, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
| | - Hernando P Bacosa
- Environmental Science Graduate Program, Department of Biological Sciences, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
- Environmental Pollution and Innovation Laboratory, Center for Sustainable Polymers, Mindanao State University-Iligan Institute of Technology (MSU-IIT), Tibanga, Iligan City 9200, Philippines
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Vogel AL, Thompson KJ, Kleindienst S, Zarfl C. Dosage concentration and pulsing frequency affect the degradation efficiency in simulated bacterial polycyclic aromatic hydrocarbon-degrading cultures. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:59813-59825. [PMID: 37016250 PMCID: PMC10163121 DOI: 10.1007/s11356-023-26546-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 03/15/2023] [Indexed: 05/08/2023]
Abstract
A major source of anthropogenic polycyclic aromatic hydrocarbon (PAH) inputs into marine environments are diffuse emissions which result in low PAH concentrations in the ocean water, posing a potential threat for the affected ecosystems. However, the remediation of low-dosage PAH contaminations through microbial processes remains largely unknown. Here, we developed a process-based numerical model to simulate batch cultures receiving repeated low-dosage naphthalene pulses compared to the conventionally used one-time high-dosage. Pulsing frequency as well as dosage concentration had a large impact on the degradation efficiency. After 10 days, 99.7%, 97.2%, 86.6%, or 83.5% of the 145 mg L-1 naphthalene was degraded when given as a one-time high-dosage or in 2, 5, or 10 repeated low-concentration dosages equally spaced throughout the experiment, respectively. If the simulation was altered, giving the system that received 10 pulses time to recover to 99.7%, pulsing patterns affected the degradation of naphthalene. When pulsing 10 days at once per day, naphthalene accumulated following each pulse and if the degradation was allowed to continue until the recovered state was reached, the incubation time was prolonged to 17 days with a generation time of 3.81 days. If a full recovery was conditional before the next pulse was added, the scenario elongated to 55 days and generation time increased to 14.15 days. This indicates that dissolution kinetics dominate biodegradation kinetics, and the biomass concentration of PAH-degrading bacteria alone is not a sufficient indicator for quantifying active biodegradation. Applying those findings to the environment, a one-time input of a high dosage is potentially degraded faster than repeated low-dosage PAH pollution and repeated low-dosage input could lead to PAH accumulation in vulnerable pristine environments. Further research on the overlooked field of chronic low-dosage PAH contamination is necessary.
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Affiliation(s)
- Anjela L Vogel
- Department of Geosciences, Eberhard Karls University of Tübingen, Schnarrenbergstr. 94-96, 72076, Tübingen, Germany.
| | - Katharine J Thompson
- Department of Geosciences, Eberhard Karls University of Tübingen, Schnarrenbergstr. 94-96, 72076, Tübingen, Germany
| | - Sara Kleindienst
- Department of Geosciences, Eberhard Karls University of Tübingen, Schnarrenbergstr. 94-96, 72076, Tübingen, Germany
- Department of Environmental Microbiology, Institute for Sanitary Engineering, Water Quality and Solid Waste Management (ISWA), University of Stuttgart, Stuttgart, Germany
| | - Christiane Zarfl
- Department of Geosciences, Eberhard Karls University of Tübingen, Schnarrenbergstr. 94-96, 72076, Tübingen, Germany
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Chen Z, Zhan B, Li S, Wei D, Zhou W, Liu Y. Facile fabrication of corn stover-based aerogel for oil/water separation. Sep Purif Technol 2022. [DOI: 10.1016/j.seppur.2022.121642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Hierarchical Optimization of Oil Spill Response Vessels in Cases of Accidental Pollution of Bays and Coves. JOURNAL OF MARINE SCIENCE AND ENGINEERING 2022. [DOI: 10.3390/jmse10060772] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Ships pollute bays and coves with oils daily. Although the number of major pollution events is decreasing, accidents still occur and are likely to occur in the future. Most often, pollution arises from spills of non-persistent oil in bays, mainly during the summer season. A prompt response is key to oil collection success in semi-enclosed waters. In order to ensure that oil does not reach the mainland and endanger a potentially crucial economic resource of a country, it is vital to collect it in minimal time. Furthermore, it is also essential to send response ships that minimize the cost. In practice, there may be several optimal combinations of response ships to be sent. When the response cost is considered, obtaining all possible optimal solutions (a complete Pareto front) is vital because the shortest collection time does not necessarily mean the lowest costs. For these reasons, two general optimization models are considered. The first model gives the minimum response time to collect oil from the sea’s surface, while the second model gives the minimum response cost of ships participating in the clean-up operation. The supplied pseudo-codes allow for all optimal solutions to be found.
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