Advertisement

Applied Microbiology and Biotechnology

, Volume 100, Issue 3, pp 1469–1478 | Cite as

Microbial community dynamics in Baolige oilfield during MEOR treatment, revealed by Illumina MiSeq sequencing

  • Jing You
  • Gang Wu
  • Fuping Ren
  • Qi Chang
  • Bo YuEmail author
  • Yanfen Xue
  • Bozhong MuEmail author
Environmental biotechnology

Abstract

This study was carried out to understand microbial diversity and function in the microbial enhanced oil recovery (MEOR) process and to assess the impact of MEOR treatment on the microbial community in an oil reservoir. The Illumina MiSeq-based method was used to investigate the structure and dynamics of the microbial community in a MEOR-treated block of the Baolige oilfield, China. The results showed that microbial diversity was high and that 23 phyla occurred in the analyzed samples. Proteobacteria, Firmicutes, Bacteroidetes, Thermotogae, and Euryarchaeota were present in relatively high abundance in all analyzed samples. Injection of bacteria and nutrients resulted in interesting changes in the composition of the microbial community. During MEOR treatment, the community was dominated by the known hydrocarbon-utilizing genera Pseudomonas and Acinetobacter. After the treatment, the two genera decreased in abundance over time while Methanobacteriaceae, as well as known syntrophic genera such as Syntrophomonas, Pelotomaculum, Desulfotomaculum, and Thermacetogenium gradually increased. The change in dominant microbial populations indicated the presence of a succession of microbial communities over time, and the hydrocarbon degradation and syntrophic oxidation of acetate and propionate to methane in the MEOR-treated oilfield. This work contributes to a better understanding of microbial processes in oil reservoirs and helps to optimize MEOR technology.

Keywords

MEOR-treated oil reservoir High-throughput sequencing Microbial community Microbial community dynamics 

Notes

Acknowledgements

This work was funded by grants from Huabei Oilfield Ltd. (Grant No. 2014E-3507) and the National Natural Science Foundation of China (31170116).

Ethical statement

This article does not contain any studies with human participants or animals performed by any of the authors.

Conflict of interest

The authors do not have potential conflict of interest to disclose.

Supplementary material

253_2015_7073_MOESM1_ESM.pdf (477 kb)
ESM 1 (PDF 476 kb)

