Vestnik Kamchatskoy regional'noy assotsiatsii «Uchebno-nauchnyy tsentr». Seriya: Nauki o Zemle
Institute of Volcanology and Seismology FEB RAS
The distribution and characteristic of microorganisms involved in the destruction of hydrocarbons in marine sediments (Literature review)
PDF (Russian)

Keywords

sediments
oil degradation
sulfate-reducing microorganisms

Section

Results of the Scientific Researches

Abstract

The review is devoted to the biodiversity of microorganisms capable of degrading oil hydrocarbons in sea deep sediments and their relationship with the accompanying microbiota, which includes sulfate-reducing and denitrifying prokaryotes. Particular attention is paid to the biodiversity of hydrocarbon-oxidizing bacteria, in particular thermo- and hyperthermophilic bacteria, in the areas of oil fields. Sulfate-reducing microorganisms are widespread in them. Some of them are capable not only of sulfate reduction, but also of hydrocarbon oxidation. Such microorganisms were generally classified in the Deltaproteobacterium class. The relationship between the number of oil-oxidizing and denitrifying microorganisms is most often presented in areas with a high anthropogenic load and in the coastal zone. Possible mechanisms of anaerobic oxidation of hydrocarbons and the coexistence of aerobic and anaerobic microorganisms in a single community are briefly considered.
PDF (Russian)

References

Алекперова И.А. О роли нефтеокисляющих бактерий в самоочищении загрязненного нефтью Самур-Апшеронского шельфа Каспийского моря // Вестник Московского государственного областного университета. Серия: Естественные науки. 2009. № 2. С. 6–9 [Alekperova I.A. About a role of petrooxidizing bacteria in autopurification of the Samur-Absheron shelf of Caspian sea polluted by oil // Bulletin of the MSRU. Series: Natural Sciences. 2009. № 2. P. 6–9 (in Russian)].

Баранов Д.В., Петрова А.Н., Ибрагимов Р.К. и др. Микробиологические методы увеличения добычи нефти: обзор // Вестник Казанского технологического университета. 2016. № 24. С. 35–39 [Baranov D.V., Petrova A.N., Ibragimov R.K. et al. Mikrobiologicheskie metody uvelicheniya dobychi nefti: obzor // Vestnik Kazanskogo tekhnologicheskogo universiteta. 2016. № 24. P. 35–39 (in Russian)].

Бузолева Л.С., Смирнова М.А., Безвербная И.П. Биологические свойства морских нефтеуглеводородокисляющих бактерий из прибрежных акваторий дальневосточных морей с разным характером загрязнения // Известия ТИНРО. 2008. Т 155. С. 210–218 [Buzoleva L.S., Smirnova M.A., Bezverbnaya I.P. Biological features of oil degrading bacteria in coastal water areas with different types of pollution // Izvestiya TINRO. 2008. V. 154. P. 210–218 (in Russian)].

Валитов М.Г., Шакиров Р.Б., Яцук А.В. и др. Комплексные геолого-геофизические, газогеохимические и океанографические исследования в Японском море и Татарском проливе в 81-ом рейсе НИС «Академик М.А. Лаврентьев» // Тихоокеанская геология. 2019. Т. 38. № 4. С. 97–105. https://doi.org/10.30911/0207-4028-2019-38-4-97–105 [Valitov M.G., Shakirov R.B., Yazuk A.B. et al. Integrated geological-geophysical, gasgeochemical and oceanographic researches in the sea of Japan and the Tatar strait in the 81 cruise of the R/V «Akademik M.A. Lavrentyev» // Russia Journal of Pacific Geology. 2019. V. 38. № 4. P. 97–105 (in Russian)].

Галанин А.В. Литобиосфера Земли. 2012. Электронный ресурс. Режим доступа: http://ukhtoma.ru/litobiosphere.htm [Galanin A.V. Litobiosfera Zemli. 2012].

