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Wu Y, Zhu M, Ouyang X, Qi X, Guo Z, Yuan Y, Dang Z, Yin H. Integrated transcriptomics and metabolomics analyses reveal the aerobic biodegradation and molecular mechanisms of 2,3',4,4',5-pentachlorodiphenyl (PCB 118) in Methylorubrum sp. ZY-1. CHEMOSPHERE 2024; 356:141921. [PMID: 38588902 DOI: 10.1016/j.chemosphere.2024.141921] [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: 01/26/2024] [Revised: 03/18/2024] [Accepted: 04/04/2024] [Indexed: 04/10/2024]
Abstract
2,3',4,4',5-pentachlorodiphenyl (PCB 118), a highly representative PCB congener, has been frequently detected in various environments, garnering much attention across the scientific community. The degradation of highly chlorinated PCBs by aerobic microorganisms is challenging due to their hydrophobicity and persistence. Herein, the biodegradation and adaptation mechanisms of Methylorubrum sp. ZY-1 to PCB 118 were comprehensively investigated using an integrative approach that combined degradation performance, product identification, metabolomic and transcriptomic analyses. The results indicated that the highest degradation efficiency of 0.5 mg L-1 PCB 118 reached 75.66% after seven days of inoculation when the bacteria dosage was 1.0 g L-1 at pH 7.0. A total of eleven products were identified during the degradation process, including low chlorinated PCBs, hydroxylated PCBs, and ring-opening products, suggesting that strain ZY-1 degraded PCB 118 through dechlorination, hydroxylation, and ring-opening pathways. Metabolomic analysis demonstrated that the energy supply and redox metabolism of strain ZY-1 was disturbed with exposure to PCB 118. To counteract this environmental stress, strain ZY-1 adjusted both the fatty acid synthesis and purine metabolism. The analysis of transcriptomics disclosed that multiple intracellular and extracellular oxidoreductases (e.g., monooxygenase, alpha/beta hydrolase and cytochrome P450) participated in the degradation of PCB 118. Besides, active efflux of PCB 118 and its degradation intermediates mediated by multiple transporters (e.g., MFS transporter and ABC transporter ATP-binding protein) might enhance bacterial resistance against these substances. These discoveries provided the inaugural insights into the biotransformation of strain ZY-1 to PCB 118 stress, illustrating its potential in the remediation of contaminated environments.
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Affiliation(s)
- Yuxuan Wu
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Minghan Zhu
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Xiaofang Ouyang
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Xin Qi
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Zhanyu Guo
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Yibo Yuan
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China
| | - Zhi Dang
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China; Key Laboratory of Ministry of Education on Pollution Control and Ecosystem Restoration in Industry Clusters, Guangzhou, 510006, China; Guangdong Provincial Key Laboratory of Solid Wastes Pollution Control and Recycling, Guangzhou, 510006, China
| | - Hua Yin
- School of Environment and Energy, South China University of Technology, Guangzhou, 510006, China; Key Laboratory of Ministry of Education on Pollution Control and Ecosystem Restoration in Industry Clusters, Guangzhou, 510006, China; Guangdong Provincial Key Laboratory of Solid Wastes Pollution Control and Recycling, Guangzhou, 510006, China.
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Sorrentino I, Carrière M, Jamet H, Stanzione I, Piscitelli A, Giardina P, Le Goff A. The laccase mediator system at carbon nanotubes for anthracene oxidation and femtomolar electrochemical biosensing. Analyst 2022; 147:897-904. [PMID: 35142302 DOI: 10.1039/d1an02091a] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
We investigated the use of POXA1b laccase from Pleurotus ostreatus for the oxidation of anthracene into anthraquinone. We show that different pathways can occur depending on the nature of the redox mediator combined to laccase, leading to different structural isomers. The laccase combined with 2,2'-azine-bis(3-ethylbenzothiazoline-6-sulfonic acid (ABTS) leads to the formation of 1,4-anthraquinone and/or 1,2-anthraquinone. The unprecedented role of carbon nanotubes (CNTs) as redox mediators for oxidation of anthracene into 9,10-anthraquinone is shown and corroborated by density-functional theory (DFT) calculations. Owing to the efficient adsorption of anthraquinones at CNT electrodes, anthracene can be detected with low limit-of-detection using either laccase in solution, CNT-supported laccase or laccase immobilized at magnetic beads exploiting the adhesive property of a chimeric hydrophobin-laccase.
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Affiliation(s)
| | - Marie Carrière
- Univ. Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France.
| | - Hélène Jamet
- Univ. Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France.
| | - Ilaria Stanzione
- Department of Chemical Sciences, University of Naples Federico II, 80126 Naples, Italy.
| | - Alessandra Piscitelli
- Department of Chemical Sciences, University of Naples Federico II, 80126 Naples, Italy.
| | - Paola Giardina
- Department of Chemical Sciences, University of Naples Federico II, 80126 Naples, Italy.
| | - Alan Le Goff
- Univ. Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France.
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Magdy MM, Gaber Y, Sebak M, Azmy AF, AbdelGhani S. Different metabolic pathways involved in anthracene biodegradation by Brevibacillus, Pseudomonas and Methylocystis Species. BENI-SUEF UNIVERSITY JOURNAL OF BASIC AND APPLIED SCIENCES 2022. [DOI: 10.1186/s43088-021-00178-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Abstract
Abstract
Background
Polycyclic aromatic hydrocarbons (PAHs) such as anthracene are one of the most toxic contaminants to our environment. Microbial biodegradation of these xenobiotics is a cost-effective technological solution. The present study aimed to recover some bacterial isolates from Beni-Suef Governorate in Egypt with high capabilities of anthracene biodegradation. The selected isolates were molecularly characterized by 16S rRNA gene sequencing, the degree of anthracene biodegradation was monitored using optical density (OD) and high-performance liquid chromatography (HPLC), PCR amplification of some selected genes encoding biodegradation of PAHs was monitored, and gas chromatography–mass spectrometry (GC–MS) analysis was applied for detecting the resulted metabolites.
Result
Three bacterial isolates were studied, the 16s rRNA sequences of the isolates showed homology of the first isolate to Brevibacillus sp. (94.58 %), the second isolates showed homology to Pseudomonas sp. (94.53%) and the third isolate showed homology to Methylocystis sp. (99.61 %), all isolates showed the ability to degrade anthracene. PCR amplification of some selected genes encoding biodegradation of PAHs revealed the presence of many biodegrading genes in the selected strains. Gas chromatography-mass spectrometry (GC–MS) analysis of the metabolites resulted from anthracene biodegradation in the present study suggested that more than one biodegradation pathway was followed by the selected isolates.
Conclusions
The selected strains could represent a potential bioremediation tool in solving the PAHs problem in the Egyptian environment with a clean and cost-effective technique.
Graphical Abstract
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Wang J, Yin R, Zhang X, Wang N, Xiao P, Hirai H, Xiao T. Transcriptomic analysis reveals ligninolytic enzymes of white-rot fungus Phanerochaete sordida YK-624 participating in bisphenol F biodegradation under ligninolytic conditions. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:62390-62397. [PMID: 34195946 DOI: 10.1007/s11356-021-15012-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Accepted: 06/16/2021] [Indexed: 06/13/2023]
Abstract
Bisphenol F (BPF) is widely used in the plastic manufacturing industry as a replacement for bisphenol A (BPA) because BPF and BPA have similar structures and comparable properties. However, BPF is ubiquitously present in the environment and has higher toxicity to humans. This study is the first to report BPF degradation using the white-rot fungus Phanerochaete sordida YK-624 under ligninolytic conditions (pH=4.5, 30 °C). P. sordida YK-624 almost completely degraded BPF within 4 days. Moreover, functional genes involved in BPF degradation were detected by RNA-Seq. Metabolic processes and peroxidases were enriched by GO analysis, and the metabolic pathway was enriched according to the KEGG pathway analysis. These results suggested that P. sordida YK-624 could secrete higher levels of ligninolytic enzymes lignin peroxidase (LiP) and manganese peroxidase (MnP) for BPF degradation. The results indicated that LiPs and MnPs are important for BPF degradation and cytochrome P450s play a small role. Furthermore, reliability of the RNA-Seq results was validated by qRT-PCR.
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Affiliation(s)
- Jianqiao Wang
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Ru Yin
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Xue Zhang
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Nana Wang
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Pengfei Xiao
- College of Forestry, Northeast Forestry University, Harbin, 150040, China
| | - Hirofumi Hirai
- Faculty of Agriculture, Shizuoka University, 836 Ohya, Suruga-ku, Shizuoka, 422-8529, Japan
- Research Institute of Green Science and Technology, Shizuoka University, 836 Ohya, Suruga-ku, Shizuoka, 422-8529, Japan
| | - Tangfu Xiao
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China.
- State Key Laboratory of Geohazard Prevention and Geoenvironment Protection, Chengdu University of Technology, Chengdu, 610059, China.
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Juárez-Hernández J, Castillo-Hernández D, Pérez-Parada C, Nava-Galicia S, Cuervo-Parra JA, Surian-Cruz E, Díaz-Godínez G, Sánchez C, Bibbins-Martínez M. Isolation of Fungi from a Textile Industry Effluent and the Screening of Their Potential to Degrade Industrial Dyes. J Fungi (Basel) 2021; 7:805. [PMID: 34682227 PMCID: PMC8540792 DOI: 10.3390/jof7100805] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 09/17/2021] [Accepted: 09/24/2021] [Indexed: 11/17/2022] Open
Abstract
Six fungal strains were isolated from the textile industry effluent in which they naturally occur. Subsequently, the fungal strains were identified and characterized in order to establish their potential decolorizing effect on textile industry effluents. The strains of interest were selected based on their capacity to decolorize azo, indigo, and anthraquinone dyes. Three of the strains were identified as Emmia latemarginata (MAP03, MAP04, and MAP05) and the other three as Mucor circinelloides (MAP01, MAP02, and MAP06), while the efficiency of their decolorization of the dyes was determined on agar plate and in liquid fermentation. All the strains co-metabolized the dyes of interest, generating different levels of dye decolorization. Plate screening for lignin-degrading enzymes showed that the MAP03, MAP04, and MAP05 strains were positive for laccase and the MAP01, MAP02, and MAP06 strains for tyrosinase, while all strains were positive for peroxidase. Based on its decolorization capacity, the Emmia latemarginata (MAP03) strain was selected for the further characterization of its growth kinetics and ligninolytic enzyme production in submerged fermentation under both enzyme induction conditions, involving the addition of Acetyl yellow G (AYG) dye or wheat straw extract, and no-induction condition. The induction conditions promoted a clear inductive effect in all of the ligninolytic enzymes analyzed. The highest level of induced enzyme production was observed with the AYG dye fermentation, corresponding to versatile peroxidase (VP), manganese peroxidase (MnP), and lignin peroxidase (LiP). The present study can be considered the first analysis of the ligninolytic enzyme system of Emmia latemarginata in submerged fermentation under different conditions. Depending on the results of further research, the fungal strains analyzed in the present research may be candidates for further biotechnological research on the decontamination of industrial effluents.
