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Akram J, Hussain MU, Aslam A, Akhtar K, Anwar MA, Iqbal M, Hussain MT, Akhtar N. Genomic analysis and biodesulfurization potential of a new carbon-sulfur bond cleaving Tsukamurella sp. 3OW. Int Microbiol 2024:10.1007/s10123-024-00484-z. [PMID: 38286952 DOI: 10.1007/s10123-024-00484-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Revised: 01/08/2024] [Accepted: 01/14/2024] [Indexed: 01/31/2024]
Abstract
Direct combustion of sulfur-enriched liquid fuel oil causes sulfur oxide emission, which is one of the main contributors to air pollution. Biodesulfurization is a promising and eco-friendly method to desulfurize a wide range of thiophenic compounds present in fuel oil. Previously, numerous bacterial strains from genera such as Rhodococcus, Corynebacterium, Gordonia, Nocardia, Mycobacterium, Mycolicibacterium, Paenibacillus, Shewanella, Sphingomonas, Halothiobacillus, and Bacillus have been reported to be capable of desulfurizing model thiophenic compounds or fossil fuels. In the present study, we report a new desulfurizing bacterium, Tsukamurella sp. 3OW, capable of desulfurization of dibenzothiophene through the carbon-sulfur bond cleavage 4S pathway. The bacterium showed a high affinity for the hydrocarbon phase and broad substrate specificity towards various thiophenic compounds. The overall genome-related index analysis revealed that the bacterium is closely related to Tsukamurella paurometabola species. The genomic pool of strain 3OW contains 57 genes related to sulfur metabolism, including the key dszABC genes responsible for dibenzothiophene desulfurization. The DBT-adapted cells of the strain 3OW displayed significant resilience and viability in elevated concentrations of crude oil. The bacterium showed a 19 and 37% reduction in the total sulfur present in crude and diesel oil, respectively. Furthermore, FTIR analysis indicates that the oil's overall chemistry remained unaltered following biodesulfurization. This study implies that Tsukamurella paurometabola species, previously undocumented in the context of biodesulfurization, has good potential for application in the biodesulfurization of petroleum oils.
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Affiliation(s)
- Javeria Akram
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | - Muhammad Umar Hussain
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | - Asma Aslam
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | - Kalsoom Akhtar
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | - Munir Ahmad Anwar
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | - Mazhar Iqbal
- Health Biotechnology Division, National Institute for Biotechnology and Genetic Engineering, P. O. Box 577, Jhang Road, Faisalabad, Pakistan
| | | | - Nasrin Akhtar
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), P. O. Box 577, Jhang Road, Faisalabad, Pakistan.
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Nazari MT, Simon V, Machado BS, Crestani L, Marchezi G, Concolato G, Ferrari V, Colla LM, Piccin JS. Rhodococcus: A promising genus of actinomycetes for the bioremediation of organic and inorganic contaminants. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 323:116220. [PMID: 36116255 DOI: 10.1016/j.jenvman.2022.116220] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 08/16/2022] [Accepted: 09/06/2022] [Indexed: 06/15/2023]
Abstract
Rhodococcus is a genus of actinomycetes that has been explored by the scientific community for different purposes, especially for bioremediation uses. However, the mechanisms governing Rhodococcus-mediated bioremediation processes are far from being fully elucidated. In this sense, this work aimed to compile the recent advances in the use of Rhodococcus for the bioremediation of organic and inorganic contaminants present in different environmental compartments. We reviewed the bioremediation capacity and mechanisms of Rhodococcus spp. in the treatment of polycyclic aromatic hydrocarbons, phenolic substances, emerging contaminants, heavy metals, and dyes given their human health risks and environmental concern. Different bioremediation techniques were discussed, including experimental conditions, treatment efficiencies, mechanisms, and degradation pathways. The use of Rhodococcus strains in the bioremediation of several compounds is a promising approach due to their features, primarily the presence of appropriate enzyme systems, which result in high decontamination efficiencies; but that vary according to experimental conditions. Besides, the genus Rhodococcus contains a small number of opportunistic species and pathogens, representing an advantage from the point of view of safety. Advances in analytical detection techniques and Molecular Biology have been collaborating to improve the understanding of the mechanisms and pathways involved in bioremediation processes. In the context of using Rhodococcus spp. as bioremediation agents, there is a need for more studies that 1) evaluate the role of these actinomycetes on a pilot and field scale; 2) use genetic engineering tools and consortia with other microorganisms to improve the bioremediation efficiency; and 3) isolate new Rhodococcus strains from environments with extreme and/or contaminated conditions aiming to explore their adaptive capabilities for bioremediation purposes.