References

  1. Al-Bahry SN, Elsahfie AE, Al-Wahaibi YM, Al-Bimani AS, Joshi SJ, Al-Maaini RA, Al-Alawai WJ, Sugai Y, Al-Mandhari M (2013) Microbial consortia in Oman oil fields: a possible use in enhanced oil recovery. J Microbiol Biotechnol 23(1):106–117PubMedCrossRefGoogle Scholar
  2. Bach H, Berdichevsky Y, Gutnick D (2003) Anexocellular protein from the oil-degrading microbe Acinetobacter venetianus RAG-1 enhances the emulsifying activity of the polymeric bioemulsifier emulsan. Appl Environ Microbiol 69:2608–2615PubMedPubMedCentralCrossRefGoogle Scholar
  3. Belyaev SS, Laurinavichus KS, Obraztsova AY, Gorlatov SN, Ivanov MV (1982) Microbial processes in near-bottom zone of injection wells at oil fields. Mikrobiologiya 51(6):997–1001Google Scholar
  4. Belyaev SS, Borzenkov IA, Nazina TN, Rozanova EP, Glumov IF, Ibatullin RR, Ivanov MV (2004) Use of microorganisms in the biotechnology for the enhancement of oil recovery. Microbiology 73:590–598CrossRefGoogle Scholar
  5. Bødtker G, Lysnes K, Torsvik T, Bjørnestad EØ, Sunde E (2009) Microbial analysis of back flowed injection water from a nitrate-treated North Sea oil reservoir. J Ind Microbiol Biotechnol 36(3):439–450PubMedCrossRefGoogle Scholar
  6. Bonch-Osmolovskaya EA, Miroshnichenko ML, Lebedinsky AV, Chernyh NA, Nazina TN, Ivoilov VS, Belyaev SS, Boulygina ES, LysovYuP PAN, Mirzabekov AD, Hippe H, Stackebrandt E, L’Haridon S, Jeanthon C (2003) Radioisotopic, culture-based, and oligonucleotide microchip analyses of thermophilic microbial communities in a continental high temperature petroleum reservoir. Appl Environ Microbiol 69:6143–6151PubMedPubMedCentralCrossRefGoogle Scholar
  7. Brogne S, Paniagua D, Vazquez-Duhalt R (2008) Biodegradation of organic pollutants by halophilic bacteria and archaea. J Mol Microbiol Biotechnol 15:74–92CrossRefGoogle Scholar
  8. Callbeck CM, Agrawal A, Voordouw G (2013) Acetate production from oil under sulfate-reducing conditions in bioreactors injected with sulfate and nitrate. Appl Environ Microbiol 79:5059–5068PubMedPubMedCentralCrossRefGoogle Scholar
  9. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R (2010) QIIME allows analysis of high-throughput community sequencing data. Nature Methods 7(5):335–336PubMedPubMedCentralCrossRefGoogle Scholar
  10. Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, Fierer N, Owens SM, Betley J, Fraser L, Bauer M, Gormley N, Gilbert JA, Smith G, Knight R (2012) Ultra-high throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J 6:1621–1624PubMedPubMedCentralCrossRefGoogle Scholar
  11. Chaîneau CH, Morel J, Dupont J, Bury E, Oudot J (1999) Comparison of the fuel oil biodegradation potential of hydrocarbon-assimilating microorganisms isolated from a temperate agricultural soil. Sci Total Environ 227(2–3):237–247PubMedCrossRefGoogle Scholar
  12. Chen J, Wong MH, Wong YS, Tam NFY (2008) Multi-factors on biodegradation kinetics of polycyclic aromatic hydrocarbons (PAHs) by Sphingomonas sp. a bacterial strain isolated from mangrove sediment. Mar Pollut Bull 57:695–702PubMedCrossRefGoogle Scholar
  13. Edgar RC (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26(19):2460–2461PubMedCrossRefGoogle Scholar
  14. Gao PK, Li GQ, Zhao LX, Dai XC, Tian HM, Dai LB, Wang HB, Huang HD, Chen YH, Ma T (2014) Dynamic processes of indigenous microorganisms from a low-temperature petroleum reservoir during nutrient stimulation. J Biosci Bioeng 117(2):215–221PubMedCrossRefGoogle Scholar
  15. Gao P, Tian H, Li G, Sun H, Ma T (2015) Microbial diversity and abundance in the Xinjiang Luliang long-term water-flooding petroleum reservoir. Microbiol Open 4(2):332–342CrossRefGoogle Scholar
  16. Halim AY, Pedersen DS, Nielsen SM, Lantz AE (2015) Profiling of indigenous microbial community dynamicsand metabolic activity during enrichmentin molasses-supplemented crude oil-brine mixturesfor improved understanding of microbial enhanced oil recovery. Appl Biochem Biotechnol 176:1012–1028PubMedCrossRefGoogle Scholar