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Affiliation(s)
- Juvenal Juárez-Hernández
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
| | - Dalia Castillo-Hernández
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
| | - Cristhian Pérez-Parada
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
| | - Soley Nava-Galicia
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
| | - Jaime Alioscha Cuervo-Parra
- Escuela Superior de Apan, Universidad Autónoma del Estado de Hidalgo, Carretera Apan-Calpulalpan, Chimalpa Tlalayote, Apan 43900, Hidalgo, Mexico
| | - Edy Surian-Cruz
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
| | - Gerardo Díaz-Godínez
- Laboratorio de Biotecnología, Centro de Investigación en Ciencias Biológicas, Universidad Autónoma de Tlaxcala, Tlaxcala 90120, Tlaxcala, Mexico
| | - Carmen Sánchez
- Laboratorio de Biotecnología, Centro de Investigación en Ciencias Biológicas, Universidad Autónoma de Tlaxcala, Tlaxcala 90120, Tlaxcala, Mexico
| | - Martha Bibbins-Martínez
- Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional, Tepetitla de Lardizabal 90700, Tlaxcala, Mexico
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Biodegradation of aromatic pollutants meets synthetic biology. Synth Syst Biotechnol 2021; 6:153-162. [PMID: 34278013 PMCID: PMC8260767 DOI: 10.1016/j.synbio.2021.06.001] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Revised: 05/24/2021] [Accepted: 06/03/2021] [Indexed: 02/02/2023] Open
Abstract
Ubiquitously distributed microorganisms are natural decomposers of environmental pollutants. However, because of continuous generation of novel recalcitrant pollutants due to human activities, it is difficult, if not impossible, for microbes to acquire novel degradation mechanisms through natural evolution. Synthetic biology provides tools to engineer, transform or even re-synthesize an organism purposefully, accelerating transition from unable to able, inefficient to efficient degradation of given pollutants, and therefore, providing new solutions for environmental bioremediation. In this review, we described the pipeline to build chassis cells for the treatment of aromatic pollutants, and presented a proposal to design microbes with emphasis on the strategies applied to modify the target organism at different level. Finally, we discussed challenges and opportunities for future research in this field.
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Shoukat S. Potential anti-carcinogenic effect of probiotic and lactic acid bacteria in detoxification of benzo[a]pyrene: A review. Trends Food Sci Technol 2020. [DOI: 10.1016/j.tifs.2020.02.029] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Mycoremediation of PCBs by Pleurotus ostreatus: Possibilities and Prospects. APPLIED SCIENCES-BASEL 2019. [DOI: 10.3390/app9194185] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
With the rising awareness on environmental issues and the increasing risks through industrial development, clean up remediation measures have become the need of the hour. Bioremediation has become increasingly popular owing to its environmentally friendly approaches and cost effectiveness. Polychlorinated biphenyls (PCBs) are an alarming threat to human welfare as well as the environment. They top the list of hazardous xenobiotics. The multiple effects these compounds render to the niche is not unassessed. Bioremediation does appear promising, with myco remediation having a clear edge over bacterial remediation. In the following review, the inputs of white-rot fungi in PCB remediation are examined and the lacunae in the practical application of this versatile technology highlighted. The unique abilities of Pleurotus ostreatus and its deliverables with respect to removal of PCBs are presented. The need for improvising P. ostreatus-mediated remediation is emphasized.
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Boulangé M, Lorgeoux C, Biache C, Saada A, Faure P. Fenton-like and potassium permanganate oxidations of PAH-contaminated soils: Impact of oxidant doses on PAH and polar PAC (polycyclic aromatic compound) behavior. CHEMOSPHERE 2019; 224:437-444. [PMID: 30831494 DOI: 10.1016/j.chemosphere.2019.02.108] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2018] [Revised: 02/15/2019] [Accepted: 02/17/2019] [Indexed: 06/09/2023]
Abstract
Potassium permanganate and Fenton-like oxidations were applied on two PAH-contaminated soils collected on former coking plant and gas plant sites. The impact of oxidant dose on the polycyclic aromatic compound (PAC) evolution, including 16 US-EPA PAHs, 11 oxygenated- and 4 nitrogen heterocyclic-PACs (O- and N-PACs) was studied for both treatments. The content of extractable organic matter and PACs was determined prior and after oxidation. Overall, permanganate treatment was more efficient than Fenton-like to decrease the PAH content, this latter being limited by the contamination availability. However, permanganate treatment resulted in incomplete PAH degradation, leading to the formation of O-PACs, that was limited with the application of higher dose. It underlines the importance of the dose and the oxidant type in the selection of oxidation parameters for remediation purpose, as improper use of oxidant can lead to the accumulation of oxidation by-products that could be as toxic as the parent compounds.
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Affiliation(s)
- Marine Boulangé
- Université de Lorraine, CNRS, LIEC, F-54000, Nancy, France; Université de Lorraine, CNRS, CREGU, GeoRessources, F-54000, Nancy, France; BRGM, 3 Avenue Claude Guillemin - BP 36 009, Orléans Cedex 2, 45060, France
| | - Catherine Lorgeoux
- Université de Lorraine, CNRS, CREGU, GeoRessources, F-54000, Nancy, France
| | - Coralie Biache
- Université de Lorraine, CNRS, LIEC, F-54000, Nancy, France.
| | - Alain Saada
- BRGM, 3 Avenue Claude Guillemin - BP 36 009, Orléans Cedex 2, 45060, France
| | - Pierre Faure
- Université de Lorraine, CNRS, LIEC, F-54000, Nancy, France
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Sekan AS, Myronycheva OS, Karlsson O, Gryganskyi AP, Blume Y. Green potential of Pleurotus spp. in biotechnology. PeerJ 2019; 7:e6664. [PMID: 30967974 PMCID: PMC6446892 DOI: 10.7717/peerj.6664] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Accepted: 02/22/2019] [Indexed: 11/20/2022] Open
Abstract
BACKGROUND The genus Pleurotus is most exploitable xylotrophic fungi, with valuable biotechnological, medical, and nutritional properties. The relevant features of the representatives of this genus to provide attractive low-cost industrial tools have been reported in numerous studies to resolve the pressure of ecological issues. Additionally, a number of Pleurotus species are highly adaptive, do not require any special conditions for growth, and possess specific resistance to contaminating diseases and pests. The unique properties of Pleurotus species widely used in many environmental technologies, such as organic solid waste recycling, chemical pollutant degradation, and bioethanol production. METHODOLOGY The literature study encompasses peer-reviewed journals identified by systematic searches of electronic databases such as Google Scholar, NCBI, Springer, ResearchGate, ScienceDirect, and ISI Web of Knowledge. The search scheme was divided into several steps, as described below. RESULTS In this review, we describe studies examining the biotechnological feasibility of Pleurotus spp. to elucidate the importance of this genus for use in green technology. Here, we review areas of application of the genus Pleurotus as a prospective biotechnological tool. CONCLUSION The incomplete description of some fungal biochemical pathways emphasises the future research goals for this fungal culture.
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Affiliation(s)
- Alona S. Sekan
- Institute of Food Biotechnology and Genomics, National Academy of Science of Ukraine, Kyiv, Ukraine
| | - Olena S. Myronycheva
- Division of Wood Science and Engineering, Department of Engineering Sciences and Mathematics, Lulea University of Technology, Skelleftea, Sweden
| | - Olov Karlsson
- Division of Wood Science and Engineering, Department of Engineering Sciences and Mathematics, Lulea University of Technology, Skelleftea, Sweden
| | | | - Yaroslav Blume
- Institute of Food Biotechnology and Genomics, National Academy of Science of Ukraine, Kyiv, Ukraine
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Biochemical Characterization of CYP505D6, a Self-Sufficient Cytochrome P450 from the White-Rot Fungus Phanerochaete chrysosporium. Appl Environ Microbiol 2018; 84:AEM.01091-18. [PMID: 30171007 DOI: 10.1128/aem.01091-18] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2018] [Accepted: 08/29/2018] [Indexed: 12/29/2022] Open
Abstract
The activity of a self-sufficient cytochrome P450 enzyme, CYP505D6, from the lignin-degrading basidiomycete Phanerochaete chrysosporium was characterized. Recombinant CYP505D6 was produced in Escherichia coli and purified. In the presence of NADPH, CYP505D6 used a series of saturated fatty alcohols with C9-18 carbon chain lengths as the substrates. Hydroxylation occurred at the ω-1 to ω-6 positions of such substrates with C9-15 carbon chain lengths, except for 1-dodecanol, which was hydroxylated at the ω-1 to ω-7 positions. Fatty acids were also substrates of CYP505D6. Based on the sequence alignment, the corresponding amino acid of Tyr51, which is located at the entrance to the active-site pocket in CYP102A1, was Val51 in CYP505D6. To understand the diverse hydroxylation mechanism, wild-type CYP505D6 and its V51Y variant and wild-type CYP102A1 and its Y51V variant were generated, and the products of their reaction with dodecanoic acid were analyzed. Compared with wild-type CYP505D6, its V51Y variant generated few products hydroxylated at the ω-4 to ω-6 positions. The products generated by wild-type CYP102A1 were hydroxylated at the ω-1 to ω-4 positions, whereas its Y51V variant generated ω-1 to ω-7 hydroxydodecanoic acids. These observations indicated that Val51 plays an important role in determining the regiospecificity of fatty acid hydroxylation, at least that at the ω-4 to ω-6 positions. Aromatic compounds, such as naphthalene and 1-naphthol, were also hydroxylated by CYP505D6. These findings highlight a unique broad substrate spectrum of CYP505D6, rendering it an attractive candidate enzyme for the biotechnological industry.IMPORTANCE Phanerochaete chrysosporium is a white-rot fungus whose metabolism of lignin, aromatic pollutants, and lipids has been most extensively studied. This fungus harbors 154 cytochrome P450-encoding genes in the genome. As evidenced in this study, P. chrysosporium CYP505D6, a fused protein of P450 and its reductase, hydroxylates fatty alcohols (C9-15) and fatty acids (C9-15) at the ω-1 to ω-7 or ω-1 to ω-6 positions, respectively. Naphthalene and 1-naphthol were also hydroxylated, indicating that the substrate specificity of CYP505D6 is broader than those of the known fused proteins CYP102A1 and CYP505A1. The substrate versatility of CYP505D6 makes this enzyme an attractive candidate for biotechnological applications.
