PCR-DGGE method for analyzing the bacterial community in a high temperature petroleum reservoir

World Journal of Microbiology and Biotechnology

Volumn 24, Issue 9, 2008, Pages 1981-1987

  Wang, Jun ^a   Ma, Ting ^a   Zhao, Lingxia ^a   Lv, Jinghua ^a   Li, Guoqiang ^a   Liang, Fenglai ^a   Liu, Rulin ^a  

^a NANKAI UNIVERSITY   (China)

Author keywords

16S rRNA; Bacterial community; DGGE; Petroleum reservoir; Phylogenetic analysis

Indexed keywords

BACTERIOLOGY; COLLOIDS; COSMIC RAYS; DNA SEQUENCES; ELECTROPHORESIS; FOSSIL FUELS; GELATION; GELS; NUCLEIC ACIDS; OIL FIELDS; ORGANIC ACIDS; PETROLEUM ANALYSIS; PETROLEUM REFINERIES; PETROLEUM RESERVOIR ENGINEERING; PETROLEUM RESERVOIRS; RESERVOIRS (WATER); SEPARATION;

BACTERIAL COMMUNITIES; BUSINESS MEDIA; CLUSTERING ANALYSIS; DAGANG OIL FIELD; DENATURING GRADIENT GEL ELECTROPHORESIS (DGGA); DENATURING GRADIENT GEL ELECTROPHORESIS (DGGE) ANALYSIS; DNA FRAGMENTS; HIGH TEMPERATURE (HT); MICROBIAL COMMUNITIES; PCR-DGGE;

PETROLEUM DEPOSITS;

BACTERIA (MICROORGANISMS);

EID: 48349104476     PISSN: 09593993     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11274-008-9694-6     Document Type: Article

References (28)