Журавель Е.В., Безвербная И.П., Бузолева Л.С. Микробная индикация загрязнения прибрежных вод Охотского моря и Авачинской бухты // Биология моря. 2004. Т. 30. № 2. С. 138–142 [Zhuravel E.V., Bezverbnaya I.P., Buzoleva L.S. Microbian indication of pollution of the coastal zone of the Sea of Okhotsk and Avacha Bay // Russian Journal of Marine Biology. 2004. V. 30. P. 121–126].

Каюкова Г.П., Петров С.М., Успенский Б.В. Свойства тяжелых нефтей и битумов пермских отложений Татарстана в природных и техногенных процессах// М.: ГЕОС, 2015. 343 с. [Kayukova G.P., Petrov S.M., Uspensky B.V. Properties of Permian Heavy Oils and Bitumens of Tatarstan in Natural and Anthropogenic Processes // Moscow: GEOS Publishers, 2015. 343 p. (in Russian)].

Леин А.Ю., Иванов М.В. Биогеохимический цикл метана в океане. Москва: Наука. 2009. 576 с. [Lein A.Yu., Ivanov M.V. Biogeochemical cycle of methane in the ocean. Moscow: Nauka. 2009. 576 p.(in Russian)]

Миронов О.Г. Бактериальная трансформация нефтяных углеводородов в прибрежной зоне моря // Морской экологический журнал. 2002. Т. 1. № 1. С. 56–66 [Mironov O.G. Bakterial'naya transformatsiya neftyanykh uglevodorodov v pribrezhnoi zone morya // Morskoy ekologichesky zhurnal. 2002. V. 1. № 1. P. 56–66 (in Russian)].

Нечай Н. Л., Какижманова А.А., Ермеккалиев Т.С. Микромицеты-деструкторы углеводородов // Биотехнология: состояние и перспективы развития. 2015. С. 370–372 [Nechai N.L., Kakizhmanova A.A., Ermekkaliev T.S. Mikromitsety-destruktory uglevodorodov // Biotekhnologiya: sostoyanie i perspektivy razvitiya. 2015. P. 370–372 (in Russian)].

Пономарева А.Л., Стом Д.И., Толстой М.Ю. Интенсификация очистки сточной воды от нефтепродуктов с помощью катализаторов типа «Катан» и штаммов биодеструкторов нефти // В мире научных открытий. 2015. № 8–1 (68). С. 327–333 [Ponomareva A.L., Stom D.I., Tolstoy M.Yu. Intensification treatment of wastewater of oil pollution using the catalysts «Katan» and strains of biodegraders oil // In the World of scientific Discoveries. 2015. 8–1 (68). P. 327–333 (in Russian)].

Розанова Е.П., Борзенков И.А., Тарасов А.Л. и др. Микробиологические процессы в высокотемпературном нефтяном месторождении // Микробиология. 2001. Т. 70. № 1. С. 118–127 [Rozanova E.P., Borzenkov I.A., Tarasov A.L. et al. Microbiological processes in a high-temperature oil field // Microbiology (Russia). 2001. V. 70. № 1. P. 102–110. https://doi.org/10.1023/A:1004809308305].

Рябцева Н.Д., Никитина В.С., Абдуллин М.И. и др. Изучение каталитических процессов микробного окисления нефтяных углеводородов // Вестник Башкирского ун-та. 2016. № 2. С. 308–313 [Ryabtseva N.D., Nikitina V.S., Abdullin M.I. et al. The activity of extracellular catalases of yeast culture Candida lipolytica // Bulletin of Bashkir University. 2016. № 2. P. 308–313 (in Russian)].

Семенова Е.М., Ершов А.П., Соколова Д.Ш. и др. Разнообразие и биотехнологический потенциал нитратредуцирующих бактерий из месторождений тяжелой нефти (Россия) // Микробиология. 2020. Т. 89. №6. С. 675–687 [Semenova E.M., Ershov A.P., Sokolova D.Sh. et al. Diversity and biotechnological potential of nitrate-reducing bacteria from heavy-oil reservoirs (Russia) // Microbiology. 2020. V. 89. № 6. P. 675–687].