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Lucero Camacho-Morales R, García-Fontana C, Fernández-Irigoyen J, Santamaría E, González-López J, Manzanera M, Aranda E. Anthracene drives sub-cellular proteome-wide alterations in the degradative system of Penicillium oxalicum. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 159:127-135. [PMID: 29734068 DOI: 10.1016/j.ecoenv.2018.04.051] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Revised: 04/23/2018] [Accepted: 04/26/2018] [Indexed: 06/08/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are widely distributed in polluted environments and are included in the priority list of toxic compounds. Previous studies have shown that the fungus Penicillium oxalicum, isolated from a hydrocarbon-polluted pond, has a great capability to transform different PAHs in short periods under submerged fermentation conditions. Although cytochrome p450s (CYPs) seems to be the main responsible enzyme in this process, changes in proteome profile remains poorly understood. The aim of this work was to characterise molecular disturbances in the cytosolic and microsomal sub-proteomes of P. oxalicum by applying two-dimensional (2D) gel electrophoresis and label-free quantitative proteomics during anthracene biodegradation. Our results showed that by using 2D-gels, 10 and 8 differential proteins were over-expressed in the cytosolic and microsomal fractions, respectively. Most of them were related to stress response. Shotgun proteomics allowed the identification of 158 and 174 unique protein species that differentially accumulated during anthracene biotransformation, such as CYPs, epoxide hydrolases and transferases enzymes, belonging to Phase I and Phase II of the metabolism of xenobiotics, contributing to the anthracene biodegradation pathway. These results confirm the biological significance of ascomycetes fungi the rol of CYPs on biodegradation and the need of a deeper knowledge on fungal proteomics for the application of the appropriate microorganisms in biodegradation processes.
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Affiliation(s)
- R Lucero Camacho-Morales
- Institute of Water Research, University of Granada, Ramón y Cajal, Fray Luís 4, Granada 18071, Spain
| | - Cristina García-Fontana
- Institute of Water Research, University of Granada, Ramón y Cajal, Fray Luís 4, Granada 18071, Spain; Department of Microbiology, Pharmacy Faculty, University of Granada, Spain
| | - Joaquín Fernández-Irigoyen
- Proteored-ISCIII, Proteomics Unit, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), IdiSNA, Irunlarrea 3, 31008 Pamplona, Spain
| | - Enrique Santamaría
- Proteored-ISCIII, Proteomics Unit, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), IdiSNA, Irunlarrea 3, 31008 Pamplona, Spain
| | - Jesús González-López
- Institute of Water Research, University of Granada, Ramón y Cajal, Fray Luís 4, Granada 18071, Spain; Department of Microbiology, Pharmacy Faculty, University of Granada, Spain
| | - Maximino Manzanera
- Institute of Water Research, University of Granada, Ramón y Cajal, Fray Luís 4, Granada 18071, Spain; Department of Microbiology, Pharmacy Faculty, University of Granada, Spain
| | - Elisabet Aranda
- Institute of Water Research, University of Granada, Ramón y Cajal, Fray Luís 4, Granada 18071, Spain; Department of Microbiology, Pharmacy Faculty, University of Granada, Spain.
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Nanca CL, Neri KD, Ngo ACR, Bennett RM, Dedeles GR. Degradation of Polycyclic Aromatic Hydrocarbons by Moderately Halophilic Bacteria from Luzon Salt Beds. J Health Pollut 2018; 8:180915. [PMID: 30524874 PMCID: PMC6257169 DOI: 10.5696/2156-9614-8.19.180915] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 08/12/2018] [Indexed: 06/09/2023]
Abstract
BACKGROUND Polycyclic aromatic hydrocarbons (PAHs) are common environmental contaminants which are highly toxic due to their carcinogenic and mutagenic effects. They are released into the environment by incomplete combustion of solid and liquid fuels, accidental spillage of oils and seepage from industrial activities. One of the promising processes mitigating PAHs is through biodegradation. However, conventional microbiological treatment processes do not function well at high salt concentrations. Hence, utilization of halophilic bacteria should be considered. OBJECTIVES This study aimed to assess the ability of halophilic bacteria isolated from local salt beds in Pangasinan and Cavite, the Philippines, to degrade PAHs pyrene, fluorene and fluoranthene. METHODS Polycyclic aromatic hydrocarbon-tolerant halophilic bacteria collected from two sampling sites were phenotypically characterized, molecularly identified and tested to determine their potential to degrade the PAHs pyrene, fluorene and fluoranthene at a hypersaline condition. Best PAH degraders were then assayed to identify the optimal degradation using such parameters as pH, temperature and PAH concentration. Testing for enzyme degradation was also done to determine their baseline information. Extraction and analysis of degraded PAHs were performed using centrifugation and UV-vis spectrophotometry. RESULTS Twelve isolates from both collection sites tolerated and grew in culture with selected PAHs. These were identified into four genera (Halobacillus, Halomonas, Chromohalobacter, and Pontibacillus). Selected best isolates in a series of biodegradation assays with the above-mentioned parameters were Halobacillus B (Collection of Microbial Strains (CMS) 1802) (=trueperi) (Gram-positive) for pyrene and fluoranthene, and Halomonas A (CMS 1901) (Gram-negative) for fluorene. Degrader biomass and PAH degradation were invariably negatively correlated. Qualitative tests with and without peptone as a nitrogen source implied enzymatic degradation. DISCUSSION Polycyclic aromatic hydrocarbons utilized by these halophilic bacteria served as a sole source of carbon and energy. Implications of biodegradation of the two best isolates show that high molecular weight (HMW) (4-ring) pyrene tends to be degraded better by Gram-positive bacteria and low molecular weight (3-ring) fluorene by Gram-negative degraders. CONCLUSIONS Halophilic bacteria constitute an untapped natural resource for biotechnology in the Philippines. The present study demonstrated their potential use in bioremediation of recalcitrant hydrocarbons in the environment. COMPETING INTERESTS The authors declare no competing financial interests.
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Affiliation(s)
- Carolyn L. Nanca
- The Graduate School, University of Santo Tomas, Manila, Philippines
- Laboratory of Pure and Applied Microbiology, Research Center for the Natural and Applied Sciences, University of Santo Tomas, Manila, Philippines
- Department of Sciences, Senior High School, University of Santo Tomas, Manila, Philippines
| | - Kimberly D. Neri
- The Graduate School, University of Santo Tomas, Manila, Philippines
- Laboratory of Pure and Applied Microbiology, Research Center for the Natural and Applied Sciences, University of Santo Tomas, Manila, Philippines
| | | | - Reuel M. Bennett
- Collection of Microbial Strains, University of Santo Tomas, Manila, Philippines
- Department of Biological Sciences, College of Science, University of Santo Tomas, Manila, Philippines
| | - Gina R. Dedeles
- The Graduate School, University of Santo Tomas, Manila, Philippines
- Laboratory of Pure and Applied Microbiology, Research Center for the Natural and Applied Sciences, University of Santo Tomas, Manila, Philippines
- Collection of Microbial Strains, University of Santo Tomas, Manila, Philippines
- Department of Biological Sciences, College of Science, University of Santo Tomas, Manila, Philippines
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Linder T. Assimilation of alternative sulfur sources in fungi. World J Microbiol Biotechnol 2018; 34:51. [PMID: 29550883 PMCID: PMC5857272 DOI: 10.1007/s11274-018-2435-6] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2018] [Accepted: 03/13/2018] [Indexed: 11/28/2022]
Abstract
Fungi are well known for their metabolic versatility, whether it is the degradation of complex organic substrates or the biosynthesis of intricate secondary metabolites. The vast majority of studies concerning fungal metabolic pathways for sulfur assimilation have focused on conventional sources of sulfur such as inorganic sulfur ions and sulfur-containing biomolecules. Less is known about the metabolic pathways involved in the assimilation of so-called “alternative” sulfur sources such as sulfides, sulfoxides, sulfones, sulfonates, sulfate esters and sulfamates. This review summarizes our current knowledge regarding the structural diversity of sulfur compounds assimilated by fungi as well as the biochemistry and genetics of metabolic pathways involved in this process. Shared sequence homology between bacterial and fungal sulfur assimilation genes have lead to the identification of several candidate genes in fungi while other enzyme activities and pathways so far appear to be specific to the fungal kingdom. Increased knowledge of how fungi catabolize this group of compounds will ultimately contribute to a more complete understanding of sulfur cycling in nature as well as the environmental fate of sulfur-containing xenobiotics.
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Affiliation(s)
- Tomas Linder
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7015, 750 07, Uppsala, Sweden.