1. EA Bonch-Osmolovskaya ML Miroshnichenko AV Lebedinsky NA Chernyh TN Nazina VS Ivoilov SS Belyaev ES Boulygina YP Lysov AN Perov AD Mirzabekov H Hippe E Stackebrandt S L'Haridon C Jeanthon 2003 Radioisotopic, culture-based, and oligonucleotide microchip analyses of thermophilic microbial communities in a continental high-temperature petroleum reservoir Appl Environ Microbiol 69 6143 6151
2. I Brettar R Christen MG Höfle 2006 Rheinheimera perlucida sp. nov., a marine bacterium of the Gamma proteobacteria isolated from surface water of the central Baltic Sea Int J Syst Evol Microbiol 56 2177 2183
3. H Feitkenhauer R Muller H Markl 2003 Degradation of polycyclic aromatic hydrocarbons and long chain alkanes at 60-70°C by Thermus and Bacillus spp Biodegradation 14 367 372
4. MJ Ferris G Muyzer DM Ward 1996 Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community Appl Environ Microbiol 62 340 346
5. C Fontana G Vignoloa PS Cocconcelli 2005 PCR-DGGE analysis for the identification of microbial populations from Argentinean dry fermented sausages J Microbiol Methods 63 254 263
6. A Grabowski O Nercessian F Fayolle D Blanchet C Jeanthon 2005 Microbial diversity in production waters of a low temperature biodegraded oil reservoir FEMS Microbiol Ecol 54 424 433
7. M Hasanuzzaman KM Umadhay-Briones SM Zsiros N Morita Y Nodasaka I Yumoto H Okuyama 2004 Isolation, identification, and characterization of a novel, oil-degrading bacterium, Pseudomonas aeruginosa T1 Curr Microbiol 49 108 114
8. T Kato M Haruki T Iamanaka 2001 Isolation and characterization of long-chain n-alkane degrading Bacillus thermoleovorans from deep subterranean petroleum reservoirs J Biosci Bioeng 91 64 70
9. TJ Kim EY Lee YJ Kim KS Cho HW Ryu 2003 Degradation of polyaromatic hydrocarbons by Burkholderia cepacia 2A-12 World J Microbiol Biotechnol 19 4 411 417
10. M Kimura 1980 A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences J Mol Evol 16 111 120
11. XT Lai XF Zeng S Fang YL Huang LX Cao SN Zhou 2006 Denaturing gradient gel electrophoresis (DGGE) analysis of bacterial community composition in deep-sea sediments of the South China Sea World J Microbiol Biotechnol 22 1337 1345
12. H Li SZ Yang BZ Mu ZF Rong J Zhang 2006 Molecular analysis of the bacterial community in a continental high-temperature and water-flooded petroleum reservoir FEMS Microbiol Lett 257 92 98
13. G Malin 2006 OCEANS: new pieces for the Marine sulfur cycle jigsaw Science 314 607 608
14. AE Murray CM Preston R Massana LT Taylor A Blakis K Wu EF DeLong 1998 Seasonal and spatial variability of bacterial and archaeal assemblages in the coastal waters near Anvers Island, Antarctica Appl Environ Microbiol 64 2585 2595
15. G Muyzer EC de Waa AG Uitterlinden 1993 Profiling of complex microbial population by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA Appl Environ Microbiol 59 695 700
16. TN Nazina DSh Sokolova AA Grigoryan NM Shestakova EM Mikhailova AB Poltaraus TP Tourova AM Lysenko GA Osipov SS Belyaev 2005 Geobacillus jurassicus sp. nov., a new thermophilic bacterium isolated from a high-temperature petroleum reservoir, and the validation of the Geobacillus species Syst Appl Microbiol 28 43 53
17. VJ Orphan LT Taylor D Hafenbradl EF Delong 2000 Culture-dependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs Appl Environ Microbiol 66 700 711
18. N Saitou M Nei 1987 The neighbor-joining method: a new method for reconstructing phylogenetic trees Mol Biol Evol 4 406 425
19. MB Salinas ML Fardeau JL Cayol L Casalot BKC Patel P Thomas JL Garcia B Ollivier 2004 Petrobacter succinimandens gen. nov., sp. nov., a moderately thermophilic, nitrate-reducing bacterium isolated from an Australian oil well Int J Syst Evol Microbiol 54 645 649
20. Schäfer H, Muyzer G (2001) Denaturing gradient gel electrophoresis in marine microbial ecology. In: JH Paul (ed) Marine microbiology, vol 30. Academic Press, St. Petersburg, FL, pp 425-468
21. NA Sorkhoh AS Ibrahim MA Ghannoum SS Radwan 1993 High-temperature hydrocarbon degradation by Bacillus stearothermophilus from oil-polluted Kuwaiti desert Appl Microbiol Biotechnol 39 123 126
22. E Stackbrandt BM Goebel 1994 Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology Int J Syst Bacteriol 44 846 849
23. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins 1997 The ClustalX windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools Nucleic Acids Res 24 4876 4882
24. JD Van Hamme A Singh OP Ward 2003 Recent advances in petroleum microbiology Microbiol Mol Biol Rev 67 503 549
25. G Voordouw JK Voordouw TR Jack J Foght PM Fedorak DWS Westlake 1992 Identification of distinct communities of sulfate-reducing bacteria in oilfields by reverse sample genome probing Appl Environ Microbiol 58 3542 3552
26. G Voordouw SM Armstrong MF Reimer B Fouts AJ Telang Y Shen D Gevertz 1996 Characterization of 16S rRNA genes from oilfield microbial communities indicates the presence of a variety of sulfate-reducing, fermentative, and sulfide-oxidizing bacteria Appl Environ Microbiol 62 1623 1629
27. T Watanabe S Asakawa A Nakamura K Nagaoka M Kimura 2004 DGGE method for analyzing 16S rDNA of methanogenic archaeal community in paddy field soil FEMS Microbiol Lett 232 153 163
28. XL Zhang X Yan PP Gao LH Wang ZH Zhou LP Zhao 2005 Optimized sequence retrieval from single bands of TGGE (temperature gradient gel electrophoresis) profiles of the amplified 16S rDNA fragments from an activated sludge system J Microbiol Method 60 1 1 11