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Affiliation(s)
- Mateus Torres Nazari
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Viviane Simon
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Bruna Strieder Machado
- Faculty of Engineering and Architecture, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Larissa Crestani
- Graduate Program in Chemical Engineering (PPGEQ), Federal University of Santa Maria (UFSM), Santa Maria, RS, Brazil
| | - Giovana Marchezi
- Faculty of Engineering and Architecture, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Gustavo Concolato
- Faculty of Engineering and Architecture, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Valdecir Ferrari
- Graduate Program in Mining, Metallurgical and Materials Engineering (PPGE3M), Federal University of Rio Grande do Sul (UFRGS), Porto Alegre, RS, Brazil
| | - Luciane Maria Colla
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil.
| | - Jeferson Steffanello Piccin
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
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Dinamarca MA, Eyzaguirre J, Baeza P, Aballay P, Canales C, Ojeda J. A new functional biofilm biocatalyst for the simultaneous removal of dibenzothiophene and quinoline using Rhodococcus rhodochrous and curli amyloid overproducer mutants derived from Cobetia sp. strain MM1IDA2H-1. BIOTECHNOLOGY REPORTS (AMSTERDAM, NETHERLANDS) 2018; 20:e00286. [PMID: 30386734 PMCID: PMC6205334 DOI: 10.1016/j.btre.2018.e00286] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/05/2018] [Revised: 10/05/2018] [Accepted: 10/05/2018] [Indexed: 12/13/2022]
Abstract
Biocatalyst systems based on biofilms were developed to remove nitrogen and sulfur-containing heterocyclic hydrocarbons using Cobetia sp. strain MM1IDA2H-1 and Rhodococcus rhodochrous. The curli overproducers mutants CM1 and CM4 were derived from Cobetia sp. strain and used to build monostrain biofilms to remove quinoline; and together with R. rhodochrous to simultaneously remove quinoline and dibenzothiophene using mixed biofilms. The quinoline removal using biofilms were 96% and 97% using CM1 or CM4 curli overproducers respectively, whereas bacterial suspensions assays yielded 19% and 24% with the same strains. At the other hand, the simultaneous removal of quinoline and dibenzothiophene using mixed biofilms were respectively 50% and 58% using strains R. rhodochrous with CM1 and 75% and 50% using R. rhodochrous with CM4. Results show that biofilms were more efficient than bacterial suspension assays and that in mixed biofilms the shared surface area by two or more bacteria could affect the final yield.
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Affiliation(s)
- M Alejandro Dinamarca
- Centro de Microbio-Innovación (CMBi) Universidad de Valparaíso, Casilla, 5001, Valparaíso, Chile
| | - Johana Eyzaguirre
- Instituto de Química, Facultad de Ciencias, Pontificia Universidad Católica de Valparaíso Casilla 4059, Valparaíso, Chile
| | - Patricio Baeza
- Instituto de Química, Facultad de Ciencias, Pontificia Universidad Católica de Valparaíso Casilla 4059, Valparaíso, Chile
| | - Paulina Aballay
- Instituto de Química, Facultad de Ciencias, Pontificia Universidad Católica de Valparaíso Casilla 4059, Valparaíso, Chile
| | - Christian Canales
- Laboratorio de Ingeniería en Biotecnología, Facultad de Ingeniería y Tecnología, Universidad San Sebastián, Campus Las Tres Pascualas, Concepción, Lientur, 1457, Chile
| | - Juan Ojeda
- Escuela de Nutrición, Facultad de Farmacia, Universidad de Valparaíso, Casilla, 5001, Valparaíso, Chile
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Akhtar N, Akhtar K, Ghauri MA. Biodesulfurization of Thiophenic Compounds by a 2-Hydroxybiphenyl-Resistant Gordonia sp. HS126-4N Carrying dszABC Genes. Curr Microbiol 2017; 75:597-603. [PMID: 29264784 DOI: 10.1007/s00284-017-1422-8] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2017] [Accepted: 12/15/2017] [Indexed: 12/23/2022]
Abstract
Microorganisms can metabolize or transform a range of known chemical compounds present in fossil fuels by naturally having highly specific metabolic activities. In this context, the microbial desulfurization of fuels is an attractive and alternative process to the conventional hydrodesulfurization (HDS) process, since the thiophenic sulfur containing compounds such as dibenzothiophene (DBT) and benzothiophene (BT) cannot be removed by HDS. A DBT desulfurizing mesophilic bacterium, identified on the basis of 16S rRNA gene sequence as Gordonia sp. HS126-4N (source: periphery soil of a coal heap) has been evaluated for its biodesulfurization traits and potential to desulfurize the thiophenic compounds. The HPLC and LC/MS analyses of the metabolites produced from DBT desulfurization and PCR-based nucleotide sequence confirmation of the key desulfurizing genes (dszA/dszB/dszC) proved that HS126-4N could convert DBT to 2-hydroxybiphenyl (2-HBP) via the 4S pathway. The isolate could convert 0.2 mM of DBT to 2-HBP within 48 h and was reasonably tolerant against the inhibitory effect of 2-HBP (retained 70% of growth at 0.5 mM 2-HBP). The isolated biocatalyst desulfurized/degraded 100% of 0.2 mM of 4-methyl DBT, 2,8-dimethyl DBT, BT and 3-methyl BT within 108 h. The capabilities to survive and desulfurize a broad range of thiophenic sulfur containing substrates as well as less inhibition by the 2-HBP suggest that HS126-4N could be a potential candidate for improved biodesulfurization/organic sulfur removal from fossil fuels.
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Affiliation(s)
- Nasrin Akhtar
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering, Jhang Road, P.O. Box 577, Faisalabad, Pakistan.
| | - Kalsoom Akhtar
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering, Jhang Road, P.O. Box 577, Faisalabad, Pakistan
| | - Muhammad A Ghauri
- Industrial Biotechnology Division, National Institute for Biotechnology and Genetic Engineering, Jhang Road, P.O. Box 577, Faisalabad, Pakistan
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