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Ibbini J, Al-Kofahi S, Davis LC, Alrousan D, Elshebli M. Investigating the Potential of Fusarium solani and Phanerochaete chrysosporium in the Removal of 2,4,6-TNT. Appl Biochem Biotechnol 2024; 196:2713-2727. [PMID: 37782454 DOI: 10.1007/s12010-023-04735-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/15/2023] [Indexed: 10/03/2023]
Abstract
Past and recent applications of 2,4,6-trinitrotoluene (TNT) in military and civilian industries have led to contamination of soil and marine ecosystems. Among various TNT remediation techniques, biological remediation is widely accepted for its sustainability, low cost, and scalable applications. This study was designed to isolate a fungus strain from a TNT-contaminated soil to investigate its tolerance to and potential for removal of TNT. Thus, a soil column with a history of periodic TNT amendment was used to isolate dominant strains of fungi Fusarium solani isolate, which is not commonly reported for TNT mineralization and was found predominant in the subsurface layer of the TNT-amended soil. F. solani was investigated for TNT concentration tolerance at 30, 70, and 100 mg/L on agar plates and for TNT removal in liquid cultures at the same given concentrations. F. solani activity was compared with that of a reference soil-born fungus that has been intensively studied for TNT removal (Phanerochaete chrysosporium) obtained from the American Type Culture Collection. On agar media, F. solani showed a larger colony diameter than P. chrysosporium at similar TNT concentrations, indicating its high potential to tolerate toxic levels of TNT as found in contaminated sites. In the liquid culture medium, F. solani was able to significantly produce higher biomass than P. chrysosporium in all TNT concentrations. The TNT removal percentage from the liquid culture at the highest TNT concentration of 100 mg/L reached about 85% with F. solani, while P. chrysosporium was no better than 25% at the end of an 84-h incubation period. Results indicate a significant potential of using F. solani in the bioremediation of polluted TNT soils that overcome the high concentration barrier in the field. However, further investigation is needed to identify enzymatic potential and the most effective applications and possible limitations of this method on a large scale.
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Affiliation(s)
- Jwan Ibbini
- Department of Land Management and Environment, Prince El-Hassan Bin Talal Faculty of Natural Resources and Environment, The Hashemite University, Zarqa, Jordan
| | - Salman Al-Kofahi
- Department of Land Management and Environment, Prince El-Hassan Bin Talal Faculty of Natural Resources and Environment, The Hashemite University, Zarqa, Jordan
| | - Lawrence C Davis
- Department of Biochemistry, Kansas State University, Manhattan, KS, USA
| | - Dheaya Alrousan
- Department of Water Management and Environment, Prince El-Hassan Bin Talal Faculty of Natural Resources and Environment, The Hashemite University, Zarqa, Jordan
| | - Marwa Elshebli
- Boone Pickens School of Geology, Oklahoma State University, Stillwater, OK, USA.
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Corredor D, Duchicela J, Flores FJ, Maya M, Guerron E. Review of Explosive Contamination and Bioremediation: Insights from Microbial and Bio-Omic Approaches. TOXICS 2024; 12:249. [PMID: 38668472 PMCID: PMC11053648 DOI: 10.3390/toxics12040249] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Revised: 01/07/2024] [Accepted: 01/28/2024] [Indexed: 04/29/2024]
Abstract
Soil pollution by TNT(2,4,6-trinitrotoluene), RDX(hexahydro-1,3,5-trinitro-1,3,5-triazacyclohexane), and HMX(octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine), resulting from the use of explosives, poses significant challenges, leading to adverse effects such as toxicity and alteration of microbial communities. Consequently, there is a growing need for effective bioremediation strategies to mitigate this damage. This review focuses on Microbial and Bio-omics perspectives within the realm of soil pollution caused by explosive compounds. A comprehensive analysis was conducted, reviewing 79 articles meeting bibliometric criteria from the Web of Science and Scopus databases from 2013 to 2023. Additionally, relevant patents were scrutinized to establish a comprehensive research database. The synthesis of these findings serves as a critical resource, enhancing our understanding of challenges such as toxicity, soil alterations, and microbial stress, as well as exploring bio-omics techniques like metagenomics, transcriptomics, and proteomics in the context of environmental remediation. The review underscores the importance of exploring various remediation approaches, including mycorrhiza remediation, phytoremediation, bioaugmentation, and biostimulation. Moreover, an examination of patented technologies reveals refined and efficient processes that integrate microorganisms and environmental engineering. Notably, China and the United States are pioneers in this field, based on previous successful bioremediation endeavors. This review underscores research's vital role in soil pollution via innovative, sustainable bioremediation for explosives.