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16
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Pozdnyakova N, Dubrovskaya E, Chernyshova M, Makarov O, Golubev S, Balandina S, Turkovskaya O. The degradation of three-ringed polycyclic aromatic hydrocarbons by wood-inhabiting fungus Pleurotus ostreatus and soil-inhabiting fungus Agaricus bisporus. Fungal Biol 2018; 122:363-372. [PMID: 29665962 DOI: 10.1016/j.funbio.2018.02.007] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2017] [Revised: 12/17/2017] [Accepted: 02/26/2018] [Indexed: 11/26/2022]
Abstract
The degradation of two isomeric three-ringed polycyclic aromatic hydrocarbons by the white rot fungus Pleurotus ostreatus D1 and the litter-decomposing fungus Agaricus bisporus F-8 was studied. Despite some differences, the degradation of phenanthrene and anthracene followed the same scheme, forming quinone metabolites at the first stage. The further fate of these metabolites was determined by the composition of the ligninolytic enzyme complexes of the fungi. The quinone metabolites of phenanthrene and anthracene produced in the presence of only laccase were observed to accumulate, whereas those formed in presence of laccase and versatile peroxidase were metabolized further to form products that were further included in basal metabolism (e.g. phthalic acid). Laccase can catalyze the initial attack on the PAH molecule, which leads to the formation of quinones, and that peroxidase ensures their further oxidation, which eventually leads to PAH mineralization. A. bisporus, which produced only laccase, metabolized phenanthrene and anthracene to give the corresponding quinones as the dominant metabolites. No products of further utilization of these compounds were detected. Thus, the fungi's affiliation with different ecophysiological groups and their cultivation conditions affect the composition and dynamics of production of the ligninolytic enzyme complex and the completeness of PAH utilization.
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Affiliation(s)
- Natalia Pozdnyakova
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Ekaterina Dubrovskaya
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Marina Chernyshova
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Oleg Makarov
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Sergey Golubev
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Svetlana Balandina
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
| | - Olga Turkovskaya
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov 13, 410049, Saratov, Russia.
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18
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Conceição AA, Cunha JRB, Vieira VO, Pelaéz RDR, Mendonça S, Almeida JRM, Dias ES, de Almeida EG, de Siqueira FG. Bioconversion and Biotransformation Efficiencies of Wild Macrofungi. Fungal Biol 2018. [DOI: 10.1007/978-3-030-02622-6_18] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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19
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PCB in the environment: bio-based processes for soil decontamination and management of waste from the industrial production of Pleurotus ostreatus. N Biotechnol 2017; 39:232-239. [DOI: 10.1016/j.nbt.2017.08.011] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2016] [Revised: 08/25/2017] [Accepted: 08/28/2017] [Indexed: 01/01/2023]
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20
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Abilities of Co-cultures of Brown-Rot Fungus Fomitopsis pinicola and Bacillus subtilis on Biodegradation of DDT. Curr Microbiol 2017. [DOI: 10.1007/s00284-017-1286-y] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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21
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Purnomo AS, Nawfa R, Martak F, Shimizu K, Kamei I. Biodegradation of Aldrin and Dieldrin by the White-Rot Fungus Pleurotus ostreatus. Curr Microbiol 2017; 74:320-324. [PMID: 28101603 DOI: 10.1007/s00284-016-1184-8] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2016] [Accepted: 12/21/2016] [Indexed: 11/25/2022]
Abstract
Aldrin and its metabolite dieldrin are persistent organic pollutants that contaminate soil in many parts of the world. Given the potential hazards associated with these pollutants, an efficient degradation method is required. In this study, we investigated the ability of Pleurotus ostreatus to transform aldrin as well as dieldrin in pure liquid cultures. This fungus completely eliminated aldrin in potato dextrose broth (PDB) medium during a 14-day incubation period. Dieldrin was detected as the main metabolite, and 9-hydroxylaldrin and 9-hydroxyldieldrin were less abundant metabolites. The proposed route of aldrin biotransformation is initial metabolism by epoxidation, followed by hydroxylation. The fungus was also capable of degrading dieldrin, a recalcitrant metabolite of aldrin. Approximately 3, 9, and 18% of dieldrin were eliminated by P. ostreatus in low-nitrogen, high-nitrogen, and PDB media, respectively, during a 14-day incubation period. 9-Dihydroxydieldrin was detected as a metabolite in the PDB culture, suggesting that the hydroxylation reaction occurred in the epoxide ring. These results indicate that P. ostreatus has potential applications in the transformation of aldrin as well as dieldrin.
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Affiliation(s)
- Adi Setyo Purnomo
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Institut Teknologi Sepuluh Nopember (ITS), Kampus ITS Sukolilo, Surabaya, 60111, Indonesia.
| | - Refdinal Nawfa
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Institut Teknologi Sepuluh Nopember (ITS), Kampus ITS Sukolilo, Surabaya, 60111, Indonesia
| | - Fahimah Martak
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Institut Teknologi Sepuluh Nopember (ITS), Kampus ITS Sukolilo, Surabaya, 60111, Indonesia
| | - Kuniyoshi Shimizu
- Department of Agro-environmental Sciences, Faculty of Agriculture, Kyushu University, 6-10-1 Hakozaki, Higashi-ku, Fukuoka, 812-8581, Japan
| | - Ichiro Kamei
- Department of Forest and Environmental Sciences, Faculty of Agriculture, University of Miyazaki, 1-1 Gakuen-kibanadai-nishi, Miyazaki, 889-2192, Japan
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22
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Kadri T, Rouissi T, Kaur Brar S, Cledon M, Sarma S, Verma M. Biodegradation of polycyclic aromatic hydrocarbons (PAHs) by fungal enzymes: A review. J Environ Sci (China) 2017; 51:52-74. [PMID: 28115152 DOI: 10.1016/j.jes.2016.08.023] [Citation(s) in RCA: 192] [Impact Index Per Article: 27.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Revised: 08/22/2016] [Accepted: 08/23/2016] [Indexed: 05/22/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are a large group of chemicals. They represent an important concern due to their widespread distribution in the environment, their resistance to biodegradation, their potential to bioaccumulate and their harmful effects. Several pilot treatments have been implemented to prevent economic consequences and deterioration of soil and water quality. As a promising option, fungal enzymes are regarded as a powerful choice for degradation of PAHs. Phanerochaete chrysosporium, Pleurotus ostreatus and Bjerkandera adusta are most commonly used for the degradation of such compounds due to their production of ligninolytic enzymes such as lignin peroxidase, manganese peroxidase and laccase. The rate of biodegradation depends on many culture conditions, such as temperature, oxygen, accessibility of nutrients and agitated or shallow culture. Moreover, the addition of biosurfactants can strongly modify the enzyme activity. The removal of PAHs is dependent on the ionization potential. The study of the kinetics is not completely comprehended, and it becomes more challenging when fungi are applied for bioremediation. Degradation studies in soil are much more complicated than liquid cultures because of the heterogeneity of soil, thus, many factors should be considered when studying soil bioremediation, such as desorption and bioavailability of PAHs. Different degradation pathways can be suggested. The peroxidases are heme-containing enzymes having common catalytic cycles. One molecule of hydrogen peroxide oxidizes the resting enzyme withdrawing two electrons. Subsequently, the peroxidase is reduced back in two steps of one electron oxidation. Laccases are copper-containing oxidases. They reduce molecular oxygen to water and oxidize phenolic compounds.
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Affiliation(s)
- Tayssir Kadri
- INRS-ETE, Université du Québec, 490 Rue de la Couronne, Québec, QC G1K 9A9, Canada
| | - Tarek Rouissi
- INRS-ETE, Université du Québec, 490 Rue de la Couronne, Québec, QC G1K 9A9, Canada
| | - Satinder Kaur Brar
- INRS-ETE, Université du Québec, 490 Rue de la Couronne, Québec, QC G1K 9A9, Canada.
| | - Maximiliano Cledon
- INRS-ETE, Université du Québec, 490 Rue de la Couronne, Québec, QC G1K 9A9, Canada
| | - Saurabhjyoti Sarma
- INRS-ETE, Université du Québec, 490 Rue de la Couronne, Québec, QC G1K 9A9, Canada
| | - Mausam Verma
- CO(2) Solutions Inc., 2300, rue Jean-Perrin, Québec, QC G2C 1T9, Canada
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23
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Mgbeahuruike AC, Kovalchuk A, Ubhayasekera W, Nelson DR, Yadav JS. CYPome of the conifer pathogen Heterobasidion irregulare: Inventory, phylogeny, and transcriptional analysis of the response to biocontrol. Fungal Biol 2016; 121:158-171. [PMID: 28089047 DOI: 10.1016/j.funbio.2016.11.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Revised: 10/25/2016] [Accepted: 11/26/2016] [Indexed: 01/16/2023]
Abstract
The molecular mechanisms underlying the interaction of the pathogen, Heterobasidion annosum s.l., the conifer tree and the biocontrol fungus, Phlebiopsis gigantea have not been fully elucidated. Members of the cytochrome P450 (CYP) protein family may contribute to the detoxification of components of chemical defence of conifer trees by H. annosum during infection. Additionally, they may also be involved in the interaction between H. annosum and P. gigantea. A genome-wide analysis of CYPs in Heterobasidion irregulare was carried out alongside gene expression studies. According to the Standardized CYP Nomenclature criteria, the H. irregulare genome has 121 CYP genes and 17 CYP pseudogenes classified into 11 clans, 35 families, and 64 subfamilies. Tandem CYP arrays originating from gene duplications and belonging to the same family and subfamily were found. Phylogenetic analysis showed that all the families of H. irregulare CYPs were monophyletic groups except for the family CYP5144. Microarray analysis revealed the transcriptional pattern for 130 transcripts of CYP-encoding genes during growth on culture filtrate produced by P. gigantea. The high level of P450 gene diversity identified in this study could result from extensive gene duplications presumably caused by the high metabolic demands of H. irregulare in its ecological niches.