Тимергазина И.Ф., Переходова Л.С. К проблеме биологического окисления нефти и нефтепродуктов углеводородокисляющими микроорганизмами // Нефтегазовая геология. Теория и практика. 2012. Т. 7. № 1. http://www.ngtp.ru/rub/7/16_2012.pdf [Timergazina I.F., Perekhodova L.S. K probleme biologicheskogo okisleniya nefti i nefteproduktov uglevodorodokislyayushchimi mikroorganizmami // Neftegazovaya geologiya. Teoriya i praktika. 2012. V. 7. № 1. (in Russian)].

Феоктистова Е.В., Осипенко М.А., Куюкина М.С. и др. Математическая модель формирования кластеров бактерий в системе вода-бактерии-углеводород // Сборник трудов конференции «Математическое моделирование в естественных науках». Пермь: ПГНИУ, 2015. С. 415–417 [Feoktistova E.V., Osipenko M.A., Kuyukina M.S. et al. Matematicheskaya model' formirovaniya klasterov bakterii v sisteme voda-bakterii-uglevodorod // Sbornik trudov konferentsii «Matematicheskoe modelirovanie v estestvennykh naukakh». Perm': PGNIU, 2015. P. 415–417 (in Russian)].

Цыбульский И.Е., Корпакова И.Г., Белова Л.В. и др. Характеристика процессов самоочищения морской среды с участием нефтеокисляющих микроорганизмов в районе аварии танкера в Керченском проливе // Известия вузов. Северо-Кавказский регион. Серия: Естественные науки. 2010. № 1. С. 78–82 [Tsybulsky I.E., Korpakova I.G., Belova L.V. et al. Kharakteristika protsessov samoochishcheniya morskoi sredy s uchastiem nefteokislyayushchikh mikroorganizmov v raione avarii tankera v Kerchenskom prolive // Izvestiya vuzov. Severo-Kavkazskii region. Seriya: Estestvennye nauki. 2010. № 1. P. 78–82 (in Russian)].

Шакиров Р.Б., Обжиров А.И., Шакирова М.В. и др. О газогидратах окраинных морей Восточной Азии: закономерности генезиса и распространения (обзор) // Геосистемы переходных зон. 2019. Т.3. №1. С. 65–106 [Shakirov R.B., Obzhirov A.I., Shakirova M.V. et al. About gas hydrates of East Asian marginal seas: patterns of genesis and distribution (review) // Geosistemy perehodnykh zon. 2019. V. 3. № 1. P. 65–106].

Bian X.-Y., Mbadinga S.M., Liu Y.-F. et al. Insights into the anaerobic biodegradation pathway of n-alkanes in oil reservoirs by detection of signature metabolites // Scientific Reports. 2015. V. 5. P. 1–12. https://doi.org/10.1038/srep09801

Chanton J., Zhao T., Rosenheim B.E. et al. Using natural abundance radiocarbon to trace the flux of petrocarbon to the seafloor following the Deepwater Horizon oil spill // Environmental Science and Technology. 2015. V. 49. Iss. 2. P. 847–854. https://doi.org/10.1021/es5046524

Cochrane W.J., Jones P.S., Sanders P.F. et al. Studies on the thermophilic sulfatereducing bacteria from a souring North Sea oil field // SPE Pap 18368. 1988. P. 301–316. https://doi.org/10.2118/18368-MS

Da Cruz G.F., Vasconcellos S.P., Angolini C. F. et al. Could petroleum biodegradation be a joint achievement of aerobic and anaerobic microorganisms in deep sea reservoirs? // AMB Express. 2011. V. 1. № 47. P. 1–10. https://doi.org/10.1186/2191-0855-1-47

Dasgupta D., Ghosh R., Sengupta T.K. Biofilm-mediated enhanced crude oil degradation by newly isolated Pseudomonas species // ISRN biotechnology. 2013. V. 2013. P. 1–13. https://doi.org/10.5402/2013/250749

D’Hondt S., Jørgensen B.B., Miller D.J. et al. Distributions of microbial activities in deep subseafloor sediments // Science. 2004. V. 306. Iss. 5705. P. 2216–2221. https://doi.org/10.1126/science.1101155

Ehrlich H.L., Newman D.K., Kappler A. Ehrlich’s Geomicrobiology // Boca Raton: CRC Press. 2015. 649 p.