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Affiliation(s)
- Daniel Corredor
- Departamento de Ciencias de la Vida y la Agricultura, Universidad de las Fuerzas Armadas, ESPE, Sangolqui 171103, Ecuador;
| | - Jessica Duchicela
- Departamento de Ciencias de la Vida y la Agricultura, Universidad de las Fuerzas Armadas, ESPE, Sangolqui 171103, Ecuador;
| | - Francisco J. Flores
- Departamento de Ciencias de la Vida y la Agricultura, Universidad de las Fuerzas Armadas, ESPE, Sangolqui 171103, Ecuador;
- Centro de Investigación de Alimentos, CIAL, Facultad de Ciencias de la Ingeniería e Industrias, Universidad UTE, Quito 170147, Ecuador
| | - Maribel Maya
- Departamento de Ciencias Económicas, Administrativas y de Comercio, Universidad de las Fuerzas Armadas, ESPE, Sangolqui 171103, Ecuador;
| | - Edgar Guerron
- Departamento de Ciencias Exactas, Universidad de las Fuerzas Armadas, ESPE, Sangolqui 171103, Ecuador;
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Gupta S, Goel SS, Ramanathan G, Ronen Z. Biotransformation of 2,4,6-trinitrotoluene by Diaphorobacter sp. strain DS2. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:120749-120762. [PMID: 37943434 DOI: 10.1007/s11356-023-30651-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Accepted: 10/20/2023] [Indexed: 11/10/2023]
Abstract
Diaphorobacter strain DS2 degrades 3-nitrotoluene and 2-nitrotoluene via ring oxidation with 3-nitrotoluene dioxygenase (3NTDO). In the current study, we hypothesized that 3NTDO might also be involved in the degradation of 2,4,6-trinitrotoluene (TNT), a major nitroaromatic explosive contaminant in soil and groundwater. Strain DS2 transforms TNT as a sole carbon and nitrogen source when grown on it. Ammonium chloride and succinate in the medium accelerated the TNT degradation rate. A resting cell experiment suggested that TNT does not compete with 3NT degradation (no negative impact of TNT on the reaction velocity for 3NT). Enzyme assay with 3NTDO did not exhibit TNT transformation activity. The above results confirmed that 3NTDO of DS2 is not responsible for TNT degradation. In the resting cell experiment, within 10 h, 4ADNT completely degraded. The degradation of 2ADNT was 97% at the same time. We hypothesized that 3NTDO involve in this reaction. Based on the DS2 genome, we proposed that the N-ethylmaleimide reductases (nemA) were involved in the initial reduction of the nitro group and aromatic ring of TNT. Our findings suggest that strain DS2 could be helpful for the removal of TNT from contaminated sites with or without any additional carbon and nitrogen source and with minimal accumulation of undesirable intermediates.
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Affiliation(s)
- Swati Gupta
- Department of Environmental Hydrology and Microbiology, The Zuckerberg Institute for Water Research, The Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Sde Boker Campus 8490000, Be'er Sheva, Israel
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Shikhar S Goel
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Gurunath Ramanathan
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Zeev Ronen
- Department of Environmental Hydrology and Microbiology, The Zuckerberg Institute for Water Research, The Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Sde Boker Campus 8490000, Be'er Sheva, Israel.
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Yin ML, Zhao SP, Lai JL, Yang X, Dong B, Zhu YB, Zhang Y. Oxygen-insensitive nitroreductase bacteria-mediated degradation of TNT and proteomic analysis. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:116227-116238. [PMID: 37907824 DOI: 10.1007/s11356-023-30568-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Accepted: 10/16/2023] [Indexed: 11/02/2023]
Abstract
2,4,6-trinitrotoluene (TNT) is a nitroaromatic compound that causes soil and groundwater pollution during manufacture, transportation, and use, posing significant environmental and safety hazards. In this study, a TNT-degrading strain, Bacillus cereus strain T4, was screened and isolated from TNT-contaminated soil to explore its degradation characteristics and proteomic response to TNT. The results showed that after inoculation with the bacteria for 4 h, the TNT degradation rate reached 100% and was transformed into 2-amino-4,6-dinitrotoluene (2-ADNT), 4-amino-2,6-dinitrotoluene (4-ADNT), 2,4-diamino-6-nitrotoluene (2,4-DANT), and 2,6-diamino-4-nitrotoluene (2,6-DANT), accompanied by the accumulation of nitrite and ammonium ions. Through proteomic sequencing, we identified 999 differentially expressed proteins (482 upregulated, 517 downregulated), mainly enriched in the pentose phosphate, glycolysis/gluconeogenesis, and amino acid metabolism pathways. In addition, the significant upregulation of nitroreductase and N-ethylmaleimide reductase was closely related to TNT denitration and confirmed that the strain T4 converted TNT into intermediate metabolites such as 2-ADNT and 4-ADNT. Therefore, Bacillus cereus strain T4 has the potential to degrade TNT and has a high tolerance to intermediate products, which may effectively degrade nitroaromatic pollutants such as TNT in situ remediation in combination with other bacterial communities.
