Petroleum Hydrocarbon-Degrading Bacteria. petroleum hydrocarbon-degrading bacteria, petroleum oil, bioremediation, bacterial consortia, environmental factors, enzymes. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Hence, to effectively reduce the microbial remediation period and improve the remediation rate, using a combination of microbial remediation technology and other technologies such as electrokinetic remediation technology (Ma et al., 2018), photocatalytic remediation technology (Xu et al., 2017), nanotechnology (Alabresm et al., 2018) and bioreactor technology (Safdari et al., 2018) is an effective strategy to accelerate the removal of petroleum hydrocarbon pollutants. This also implies that the remediation of petroleum hydrocarbon contamination requires the joint action of multiple functional bacteria to achieve the best environmental purification effect (Dombrowski et al., 2016). Nat. Technol. 47, W256W259 (2019). Hydrocarbon degradation and response of seafloor sediment bacterial community in the northern Gulf of Mexico to light Louisiana sweet crude oil. A new look on factors affecting microbial degradation of petroleum hydrocarbon pollutants. In marine animals, the oil spills and other exposure to petroleum hydrocarbons causes fluctuations in body temperature, blindness, dehydration, hypothermia, impaired digestion, liver and lung disorder (Bostrm et al., 2002, Korashy and El-Kadi, 2006; EPA, 2013; Raju and Scalvenzi, 2017 ). Fu, L., Niu, B., Zhu, Z., Wu, S. & Li, W. CD-HIT: accelerated for clustering the next-generation sequencing data. Nucleic Acids Res. (2018). PubMed Methanoliparum species; R. Conrad and W. B. Whitman for discussing the manuscript; K. Wrighton for providing access to the server Zenith; Q. Yuan, Y. Liu, J. Pan, M.-w. Cai and Y.-n. Tang for assisting in data analysis; L.-r. Dai, D. Zhang and L. Li for assisting in cultivation and experiments; and Z. Zhou for technical support. 27, 2129 (2014). Development of bioreactors for comparative study of natural attenuation, biostimulation, and bioaugmentation of petroleum-hydrocarbon contaminated soil. For example, the Deep Water Horizon oil spill accident in the Gulf of Mexico produced a profound impact on the economy and environmental safety, which is still the focus of peoples attention (Xue et al., 2015). To obtain Marine microorganisms make a meal of oil. PubMed Central Zhang L., Zhang C., Cheng Z., Yao Y., Chen J. 15, 679 (2014). Ghosal D., Ghosh S., Dutta T. K., Ahn Y. designed CARD-FISH probes, and R.L.-P. performed CARD-FISH and cell visualization. 6 Relative transcript abundances of alkane-degrading and methane-producing pathways coding genes. The advantages of microbial communities are presented because there are a variety of catabolic genes in a bacterial consortium, and the synergistic effects of these genes are beneficial to achieving the purification of pollutants (Gurav et al., 2017). 3 Altmetric Metrics Abstract Thirty-six bacteria that degraded long-chain hydrocarbons were isolated from natural environments using long-chain hydrocarbons (waste car engine oil, base oil or the c -alkane fraction of base oil) as the sole carbon and energy source. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Bacterial targets as potential indicators of diesel fuel toxicity in subantarctic soils. Appl. Characterization of cyclohexane and hexane degradation by Rhodococcus sp. However, the stability of the community and the safety of the engineered bacteria are additional problems that must be overcome. Extended Data Fig. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. M. zhangii. PubMed 34, 21152122 (2017). (2015b). at day 31 and 55, while sampling at one time point (day 55) with 3 replicates (designated as r1-r3) was performed for control cultures without n-hexadecane amendment (Con.). Microbiol. contributed to high biodegradation efficiency (89%) in a 365-day treatment of diesel oil-contaminated soil (Szulc et al., 2014). Wang Y., Liang J., Wang J., Gao S. (2018). Bioremediation of polycyclic aromatic hydrocarbons by. In a laboratory study, the petroleum hydrocarbons phenanthrene and dibenzothiophenes were well degraded, but similar degradation effects did not occur in a field experiment, which could be attributed to the temperature range during the study (Rling et al., 2002, 2004). Diversity, ecology and evolution of Archaea. (1995). Such organisms are candidates for the treatment