Obligate oil-degrading marine bacteria

Yakimov, Michail M.; Timmis, Kenneth N.; Golyshin, Peter N.

doi:10.1016/j.copbio.2007.04.006

Cited by 772 publications

(557 citation statements)

References 64 publications

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“…Drawing together our results showing the ability of Cycloclasticus strain TK-8 to degrade hydrocarbons, the observed dominance of highly similar Cycloclasticus sequences in clone libraries constructed from 13 C-enriched DNA (from phenanthrene and naphthalene enrichments), and the dominance of this genus in the surface oil slick pyrosequence library, it is clear that Cycloclasticus (strain TK-8 as cultured representative) had a major role in the degradation of aromatic hydrocarbons in surface waters. This concurs with the fact that members belonging to this genus are recognised for their distinct specialisation in degrading aromatic hydrocarbons almost exclusively as a sole source of carbon and energy (Head et al, 2006;Yakimov et al, 2007). Enrichment of these sequences in the plume pyrosequencing libraries indicates that Cycloclasticus may have also contributed significantly to the degradation of aromatic hydrocarbons in deeper waters.…”

Section: Discussionsupporting

confidence: 58%

“…isolated in this study, strain TY5, accounting for 50%, 41% and 25% of total Alcanivorax reads in the C4B8, C4B4 and GIP22 libraries. Marinobacter is a monophyletic group of hydrocarbon-degrading bacteria that are commonly found enriched at marine oil-impacted sites (Head et al, 2006;Yakimov et al, 2007). However, like Alcanivorax, members of this group were poorly represented across all the pyrosequence libraries (0-0.79%, Table 3).…”

Section: Stable-isotope Probing Of the Gulf Oil Spill T Gutierrez Et Almentioning

confidence: 99%

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Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

et al. 2013

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The massive influx of crude oil into the Gulf of Mexico during the Deepwater Horizon (DWH) disaster triggered dramatic microbial community shifts in surface oil slick and deep plume waters. Previous work had shown several taxa, notably DWH Oceanospirillales, Cycloclasticus and Colwellia, were found to be enriched in these waters based on their dominance in conventional clone and pyrosequencing libraries and were thought to have had a significant role in the degradation of the oil. However, this type of community analysis data failed to provide direct evidence on the functional properties, such as hydrocarbon degradation of organisms. Using DNA-based stable-isotope probing with uniformly 13 C-labelled hydrocarbons, we identified several aliphatic (Alcanivorax, Marinobacter)-and polycyclic aromatic hydrocarbon (Alteromonas, Cycloclasticus, Colwellia)-degrading bacteria. We also isolated several strains (Alcanivorax, Alteromonas, Cycloclasticus, Halomonas, Marinobacter and Pseudoalteromonas) with demonstrable hydrocarbon-degrading qualities from surface slick and plume water samples collected during the active phase of the spill. Some of these organisms accounted for the majority of sequence reads representing their respective taxa in a pyrosequencing data set constructed from the same and additional water column samples. Hitherto, Alcanivorax was not identified in any of the previous water column studies analysing the microbial response to the spill and we discuss its failure to respond to the oil. Collectively, our data provide unequivocal evidence on the hydrocarbondegrading qualities for some of the dominant taxa enriched in surface and plume waters during the DWH oil spill, and a more complete understanding of their role in the fate of the oil.

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Section: Discussionsupporting

confidence: 58%

Section: Stable-isotope Probing Of the Gulf Oil Spill T Gutierrez Et Almentioning

confidence: 99%

Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

et al. 2013

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“…Three typical marine hydrocarbonoclastic bacteria, i.e. Alcinovorax and Oleispira (Yakimov et al 2007), only grew in oil-treated sub-ice seawater microcosms, as well as Sulfitobacter, a sulfite-oxidizing Alphaproteobacteria bacterium. This genera was also obtained in beach sands in the Gulf of Mexico after the Deepwater Horizon oil spill (Kostka et al 2011).…”

Section: Microbial Response To Oil Exposurementioning

confidence: 99%

Hydrocarbon biodegradation by Arctic sea-ice and sub-ice microbial communities during microcosm experiments, Northwest Passage (Nunavut, Canada)