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Affiliation(s)
- Mao-Ling Yin
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China
- School of Life Science and Engineering, Southwest University of Science and Technology, Mianyang, 621010, China
| | - San-Ping Zhao
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China.
| | - Jin-Long Lai
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China
| | - Xu Yang
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China
| | - Bin Dong
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China
| | - Yong-Bing Zhu
- State Key Laboratory of NBC Protection for Civilian, Beijing, 102205, China
| | - Yu Zhang
- School of Life Science and Engineering, Southwest University of Science and Technology, Mianyang, 621010, China
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Yakovleva G, Kurdy W, Gorbunova A, Khilyas I, Lochnit G, Ilinskaya O. Bacillus pumilus proteome changes in response to 2,4,6-trinitrotoluene-induced stress. Biodegradation 2022; 33:593-607. [PMID: 35980495 DOI: 10.1007/s10532-022-09997-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Accepted: 08/08/2022] [Indexed: 11/24/2022]
Abstract
2,4,6-Trinitrotoluene (TNT) is the most widely used nitroaromatic compound and is highly resistant to degradation. Most aerobic microorganisms reduce TNT to amino derivatives via formation of nitroso- and hydroxylamine intermediates. Although pathways of TNT degradation are well studied, proteomic analysis of TNT-degrading bacteria was done only for some individual Gram-negative strains. Here, we isolated a Gram-positive strain from TNT-contaminated soil, identified it as Bacillus pumilus using 16S rRNA sequencing, analyzed its growth, the level of TNT transformation, ROS production, and revealed for the first time the bacillary proteome changes at toxic concentration of TNT. The transformation of TNT at all studied concentrations (20-200 mg/L) followed the path of nitro groups reduction with the formation of 4-amino-2,6-dinitrotoluene. Hydrogen peroxide production was detected during TNT transformation. Comparative proteomic analysis of B. pumilus showed that TNT (200 mg/L) inhibited expression of 46 and induced expression of 24 proteins. Among TNT upregulated proteins are those which are responsible for the reductive pathway of xenobiotic transformation, removal of oxidative stress, DNA repair, degradation of RNA and cellular proteins. The production of ribosomal proteins, some important metabolic proteins and proteins involved in cell division are downregulated by this xenobiotic.
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Affiliation(s)
- Galina Yakovleva
- Microbiology Department, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kremlevskaya St., 18, Tatarstan, Kazan, Russia, 420008
| | - William Kurdy
- Microbiology Department, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kremlevskaya St., 18, Tatarstan, Kazan, Russia, 420008
| | - Anna Gorbunova
- Microbiology Department, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kremlevskaya St., 18, Tatarstan, Kazan, Russia, 420008
| | - Irina Khilyas
- Microbiology Department, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kremlevskaya St., 18, Tatarstan, Kazan, Russia, 420008
| | - Guenter Lochnit
- Protein Analytics, Institute of Biochemistry, Faculty of Medicine, Justus Liebig University Giessen, Friedrichstrasse 24, Giessen, Germany, 35392
| | - Olga Ilinskaya
- Microbiology Department, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kremlevskaya St., 18, Tatarstan, Kazan, Russia, 420008.