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Affiliation(s)
- Anthony C Mgbeahuruike
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, PMB, 420001, Enugu State, Nigeria; Department of Veterinary Pathology and Microbiology, Faculty of Veterinary Medicine, University of Nigeria, Nsukka, PMB, 420001, Enugu State, Nigeria.
| | - Andriy Kovalchuk
- Department of Forest Sciences, University of Helsinki, P.O. Box 27, FIN-00014 Helsinki, Finland
| | - Wimal Ubhayasekera
- Structure and Molecular Biology Program, Department of Cell and Molecular Biology, Uppsala University, Box 596, Biomedical Center, SE-751 24, Uppsala, Sweden
| | - David R Nelson
- Department of Microbiology, Immunology and Biochemistry, University of Tennessee, Memphis, TN 38163, USA
| | - Jagjit S Yadav
- Environmental Genetics and Molecular Toxicology Division, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267-0056, USA
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24
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Gupte A, Tripathi A, Patel H, Rudakiya D, Gupte S. Bioremediation of Polycyclic Aromatic Hydrocarbon (PAHs): A Perspective. ACTA ACUST UNITED AC 2016. [DOI: 10.2174/1874070701610010363] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Hydrocarbon pollution is a perennial problem not only in India but throughout the globe. A plethora of microorganisms have been reported to be efficient degraders of these recalcitrant pollutants. One of the major concerns of environmental problem is the presence of hydrocarbons due to the various anthropogenic activities. PAHs are ubiquitous in naturei.e.present in soil, water and air. Presence of PAHs in environment creates problem as their presence have deleterious effect on human and animals. They also have the ability to cause the tumors in human and animals. Some of the microorganisms are capable of transforming and degrading these PAHs and remove them from the environment. The present review describes about the sources, structure, fate and toxicity of PAHs as well as different bioremediation techniques involved in the removing of contaminants from the environment which are efficient and cost-effective. The conventional approaches used for removal of PAH are not only environment friendly but also are able to reduce the risk to human and ecosystem.
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25
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Pozdnyakova NN, Chernyshova MP, Grinev VS, Landesman EO, Koroleva OV, Turkovskaya OV. Degradation of fluorene and fluoranthene by the basidiomycete Pleurotus ostreatus. APPL BIOCHEM MICRO+ 2016. [DOI: 10.1134/s0003683816060132] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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26
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Sharma A, Singh SB, Sharma R, Chaudhary P, Pandey AK, Ansari R, Vasudevan V, Arora A, Singh S, Saha S, Nain L. Enhanced biodegradation of PAHs by microbial consortium with different amendment and their fate in in-situ condition. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2016; 181:728-736. [PMID: 27558829 DOI: 10.1016/j.jenvman.2016.08.024] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2016] [Revised: 08/08/2016] [Accepted: 08/09/2016] [Indexed: 06/06/2023]
Abstract
Microbial degradation is a useful tool to prevent chemical pollution in soil. In the present study, in-situ bioremediation of polyaromatic hydrocarbons (PAHs) by microbial consortium consisting of Serratia marcescens L-11, Streptomyces rochei PAH-13 and Phanerochaete chrysosporium VV-18 has been reported. In preliminary studies, the consortium degraded nearly 60-70% of PAHs in broth within 7 days under controlled conditions. The same consortium was evaluated for its competence under natural conditions by amending the soil with ammonium sulphate, paddy straw and compost. Highest microbial activity in terms of dehydrogenase, FDA hydrolase and aryl esterase was recorded on the 5(th) day. The degradation rate of PAHs significantly increased up to 56-98% within 7 days under in-situ however almost complete dissipation (83.50-100%) was observed on the 30(th) day. Among all the co-substrates evaluated, faster degradation of PAHs was observed in compost amended soil wherein fluorene, anthracene, phenanthrene and pyrene degraded with half-life of 1.71, 4.70, 2.04 and 6.14 days respectively. Different degradation products formed were also identified by GC-MS. Besides traces of parent PAHs eleven non-polar and five polar products were identified by direct and silylation reaction respectively. Various products formed indicated that consortium was capable to degrade PAHs by oxidation to mineralization.
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Affiliation(s)
- Anamika Sharma
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Shashi Bala Singh
- Division of Agricultural Chemicals, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Richa Sharma
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Priyanka Chaudhary
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Alok Kumar Pandey
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Raunaq Ansari
- Division of Agricultural Chemicals, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Venugopal Vasudevan
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Anju Arora
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Surender Singh
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Supradip Saha
- Division of Agricultural Chemicals, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Lata Nain
- Division of Microbiology, Indian Agricultural Research Institute, New Delhi 110012, India.
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27
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Ghosal D, Ghosh S, Dutta TK, Ahn Y. Current State of Knowledge in Microbial Degradation of Polycyclic Aromatic Hydrocarbons (PAHs): A Review. Front Microbiol 2016; 7:1369. [PMID: 27630626 PMCID: PMC5006600 DOI: 10.3389/fmicb.2016.01369] [Citation(s) in RCA: 249] [Impact Index Per Article: 31.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2016] [Accepted: 08/18/2016] [Indexed: 12/22/2022] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) include a group of organic priority pollutants of critical environmental and public health concern due to their toxic, genotoxic, mutagenic and/or carcinogenic properties and their ubiquitous occurrence as well as recalcitrance. The increased awareness of their various adverse effects on ecosystem and human health has led to a dramatic increase in research aimed toward removing PAHs from the environment. PAHs may undergo adsorption, volatilization, photolysis, and chemical oxidation, although transformation by microorganisms is the major neutralization process of PAH-contaminated sites in an ecologically accepted manner. Microbial degradation of PAHs depends on various environmental conditions, such as nutrients, number and kind of the microorganisms, nature as well as chemical property of the PAH being degraded. A wide variety of bacterial, fungal and algal species have the potential to degrade/transform PAHs, among which bacteria and fungi mediated degradation has been studied most extensively. In last few decades microbial community analysis, biochemical pathway for PAHs degradation, gene organization, enzyme system, genetic regulation for PAH degradation have been explored in great detail. Although, xenobiotic-degrading microorganisms have incredible potential to restore contaminated environments inexpensively yet effectively, but new advancements are required to make such microbes effective and more powerful in removing those compounds, which were once thought to be recalcitrant. Recent analytical chemistry and genetic engineering tools might help to improve the efficiency of degradation of PAHs by microorganisms, and minimize uncertainties of successful bioremediation. However, appropriate implementation of the potential of naturally occurring microorganisms for field bioremediation could be considerably enhanced by optimizing certain factors such as bioavailability, adsorption and mass transfer of PAHs. The main purpose of this review is to provide an overview of current knowledge of bacteria, halophilic archaea, fungi and algae mediated degradation/transformation of PAHs. In addition, factors affecting PAHs degradation in the environment, recent advancement in genetic, genomic, proteomic and metabolomic techniques are also highlighted with an aim to facilitate the development of a new insight into the bioremediation of PAH in the environment.
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Affiliation(s)
- Debajyoti Ghosal
- Environmental Engineering Laboratory, Department of Civil Engineering, Yeungnam UniversityGyeongsan, South Korea
| | - Shreya Ghosh
- Disasters Prevention Research Institute, Yeungnam UniversityGyeongsan, South Korea
| | - Tapan K. Dutta
- Department of Microbiology, Bose InstituteKolkata, India
| | - Youngho Ahn
- Environmental Engineering Laboratory, Department of Civil Engineering, Yeungnam UniversityGyeongsan, South Korea
- Disasters Prevention Research Institute, Yeungnam UniversityGyeongsan, South Korea
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Abstract
1. Thianthrene is a sulfur-containing tricyclic molecule distributed widely within the macrostructure of hydrocarbon fossil fuels. Identified nearly 150 years ago, its chemistry has been widely explored leading to insights into reaction mechanisms and radical ion formation. 2. It has been claimed to have therapeutic application in the treatment of dermal infections and to interfere with enzyme and nucleic acid function, but appears to have little toxicity. 3. Following its oral administration to the rat, the majority remained within the gastrointestinal tract. After three days, about 88% was detected in the combined excreta with the remainder still within the animal. It is readily taken up into fish from the surrounding aqueous environment and has been placed within the "bioaccumulative category" to be regarded with concern. 4. Mammalian metabolism appeared to be restricted to ring carbon oxidation and subsequent glucuronic acid conjugation. Small amounts of sulfoxide and disulfoxide were also formed. No ring degradation was evident. Microorganisms similarly undertook aromatic ring hydroxylation but were able also to rupture the ring system by attacking the carbon-sulfur linkages and thereby degrading the molecule.
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Affiliation(s)
- Steve C Mitchell
- a Computational and Systems Medicine, Imperial College London , London , UK and
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29
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Hatakeyama M, Kitaoka T, Ichinose H. Heterologous expression of fungal cytochromes P450 (CYP5136A1 and CYP5136A3) from the white-rot basidiomycete Phanerochaete chrysosporium: Functionalization with cytochrome b5 in Escherichia coli. Enzyme Microb Technol 2016; 89:7-14. [PMID: 27233123 DOI: 10.1016/j.enzmictec.2016.03.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2015] [Revised: 02/14/2016] [Accepted: 03/08/2016] [Indexed: 12/21/2022]
Abstract
Cytochromes P450 from the white-rot basidiomycete Phanerochaete chrysosporium, CYP5136A1 and CYP5136A3, are capable of catalyzing oxygenation reactions of a wide variety of exogenous compounds, implying their significant roles in the metabolism of xenobiotics by the fungus. It is therefore interesting to explore their biochemistry to better understand fungal biology and to enable the use of fungal enzymes in the biotechnology sector. In the present study, we developed heterologous expression systems for CYP5136A1 and CYP5136A3 using the T7 RNA polymerase/promoter system in Escherichia coli. Expression levels of recombinant P450s were dramatically improved by modifications and optimization of their N-terminal amino acid sequences. A CYP5136A1 reaction system was reconstructed in E. coli whole cells by coexpression of CYP5136A1 and a redox partner, NADPH-dependent P450 reductase (CPR). The catalytic activity of CYP5136A1 was significantly increased when cytochrome b5 (Cyt-b5) was further coexpressed with CPR, indicating that Cyt-b5 supports electron transfer reactions from NAD(P)H to CYP5136A1. Notably, P450 reaction occurred in E. coli cells that harbored CYP5136A1 and Cyt-b5 but not CPR, implying that the reducing equivalents required for the P450 catalytic cycle were transferred via a CPR-independent pathway. Such an "alternative" electron transfer system in CYP5136A1 reaction was also demonstrated using purified enzymes in vitro. The fungal P450 reaction system may be associated with sophisticated electron transfer pathways.
