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Ganesh Kumar A, Manisha D, Nivedha Rajan N, Sujitha K, Magesh Peter D, Kirubagaran R, Dharani G. Biodegradation of phenanthrene by piezotolerant Bacillus subtilis EB1 and genomic insights for bioremediation. MARINE POLLUTION BULLETIN 2023; 194:115151. [PMID: 37453166 DOI: 10.1016/j.marpolbul.2023.115151] [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: 11/15/2022] [Revised: 04/28/2023] [Accepted: 06/04/2023] [Indexed: 07/18/2023]
Abstract
A marine strain B. subtilis EB1, isolated from Equator water, showed excellent degradation towards a wide range of hydrocarbons. Degradation studies revealed dense growth with 93 % and 83 % removal of phenanthrene within 72 h at 0.1 and 20 MPa, respectively. The identification of phenanthrene degradation metabolites by GC-MS combined with its whole genome analysis provided the pathway involved in the degradation process. Whole genome sequencing indicated a genome size of 3,983,989 bp with 4331 annotated genes. The genome provided the genetic compartments, which includes monooxygenase, dioxygenase, dehydrogenase, biosurfactant synthesis catabolic genes for the biodegradation of aromatic compounds. Detailed COG and KEGG pathway analysis confirmed the genes involved in the oxygenation reaction of hydrocarbons, piezotolerance, siderophores, chemotaxis and transporter systems which were specific to adaptation for survival in extreme marine habitat. The results of this study will be a key to design an optimal bioremediation strategy for oil contaminated extreme marine environment.
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Affiliation(s)
- A Ganesh Kumar
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India.
| | - D Manisha
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
| | - N Nivedha Rajan
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
| | - K Sujitha
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
| | - D Magesh Peter
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
| | - R Kirubagaran
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
| | - G Dharani
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, Tamil Nadu, India
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Estupiñán M, Hernández I, Saitua E, Bilbao ME, Mendibil I, Ferrer J, Alonso-Sáez L. Novel Vibrio spp. Strains Producing Omega-3 Fatty Acids Isolated from Coastal Seawater. Mar Drugs 2020; 18:E99. [PMID: 32024040 PMCID: PMC7074563 DOI: 10.3390/md18020099] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 01/27/2020] [Accepted: 01/30/2020] [Indexed: 12/26/2022] Open
Abstract
Omega-3 long-chain polyunsaturated fatty acids (LC-PUFAs), such as eicosapentaenoic acid (EPA) (20:5n-3) and docosahexaenoic acid (DHA) (22:6n-3), are considered essential for human health. Microorganisms are the primary producers of omega-3 fatty acids in marine ecosystems, representing a sustainable source of these lipids, as an alternative to the fish industry. Some marine bacteria can produce LC-PUFAs de novo via the Polyunsaturated Fatty Acid (Pfa) synthase/ Polyketide Synthase (PKS) pathway, which does not require desaturation and elongation of saturated fatty acids. Cultivation-independent surveys have revealed that the diversity of microorganisms harboring a molecular marker of the pfa gene cluster (i.e., pfaA-KS domain) is high and their potential distribution in marine systems is widespread, from surface seawater to sediments. However, the isolation of PUFA producers from marine waters has been typically restricted to deep or cold environments. Here, we report a phenotypic and genotypic screening for the identification of omega-3 fatty acid producers in free-living bacterial strains isolated from 5, 500, and 1000 m deep coastal seawater from the Bay of Biscay (Spain). We further measured EPA production in pelagic Vibrio sp. strains collected at the three different depths. Vibrio sp. EPA-producers and non-producers were simultaneously isolated from the same water samples and shared a high percentage of identity in their 16S rRNA genes, supporting the view that the pfa gene cluster can be horizontally transferred. Within a cluster of EPA-producers, we found intraspecific variation in the levels of EPA synthesis for isolates harboring different genetic variants of the pfaA-KS domain. The maximum production of EPA was found in a Vibrio sp. strain isolated from a 1000 m depth (average 4.29% ± 1.07 of total fatty acids at 10 °C, without any optimization of culturing conditions).
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Affiliation(s)
- Mónica Estupiñán
- AZTI, Marine Research Division, Txatxarramendi Irla s/n, 48395 Sukarrieta, Spain; (M.E.); (M.E.B.); (I.M.)
| | - Igor Hernández
- AZTI, Food Research Division, Astondo Bidea, Building 609, 48160 Derio, Spain; (I.H.); (E.S.); (J.F.)
| | - Eduardo Saitua
- AZTI, Food Research Division, Astondo Bidea, Building 609, 48160 Derio, Spain; (I.H.); (E.S.); (J.F.)
| | - M. Elisabete Bilbao
- AZTI, Marine Research Division, Txatxarramendi Irla s/n, 48395 Sukarrieta, Spain; (M.E.); (M.E.B.); (I.M.)
| | - Iñaki Mendibil
- AZTI, Marine Research Division, Txatxarramendi Irla s/n, 48395 Sukarrieta, Spain; (M.E.); (M.E.B.); (I.M.)
| | - Jorge Ferrer
- AZTI, Food Research Division, Astondo Bidea, Building 609, 48160 Derio, Spain; (I.H.); (E.S.); (J.F.)
| | - Laura Alonso-Sáez
- AZTI, Marine Research Division, Txatxarramendi Irla s/n, 48395 Sukarrieta, Spain; (M.E.); (M.E.B.); (I.M.)
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Grabova GY, Dragovoz IV, Zelena LB, Ostapchuk AN, Avdeeva LV. Polyphasic taxonomic analysis of Bacillus sp. strain C6—the antagonist of phytopathogenic microorganisms. CYTOL GENET+ 2016. [DOI: 10.3103/s0095452716040046] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Zhdanov RI, Salafutdinov II, Arslan A, Ibragimova MY. New marker of FAME profile of Pseudomonas aurantiaca total lipids. DOKL BIOCHEM BIOPHYS 2012; 445:183-6. [PMID: 22941099 DOI: 10.1134/s1607672912040011] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2012] [Indexed: 11/23/2022]
Affiliation(s)
- R I Zhdanov
- Kazan Volga Federal University, Kazan, Tatarstan, Russia
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