Garneau

Michel

Meisterhans

et al. 2016

FEMS Microbiology Ecology

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Vous avez des questions? Nous pouvons vous aider. Pour communiquer directement avec un auteur, consultez la première page de la revue dans laquelle son article a été publié afin de trouver ses coordonnées. Si vous n'arrivez pas à les repérer, communiquez avec nous à PublicationsArchive-ArchivesPublications@nrc-cnrc.gc.ca. Questions? Contact the NRC Publications Archive team atPublicationsArchive-ArchivesPublications@nrc-cnrc.gc.ca. If you wish to email the authors directly, please see the first page of the publication for their contact information. NRC Publications Archive Archives des publications du CNRCThis publication could be one of several versions: author's original, accepted manuscript or the publisher's version. / La version de cette publication peut être l'une des suivantes : la version prépublication de l'auteur, la version acceptée du manuscrit ou la version de l'éditeur. NRC Publications Record / Notice d'Archives des publications de CNRC:http://nparc.cisti-icist.nrc-cnrc.gc.ca/eng/view/object/?id=7c0aa52f-edde-4536-bc0b-f3df34a692ee http://nparc.cisti-icist.nrc-cnrc.gc.ca/fra/voir/objet/?id=7c0aa52f-edde-4536-bc0b-f3df34a692ee AbstractThe increasing accessibility to navigation and offshore oil exploration brings risks of hydrocarbon releases in Arctic waters. Bioremediation of hydrocarbons is a promising mitigation strategy but challenges remain, particularly due to low microbial metabolic rates in cold, ice-covered seas.Hydrocarbon degradation potential of ice-associated microbes collected from the Northwest Passage was investigated. Microcosm incubations were run for 15 days at -1.7°C with and without oil to determine the effects of hydrocarbon exposure on microbial abundance, diversity and activity, and to estimate component-specific hydrocarbon loss. Diversity was assessed with automated ribosomal intergenic spacer analysis and ion torrent 16S rRNA gene sequencing. Bacterial activity was measured by 3 H-leucine uptake rates. After incubation, sub-ice and sea-ice communities degraded 94% and 48% of the initial hydrocarbons, respectively. Hydrocarbon exposure changed the composition of sea-ice and sub-ice communities; in sea-ice microcosms, Bacteroidetes (mainly Polaribacter) dominated whereas in sub-ice microcosms, Epsilonproteobacteria contribution increased, but that of Alphaproteobacteria and Bacteroidetes decreased. Sequencing data revealed a decline in diversity and increases in Colwellia and Moritella in oil-treated microcosms. Low concentration of dissolved organic matter (DOM) in sub-ice seawater may explain higher hydrocarbon degradation when compared to sea ice, where DOM was abundant and composed of labile exopolysaccharides.

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“…Despite large number of enriched microbes possessing hydrocarbon degradative abilities has been isolated from pollution sites, however, most were unable to adapt to field environment, rendering their application useless (Yakimov et al 2007). One of the ways to increase survival of bacteria in field application is by immobilising these bacterial cells onto suitable carrier.…”

Section: Introductionmentioning

confidence: 99%

Self-immobilised bacterial consortium culture as ready-to-use seed for crude oil bioremediation under various saline conditions and seawater

Kee

Hazaimeh

Mutalib

et al. 2014

Int. J. Environ. Sci. Technol.

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Biodegradation of crude oil hydrocarbon by microorganisms in seawater is generally slow because of the harsh environmental condition due to high salinity. The aim of this study was to compare sawdust (SD) and oil palm empty fruit bunch wastes as suitable carrier material to immobilise hydrocarbon-degrading bacterial consortium culture to accelerate and improve crude oil degradation in seawater. The consortium culture was found able to tolerate salinity up to 3 %, where the degradation of crude oil was not inhibited (p [ 0.05). In artificial seawater, suspension of bacterial consortium culture was able to degrade 83.3 ± 3.00 % of crude oil within 8 weeks, which indicated the possibility of using consortium culture in seawater. When tested in seawater, suspension of consortium culture managed to degrade 47.7 ± 1.53 % of crude oil in 8 weeks. In order to improve the performance of consortium culture, immobilisation of consortium culture onto SD and oil palm empty fruit bunch was successfully undertaken when formation of biofilm layers was observed under scanning electron microscope. Immobilising consortium culture onto oil palm empty fruit bunch and SD was shown to increase crude oil biodegradation to 68.7 ± 4.04 and 62.3 ± 5.51 % in 8 weeks, respectively. This study demonstrated immobilisation of consortium culture onto SD and oil palm empty fruit bunch can be utilised as ready-touse seeds to improve and accelerate crude oil biodegradation in seawater.

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Obligate oil-degrading marine bacteria

Cited by 772 publications

References 64 publications

Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

Hydrocarbon biodegradation by Arctic sea-ice and sub-ice microbial communities during microcosm experiments, Northwest Passage (Nunavut, Canada)

Self-immobilised bacterial consortium culture as ready-to-use seed for crude oil bioremediation under various saline conditions and seawater

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