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Lara-Moreno A, Merchán F, Morillo E, Zampolli J, Di Gennaro P, Villaverde J. Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches. Front Bioeng Biotechnol 2023; 11:1158177. [PMID: 37214282 PMCID: PMC10192627 DOI: 10.3389/fbioe.2023.1158177] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Accepted: 04/14/2023] [Indexed: 05/24/2023] Open
Abstract
Phenanthrene (PHE) is a highly toxic compound, widely present in soils. For this reason, it is essential to remove PHE from the environment. Stenotrophomonas indicatrix CPHE1 was isolated from an industrial soil contaminated by polycyclic aromatic hydrocarbons (PAHs) and was sequenced to identify the PHE degrading genes. Dioxygenase, monooxygenase, and dehydrogenase gene products annotated in S. indicatrix CPHE1 genome were clustered into different trees with reference proteins. Moreover, S. indicatrix CPHE1 whole-genome sequences were compared to genes of PAHs-degrading bacteria retrieved from databases and literature. On these basis, reverse transcriptase-polymerase chain reaction (RT-PCR) analysis pointed out that cysteine dioxygenase (cysDO), biphenyl-2,3-diol 1,2-dioxygenase (bphC), and aldolase hydratase (phdG) were expressed only in the presence of PHE. Therefore, different techniques have been designed to improve the PHE mineralization process in five PHE artificially contaminated soils (50 mg kg-1), including biostimulation, adding a nutrient solution (NS), bioaugmentation, inoculating S. indicatrix CPHE1 which was selected for its PHE-degrading genes, and the use of 2-hydroxypropyl-β-cyclodextrin (HPBCD) as a bioavailability enhancer. High percentages of PHE mineralization were achieved for the studied soils. Depending on the soil, different treatments resulted to be successful; in the case of a clay loam soil, the best strategy was the inoculation of S. indicatrix CPHE1 and NS (59.9% mineralized after 120 days). In sandy soils (CR and R soils) the highest percentage of mineralization was achieved in presence of HPBCD and NS (87.3% and 61.3%, respectively). However, the combination of CPHE1 strain, HPBCD, and NS showed to be the most efficient strategy for sandy and sandy loam soils (LL and ALC soils showed 35% and 74.6%, respectively). The results indicated a high degree of correlation between gene expression and the rates of mineralization.
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Affiliation(s)
- Alba Lara-Moreno
- Department of Agrochemistry, Environmental Microbiology and Soil Conservation, Institute of Natural Resources and Agrobiology of Seville, Spanish National Research Council (IRNAS-CSIC), Seville, Spain
- Department of Microbiology and Parasitology, Faculty of Pharmacy, University of Seville, Seville, Spain
| | - Francisco Merchán
- Department of Microbiology and Parasitology, Faculty of Pharmacy, University of Seville, Seville, Spain
| | - Esmeralda Morillo
- Department of Agrochemistry, Environmental Microbiology and Soil Conservation, Institute of Natural Resources and Agrobiology of Seville, Spanish National Research Council (IRNAS-CSIC), Seville, Spain
| | - Jessica Zampolli
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
| | - Patrizia Di Gennaro
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
| | - Jaime Villaverde
- Department of Agrochemistry, Environmental Microbiology and Soil Conservation, Institute of Natural Resources and Agrobiology of Seville, Spanish National Research Council (IRNAS-CSIC), Seville, Spain
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Kumar M, Bolan NS, Hoang SA, Sawarkar AD, Jasemizad T, Gao B, Keerthanan S, Padhye LP, Singh L, Kumar S, Vithanage M, Li Y, Zhang M, Kirkham MB, Vinu A, Rinklebe J. Remediation of soils and sediments polluted with polycyclic aromatic hydrocarbons: To immobilize, mobilize, or degrade? JOURNAL OF HAZARDOUS MATERIALS 2021; 420:126534. [PMID: 34280720 DOI: 10.1016/j.jhazmat.2021.126534] [Citation(s) in RCA: 118] [Impact Index Per Article: 29.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 06/09/2021] [Accepted: 06/26/2021] [Indexed: 05/22/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are generated due to incomplete burning of organic substances. Use of fossil fuels is the primary anthropogenic cause of PAHs emission in natural settings. Although several PAH compounds exist in the natural environmental setting, only 16 of these compounds are considered priority pollutants. PAHs imposes several health impacts on humans and other living organisms due to their carcinogenic, mutagenic, or teratogenic properties. The specific characteristics of PAHs, such as their high hydrophobicity and low water solubility, influence their active adsorption onto soils and sediments, affecting their bioavailability and subsequent degradation. Therefore, this review first discusses various sources of PAHs, including source identification techniques, bioavailability, and interactions of PAHs with soils and sediments. Then this review addresses the remediation technologies adopted so far of PAHs in soils and sediments using immobilization techniques (capping, stabilization, dredging, and excavation), mobilization techniques (thermal desorption, washing, electrokinetics, and surfactant assisted), and biological degradation techniques. The pros and cons of each technology are discussed. A detailed systematic compilation of eco-friendly approaches used to degrade PAHs, such as phytoremediation, microbial remediation, and emerging hybrid or integrated technologies are reviewed along with case studies and provided prospects for future research.