Golyshin P.N., Chernikova T.N., Abraham W.R. et al. Oleiphilaceae fam. nov., to include Oleiphilus messinensis gen. nov., sp. nov., a novel marine bacterium that obligately utilizes hydrocarbons // International Journal of Systematic and Evolutionary Microbiology. 2002. V. 52. Iss. 3. P. 901–911. https://doi.org/10.1099/00207713-52-3-901

Grassia G.S., Mclean K.M., Glenat P. et al. A systematic survey for thermophilic fermentative bacteria and archaea in high-temperature petroleum reservoirs // FEMS Microbiology Ecology. 1996. V. 21. Iss. 1. P. 47–58. https://doi.org/10.1111/j.1574-6941.1996.tb00332.x

Hao R., Lu A., Wang G. Crude-oil-degrading thermophilic bacterium isolated from an oil field // Canadian Journal of Microbiology. 2004. V. 50. № 3. P. 175–182. https://doi.org/10.1139/w03-116

Hubert C.R.J., Oldenburg T.B.P., Fustic M. et al. Massive dominance of Epsilonproteobacteria in formation waters from a Canadian oil sands reservoir containing severely biodegraded oil // Environmental Microbiology. 2012. V. 14. Iss. 2. P. 387–404. https://doi.org/10.1111/j.1462-2920.2011.02521.x

Illias R.M.D, Wei O.S., Idris A.K., Rahman W.A. Isolation and characterization of halotolerant aerobic bacteria from oil reservoir // Journal Teknologi. 2001. V. 35. P. 1–10. https://doi.org/10.11113/jt.v35.599

Jofgensen B.B., Fidlay A. J., Pellerin A. The biogeochemical sulfur cycle of marine sediments // Frontiers in Microbiology. 2019. V. 10. P. 1–27. https://doi.org/10.3389/fmicb.2019.00849

Kallmeyer J., Pockalny R., Adhikari R.R. et al. Global distribution of microbial abundance and biomass in subseafloor sediment // Proceedings of the National Academy of Sciences. 2012. V. 109. № 40. P. 16213–16216. https://doi.org/10.1073/pnas.1203849109

Kirkpatrick J.B., Walsh E.A., D’Hondt S. Microbial selection and survival in subseafloor sediment // Frontiers in Microbiology. 2019. V. 10. Iss. 10. P. 1–15. https://doi.org/10.3389/fmicb.2019.00956

Kniemeyer O., Musat F., Sievert S.M. et al. Anaerobic oxidation of short-chain hydrocarbons by marine sulphate — reducing bacteria // Nature. 2007. V. 449. P. 898–901. https://doi.org/10.1038/nature06200

Kotlar H.K., Lewin A., Johansen J. et al. High coverage sequencing of DNA from microorganisms living in an oil reservoir 2.5 kilometres subsurface // Environmental Microbiology Reports. 2011. V. 3. Iss. 6. P. 674–681. https://doi.org/10.1111/j.1758-2229.2011.00279.x

Köster M., Meyer-Reil L. Characterization of carbon and microbial biomasspools in shallow water coastal sediments of the southern Baltic Sea (Nordrügensche Bodden) // Marine Ecology Progress Series. 2001. V. 214. P. 25–41. https://doi.org/10.3354/meps214025

Kumar A.G., Nivedha Rajan N., Kirubagaran R., Dharani G. Biodegradation of crude oil using self-immobilized hydrocarbonoclastic deep sea bacterial consortium // Marine Pollution Bulletin. 2019. V. 146. P. 741–750. https://doi.org/10.1016/j.marpolbul.2019.07.006