of oil pollutants (Margesin et al., 2003; Ron and Rosenberg, 2014; Lea-Smith et al., 2015). J. Biochem. Therefore, bacteria have been screened and utilized to degrade waste products produced by the food, agricultural, chemical and pharmaceutical industries. (2017). In today's world, hydrocarbons play a major role as sources of energy and cause major pollution as they require a very long time to degrade. Ludwig, W. et al. Wood, D. E., Lu, J. A case study of bioremediation of petroleum-hydrocarbon contaminated soil at a crude oil spill site. M. thermophilum (XY_C20_T55_P2_bin.5 of Cluster 1). DQ12-45-1b utilizes n-alkanes (C6C40) and other compounds as the sole carbon sources (Wang et al., 2011) and Achromobacter xylosoxidans DN002 works well on a variety of monoaromatic and polyaromatic hydrocarbons (Ma et al., 2015), almost no bacteria can degrade the entire petroleum hydrocarbon fraction. We thank A. Oren (The Hebrew University of Jerusalem) for discussing the naming of the different Ca. Bioinformatics 28, 31503152 (2012). (2008). Opin. However, some surfactants, such as Corexit 9500, were reported to exhibit adverse impacts on oil-degrading bacteria (Kleindienst et al., 2015b) because of toxicity of the surfactant toward bacteria or as a result of competition of the surfactant with hydrocarbon substrates (Laha and Luthy, 1991; Liu et al., 2016). Environ. Genome Res. (2015a). Publishers note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. In general, petroleum oil hydrocarbons are not necessary substrates for hydrocarbon-degrading bacteria, and they utilize these compounds as alternative carbon and energy sources, especially in the absence of their preferable substrates. China. Extended Data Fig. The ability to biodegrade petroleum oil is associated with the concentration and composition of hydrocarbons. a, Gene clusters found in the four representative MAGs with potential for benzoyl-CoA degradation. Federal government websites often end in .gov or .mil. 4, 595602 (2019). Proc. . AnnoTree: visualization and exploration of a functionally annotated microbial tree of life. Zedelius J., Rabus R., Grundmann O., Werner I., Brodkorb D., Schreiber F., et al. A., Gutierrez T., Seitz K. W., Teske A. P., Baker B. J. Margesin R., Labb D., Schinner F., Greer C. W., Whyte L. G. (2003). Enhanced bioremediation of oil spills in the sea. Novel alkane hydroxylase gene (alkB) diversity in sediments associated with hydrocarbon seeps in the Timor Sea. Zhou, Z., Zhang, Cj., Liu, Pf. (2017) found that the green fluorescent protein (GFP) tagged variant of Novosphingobium sp. 32, 17921797 (2004). (2018) found that an aboriginal bacterial consortium based on the Penglai 19-3 oil spill accident (China) had higher oil degradation efficiency compared to individual bacteria and demonstrated that this indigenous consortium had the potential for bioremediating crude oil dispersed in the marine ecosystem. Wang X. M. whitmanii sequence identifiers indicates 16S rRNA genes that were truncated during assembly. Wanapaisan P., Laothamteep N., Vejarano F., Chakraborty J., Shintani M., Muangchinda C., et al. If you find something abusive or that does not comply with our terms or guidelines please flag it as inappropriate. Methanoliparum from a subsurface oil reservoir. Google Scholar. Anaerobic oxidation of ethane by archaea from a marine hydrocarbon seep. Wasmund K., Burns K. A., Kurtbke D. I., Bourne D. G. (2009). Hydrocarbon-Degrading Bacteria Exhibit a Species-Specific Response to Dispersed Oil while Moderating Ecotoxicity. Oldenburg, T. B. P. et al. Google Scholar. The degradation rate of petroleum hydrocarbon in the actual environment is the result of these factors acting on the petroleum hydrocarbon-degradation bacteria, which has led to most microbial remediation technologies taking a long time, especially when compared to physico-chemical remediation techniques. Methane production from coal by a single methanogen. R.L.