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Kolhe N, Damle E, Pradhan A, Zinjarde S. A comprehensive assessment of Yarrowia lipolytica and its interactions with metals: Current updates and future prospective. Biotechnol Adv 2022; 59:107967. [PMID: 35489656 DOI: 10.1016/j.biotechadv.2022.107967] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Revised: 04/22/2022] [Accepted: 04/22/2022] [Indexed: 11/16/2022]
Abstract
The non-conventional yeast Yarrowia lipolytica has been popular as a model system for understanding biological processes such as dimorphism and lipid accumulation. The organism can efficiently utilize hydrophobic substrates (hydrocarbons and triglycerides) thereby rendering it relevant in bioremediation of oil polluted environments. The current review focuses on the interactions of this fungus with metal pollutants and its potential application in bioremediation of metal contaminated locales. This fungus is intrinsically equipped with a variety of physiological and biochemical features that enable it to tide over stress conditions induced by the presence of metals. Production of enzymes such as phosphatases, reductases and superoxide dismutases are worth a special mention. In the presence of metals, levels of inherently produced metal binding proteins (metallothioneins) and the pigment melanin are seen to be elevated. Morphological alterations with respect to biofilm formation and dimorphic transition from yeast to mycelial form are also induced by certain metals. The biomass of Y. lipolytica is inherently important as a biosorbent and cell surface modification, process optimization or whole cell immobilization techniques have aided in improving this capability. In the presence of metals such as mercury, cadmium, copper and uranium, the culture forms nanoparticulate deposits. In addition, on account of its intrinsic reductive ability, Y. lipolytica is being exploited for synthesizing nanoparticles of gold, silver, cadmium and selenium with applications as antimicrobial compounds, location agents for bioimaging and as feed supplements. This versatile organism thus has great potential in interacting with various metals and addressing problems related to their pollutant status.
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Affiliation(s)
- Nilesh Kolhe
- Department of Biotechnology (with jointly merged Institute of Bioinformatics and Biotechnology), Savitribai Phule Pune University, Pune 411007, India
| | - Eeshan Damle
- Department of Biotechnology (with jointly merged Institute of Bioinformatics and Biotechnology), Savitribai Phule Pune University, Pune 411007, India
| | - Aditya Pradhan
- Department of Biotechnology (with jointly merged Institute of Bioinformatics and Biotechnology), Savitribai Phule Pune University, Pune 411007, India
| | - Smita Zinjarde
- Department of Biotechnology (with jointly merged Institute of Bioinformatics and Biotechnology), Savitribai Phule Pune University, Pune 411007, India.
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7
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Degradation of 2,4,6-Trinitrotoluene (TNT): Involvement of Protocatechuate 3,4-Dioxygenase (P34O) in Buttiauxella sp. S19-1. TOXICS 2021; 9:toxics9100231. [PMID: 34678927 PMCID: PMC8540567 DOI: 10.3390/toxics9100231] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Revised: 09/13/2021] [Accepted: 09/17/2021] [Indexed: 11/22/2022]
Abstract
Extensive use and disposal of 2,4,6-trinitrotoluene (TNT), a primary constituent of explosives, pollutes the environment and causes severe damage to human health. Complete mineralization of TNT via bacterial degradation has recently gained research interest as an effective method for the restoration of contaminated sites. Here, screening for TNT degradation by six selected bacteria revealed that Buttiauxella sp. S19-1, possesses the strongest degrading ability. Moreover, BuP34O (a gene encoding for protocatechuate 3,4-dioxygenase—P34O, a key enzyme in the β-ketoadipate pathway) was upregulated during TNT degradation. A knockout of BuP34O in S19-1 to generate S-M1 mutant strain caused a marked reduction in TNT degradation efficiency compared to S19-1. Additionally, the EM1 mutant strain (Escherichia coli DH5α transfected with BuP34O) showed higher degradation efficiency than DH5α. Gas chromatography mass spectrometry (GC-MS) analysis of TNT degradation by S19-1 revealed 4-amino-2,6-dinitrotolune (ADNT) as the intermediate metabolite of TNT. Furthermore, the recombinant protein P34O (rP34O) expressed the activity of 2.46 µmol/min·mg. Our findings present the first report on the involvement of P34O in bacterial degradation of TNT and its metabolites, suggesting that P34O could catalyze downstream reactions in the TNT degradation pathway. In addition, the TNT-degrading ability of S19-1, a Gram-negative marine-derived bacterium, presents enormous potential for restoration of TNT-contaminated seas.
