Abstract:
Subsurface hydrocarbon and oil shale deposits, once thought sterile, are being re-evaluated as habitats for ancient and contemporary microbial activity. Although oil shales have not been rigorously examined microbiologically, there are tantalizing hints that they harbor viable prokaryotic communities. A larger body of evidence for indigenous microbes has been gathered from conventional oil reservoirs in which the hydrocarbons have been altered, presumably microbiologically, effecting physical and chemical changes in the biodegraded oils. As extreme examples, shallow low-temperature reservoirs can bear highly viscous heavy oils and bitumens in which the labile substrates (e.g., n-alkanes and simple aromatic hydrocarbons) have been completely consumed, leaving recalcitrant complex molecules like asphaltenes. Thus, bitumen deposits appear unlikely to sustain flourishing extant microbial populations, but too few studies have been performed to test this hypothesis.
Despite the current view that indigenous microbes exist in hydrocarbon deposits, fundamental questions remain as to their source, metabolism, and limits to growth. This chapter reviews the scant reports of microbial communities associated with oil shales and bitumen deposits, and summarizes reports of conventional oil reservoirs that exhibit biodegradation in the absence of waterflooding or chemical injection. The reader is directed to Chapter 3, Vol. 3, Part 1; Chapter 47, Vol. 3, Part 4; Chapter 26, Vol. 4, Part 5 for reviews pertaining to stimulated oil reservoirs and to the volume edited by Ollivier and Magot (2005).
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Adkins JP, Cornell LA, Tanner RS (1992) Microbial composition of carbonate petroleum reservoir fluids. Geomicrobiol J 10: 87–97.
Aislabie J, Atlas RM (1988) Biodegradation of nitriles in shale oil. Appl Environ Microbiol 54: 2197–2202.
Aislabie J (1992) Biotechnology of oil shale. Chem Eng Australia 17: 10–12.
Aitken CM, Jones DM, Larter SR (2004) Anaerobic hydrocarbon biodegradation in deep subsurface oil reservoirs. Nature 431: 291–294.
Barman Skaare B, Wilkes H, Vieth A, Rein E, Barth T (2007) Alteration of crude oils from the Troll area by biodegradation: analysis of oil and water samples. Org Geochem 38: 1865–1883.
Bastin ES, Greer FE, Merritt CA, Moulton G (1926) The presence of sulphate reducing bacteria in oil field waters. Science 63: 21–24.
Bernard FP, Connan J, Magot M (1992) SPE 24811 Indigenous microorganisms in connate water of many oil fields: a new tool in exploration and production techniques. In Proceedings of the 67th Annual Technical Conference and Exhibition of the Society of Petroleum Engineers, Washington, DC, pp. 467–476.
Birkeland N-K (2004) The microbial diversity of deep subsurface oil reservoirs. Stud Surface Sci Catal 151: 385–403.
Burns BJ, Hogarth JTC, Milner CWD (1975) Properties of Beaufort Basin liquid hydrocarbons. Bull Can Petrol Geol 23: 295–303.
Collister J, Ehrlich R, Mango F, Johnson G (2004) Modification of the petroleum system concept: origins of alkanes and isoprenoids in crude oils. Am Assoc Petrol Geol Bull 88: 587–611.
Dahle H, Garshol F, Madsen M, Birkeland N (2008) Microbial community structure analysis of produced water from a high-temperature North Sea oil-field. Antonie Van Leeuwenhoek Int J Gen Molec Microbiol 93: 37–49.
Dyni JR (2003) Geology and resources of some world oil-shale deposits. Oil Shale 20: 193–252.
Foght J (2008) Anaerobic biodegradation of aromatic hydrocarbons: pathways and prospects. J Mol Microbiol Biotechnol 15: 93–120.
Gieg L, Duncan KE, Suflita JM (2008) Bioenergy production via microbial conversion of residual oil to natural gas. Appl Environ Microbiol 74: 3022–3029.
Gold T (1992) The deep, hot biosphere. Proc Natl Acad Sci USA 89: 6045–6049.
Goth K, De Leeuw JW, Püttmann W, Tegelaar EW (1988) Origin of Messel Oil Shale kerogen. Nature 336: 759–761.
Grabowski A, Nercessian O, Fayolle F, Blanchet D, Jeanthon C (2005) Microbial diversity in production waters of a low-temperature biodegraded oil reservoir. FEMS Microbiol Ecol 54: 427–443.
Grassia GS, McLean KM, Glénat P, Bauld J, Sheehy AJ (1996) A systematic survey for thermophilic fermentative bacteria and archaea in high temperature petroleum reservoirs. FEMS Microbiol Ecol 21: 47–58.
Hartgers WA, Sinninghe Damste JS, Requejo AG, Allan J, Hayes JM, De Leeuw JW (1994) Evidence for only minor contributions from bacteria to sedimentary organic carbon. Nature 369: 224–227.
Head IM, Jones DM, Larter SR (2003) Biological activity in the deep subsurface and the origin of heavy oil. Nature 426: 344–352.
Huang H, Larter S (2005) Biodegradation of petroleum in subsurface geological reservoirs. In Petroleum Microbiology. B Ollivier and M Magot (eds.). Washington, DC: ASM Press, pp. 91–121.
Jones DM, Head IM, Gray ND, Adams JJ, Rowan AK, Aitken CM, Bennett B, Huang H, Brown A, Bowler BFJ, Oldenburg T, Erdmann M, Larter SR (2008) Crude-oil biodegradation via methanogenesis in subsurface petroleum reservoirs. Nature 451: 176–180.