-P. was supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germanys Excellence Strategy (EXC-2077-390741603) via Excellence Chair Victoria Orphan. Petroleum oil is an important strategic resource for which all countries compete fiercely (Sun, 2009). Kanehisa, M., Sato, Y. Microbial dynamics in petroleum oilfields and their relationship with physiological properties of petroleum oil reservoirs. Yakimov M. M., Timmis K. N., Golyshin P. N. (2007). Venkateswaran K., Hoaki T., Kato M., Maruyama T. (1995). The purpose of this review article is to provide some suggestions for the future development of bacterial remediation of petroleum hydrocarbons on the basis of previously published studies related to new advances in the area of bacterial remediation of petroleum hydrocarbons. Jin H. M., Kim J. M., Lee H. J., Madsen E. L., Jeon C. O. With the sharp increase in population and modernization of society, environmental pollution resulting from petroleum hydrocarbons has increased, resulting in an urgent need for remediation. In inoculated media at 37 C, Rhodococcus. Thank you for visiting nature.com. 13, 23772390 (2019). Recently, microbial remediation technology has developed rapidly and achieved major gains. Microbiol. Yakimov M. M., Giuliano L., Gentile G., Crisafi E., Chernikova T. N., Abraham W. R., et al. Preprint at https://arxiv.org/abs/1303.3997 (2013). Methanolliviera. Microbiol. The residual R- describes a methyl-, cyclohexane- or aromatic unit with an alkyl chain CnH2n+1 for n 13. Petroleum hydrocarbon-degrading bacteria and the type of petroleum components they degrade are listed in Table Table1.1. Current state of knowledge in microbial degradation of polycyclic aromatic hydrocarbons (PAHs): a review. P.-f.L., R.L.-P., G.W., M.L. d-f, Visualization of Ca. Inclusion in an NLM database does not imply endorsement of, or agreement with, The bacterial strains Acinetobacter sp. Zhang X., Zhang Q., Yan T., Jiang Z., Zhang X., Zuo Y. Y. Methanoliparum (green) and bacteria (red). ADS Biodegradation of crude oil by a defined co-culture of indigenous bacterial consortium and exogenous. However, the phenolic and quinonic naphthalene derivatives inhibited bacterial growth. Synergistic degradation of pyrene by five culturable bacteria in a mangrove sediment-derived bacterial consortium. The continuous development and improvement of microbial remediation technology has also provided a new method for the remediation of petroleum hydrocarbon pollution, which has attracted much attention (Dombrowski et al., 2016; Dvok et al., 2017). PubMed Central Degradation of n-alkanes and PAHs from the heavy crude oil using salt-tolerant bacterial consortia and analysis of their catabolic genes. Although some bacteria have been reported to have a broad spectrum of petroleum hydrocarbon degradation ability, Dietzia sp. Received 2018 Sep 15; Accepted 2018 Nov 12. Inakollu S., Hung H. C., Shreve G. S. (2004). The asterisk (*) marking Ca. Perspect. Divergent methyl-coenzyme M reductase genes in a deep-subseafloor Archaeoglobi. Ayed H. B., Jemil N., Maalej H., Bayoudh A., Hmidet N., Nasri M. (2015). Most petroleum hydrocarbons encountered in the environment are ultimately degraded or metabolized by indigenous bacteria because of their energetic and carbon needs for growth and reproduction, as well as the requirement to relieve physiological stress caused by the presence of petroleum hydrocarbons in the microbial bulk environment (Hazen et al . Grey cells indicate that the corresponding genes were not found in the MAGs. Eskandari S., Hoodaji M., Tahmourespour A., Abdollahi A., Mohammadian-Baghi T., Eslamian S., et al. This is because, in some instances, bacteria with high surface hydrophobicity are easily aggregated and form biofilms, thereby producing potential risks such as diseases (Doyle, 2000). Taken together, these studies indicate that improving the biodegradation potential via the application of bacterial consortia possessing multiple catabolic genes is a reasonable and feasible strategy for accelerating the removal efficiency of petroleum hydrocarbons from contaminated environments. 1Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, China, 2Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China, 3School of Life Science and Technology, Changchun University of Science and Technology, Changchun, China. Li D., Xu X., Zhai Z., Yu H., Han X. Bioremediation approaches for organic pollutants: a critical perspective. Cerniglia C. E., Freeman J. P., Althaus J. R., van Baalen C. (1983). Huerta-Cepas, J. et al. Article Microbial degradation of petroleum hydrocarbons. Sikkema J., de Bont J. Many isolated bacteria possess the ability to mineralize chemically simple petroleum hydrocarbons completely, such as linear alkanes, as long as these bacteria possess all of the enzymes for the targeted substrate (Head et al., 2006; Seth-Smith, 2010; Margesin et al., 2013).