  17. Head IM, Jones DM, Larter SR (2003) Biological activity in the deep subsurface and the origin of heavy oil. Nature 426:344–352PubMedCrossRefGoogle Scholar
  18. Kryachko Y, Dong X, Sensen CW, Voordouw G (2012) Compositions of microbial communities associated with oil and water in a mesothermic oil field. Antonie van Leeuwenhoek 101:493–506PubMedCrossRefGoogle Scholar
  19. Lenchi N, Inceoğlu O, Kebbouche-Gana S, Gana ML, Llirós M, Servais P, Garcĭa-Armisen T (2013) Diversity of microbial communities in production and injection waters of Algerian oilfields revealed by 16S rRNA gene amplicon 454 pyrosequencing. PLoS ONE 8(6):e66588PubMedPubMedCentralCrossRefGoogle Scholar
  20. Leuthner B, Heider J (1999) Anaerobic toluene catabolism of Thauera aromatic: the bbs operon codes for enzymes of β-oxidation of the intermediate benzylsuccinate. J Bacteriol 182:272–277CrossRefGoogle Scholar
  21. Liu Z, Lozupone C, Hamady M, Bushman FD, Knight R (2007) Short pyrosequencing reads suffice for accurate microbial community analysis. Nucleic Acids Res 35(18):e120PubMedPubMedCentralCrossRefGoogle Scholar
  22. Magot M, Ollivier B, Patel BKC (2000) Microbiology of petroleum reservoirs. Antonie van Leeuwenhoek 77:103–116PubMedCrossRefGoogle Scholar
  23. McInerney MJ, Sieber JR, Gunsalus RP (2009) Syntrophy in anaerobic global carbon cycles. Curr Opin Biotechnol 20:623–632PubMedPubMedCentralCrossRefGoogle Scholar
  24. Miranda E, Bethencourt M, Botana FJ, Cano MJ, Sánchez-Amaya MJ, CorzoA LJG, Fardeaua ML, Olliviera B (2006) Biocorrosion of carbon steel alloys by an hydrogenotrophic sulfate reducing bacterium Desulfovibriocapillatus isolated from a Mexican oil field separator. Corros Sci 48:2417–2431CrossRefGoogle Scholar
  25. Nazina TN, Rozanova EP, Kuznetsov SI (1985) Microbial oil transformation processes accompanied by methane and hydrogen-sulfide formation. Geomicrobiol J 4:103–130CrossRefGoogle Scholar
  26. Nazina TN, Grigoŕian AA, Shestakova NM, Babich TL, Ivoilov VS, Feng Q, Ni F, Wang J, She Y, Xiang T, Luo Z, Belyaev SS, Ivanov MV (2007) Microbiological investigations of high-temperature horizons of the Kongdian petroleum reservoir in connection with field trial of a biotechnology for enhancement of oil recovery. Mikrobiologiia 76:287–296Google Scholar
  27. 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 66:700–711PubMedPubMedCentralCrossRefGoogle Scholar
  28. Orphan VJ, Goffredi SK, Delong EF, Boles JR (2003) Geochemical influence on diversity and microbial processes in high temperature oil reservoirs. Geomicrobiol J 20:295–311CrossRefGoogle Scholar
  29. Piceno YM, Reid FC, Tom LM, Conrad ME, Bill M, Hubbard CG, Fouke BW, Graff CJ, Han J, Stringfellow WT (2014) Temperature and injection water source influence microbial community structure in four Alaskan North Slope hydrocarbon reservoirs. Front Microbiol 5:1–13CrossRefGoogle Scholar
  30. Röling WFM, Head IM, Larter SR (2003) The microbiology of hydrocarbon degradation in subsurface petroleum reservoirs: perspectives and prospects. Res Microbiol 154:321–328PubMedCrossRefGoogle Scholar
  31. Sen R (2008) Biotechnology in petroleum recovery: the microbial EOR. Prog Energ Combust Sci 34:714–724CrossRefGoogle Scholar
  32. Sette LD, Simioni KC, Vasconcellos SP, Dussan LJ, Neto EV, Oliveira VM (2007) Analysis of the composition of bacterial communities in oil reservoirs from a southern offshore Brazilian basin. Antonie van Leeuwenhoek 91:253–266PubMedCrossRefGoogle Scholar
  33. Shestakova NM, Ivoilov VS, Tourova TP, Belyaev SS, Poltaraus AB, Nazina TN (2009) Application of clone libraries: syntrophicacetate degradation to methane in a high-temperature petroleum reservoir - culture-based and 16S rRNA genes characterisation. In: Whitby C, Skovhus TL (eds) Applied microbiology and molecular biology in oilfield systems. Springer Dordrecht Heidelberg London, New York, pp 45–53Google Scholar
  34. Siegert M, Sitte J, Galushko A, Krüger M (2013) Starting up microbial enhanced oil recovery. Adv Biochem Eng/Biotechnol 142:1–94CrossRefGoogle Scholar
