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Guerrero Ramírez JR, Ibarra Muñoz LA, Balagurusamy N, Frías Ramírez JE, Alfaro Hernández L, Carrillo Campos J. Microbiology and Biochemistry of Pesticides Biodegradation. Int J Mol Sci 2023; 24:15969. [PMID: 37958952 PMCID: PMC10649977 DOI: 10.3390/ijms242115969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Revised: 10/17/2023] [Accepted: 10/20/2023] [Indexed: 11/15/2023] Open
Abstract
Pesticides are chemicals used in agriculture, forestry, and, to some extent, public health. As effective as they can be, due to the limited biodegradability and toxicity of some of them, they can also have negative environmental and health impacts. Pesticide biodegradation is important because it can help mitigate the negative effects of pesticides. Many types of microorganisms, including bacteria, fungi, and algae, can degrade pesticides; microorganisms are able to bioremediate pesticides using diverse metabolic pathways where enzymatic degradation plays a crucial role in achieving chemical transformation of the pesticides. The growing concern about the environmental and health impacts of pesticides is pushing the industry of these products to develop more sustainable alternatives, such as high biodegradable chemicals. The degradative properties of microorganisms could be fully exploited using the advances in genetic engineering and biotechnology, paving the way for more effective bioremediation strategies, new technologies, and novel applications. The purpose of the current review is to discuss the microorganisms that have demonstrated their capacity to degrade pesticides and those categorized by the World Health Organization as important for the impact they may have on human health. A comprehensive list of microorganisms is presented, and some metabolic pathways and enzymes for pesticide degradation and the genetics behind this process are discussed. Due to the high number of microorganisms known to be capable of degrading pesticides and the low number of metabolic pathways that are fully described for this purpose, more research must be conducted in this field, and more enzymes and genes are yet to be discovered with the possibility of finding more efficient metabolic pathways for pesticide biodegradation.
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Affiliation(s)
- José Roberto Guerrero Ramírez
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Lizbeth Alejandra Ibarra Muñoz
- Laboratorio de Biorremediación, Facultad de Ciencias Biológicas, Universidad Autónoma de Coahuila, Torreon 27275, Coahuila, Mexico; (L.A.I.M.); (N.B.)
| | - Nagamani Balagurusamy
- Laboratorio de Biorremediación, Facultad de Ciencias Biológicas, Universidad Autónoma de Coahuila, Torreon 27275, Coahuila, Mexico; (L.A.I.M.); (N.B.)
| | - José Ernesto Frías Ramírez
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Leticia Alfaro Hernández
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Javier Carrillo Campos
- Facultad de Zootecnia y Ecología, Universidad Autónoma de Chihuahua, Chihuahua 31453, Chihuahua, Mexico
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Manikandan SK, Pallavi P, Shetty K, Bhattacharjee D, Giannakoudakis DA, Katsoyiannis IA, Nair V. Effective Usage of Biochar and Microorganisms for the Removal of Heavy Metal Ions and Pesticides. MOLECULES (BASEL, SWITZERLAND) 2023; 28:molecules28020719. [PMID: 36677777 PMCID: PMC9862088 DOI: 10.3390/molecules28020719] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 01/03/2023] [Accepted: 01/06/2023] [Indexed: 01/12/2023]
Abstract
The bioremediation of heavy metal ions and pesticides is both cost-effective and environmentally friendly. Microbial remediation is considered superior to conventional abiotic remediation processes, due to its cost-effectiveness, decrement of biological and chemical sludge, selectivity toward specific metal ions, and high removal efficiency in dilute effluents. Immobilization technology using biochar as a carrier is one important approach for advancing microbial remediation. This article provides an overview of biochar-based materials, including their design and production strategies, physicochemical properties, and applications as adsorbents and support for microorganisms. Microorganisms that can cope with the various heavy metal ions and/or pesticides that enter the environment are also outlined in this review. Pesticide and heavy metal bioremediation can be influenced by microbial activity, pollutant bioavailability, and environmental factors, such as pH and temperature. Furthermore, by elucidating the interaction mechanisms, this paper summarizes the microbe-mediated remediation of heavy metals and pesticides. In this review, we also compile and discuss those works focusing on the study of various bioremediation strategies utilizing biochar and microorganisms and how the immobilized bacteria on biochar contribute to the improvement of bioremediation strategies. There is also a summary of the sources and harmful effects of pesticides and heavy metals. Finally, based on the research described above, this study outlines the future scope of this field.