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Affiliation(s)
- Mayumi Hatakeyama
- Faculty of Agriculture, Kyushu University, 6-10-(1) Hakozaki, Higashi-ku, Fukuoka 812-8581, Japan.
| | - Takuya Kitaoka
- Faculty of Agriculture, Kyushu University, 6-10-(1) Hakozaki, Higashi-ku, Fukuoka 812-8581, Japan.
| | - Hirofumi Ichinose
- Faculty of Agriculture, Kyushu University, 6-10-(1) Hakozaki, Higashi-ku, Fukuoka 812-8581, Japan.
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30
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Pozdnyakova NN, Jarosz-Wilkolazka A, Polak J, Grąz M, Turkovskaya OV. Decolourisation of anthraquinone-and anthracene-type dyes by versatile peroxidases frombjerkandera fumosa and pleurotus ostreatusD1. BIOCATAL BIOTRANSFOR 2015. [DOI: 10.3109/10242422.2015.1060227] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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31
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Aksu O, Yildirim NC, Yildirim N, Danabas D, Danabas S. Biochemical response of crayfish Astacus leptodactylus exposed to textile wastewater treated by indigenous white rot fungus Coriolus versicolor. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:2987-2993. [PMID: 25226834 DOI: 10.1007/s11356-014-3550-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2014] [Accepted: 09/03/2014] [Indexed: 06/03/2023]
Abstract
The discharge of textile effluents into the environment without appropriate treatment poses a serious threat for the aquatic organisms. The present study was undertaken to investigate biochemical response of crayfish Astacus leptodactylus exposed to textile wastewater (TW) treated by indigenous white rot fungus Coriolus versicolor. Glutathione S-transferase (GST), cytochrome P450 1A1 (CYP1A1), and acetylcholinesterase (AchE) levels in hepatopancreas and abdomen tissues of crayfish exposed to untreated, treated, and diluted rates (1/10) in both TW during 24 and 96 h were tested. Physiochemical parameters (electrical conductivity (EC), chemical oxygen demand (COD), pH, and total dissolved solid (TDS)) of TW were determined before and after treatment. Physiochemical parameters of TW decreased after treatment. The GST activity and AchE were generally increased, but CYP1A1 activity was decreased in hepatopancreas tissue of crayfish exposed to different kinds of untreated TW. After treatment by indigenous white rot fungus (C. versicolor), GST and CYP1A1 activities were returned to control values, while AchE activities were increasing further. In this study, only GST and CYP1A1 activities of A. leptodactylus confirmed the efficiency of TW treatment with C. versicolor.
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Affiliation(s)
- Onder Aksu
- Fisheries Faculty, Tunceli University, 62000, Tunceli, Turkey
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32
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Wu B, Chen R, Yao Y, Gao N, Zuo L, Xu H. Mycoremediation potential of Coprinus comatus in soil co-contaminated with copper and naphthalene. RSC Adv 2015. [DOI: 10.1039/c5ra12763g] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Experiments were conducted to investigate the effects of mycoremediation byCoprinus comatus(C. comatus) on the biochemical properties and lettuce growth in copper and naphthalene (Nap) co-contaminated soil.
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Affiliation(s)
- Bin Wu
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
| | - Rong Chen
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
| | - Yuan Yao
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
| | - Ni Gao
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
| | - Lei Zuo
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
| | - Heng Xu
- Key Laboratory for Bio-resources and Eco-environment of Education Ministry
- College of Life Science
- Sichuan University
- Chengdu 610064
- China
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33
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Zelena K, Eisele N, Berger RG. Escherichia coli as a production host for novel enzymes from basidiomycota. Biotechnol Adv 2014; 32:1382-95. [DOI: 10.1016/j.biotechadv.2014.08.006] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2014] [Revised: 08/14/2014] [Accepted: 08/25/2014] [Indexed: 01/14/2023]
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34
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Reyes-César A, Absalón ÁE, Fernández FJ, González JM, Cortés-Espinosa DV. Biodegradation of a mixture of PAHs by non-ligninolytic fungal strains isolated from crude oil-contaminated soil. World J Microbiol Biotechnol 2013; 30:999-1009. [PMID: 24132496 DOI: 10.1007/s11274-013-1518-7] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2013] [Accepted: 10/08/2013] [Indexed: 11/27/2022]
Abstract
Nine native non-ligninolytic fungal strains were isolated from Maya crude oil-contaminated soil and selected based on their ability to grow and use crude oil and several polycyclic aromatic hydrocarbons (PAHs) as carbon source, for their application to PAH removal in soil. The fungi were identified by PCR amplification of intergenic transcribed sequences regions and microbiological techniques, and results showed them to be part of the genera Fusarium, Neurospora, Aspergillus, Scedosporium, Penicillium, Neosartorya and Talaromyces. A primary selection of fungi was made in minimal medium plates, considering the tolerance to different concentrations of PAHs for each strain. The radial extension rate exhibited significant differences (p < 0.05) from 200 to 1,000 mg of PAHs mixture l⁻¹. A secondary selection of Aspergillus terreus, Talaromyces spectabilis, and Fusarium sp. was achieved based on their tolerance to 2,000 mg of a mixture of Phenanathrene and Pyrene kg⁻¹ of soil in a solid-state microcosm system for 2 weeks. The percentage of PAH removal obtained by the three strains was approximately 21 % of the mixture.
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Affiliation(s)
- Anaisell Reyes-César
- Instituto Politécnico Nacional, Centro de Investigación en Biotecnología Aplicada, Carretera Federal Santa Inés Tecuexcomac-Tepetitla Km 1.5, C.P. 90700, Tepetitla de Lardizabal, Tlaxcala, Mexico
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35
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Barathi P, Kumar AS. Electrochemical conversion of unreactive pyrene to highly redox-active 1,2-quinone derivatives on a carbon nanotube-modified gold electrode surface and its selective hydrogen peroxide sensing. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:10617-10623. [PMID: 23930943 DOI: 10.1021/la402092r] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Pyrene (PYR) is a rigid, carcinogenic, unreactive, and nonelectrooxidizable compound. A multiwalled carbon nanotube (MWCNT)-modified gold electrode surface-bound electrochemical oxidation of PYR to a highly redox-active surface-confined quinone derivative (PYRO) at an applied potential of 1 V versus Ag/AgCl in pH 7 phosphate buffer solution has been demonstrated in this work. Among various carbon nanomaterials examined, the pristine MWCNT-modified gold electrode showed effective electrochemical oxidation of the PYR. The MWCNT's graphite impurity promotes the electrochemical oxidation reaction. Physicochemical and electrochemical characterizations of MWCNT@PYRO by Raman spectroscopy, FT-IR, X-ray photoelectron spectroscopy, and GC-MS reveal the presence of PYRO as pyrene-tetrone within the modified electrode. The quinone position of PYRO was identified as ortho-directing by an elegantly designed ortho-isomer-selective complexation reaction with copper ion as an MWCNT@PYRO-Cu(2+/1+)-modified electrode. Finally, a cytochrome c enzyme-modified Au/MWCNT@PYRO (i.e., Au/MWCNT@PYRO-Cyt c) was also developed and further demonstrated for the selective biosensing of hydrogen peroxide.
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Affiliation(s)
- Palani Barathi
- Environmental and Analytical Chemistry Division, School of Advanced Sciences, Vellore Institute of Technology University, Vellore-632 014, India
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36
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Li J, Dodgen L, Ye Q, Gan J. Degradation kinetics and metabolites of carbamazepine in soil. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2013; 47:3678-84. [PMID: 23506704 DOI: 10.1021/es304944c] [Citation(s) in RCA: 113] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
The antiepileptic drug carbamazepine (CBZ) is one of the most frequently detected human pharmaceuticals in wastewater effluents and biosolids. Soil is a primary environmental compartment receiving CBZ through wastewater irrigation and biosolid application. In this study, we explored the transformation of CBZ to biologically active intermediates in soil. Both (14)C labeling and liquid chromatography-tandem mass spectrometry (LC-MS/MS) were used to track transformation kinetics and identify major degradation intermediates. Through 120 days of incubation under aerobic conditions, mineralization of CBZ did not exceed 2% of the spiked rate in different soils. Amendment of biosolids further suppressed mineralization. The fraction of non-extractable (i.e., bound) residue also remained negligible (<5%). On the other hand, CBZ was transformed to a range of degradation intermediates, including 10,11-dihydro-10-hydroxycarbamazepine, carbamazepine-10,11-epoxide, acridone-N-carbaldehyde, 4-aldehyde-9-acridone, and acridine, of which acridone-N-carbaldehyde was formed in a large fraction and appeared to be recalcitrant to further degradation. Electrocyclization, ring cleavage, hydrogen shift, carbonylation, and decarbonylation contributed to CBZ transformative reactions in soil, producing biologically active products. The persistence of the parent compound and formation of incomplete intermediates suggest that CBZ has a high risk for off-site transport from soil, such as accumulation into plants and contamination of groundwater.