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Bilal M, Bagheri AR, Bhatt P, Chen S. Environmental occurrence, toxicity concerns, and remediation of recalcitrant nitroaromatic compounds. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 291:112685. [PMID: 33930637 DOI: 10.1016/j.jenvman.2021.112685] [Citation(s) in RCA: 47] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2021] [Revised: 04/16/2021] [Accepted: 04/18/2021] [Indexed: 06/12/2023]
Abstract
Nitroaromatic compounds (NACs) are considered important groups of chemicals mainly produced by human and industrial activities. The large-scale application of these xenobiotics creates contamination of the water and soil environment. Despite applicability, NACs have been caused severe hazardous side effects in animals and human systems like different cancers, anemia, skin irritation, liver damage and mutagenic effects. The effective remediation of the NACs from the environment is a significant concern. Researchers have implemented physicochemical and biological methods for the remediation of NACs from the environment. Most of the applied methods are based on adsorption and degradation approaches. Among these methods, degradation is considered a versatile method for the subsequent removal of NACs due to its exceptional properties like simplicity, easy operation, cost-effectiveness, and availability. Most importantly, the degradation process does not generate hazardous side products and wastes compared to other methods. Hence, the importance of NACs, their remediation, and supreme attributes of the degradation method have encouraged us to review the recent progress and development for the removal of these perilous materials using degradation as a versatile method. Therefore, in this review, (i) NACs, physicochemical properties, and their hazardous side effects on humans and animals are discussed; (ii) Physicochemical methods, microbial, anaerobic bioremediation, mycoremediation, and aerobic degradation approaches for the degradation of NACs were thoroughly vetted; (iii) The possible mechanisms for degradation of NACs were investigated and discussed. (iv) The applied kinetic models for evaluation of the rate of degradation were also assessed and discussed. Finally, (vi) current challenges and future prospects of proposed methods for degradation and removal of NACs were also directed.
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Affiliation(s)
- Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China.
| | | | - Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China.
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China.
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Yuri Kim, Ponomarev AV, Ershov BG. Electron-Beam Water Cleaning from 2,4,6-Trinitrotoluene and Hexahydro-1,3,5-Trinitro-1,3,5-Triazine. HIGH ENERGY CHEMISTRY 2020. [DOI: 10.1134/s0018143920050094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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10
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Rylott EL, Bruce NC. Right on target: using plants and microbes to remediate explosives. INTERNATIONAL JOURNAL OF PHYTOREMEDIATION 2019; 21:1051-1064. [PMID: 31056922 DOI: 10.1080/15226514.2019.1606783] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
While the immediate effect of explosives in armed conflicts is frequently in the public eye, until recently, the insidious, longer-term corollaries of these toxic compounds in the environment have gone largely unnoticed. Now, increased public awareness and concern are factors behind calls for more effective remediation solutions to these global pollutants. Scientists have been working on bioremediation projects in this area for several decades, characterizing genes, biochemical detoxification pathways, and field-applicable plant species. This review covers the progress made in understanding the fundamental biochemistry behind the detoxification of explosives, including new shock-insensitive explosive compounds; how field-relevant plant species have been characterized and genetically engineered; and the major roles that endophytic and rhizospheric microorganisms play in the detoxification of organic pollutants such as explosives.
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Affiliation(s)
- Elizabeth L Rylott
- Centre for Novel Agricultural Products, Department of Biology, University of York , York , UK
| | - Neil C Bruce
- Centre for Novel Agricultural Products, Department of Biology, University of York , York , UK
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Larroude M, Rossignol T, Nicaud JM, Ledesma-Amaro R. Synthetic biology tools for engineering Yarrowia lipolytica. Biotechnol Adv 2018; 36:2150-2164. [PMID: 30315870 PMCID: PMC6261845 DOI: 10.1016/j.biotechadv.2018.10.004] [Citation(s) in RCA: 93] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2018] [Revised: 09/11/2018] [Accepted: 10/07/2018] [Indexed: 12/15/2022]
Abstract
The non-conventional oleaginous yeast Yarrowia lipolytica shows great industrial promise. It naturally produces certain compounds of interest but can also artificially generate non-native metabolites, thanks to an engineering process made possible by the significant expansion of a dedicated genetic toolbox. In this review, we present recently developed synthetic biology tools that facilitate the manipulation of Y. lipolytica, including 1) DNA assembly techniques, 2) DNA parts for constructing expression cassettes, 3) genome-editing techniques, and 4) computational tools.
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Affiliation(s)
- M Larroude
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - T Rossignol
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - J-M Nicaud
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - R Ledesma-Amaro
- Department of Bioengineering and Imperial College Centre for Synthetic Biology, Imperial College London, London, United Kingdom.
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