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Affiliation(s)
- Soumya K. Manikandan
- Department of Chemical Engineering, National Institute of Technology Karnataka (NITK), Mangalore 575025, India
| | - Pratyasha Pallavi
- Department of Chemical Engineering, National Institute of Technology Karnataka (NITK), Mangalore 575025, India
| | - Krishan Shetty
- Department of Chemical Engineering, National Institute of Technology Karnataka (NITK), Mangalore 575025, India
| | | | - Dimitrios A. Giannakoudakis
- Laboratory of Chemical and Environmental Technology, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
- Correspondence: (D.A.G.); (V.N.)
| | - Ioannis A. Katsoyiannis
- Laboratory of Chemical and Environmental Technology, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
| | - Vaishakh Nair
- Department of Chemical Engineering, National Institute of Technology Karnataka (NITK), Mangalore 575025, India
- Correspondence: (D.A.G.); (V.N.)
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Guo J, Song X, Li R, Zhang Q, Zheng S, Li Q, Tao B. Isolation of a degrading strain of Fusarium verticillioides and bioremediation of glyphosate residue. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2022; 182:105031. [PMID: 35249652 DOI: 10.1016/j.pestbp.2021.105031] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Revised: 12/27/2021] [Accepted: 12/28/2021] [Indexed: 06/14/2023]
Abstract
Glyphosate is a broad-spectrum and nonselective organophosphorus herbicide that inhibits 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), an enzyme in the shikimate pathway in plants. A glyphosate-resistant fungus identified as Fusarium verticillioides was screened from soil subjected to long-term glyphosate application, and this fungus could grow in inorganic salt medium containing 90 mmol/L glyphosate. The optimum culture conditions identified via the response surface curve method were 28 °C and pH 7.0. The target gene epsps was cloned in this study, and the open reading frame contained 1170 nucleotides and putatively encoded 389 amino acid residues. Phylogenetic analysis showed that this gene belonged to class I, genes naturally sensitive to glyphosate. q-PCR confirmed that the relative expression level of the epsps gene was low, and no significant difference in expression was observed among different glyphosate concentrations at 12 h or 48 h. On day 28, the degradation by Fusarium verticillioides C-2 of sterilized soil and unsterilized soil supplemented with 60 mg/kg glyphosate reached 72.17% and 89.07%, respectively, and a significant difference was observed between the treatments with and without the glyphosate-degrading strain. The recovery of soil dehydrogenase activity after the addition of Fusarium verticillioides was significantly higher than that in the absence of the degrading fungus on the 28th day. The results showed that C-2 is a highly effective glyphosate-degrading strain with bioremediation potential for glyphosate-contaminated soil.
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Affiliation(s)
- Jing Guo
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China
| | - Xiuli Song
- Lingnan Normal University, ZhanJiang 524048, Guang Dong, PR China
| | - Rongxing Li
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China
| | - Qi Zhang
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China
| | - Shengwei Zheng
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China
| | - Qiucheng Li
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China
| | - Bo Tao
- College of Agronomy, Northeast Agricultural University, Harbin 150030, Heilongjiang, PR China.