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Affiliation(s)
- Juying Li
- Department of Environmental Sciences, University of California-Riverside, Riverside, California 92521, United States
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37
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Dimerization of Bisphenol A by Hyper Lignin-Degrading Fungus Phanerochaete sordida YK-624 Under Ligninolytic Condition. Curr Microbiol 2013; 66:544-7. [DOI: 10.1007/s00284-013-0310-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2012] [Accepted: 01/04/2013] [Indexed: 10/27/2022]
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38
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Ichinose H. Cytochrome P450 of wood-rotting basidiomycetes and biotechnological applications. Biotechnol Appl Biochem 2013; 60:71-81. [PMID: 23586994 DOI: 10.1002/bab.1061] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2012] [Accepted: 11/09/2012] [Indexed: 12/23/2022]
Abstract
Wood-rotting basidiomycetes possess superior metabolic functions to degrade woody biomass, and these activities are indispensable for the carbon cycle of the biosphere. As well as basic studies of the biochemistry of basidiomycetes, many researchers have been focusing on utilizing basidiomycetes and/or their enzymes in the biotechnology sector; therefore, the unique activities of their extracellular and intracellular enzymes have been widely demonstrated. A rich history of applied study has established that basidiomycetes are capable of metabolizing a series of endogeneous and exogeneous compounds using cytochrome P450s (P450s). Recently, whole genome sequence analyses have revealed large-scale divergences in basidiomycetous P450s. The tremendous variation in P450s implies that basidiomycetes have vigorously diversified monooxygenase functions to acquire metabolic adaptations such as lignin degradation, secondary metabolite production, and xenobiotics detoxification. However, fungal P450s discovered from genome projects are often categorized into novel families and subfamilies, making it difficult to predict catalytic functions by sequence comparison. Experimental screening therefore remains essential to elucidate the catalytic potential of individual P450s, even in this postgenomic era. This paper archives the known metabolic capabilities of basidiomycetes, focusing on their P450s, outlines the molecular diversity of basidiomycetous P450s, and introduces new functions revealed by functionomic studies using a recently developed, rapid, functional screening system.
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Hong CY, Kim HY, Lee SY, Kim SH, Lee SM, Choi IG. Involvement of extracellular and intracellular enzymes of Ceriporia sp. ZLY-2010 for biodegradation of polychlorinated biphenyls (PCBs). JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART A, TOXIC/HAZARDOUS SUBSTANCES & ENVIRONMENTAL ENGINEERING 2013; 48:1280-1291. [PMID: 23647119 DOI: 10.1080/10934529.2013.777242] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
This study examined the interrelation between the biodegradation of polychlorinated biphenyls (PCBs) by Ceriporia sp. ZLY-2010 and its fungal enzyme systems. The degradation rates of Aroclor 1254 and 1260 were 29.01% on day 5 and 36.80% on day 10, respectively. MnP (Manganese dependent peroxidase) and laccase activities showed the greatest increases in the samples containing Aroclors, indicating that extracellular enzymes of Ceriporia sp. ZLY-2010 were affected by the addition of Aroclors. However, the relationship between the biodegradation rate and extracellular enzymes might be obscured by the complexity of the biodegradation process. Cytochrome P450 monooxygenase was inhibited and the biodegradation rate of the Aroclor decreased by adding the inhibitor 1-aminobenzotriazole. Two-dimensional gel electrophoresis showed that intracellular enzymes play a significant role in the biodegradation of Aroclor. Complex extracellular and intracellular enzyme systems in Ceriporia sp. ZLY-2010 play an important role in degrading PCBs. Physiological changes of Ceriporia sp. ZLY-2010 caused by PCBs appeared to affect biodegradation of PCBs. However, it is necessary to further study the unidentified enzymes related to the biodegradation of Aroclor.
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Affiliation(s)
- Chang-Young Hong
- Department of Forest Sciences, Seoul National University, Seoul, South Korea
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40
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Involvement of the ligninolytic system of white-rot and litter-decomposing fungi in the degradation of polycyclic aromatic hydrocarbons. BIOTECHNOLOGY RESEARCH INTERNATIONAL 2012; 2012:243217. [PMID: 22830035 PMCID: PMC3398574 DOI: 10.1155/2012/243217] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/18/2011] [Revised: 03/07/2012] [Accepted: 04/05/2012] [Indexed: 11/21/2022]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are natural and anthropogenic aromatic hydrocarbons with two or more fused benzene rings. Because of their ubiquitous occurrence, recalcitrance, bioaccumulation potential and carcinogenic activity, PAHs are a significant environmental concern. Ligninolytic fungi, such as Phanerochaete chrysosporium, Bjerkandera adusta, and Pleurotus ostreatus, have the capacity of PAH degradation. The enzymes involved in the degradation of PAHs are ligninolytic and include lignin peroxidase, versatile peroxidase, Mn-peroxidase, and laccase. This paper summarizes the data available on PAH degradation by fungi belonging to different ecophysiological groups (white-rot and litter-decomposing fungi) under submerged cultivation and during mycoremediation of PAH-contaminated soils. The role of the ligninolytic enzymes of these fungi in PAH degradation is discussed.
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41
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Wang S, Nomura N, Nakajima T, Uchiyama H. Case study of the relationship between fungi and bacteria associated with high-molecular-weight polycyclic aromatic hydrocarbon degradation. J Biosci Bioeng 2012; 113:624-30. [DOI: 10.1016/j.jbiosc.2012.01.005] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2011] [Revised: 12/21/2011] [Accepted: 01/05/2012] [Indexed: 10/14/2022]
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42
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A laccase with HIV-1 reverse transcriptase inhibitory activity from the broth of mycelial culture of the mushroom Lentinus tigrinus. J Biomed Biotechnol 2012; 2012:536725. [PMID: 22536022 PMCID: PMC3321470 DOI: 10.1155/2012/536725] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2011] [Accepted: 01/05/2012] [Indexed: 12/02/2022] Open
Abstract
A 59 kDa laccase with inhibitory activity against HIV-1 reverse transcriptase (IC50 = 2.4 μM) was isolated from the broth of mycelial culture of the mushroom Lentinus tigrinus. The isolation procedure involved ion exchange chromatography on DEAE-cellulose and CM-cellulose, and gel filtration by fast protein liquid chromatography on Superdex 75. The laccase was adsorbed on both types of ion exchangers. About 95-fold purification was achieved with a 25.9% yield of the enzyme. The procedure resulted in a specific enzyme activity of 76.6 U/mg. Its N-terminal amino acid sequence was GIPDLHDLTV, which showed little similarity to other mushroom laccase and other Lentinus tigrinus strain laccase. Its characteristics were different from previously reported laccase of other Lentinus tigrinus strain. Maximal laccase activity was observed at a pH of 4 and at a temperature of 60°C, respectively. This study yielded the information about the potentially exploitable activities of Lentinus tigrinus laccase.
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43
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Cortés-Espinosa DV, Absalón ÁE, Sanchez N, Loera O, Rodríguez-Vázquez R, Fernández FJ. Heterologous expression of manganese peroxidase in Aspergillus niger and its effect on phenanthrene removal from soil. J Mol Microbiol Biotechnol 2012; 21:120-9. [PMID: 22286039 DOI: 10.1159/000331563] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
A strain of Aspergillus niger, previously isolated from sugarcane bagasse because of its capacity to degrade phenanthrene in soil by solid culture, was used to express a manganese peroxidase gene (mnp1) from Phanerochaete chrysosporium, aiming at increasing its polycyclic aromatic hydrocarbons degradation capacity. Transformants were selected based on their resistance to hygromycin B and the discoloration induced on Poly R-478 dye by the peroxidase activity. The recombinant A. niger SBC2-T3 strain developed MnP activity and was able to remove 95% of the initial phenanthrene (400 ppm) from a microcosm soil system after 17 days, whereas the wild strain removed 72% under the same conditions. Transformation success was confirmed by PCR amplification using gene-specific primers, and a single fragment (1,348 bp long, as expected) of the recombinant mnp1 was amplified in the DNA from transformants, which was absent from the parental strain.
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Affiliation(s)
- Diana V Cortés-Espinosa
- Centro de Investigación en Biotecnologóa Aplicada del IPN, Carretera Federal Santa Inés, Tepetitla de Lardizabal, Mexico
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Syed K, Porollo A, Lam YW, Yadav JS. A fungal P450 (CYP5136A3) capable of oxidizing polycyclic aromatic hydrocarbons and endocrine disrupting alkylphenols: role of Trp(129) and Leu(324). PLoS One 2011; 6:e28286. [PMID: 22164262 PMCID: PMC3229547 DOI: 10.1371/journal.pone.0028286] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2011] [Accepted: 11/05/2011] [Indexed: 12/04/2022] Open
Abstract
The model white rot fungus Phanerochaete chrysosporium, which is known for its versatile pollutant-biodegradation ability, possesses an extraordinarily large repertoire of P450 monooxygenases in its genome. However, the majority of these P450s have hitherto unknown function. Our initial studies using a genome-wide gene induction strategy revealed multiple P450s responsive to individual classes of xenobiotics. Here we report functional characterization of a cytochrome P450 monooxygenase, CYP5136A3 that showed common responsiveness and catalytic versatility towards endocrine-disrupting alkylphenols (APs) and mutagenic/carcinogenic polycyclic aromatic hydrocarbons (PAHs). Using recombinant CYP5136A3, we demonstrated its oxidation activity towards APs with varying alkyl side-chain length (C3-C9), in addition to PAHs (3–4 ring size). AP oxidation involves hydroxylation at the terminal carbon of the alkyl side-chain (ω-oxidation). Structure-activity analysis based on a 3D model indicated a potential role of Trp129 and Leu324 in the oxidation mechanism of CYP5136A3. Replacing Trp129 with Leu (W129L) and Phe (W129F) significantly diminished oxidation of both PAHs and APs. The W129L mutation caused greater reduction in phenanthrene oxidation (80%) as compared to W129F which caused greater reduction in pyrene oxidation (88%). Almost complete loss of oxidation of C3-C8 APs (83–90%) was observed for the W129L mutation as compared to W129F (28–41%). However, the two mutations showed a comparable loss (60–67%) in C9-AP oxidation. Replacement of Leu324 with Gly (L324G) caused 42% and 54% decrease in oxidation activity towards phenanthrene and pyrene, respectively. This mutation also caused loss of activity towards C3-C8 APs (20–58%), and complete loss of activity toward nonylphenol (C9-AP). Collectively, the results suggest that Trp129 and Leu324 are critical in substrate recognition and/or regio-selective oxidation of PAHs and APs. To our knowledge, this is the first report on an AP-oxidizing P450 from fungi and on structure-activity relationship of a eukaryotic P450 for fused-ring PAHs (phenanthrene and pyrene) and AP substrates.