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Affiliation(s)
- Manish Kumar
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440020, Maharashtra, India
| | - Nanthi S Bolan
- School of Agriculture and Environment, The University of Western Australia, Perth WA 6001, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia; College of Engineering, Science and Environment, University of Newcastle, Callaghan NSW, 2308, Australia
| | - Son A Hoang
- College of Engineering, Science and Environment, University of Newcastle, Callaghan NSW, 2308, Australia
| | - Ankush D Sawarkar
- Department of Computer Science and Engineering, Visvesvaraya National Institute of Technology (VNIT), Nagpur, Maharashtra, 440 010, India
| | - Tahereh Jasemizad
- Department of Civil and Environmental Engineering, Faculty of Engineering, The University of Auckland, Auckland 1010, New Zealand
| | - Bowen Gao
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - S Keerthanan
- Ecosphere Resilience Research Center, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda 10250, Sri Lanka
| | - Lokesh P Padhye
- Department of Civil and Environmental Engineering, Faculty of Engineering, The University of Auckland, Auckland 1010, New Zealand
| | - Lal Singh
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440020, Maharashtra, India
| | - Sunil Kumar
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440020, Maharashtra, India
| | - Meththika Vithanage
- Ecosphere Resilience Research Center, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda 10250, Sri Lanka
| | - Yang Li
- Department of Environmental Engineering, China Jiliang University, Zhejiang, Hangzhou 310018, China
| | - Ming Zhang
- Department of Environmental Engineering, China Jiliang University, Zhejiang, Hangzhou 310018, China
| | - M B Kirkham
- Department of Agronomy, Kansas State University, Manhattan, KS, United States of America
| | - Ajayan Vinu
- Global Innovative Centre for Advanced Nanomaterials, School of Engineering, The University of Newcastle, Callaghan, NSW, 2308, Australia
| | - Jörg Rinklebe
- University of Wuppertal, School of Architecture and Civil Engineering, Institute of Foundation Engineering, Water- and Waste Management, Laboratory of Soil- and Groundwater Management, Pauluskirchstraße 7, 42285 Wuppertal, Germany; Department of Environment, Energy and Geoinformatics, Sejong University, Seoul 05006, Republic of Korea.
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Chaudhuri S, Phelan T, Levine M. Cyclodextrin-promoted Diels Alder reactions of a polycyclic aromatic hydrocarbon under mild reaction conditions. Tetrahedron Lett 2015; 56:1619-1623. [PMID: 26692588 PMCID: PMC4675360 DOI: 10.1016/j.tetlet.2015.01.185] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Reported herein is the effect of cyclodextrins on the rates of aqueous Diels Alder reactions of 9-anthracenemethanol with a variety of N-substituted maleimides. These reactions occurred under mild reaction conditions (aqueous solvent, 40 °C), and were most efficient for the reaction of N-cyclohexylmaleimide with a methyl-β-cyclodextrin additive (94% conversion in 24 hours). These results can be explained on the basis of a model wherein the cyclodextrins bind the hydrophobic substituents on the maleimides and activate the dienophile via electronic modulation of the maleimide double bond. The results reported herein represent a new mechanism for cyclodextrin-promoted Diels Alder reactions, and have significant potential applications in the development of other cyclodextrin-promoted organic transformations. Moreover, the ability to deplanarize polycyclic aromatic hydrocarbons (PAHs) under mild conditions, as demonstrated herein, has significant applications for PAH detoxification.
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Affiliation(s)
- Sauradip Chaudhuri
- Department of Chemistry, University of Rhode Island, 51 Lower College Road, Kingston, RI 02881
| | - Tyler Phelan
- Department of Chemistry, University of Rhode Island, 51 Lower College Road, Kingston, RI 02881
| | - Mindy Levine
- Department of Chemistry, University of Rhode Island, 51 Lower College Road, Kingston, RI 02881
- tel: 401-874-4243; fax: 401-874-5072;
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