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Original Articles

Microbiological Assessment of Circulation Mud Fluids During the First Operation of Riser Drilling by the Deep-Earth Research Vessel Chikyu

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Pages 274-282 | Received 08 Dec 2007, Accepted 07 May 2008, Published online: 05 Aug 2008

REFERENCES

  • Bale , S J , Goodman , K , Rochelle , P A , Marchesi , J R , Fry , J C , Weightman , A J and Parkes , R J . 1997 . Desulfovibrio profundus sp. nov., a novel barophilic sulfate-reducing bacterium from deep sediment layers in the Japan Sea . Int J Syst Bacteriol , 47 : 515 – 521 .
  • Batzke , A , Engelen , B , Sass , H and Cypionka , H . 2007 . Phylogenetic and physiological diversity of cultured deep-biosphere bacteria from Equatorial Pacific Ocean and Peru Margin sediments . Geomicrobiol J , 24 : 261 – 273 .
  • Biddle , J F , House , C H and Brenchley , J E . 2005 . Microbial stratification in deeply buried marine sediment reflects changes in sulfate/methane profiles . Geobiology , 3 : 287 – 295 .
  • Biddle , J F , Lipp , J S , Lever , M A , Lloyd , K G , Sørensen , K B , Anderson , R , Fredricks , H F , Elvert , M , Kelly , T J , Schrag , D P , Sogin , M L , Brenchley , J E , Teske , A , House , C H and Hinrichs , K.-U. 2006 . Heterotrophic Archaea dominate sedimentary subsurface ecosystem off Peru . Proc Natl Acad Sci USA , 103 : 3846 – 3851 .
  • Colwell , F S , Stormberg , G J , Phelps , T J , Birnbaum , S A , McKinley , J , Rawson , S A , Veverka , C , Goodwin , S , Long , P E , Russell , B F , Garland , T , Tompson , D , Skinner , P and Grover , S . 1992 . Innovative techniques for collection of saturated and unsaturated subsurface basalts and sediments for microbiological characterization . J Microbiol Meth , 15 : 279 – 292 .
  • DeLong , E F . 1992 . Archaea in coastal marine environments . Proc Natl Acad Sci USA , 89 : 5685 – 5689 .
  • D'Hondt , S , Inagaki , F , Ferdelman , T , Jørgensen , B B , Kato , K , Kemp , P , Sobecky , P , Sogin , M and Takai , K . 2007 . Exploring subseafloor life with the Integrated Ocean Drilling Program . Sci Drilling , 5 : 26 – 37 .
  • D'Hondt , S , Jørgensen , B B , Miller , D J , Batzke , A , Blake , R , Cragg , B A , Cypionka , H , Dickens , G R , Ferdelman , T , Hinrichs , K-U , Holm , N G , Mitterer , R , Spivack , A , Wang , G , Bekins , B , Engelen , B , Ford , K , Gettemy , G , Rutherford , S D , Sass , H , Skilbeck , C G , Ailleo , I W , Guerin , G , House , C H , Inagaki , F , Meister , P , Naehr , T , Niitsuma , S , Parkes , R J , Schippers , A , Smith , D C , Teske , A , Wiegel , J , Padilla , C N and Acosta , J LS . 2004 . Distribution of microbial activities in deep subseafloor sediments . Science , 306 : 2216 – 2221 .
  • D'Hondt , S , Rutherford , S and Spivack , A J . 2002 . Metabolic activity of subsurface life in deep-sea sediments . Science , 295 : 2067 – 2070 .
  • House , C H , Cragg , B A , Teske , A and Leg 201 Scientific Party . 2003 . Drilling contamination tests during ODP Leg 201 using chemical and particulate tracers . ODP Init Rep , 201 : 1 – 18 .
  • Inagaki , F , Nunoura , T , Nakagawa , S , Teske , A , Lever , A , Lauer , A , Suzuki , M , Takai , K , Delwiche , M , Colwell , F S , Nealson , K H , Horikoshi , K , HondtD' , S and Jørgensen , B B . 2006 . Biogeographical distribution and diversity of microbes in methane hydrate-bearing deep marine sediments on the Pacific Ocean Margin . Proc Natl Acad Sci USA , 103 : 2815 – 2820 .
  • Inagaki , F , Suzuki , M , Takai , K , Oida , H , Sakamoto , T , Aoki , K , Nealson , K H and Horikoshi , K . 2003 . Microbial communities associated with geological horizons in coastal subseafloor sediments from the Sea of Ohkotsk . Appl Environ Microbiol , 69 : 7224 – 7235 .
  • Jurgens , G , Lindstrom , K and Saano , A . 1997 . Novel group within the kingdom Crenarchaeota from boreal forest soil . Appl Environ Microbiol , 63 : 642 – 805 .
  • Kendall , M M , Liu , Y , Sieprawska-Lupa , M , Stetter , K O , Whitman , W B and Boone , D R . 2006 . Methanococcus aeolicus sp. nov., a mesophilic, methanogenic archaeon from shallow and deep marine sediments . Int J Syst Evol Microbiol , 56 : 1525 – 1529 .
  • Lane , D J . 1991 . “ 16S/23S sequencing ” . In Nucleic Acid Techniques in Bacterial Systematics , Edited by: Stackbrandt , E and Goodfellow , M . 115 – 176 . New York : John Wiley & Sons .