Li D., Midgley D.J., Ross J.P. et al. Microbial biodiversity in a Malaysian oil field and a systematic comparison with oil reservoirs worldwide // Archives of Microbiology. 2012. V. 194. Iss. 6. P. 513–523. https://doi.org/10.1007/s00203-012-0788-z

Li H. Yang S.Z., Mu B.Z. Phylogenetic diversity of the archaeal community in a continental high temperature, water-flooded petroleum reservoir // Current Microbiology. 2007. V. 55. Iss. 5. P. 382–388. https://doi.org/10.1007/s00284-007-9002-y

Leu J.Y., McGovern-Traa C.P., Porter A.J. et al. The same species of sulphate-reducing Desulfomicrobium occur in different oil field environments in the North Sea // Letters in Applied Microbiology. 1999. V. 29. Iss. 4. P. 246–252. https://doi.org/10.1046/j.1365-2672.1999.00628.x

Magot M., Ollivier B., Patel B.K. Microbiology of petroleum reservoirs // Antonie Van Leeuwenhoek. 2000. № 77. P. 103–116. https://doi.org/10.1023/A:1002434330514

Oliver B., Magot M. Petroleum Microbiology // ASM Press New York. 2005. 365 p.

Orphan V.J. Boles J.R., Goffredi S.K., et al. Geochemical influence on community structure and microbial processes in high temperature oil reservoirs // Geomicrobiology Journal. 2010. V. 20. Iss.4. P. 295–311. https://doi.org/10.1080/01490450303898

Pannekens M., Kroll L., Müller H. et al. Oil reservoirs, an exceptional habitat for microorganisms // New Biotechnology. 2019. V. 49. P. 1–9. https://doi.org/10.1016/j.nbt.2018.11.006

Parkes R.J., Cragg B., Roussel E. et al. A review of prokaryotic populations and processes in sub-seafloor sediments, including biosphere: geosphere interactions // Marine Geology. 2014. V. 352. P. 409–425. https://doi.org/10.1016/j.margeo.2014.02.009

Pineda-Flores G., Lira-Galeana C., Mesta-Howard A.M. A microbial consortium isolated from a crude oil sample that uses asphaltenes as a carbon and energy source // Biodegradation. 2004. V. 15 (3). P.145–151. https://doi.org/10.1023/b:biod.0000026476.03744.bb

Salinas M.B., Fardeau M.L., Thomas P. et al. Mahella australiensis gen. nov., sp. nov., a moderately thermophilic anaerobic bacterium isolated from an Australian oil well // International Journal of Systematic and Evolutionary Microbiology. 2004. V. 54. Iss. 6. P. 2169–2173. https://doi.org/10.1099/ijs.0.02926-0.

Tang Y.Q., Li Y., Zhao J.Y. et al. Microbial communities in long-term, water- flooded petroleum reservoirs with different in situ temperatures in the Huabei Oilfield, China // PLoS One. 2012. V. 7. e33535. https://doi.org/10.1371/journal.pone.0033535

Vigneron A., Alsop E., Lomans B. et al. Succession in the petroleum reservoir microbiome through an oil field production lifecycle // Multidisciplinary Journal of Microbial Ecology. 2017. № 11. P. 2141–2154. https://doi.org/10.1038/ismej.2017.78

Walsh E. A., Kirkpatrick B., Pockalny R. et al. Relationship of bacterial richness to organic degradation rate and sediment age in subseafloor sediment // Applied and Environmental Microbiology. 2016. V. 82. № 16. P. 4994–4999. https://doi.org/10.1128/AEM.00809-16

Wang L., Tang Y., Wang S. et al. Isolation and characterization of a novel thermophilic Bacillus strain degrading long-chain n-alkanes // Extremophiles. 2006. V. 10. P. 347–356. https://doi.org/10.1007/s00792-006-0505-4

Creative Commons License
Контент доступен под лицензией Creative Commons Attribution-NonCommercial 4.0 International License.