Kim J-S, Crowley DE (2007) Microbial diversity in natural asphalts of the Rancho La Brea tar pits. Appl Environ Microbiol 73: 4579–4591.
Kumar M, León V, De Sisto Materano A, Ilzins OA, Luis L (2008) Biosurfactant production and hydrocarbon-degradation by halotolerant and thermotolerant Pseudomonas sp. World J Microbiol Biotechnol 24: 1047–1057.
Larter S, Wilhelms A, Head I, Koopmans M, Aplin A, Di Primio R, Zwach C, Erdmann M, Telnaes N (2003) The controls on the composition of biodegraded oils in the deep subsurface – part 1: biodegradation rates in petroleum reservoirs. Org Geochem 34: 601–613.
L’Haridon S, Reysenbach A-L, Glenat P, Prieur D, Jeanthon C (1995) Hot subterranean biosphere in a continental oil reservoir. Nature 377: 223–224.
Magot M (2005) Indigenous microbial communities in oil fields. In Petroleum Microbiology. B Ollivier and M Magot (eds.). Washington, DC: ASM Press, pp. 21–33.
Magot M, Ollivier B, Patel BKC (2000) Microbiology of petroleum reservoirs. Antonie Van Leeuwenhoek Int J Gen Mol Microbiol 77: 103–116.
Martini AM, Walter LM, Ku TCW, Budai JM, McIntosh JC, Schoell M (2003) Microbial production and modification of gases in sedimentary basins: a geochemical case study from a Devonian shale gas play, Michigan Basin. Am Assoc Petrol Geol Bull 87: 1355–1375.
Mossman DJ, Nagy B (1996) Solid bitumens: an assessment of their characteristics, genesis, and role in geological processes. Terra Nova 8: 114–128.
Nunoura T, Oida H, Masui N, Inagaki F, Takai K, Hirano S, Nealson KH, Horikoshi K (2006) Culture-dependent and independent analyses of subsurface microbial communities in oil-bearing strata of the Sagara oil reservoir. Island Arc 15: 328–337.
B, Ollivier M (eds.) Magot (2005) Petroleum Microbiology. Washington, DC: ASM Press, p. 365.
Orphan VJ, Goffredi SK, Delong EF, Boles JR (2003) Geochemical influence on diversity and microbial processes in high temperature oil reservoirs. Geomicrobiol J 20: 295–311.
Orphan VJ, Taylor LT, Hafenbradl D, Delong EF (2000) Culture-dependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs. Appl Environ Microbiol 66: 700–711.
Petsch S, Edwards K, Eglinton T (2000) Microbes that utilize kerogen: degradation of ancient, refractory organic matter during black shale weathering. Goldschmidt 2000 Journal of Conference Abstracts. Oxford, UK: Cambridge Publications, p. 788.
Petsch ST, Edwards KJ, Eglinton TI (2003) Abundance, distribution and δ13C analysis of microbial phospholipid-derived fatty acids in a black shale weathering profile. Org Geochem 34: 731–743.
Petsch ST, Edwards KJ, Eglinton TI (2005) Microbial transformations of organic matter in black shales and implications for global biogeochemical cycles. Palaeogeog Palaeoclimatol Palaeoecol 219: 157–170.
Pfister RM, Krieger E, Ridge J (1991) Microbial presence and potential in Eastern oil shale. Resour Conserv Recycl 5: 231–243.
Roadifer RE (1987) Size distributions of the world’s largest known oil and tar accumulations. In Exploration for Heavy Crude Oil and Natural Bitumen. F Meyer (ed.). Tulsa, OK: American Association of Petroleum Geologists, pp. 3–23.
Röling WFM, Head IM, Larter SR (2003) The microbiology of hydrocarbon degradation in subsurface petroleum reservoirs: perspectives and prospects. Res Microbiol 154: 321–328.
Rubinstein I, Strausz OP, Spyckerelle C, Crawford RJ, Westlake DWS (1977) The origin of the oil sand bitumens of Alberta: a chemical and a microbiological simulation study. Geochim Cosmochim Acta 41: 1341–1353.
Rueter P, Rabus R, Wilkes H, Aeckersberg F, Rainey FA, Jannasch HW, Widdel F (1994) Anaerobic oxidation of hydrocarbons in crude oil by new types of sulphate reducing bacteria. Nature 372: 455–458.
Tornabene TG, Wu-Hunter S, Eastman PS (1983) Production of aliphatic hydrocarbons by microorganisms isolated from shale. In Chemical and Geochemical Aspects of Fossil Energy Extraction. TF Yen, FK Kawahara, R Hertzberg (eds.). Ann Arbor, MI: Ann Arbor Science, pp. 169–181.
Widdel R, Rabus R (2001) Anaerobic biodegradation of saturated and aromatic hydrocarbons. Curr Opin Biotechnol 12: 259–276.
Wilhelms A, Larter SR, Head I, Farrimond P, Di-Primio R, Zwach C (2001) Biodegradation of oil in uplifted basins prevented by deep-burial sterilization. Nature 411: 1034–1037.
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Foght, J. (2010). Microbial Communities in Oil Shales, Biodegraded and Heavy Oil Reservoirs, and Bitumen Deposits. In: Timmis, K.N. (eds) Handbook of Hydrocarbon and Lipid Microbiology. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-77587-4_156
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DOI: https://doi.org/10.1007/978-3-540-77587-4_156
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