  • Lee , Y-J , Wagner , I D , Brice , M E , Kevbrin , V V , Mills , G L , Romanek , C S and Wiegel , J . 2005 . Thermosediminibacter oceani gen. nov., sp. nov. and Thermosediminibacter litoriperuensis sp. nov., new anaerobic thermophilic bacteria isolated from Peru Margin . Extremophiles , 9 : 375 – 383 .
  • Lever , M A , Alperin , M , Engelen , B , Inagaki , F , Nakagawa , S , Steinsbu , B O , Teske , A and IODP Expedition 301 Scientists . 2006 . Trends in basalt and sediment core contamination during IODP expedition 301 . Geomicrobiol J , 23 : 517 – 530 .
  • Ludwig , W , Strunk , O , Westram , R , Richter , L , Yadhukumar , H M , Buchner , A , Lai , T , Steppi , S , Jobb , G , Förster , W , Brettske , I , Gerber , S , Ginhart , A W , Gross , O , Grumann , S , Hermann , S , Jost , R , König , A , Liss , T , Lüßmann , R , May , M , Nonhoff , B , Reichel , B , Strehlow , R , Stamatakis , A , Stuckmann , N , Vilbig , A , Lenke , M , Ludwig , T , Bode , A and Schleifer , K H . 2004 . ARB: a software environment for sequence data . Nucleic Acids Res , 32 : 1363 – 1371 .
  • Lunau , M , Lemke , A , Walther , K , Martens-Habbena , W and Simon , M . 2005 . An improved method for counting bacteria from sediments and turbid environments by epifluorescence microscopy . Environ Microbiol , 7 : 961 – 968 .
  • Mauclaire , L , Zeep , K , Meister , P and Mckenzie , J . 2004 . Direct in situ detection of cells in deep-sea sediment cores from the Peru Margin (ODP Leg 201, Site 1229) . Geobiology , 2 : 217 – 223 .
  • Mikucki , J A , Liu , Y , Delwiche , M , Colwell , F S and Boone , D R . 2003 . Isolation of a methanogen from deep marine sediments that contain methane hydrates, and description of Methanoculleus submarines sp. nov . Appl Environ Microbiol , 69 : 3311 – 3316 .
  • Parkes , R J , Cragg , B A , Bale , S J , Getliff , J M , Goodmaan , K , Rochelle , P A , Fry , J C , Weightman , A J and Harvey , S M . 1994 . Deep bacterial biosphere in Pacific Ocean sediments . Nature , 371 : 410 – 413 .
  • Parkes , R J , Cragg , B A and Wellsbury , P . 2000 . Recent studies on bacterial population sand processes in subseafloor sediments: A review . Hydrogeol J , 8 : 11 – 28 .
  • Parkes , R J , Webster , G , Cragg , B A , Weightman , A J , Newbwrry , C J , Ferdelman , T G , Kallmeyer , J , Jørgensen , B B , Aiello , I W and Fry , J C . 2005 . Deep sub-seafloor prokaryotes stimulated at interfaces over geological time . Nature , 436 : 390 – 394 .
  • Schippers , A , Neretin , L N , Kallmeyer , J , Ferdelman , T G , Cragg , B A , Parkes , R J and Jørgensen , B B . 2005 . Prokaryotic cells of the deep sub-seafloor biosphere identified as living bacteria . Nature , 433 : 861 – 864 .
  • Smith , D C , Spivack , A J , Fisk , M R , Haveman , S A and Staudigel , H . 2000 . Tracer-based estimates of drilling-induced microbial contamination of deep sea crust . Geomicrobiol J , 17 : 207 – 219 .
  • Süß , J , Engelen , B , Cypionka , H and Sass , H . 2004 . Quantitative analysis of bacterial communities from Mediterranean sapropels based on cultivation-dependent methods . FEMS Microbiol Ecol , 51 : 109 – 121 .
  • Taira , A . 2005 . Shimokita area site survey: Northern Japan Trench seismic survey, northern Honshu, Japan Available from: http://sio7.jamstec.go.jp/cdex-technical-report/ CDEX Tech Rep Vol. 2, pp. 155
  • Takai , K , Moyer , C L , Miyazaki , M , Nogi , Y , Hirayama , H , Nealson , K H and Horikoshi , K . 2005 . Marinobacter alkaliphilus sp. nov., a novel alkaliphilic bacterium isolated from subseafloor alkaline serpentine mud from Ocean Drilling Program Site 1200 at Sough Chamorro Seamount, Mariana Forearc . Extremophiles , 9 : 17 – 27 .
  • Teske , A P . 2006 . Microbial communities of deep marine subsurface sediments: molecular and cultivation surveys . Geomicrobiol J , 23 : 357 – 368 .
  • Toffin , L , Webster , G , Weightman , A J , Fry , J C and Prieur , D . 2004 . Molecular monitoring of culturable bacteria from deep-sea sediment of the Nankai Trough, Leg 190 Ocean Drilling Program . FEMS Microbiol Ecol , 48 : 357 – 367 .
  • Webster , G , Parkes , R J , Cragg , B A , Newberry , C J , Weightman , A J and Fry , J C . 2006 . Prokaryotic community composition and biogeochemical processes in deep subseafloor sediments from the Peru Margin . FEMS Microbiol Ecol , 58 : 65 – 85 .

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