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Affiliation(s)
- Khajamohiddin Syed
- Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America
| | - Aleksey Porollo
- Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America
| | - Ying Wai Lam
- Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America
| | - Jagjit S. Yadav
- Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America
- * E-mail:
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Dai Y, Niu J, Yin L, Xu J, Xi Y. Sorption of polycyclic aromatic hydrocarbons on electrospun nanofibrous membranes: sorption kinetics and mechanism. JOURNAL OF HAZARDOUS MATERIALS 2011; 192:1409-1417. [PMID: 21752545 DOI: 10.1016/j.jhazmat.2011.06.055] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2011] [Revised: 06/18/2011] [Accepted: 06/20/2011] [Indexed: 05/31/2023]
Abstract
Five types of nanofibrous membranes were prepared by electrospinning poly(ε-caprolactone) (PCL), poly(D,L-lactide) (PDLLA), poly(lactide-co-caprolactone) (P(LA/CL)), poly(D,L-lactide-co-glycolide) (PDLGA) and methoxy polyethylene glycol-poly(lactide-co-glycolide) (MPEG-PLGA), respectively. These electrospun nanofibrous membranes (ENFMs) were used to adsorb anthracene (ANT), benz[a]anthracene (BaA) and benzo[a]pyrene (BaP) from aqueous solution, and the sorption kinetics and isotherms of these PAHs on the five ENFMs were investigated. The pseudo-second-order model (PSOM) can well describe the sorption kinetics of the three PAHs on five ENFMs, and the partition-adsorption model (PAM) can interpret the sorption processes of PAHs on the ENFMs. PCL ENFMs, which had the largest surface areas (8.57 m(2)g(-1)), exhibited excellent sorption capacity for ANT at over 4112.3 ± 35.5 μg g(-1). Moreover, the hydrophobicity and pore volume of ENFMs significantly affected the sorption kinetics and sorption capacity of the PAHs. The main sorption mechanisms of three PAHs on the PDLLA ENFMs included hydrophobic interactions and pore-filling, while those of PCL, P(LA/CL) and PDLGA ENFMs were dominated by the hydrophobic interactions. The sorption mechanisms of MPEG-PLGA ENFMs primarily included pore-filling, hydrogen bonding interactions and hydrophobic interactions. Additionally, π-π bonding interaction was also deduced to be involved in all of ENFMs sorption systems.
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Affiliation(s)
- Yunrong Dai
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, PR China
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46
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Dixit P, Mukherjee PK, Sherkhane PD, Kale SP, Eapen S. Enhanced tolerance and remediation of anthracene by transgenic tobacco plants expressing a fungal glutathione transferase gene. JOURNAL OF HAZARDOUS MATERIALS 2011; 192:270-6. [PMID: 21621917 DOI: 10.1016/j.jhazmat.2011.05.018] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2010] [Revised: 05/06/2011] [Accepted: 05/06/2011] [Indexed: 05/22/2023]
Abstract
Plants can be used for remediation of polyaromatic hydrocarbons, which are known to be a major concern for human health. Metabolism of xenobiotic compounds in plants occurs in three phases and glutathione transferases (GST) mediate phase II of xenobiotic transformation. Plants, although have GSTs, they are not very efficient for degradation of exogenous recalcitrant xenobiotics including polyaromatic hydrocarbons. Hence, heterologous expression of efficient GSTs in plants may improve their remediation and degradation potential of xenobiotics. In the present study, we investigated the potential of transgenic tobacco plants expressing a Trichoderma virens GST for tolerance, remediation and degradation of anthracene-a recalcitrant polyaromatic hydrocarbon. Transgenic plants with fungal GST showed enhanced tolerance to anthracene compared to control plants. Remediation of (14)C uniformly labeled anthracene from solutions and soil by transgenic tobacco plants was higher compared to wild-type plants. Transgenic plants (T(0) and T(1)) degraded anthracene to naphthalene derivatives, while no such degradation was observed in wild-type plants. The present work has shown that in planta expression of a fungal GST in tobacco imparted enhanced tolerance as well as higher remediation potential of anthracene compared to wild-type plants.
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Affiliation(s)
- Prachy Dixit
- Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Mumbai 400085, India
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47
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Golan-Rozen N, Chefetz B, Ben-Ari J, Geva J, Hadar Y. Transformation of the recalcitrant pharmaceutical compound carbamazepine by Pleurotus ostreatus: role of cytochrome P450 monooxygenase and manganese peroxidase. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2011; 45:6800-6805. [PMID: 21744850 DOI: 10.1021/es200298t] [Citation(s) in RCA: 81] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Carbamazepine (CBZ) is an environmentally recalcitrant compound highly stable in soil and during wastewater treatment. In this study, we examined the mechanisms by which the white-rot fungus Pleurotus ostreatus metabolizes CBZ in liquid culture using a physiological approach. P. ostreatus PC9 was grown in media known to support different levels of a multiplicity of enzyme systems such as cytochrome P450 (CYP450) and manganese peroxidase (MnP). When both CYP450 and MnP systems were active, 99% of the added CBZ was eliminated from the solution and transformed to 10,11-epoxycarbamazepine. High removal of CBZ was also obtained when either MnP or CYP450 was active. When both CYP450 and MnP were inactivated, only 10 to 30% of the added CBZ was removed. In this latter system, removal of CBZ might be partially attributed to the activity of versatile peroxidase. P. ostreatus was able to eliminate CBZ in liquid culture even when CBZ was added at an environmentally relevant concentration (1 μg L(-1)). On the basis of our study, we suggest that two families of enzymes are involved in the oxidation of CBZ in liquid culture: MnP in a Mn(2+)-dependent or independent manner and CYP450. Our study also highlights the potential of using P. ostreatus for bioremediation systems.
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Affiliation(s)
- Naama Golan-Rozen
- The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem , P.O. Box 12, Rehovot 76100, Israel
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Wang J, Hirai H, Kawagishi H. Biotransformation of acetamiprid by the white-rot fungus Phanerochaete sordida YK-624. Appl Microbiol Biotechnol 2011; 93:831-5. [PMID: 21713509 DOI: 10.1007/s00253-011-3435-8] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2011] [Revised: 06/05/2011] [Accepted: 06/06/2011] [Indexed: 11/28/2022]
Abstract
Acetamiprid (ACE) belongs to the neonicotinoid class of systemic broad-spectrum insecticides, which are the most highly effective and largest-selling insecticides worldwide for crop protection. As neonicotinoid insecticides persist in crops, biotransformation of these insecticides represents a promising approach for improving the safety of foods. Here, the elimination of ACE from a liquid medium by the white-rot fungus Phanerochaete sordida YK-624 was examined. Under ligninolytic and non-ligninolytic conditions, 45% and 30% of ACE were eliminated, respectively, after 15 days of incubation. High-resolution electrospray ionization mass spectra and nuclear magnetic resonance analyses of a metabolite identified in the culture supernatant suggested that ACE was N-demethylated to (E)-N (1)-[(6-chloro-3-pyridyl)-methyl]-N (2)-cyano-acetamidine, which has a much lower toxicity than ACE. In addition, we investigated the effect of the cytochrome P450 inhibitor piperonyl butoxide (PB) on the elimination of ACE. The elimination rate of ACE by P. sordida YK-624 was markedly reduced by the addition of either 0.01 or 0.1 mM PB to the culture medium. These results suggest that cytochrome P450 plays an important role in the N-demethylation of ACE by P. sordida YK-624.
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Affiliation(s)
- Jianqiao Wang
- Graduate School of Science and Technology, Shizuoka University, 836 Ohya, Suruga-ku, Shizuoka, 422-8529, Japan
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Insight into functional diversity of cytochrome P450 in the white-rot basidiomycete Phanerochaete chrysosporium: Involvement of versatile monooxygenase. Biochem Biophys Res Commun 2011; 407:118-23. [DOI: 10.1016/j.bbrc.2011.02.121] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2011] [Accepted: 02/24/2011] [Indexed: 01/25/2023]
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Acevedo F, Pizzul L, Castillo MDP, Cuevas R, Diez MC. Degradation of polycyclic aromatic hydrocarbons by the Chilean white-rot fungus Anthracophyllum discolor. JOURNAL OF HAZARDOUS MATERIALS 2011; 185:212-9. [PMID: 20934253 DOI: 10.1016/j.jhazmat.2010.09.020] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2010] [Revised: 07/13/2010] [Accepted: 09/06/2010] [Indexed: 05/24/2023]
Abstract
The degradation of three- and four-ring polycyclic aromatic hydrocarbons (PAHs) in Kirk medium by Anthracophyllum discolor, a white-rot fungus isolated from the forest of southern Chile, was evaluated. In addition, the removal efficiency of three-, four- and five-ring PAHs in contaminated soil bioaugmented with A. discolor in the absence and presence of indigenous soil microorganisms was investigated. Production of lignin-degrading enzymes and PAH mineralization in the soil were also determined. A. discolor was able to degrade PAHs in Kirk medium with the highest removal occurring in a PAH mixture, suggesting synergistic effects between PAHs or possible cometabolism. A high removal capability for phenanthrene (62%), anthracene (73%), fluoranthene (54%), pyrene (60%) and benzo(a)pyrene (75%) was observed in autoclaved soil inoculated with A. discolor in the absence of indigenous microorganisms, associated with the production of manganese peroxidase (MnP). The metabolites found in the PAH degradation were anthraquinone, phthalic acid, 4-hydroxy-9-fluorenone, 9-fluorenone and 4,5-dihydropyrene. A. discolor was able to mineralize 9% of the phenanthrene. In non-autoclaved soil, the inoculation with A. discolor did not improve the removal efficiency of PAHs. Suitable conditions must be found to promote a successful fungal bioaugmentation in non-autoclaved soils.
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Affiliation(s)
- Francisca Acevedo
- Programa de Doctorado en Ciencias de Recursos Naturales, Universidad de La Frontera, Avenida Francisco Salazar 01145, Temuco, Chile
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