Marine Oil-Degrading Microorganisms and Biodegradation Process of Petroleum Hydrocarbon in Marine Environments: A Review

Xue, Junmin; Yu, Yanchong; Bai, Yu; Wang, Liping; Wu, Yanan

doi:10.1007/s00284-015-0825-7

Cited by 206 publications

(96 citation statements)

References 73 publications

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“…8a,b and S Tables 3, 4 and 5). Based on previous studies of relatively lower oil biodegradation in deep ocean DWH oil spill 2–4, 16–19 and strong stratification of microbial community in E. Med. by depth and nutrient 6, 24 , we hypothesized that microbial community in shallower E. Med.…”

Section: Resultsmentioning

confidence: 99%

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Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil

Liu

Techtmann

Woo

et al. 2017

Sci Rep

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Deep marine oil spills like the Deepwater Horizon (DWH) in the Gulf of Mexico have the potential to drastically impact marine systems. Crude oil contamination in marine systems remains a concern, especially for countries around the Mediterranean Sea with off shore oil production. The goal of this study was to investigate the response of indigenous microbial communities to crude oil in the deep Eastern Mediterranean Sea (E. Med.) water column and to minimize potential bias associated with storage and shifts in microbial community structure from sample storage. 16S rRNA amplicon sequencing was combined with GeoChip metagenomic analysis to monitor the microbial community changes to the crude oil and dispersant in on-ship microcosms set up immediately after water collection. After 3 days of incubation at 14 °C, the microbial communities from two different water depths: 824 m and 1210 m became dominated by well-known oil degrading bacteria. The archaeal population and the overall microbial community diversity drastically decreased. Similarly, GeoChip metagenomic analysis revealed a tremendous enrichment of genes related to oil biodegradation, which was consistent with the results from the DWH oil spill. These results highlight a rapid microbial adaption to oil contamination in the deep E. Med., and indicate strong oil biodegradation potential.

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Section: Resultsmentioning

confidence: 99%

“…This in turn has increased the probability of oil spills in the oceans 1 . Crude oil can be a serious contaminant in the marine environment 2, 3 . Prior to the DWH oil spill of 2010 in the Gulf of Mexico (GOM), few studies investigated the impact of oil contamination in the deep ocean.…”

Section: Introductionmentioning

confidence: 99%

Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil

Liu

Techtmann

Woo

et al. 2017

Sci Rep

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“…Bioremediation is a useful tool for the treatment of PHC contaminated terrestrial and marine ecosystems (Atlas, 1995; Atlas and Cerniglia, 1995; Almeida et al, 2013; Xue et al, 2015; Scoma et al, 2016; Wang et al, 2016). Accession to PHC substrates while regulating toxic effects is the first hurdle that must be overcome for a microorganism to exploit these energy-rich molecules for growth and energy production.…”

Section: Bioremediation Of Petroleum Hydrocarbonsmentioning

confidence: 99%

The Interaction between Plants and Bacteria in the Remediation of Petroleum Hydrocarbons: An Environmental Perspective

et al. 2016

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Widespread pollution of terrestrial ecosystems with petroleum hydrocarbons (PHCs) has generated a need for remediation and, given that many PHCs are biodegradable, bio- and phyto-remediation are often viable approaches for active and passive remediation. This review focuses on phytoremediation with particular interest on the interactions between and use of plant-associated bacteria to restore PHC polluted sites. Plant-associated bacteria include endophytic, phyllospheric, and rhizospheric bacteria, and cooperation between these bacteria and their host plants allows for greater plant survivability and treatment outcomes in contaminated sites. Bacterially driven PHC bioremediation is attributed to the presence of diverse suites of metabolic genes for aliphatic and aromatic hydrocarbons, along with a broader suite of physiological properties including biosurfactant production, biofilm formation, chemotaxis to hydrocarbons, and flexibility in cell-surface hydrophobicity. In soils impacted by PHC contamination, microbial bioremediation generally relies on the addition of high-energy electron acceptors (e.g., oxygen) and fertilization to supply limiting nutrients (e.g., nitrogen, phosphorous, potassium) in the face of excess PHC carbon. As an alternative, the addition of plants can greatly improve bioremediation rates and outcomes as plants provide microbial habitats, improve soil porosity (thereby increasing mass transfer of substrates and electron acceptors), and exchange limiting nutrients with their microbial counterparts. In return, plant-associated microorganisms improve plant growth by reducing soil toxicity through contaminant removal, producing plant growth promoting metabolites, liberating sequestered plant nutrients from soil, fixing nitrogen, and more generally establishing the foundations of soil nutrient cycling. In a practical and applied sense, the collective action of plants and their associated microorganisms is advantageous for remediation of PHC contaminated soil in terms of overall cost and success rates for in situ implementation in a diversity of environments. Mechanistically, there remain biological unknowns that present challenges for applying bio- and phyto-remediation technologies without having a deep prior understanding of individual target sites. In this review, evidence from traditional and modern omics technologies is discussed to provide a framework for plant–microbe interactions during PHC remediation. The potential for integrating multiple molecular and computational techniques to evaluate linkages between microbial communities, plant communities and ecosystem processes is explored with an eye on improving phytoremediation of PHC contaminated sites.

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“…Pseudomonas bacteria, are equipped with a genomically-encoded styrene catabolon and represent one of the most versatile organisms engaged in the oxidative metabolism of styrene and related aromatic and aliphatic hydrocarbons [5, 6]. In our work we have focused on enzymes from the styrene metabolic pathway of P. putida (S12), an unusually solvent tolerant strain.…”

Section: Introductionmentioning

confidence: 99%

Structure and biochemistry of phenylacetaldehyde dehydrogenase from the Pseudomonas putida S12 styrene catabolic pathway

Crabo

Singh

Nguyen

et al. 2017

Archives of Biochemistry and Biophysics

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Phenylacetaldehyde dehydrogenase catalyzes the NAD+-dependent oxidation of phenylactealdehyde to phenylacetic acid in the styrene catabolic and detoxification pathway of Pseudomonas putida (S12). Here we report the structure and mechanistic properties of the N-termininally histidine-tagged enzyme, NPADH. The 2.83Å X-ray crystal structure is similar in fold to sheep liver cytosolic aldehyde dehydrogenase (ALDH1), but has unique set of intersubunit interactions and active site tunnel for substrate entrance. In solution, NPADH occurs as 227 kDa homotetramer. It follows a sequential reaction mechanism in which NAD+ serves as both the leading substrate and homotropic allosteric activator. In the absence of styrene monooxygenase reductase, which regenerates NAD+ from NADH in the first step of styrene catabolism, NPADH is inhibited by a ternary complex involving NADH, product, and phenylacetaldehyde, substrate. Each oligomerization domain of NPADH contains a six-residue insertion that extends this loop over the substrate entrance tunnel of a neighboring subunit, thereby obstructing the active site of the adjacent subunit. This feature could be an important factor in the homotropic activation and product inhibition mechanisms. Compared to ALDH1, the substrate channel of NPADH is narrower and lined with more aromatic residues, suggesting a means for enhancing substrate specificity.

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Marine Oil-Degrading Microorganisms and Biodegradation Process of Petroleum Hydrocarbon in Marine Environments: A Review

Cited by 206 publications

References 73 publications

Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil

Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil

The Interaction between Plants and Bacteria in the Remediation of Petroleum Hydrocarbons: An Environmental Perspective

Structure and biochemistry of phenylacetaldehyde dehydrogenase from the Pseudomonas putida S12 styrene catabolic pathway

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