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Balakrishnan P, Mohan S. Treatment of triclosan through enhanced microbial biodegradation. JOURNAL OF HAZARDOUS MATERIALS 2021; 420:126430. [PMID: 34252677 DOI: 10.1016/j.jhazmat.2021.126430] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Revised: 06/15/2021] [Accepted: 06/16/2021] [Indexed: 06/13/2023]
Abstract
Triclosan (TCS) is extensively used in healthcare and personal care products as an antibacterial agent. Due to the persistent and toxic nature of TCS, it is not completely degraded in the biological wastewater treatment process. In this research work, identification of TCS degrading bacteria from municipal wastewater sludge and applying the same as bioaugmentation treatment for wastewater have been reported. Based on the 16S rRNA analysis of wastewater sludge, it was found that Providencia rettgeri MB-IIT strain was active and able to grow in higher TCS concentration. The identified bacterial strain was able to use TCS as carbon and energy source for its growth. The biodegradation experiment was optimized for the operational parameters viz. pH (5-10), inoculum size (1-5% (v/v)) and different initial concentration (2, 5, and 10 mg/L) of TCS. During the TCS degradation process, manganese peroxidase (MnP) and laccase (LAC) enzyme activity and specific growth rate of P. rettgeri strain were maximum at pH=7% and 2% (v/v) inoculum size, resulting in 98% of TCS removal efficiency. A total of six intermediate products were identified from the Liquid chromatography-high-resolution mass spectrometry (LC-HRMS) analysis, and the two mechanisms responsible for the degradation of TCS have been elucidated. The study highlights that P. rettgeri MB-IIT strain could be advantageously used to degrade triclosan present in the wastewater.
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Affiliation(s)
- P Balakrishnan
- Environmental and Water Resources Engineering Division, Department of Civil Engineering, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India.
| | - S Mohan
- Environmental and Water Resources Engineering Division, Department of Civil Engineering, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India.
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Marques JGDC, Veríssimo KJDS, Fernandes BS, Ferreira SRDM, Montenegro SMGL, Motteran F. Glyphosate: A Review on the Current Environmental Impacts from a Brazilian Perspective. BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2021; 107:385-397. [PMID: 34142191 DOI: 10.1007/s00128-021-03295-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2020] [Accepted: 06/09/2021] [Indexed: 06/12/2023]
Abstract
The indiscriminate use of glyphosate is one of the main agricultural practices to combat weeds and grasses; however, its incorrect application increases soil and water contamination caused by the product. This situation is even more critical due to its great versatility for use in different cultivars and at lower prices, making it the most used pesticide in the world. Nevertheless, there is still a lack of in-depth studies regarding the damage that its use may cause. Therefore, this review focused on the analysis of environmental impacts at the soil-water interface caused by the use of glyphosate. In this sense, studies have shown that the intensive use of glyphosate has the potential to cause harmful effects on soil microorganisms, leading to changes in soil fertility and ecological imbalance, as well as impacts on aquatic environments derived from changes in the food chain. This situation is similar in Brazil, with the harmful effects of glyphosate in nontarget species and the contamination of the atmosphere. Therefore, it is necessary to change this scenario by modifying the type of pest control in agriculture, and actions such as crop rotation and biological control.
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Affiliation(s)
- Jonathas Gomes de Carvalho Marques
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil.
| | - Klayde Janny da Silva Veríssimo
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil
| | - Bruna Soares Fernandes
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil
| | - Silvio Romero de Melo Ferreira
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil
| | - Suzana Maria Gico Lima Montenegro
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil
| | - Fabrício Motteran
- Department of Civil Engineering, Federal University of Pernambuco - UFPE. Rua Acadêmico Hélio Ramos, s/n, Cidade Universitária, Recife, PE, 50740-530, Brazil
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Shi Y, Yang Z, Xing L, Zhou J, Ren J, Ming L, Hua Z, Li X, Zhang D. Ethanol as an efficient cosubstrate for the biodegradation of azo dyes by Providencia rettgeri: Mechanistic analysis based on kinetics, pathways and genomics. BIORESOURCE TECHNOLOGY 2021; 319:124117. [PMID: 32979594 DOI: 10.1016/j.biortech.2020.124117] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Revised: 09/06/2020] [Accepted: 09/08/2020] [Indexed: 06/11/2023]
Abstract
Azo dyes pose hazards to ecosystems and human health and the cosubstrate strategy has become the focus for the bioremediation of azo dyes. Herein, Brilliant Crocein (BC), a model pollutant, was biodegraded by Providencia rettgeri domesticated from activated sludge. Additional ethanol, as a cosubstrate, could accelerate P. rettgeri growth and BC biodegradation, as reflected by the Gompertz models. This phenomenon was attributed to the smaller metabolites and greater number of potential pathways observed under the synergistic effect of ethanol. Genomic analysis of P. rettgeri showed that functional genes related to azo bond cleavage, redox reactions, ring opening and hydrolysis played crucial roles in azo dye biodegradation. Furthermore, the mechanism proposed was that ethanol might stimulate the production of additional reducing power via the expression of related genes, leading to the cleavage of azo bonds and aromatic rings. However, biodegradation without ethanol could only partly cleave the azo bonds.