  35. Silva TR, Verde LCL, Santos Neto EV, Oliveira VM (2013) Diversity analyses of microbial communities in petroleum samples from Brazilian oil fields. Int Biodeter Biodegr 81:57–70CrossRefGoogle Scholar
  36. Tago K, Itoh H, Kikuchi Y, Hori T, Sato Y, Nagayama A, Okubo T, Navarro R, Aoyagi T, Hayashi K, Hayatsu M (2014) A fine-scale phylogenetic analysis of free-living Burkholderia species in sugarcane field soil. Microbes Environ 29(4):434–437PubMedPubMedCentralCrossRefGoogle Scholar
  37. Tang YQ, Li Y, Zhao JY, Chi CQ, Huang LX, Dong HP, Wu XL (2012) Microbial communities in long-term, water-flooded petroleum reservoirs with different in situ temperatures in the Huabei oilfield, China. PLoS ONE 7(3):e33535PubMedPubMedCentralCrossRefGoogle Scholar
  38. Telang AJ, Ebert S, Foght JM, Westlake DWS, Jenneman GE, Gevertz D, Voordouw G (1997) Effect of nitrate injection on the microbial community in an oil field as monitored by reverse sample genome probing. Appl Environ Microbiol 63:1785–1793PubMedPubMedCentralGoogle Scholar
  39. van der Kraan GM, Bruining J, Lomans BP, van Loosdrecht MC, Muyzer G (2010) Microbial diversity of an oil-water processing site and its associated oil field: the possible role of microorganisms as information carriers from oil-associated environments. FEMS Microbiol Ecol 71:428–443PubMedCrossRefGoogle Scholar
  40. van Hamme JD, Singh A, Ward OP (2003) Recent advances in petroleum microbiology. Microbiol Mol Biol Rev 67:503–509PubMedPubMedCentralCrossRefGoogle Scholar
  41. Voordouw G (2011) Production-related petroleum microbiology: progress and prospects. Curr Opin Biotechnol 22:401–405PubMedCrossRefGoogle Scholar
  42. Wasserfallen A, Nölling J, Pfister P, Reeve J, Conway de Macario E (2000) Phylogenetic analysis of 18 thermophilic Methanobacterium isolates supports the proposals to create a new genus, Methanothermobacter gen. nov., and to reclassify several isolates in three species, Methanothermobacter thermautotrophicus comb. nov., Methanothermobacter wolfeii comb. nov., and Methanothermobacter marburgensis sp. nov. Int J Syst Evol Microbiol 50:43–53PubMedCrossRefGoogle Scholar
  43. Willems A, Busse J, Goor M, Pot B, Falsen E, Jantzen E, Hoste B, Gillis M, Kersters K, Auling G, Ley JD (1989) Hydrogenophaga, a new genus of hydrogen-oxidizing bacteria that includes Hydrogenophaga flava comb. nov. (formerly Pseudomonas flava), Hydrogenophaga palleronii (formerly Pseudomonas palleronii), Hydrogenophaga pseudoflava (formerly Pseudomonas pseudoflava and “Pseudomonas carboxydoflava”), and Hydrogenophaga taeniospiralis (formerly Pseudomonas taeniospiralis). Int J Syst Bacteriol 39:319–333CrossRefGoogle Scholar
  44. Yamane K, Hattori Y, Ohtagaki H, Fujiwara K (2011) Microbial diversity with dominance of 16S rRNA gene sequences with high GC contents at 74 and 98°C subsurface crude oil deposits in Japan. FEMS Microbiol Ecol 76:220–235PubMedCrossRefGoogle Scholar
  45. Youssef N, Elshahed MS, McInerney MJ (2009) Microbial processes in oil fields: culprits, problems, and opportunities. Adv Appl Microbiol 66:141–251PubMedCrossRefGoogle Scholar
  46. Zhang F, She YH, Ma SS, Hu JM, Banat IM, Hou DJ (2010) Response of microbial community structure to microbial plugging in a mesothermic petroleum reservoir in China. Appl Microbiol Biotechnol 88:1413–1422PubMedCrossRefGoogle Scholar
  47. Zhang F, She YH, Li HM, Zhang XT, Shu FC, Wang ZL, Yu LJ, Hou DJ (2012) Impact of an indigenous microbial enhanced oil recovery field trial on microbial community structure in a high pour-point oil reservoir. Appl Microbiol Biotechnol 95:811–821PubMedCrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  1. 1.Petroleum Production Engineering Institute of Huabei Oilfield LtdRenqiuChina
  2. 2.Institute of MicrobiologyChinese Academy of SciencesBeijingChina
  3. 3.School of Chemistry and Molecular EngineeringEast China University of Science and TechnologyShanghaiChina

Personalised recommendations