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Affiliation(s)
- Yaqi Shi
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Zonglin Yang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Lei Xing
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Jingru Zhou
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Jiaqi Ren
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Leiqiang Ming
- Air Liquide (China) R&D Co., Ltd., Shanghai 201108, PR China
| | - Zhiliang Hua
- Air Liquide (China) R&D Co., Ltd., Shanghai 201108, PR China
| | - Xianguo Li
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China
| | - Dahai Zhang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao 266100, Shandong, PR China.
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Ecophysiological Study of Paraburkholderia sp. Strain 1N under Soil Solution Conditions: Dynamic Substrate Preferences and Characterization of Carbon Use Efficiency. Appl Environ Microbiol 2020; 86:AEM.01851-20. [PMID: 33008817 PMCID: PMC7688210 DOI: 10.1128/aem.01851-20] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Accepted: 09/24/2020] [Indexed: 11/20/2022] Open
Abstract
We used time-resolved metabolic footprinting, an important technical approach used to monitor changes in extracellular compound concentrations during microbial growth, to study the order of substrate utilization (i.e., substrate preferences) and kinetics of a fast-growing soil isolate, Paraburkholderia sp. strain 1N. The growth of Paraburkholderia sp. 1N was monitored under aerobic conditions in a soil-extracted solubilized organic matter medium, representing a realistic diversity of available substrates and gradient of initial concentrations. We combined multiple analytical approaches to track over 150 compounds in the medium and complemented this with bulk carbon and nitrogen measurements, allowing estimates of carbon use efficiency throughout the growth curve. Targeted methods allowed the quantification of common low-molecular-weight substrates: glucose, 20 amino acids, and 9 organic acids. All targeted compounds were depleted from the medium, and depletion followed a sigmoidal curve where sufficient data were available. Substrates were utilized in at least three distinct temporal clusters as Paraburkholderia sp. 1N produced biomass at a cumulative carbon use efficiency of 0.43. The two substrates with highest initial concentrations, glucose and valine, exhibited longer usage windows, at higher biomass-normalized rates, and later in the growth curve. Contrary to hypotheses based on previous studies, we found no clear relationship between substrate nominal oxidation state of carbon (NOSC) or maximal growth rate and the order of substrate depletion. Under soil solution conditions, the growth of Paraburkholderia sp. 1N induced multiauxic substrate depletion patterns that could not be explained by the traditional paradigm of catabolite repression.IMPORTANCE Exometabolomic footprinting methods have the capability to provide time-resolved observations of the uptake and release of hundreds of compounds during microbial growth. Of particular interest is microbial phenotyping under environmentally relevant soil conditions, consisting of relatively low concentrations and modeling pulse input events. Here, we show that growth of a bacterial soil isolate, Paraburkholderia sp. 1N, on a dilute soil extract resulted in a multiauxic metabolic response, characterized by discrete temporal clusters of substrate depletion and metabolite production. Our data did not support the hypothesis that compounds with lower energy content are used preferentially, as each cluster contained compounds with a range of nominal oxidation states of carbon. These new findings with Paraburkholderia sp. 1N, which belongs to a metabolically diverse genus, provide insights on ecological strategies employed by aerobic heterotrophs competing for low-molecular-weight substrates in soil solution.
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