Microbial community in a geothermal aquifer associated with the subsurface of the Great Artesian Basin, Australia

Extremophiles

Volumn 9, Issue 5, 2005, Pages 407-414

  Kimura, Hiroyuki ^a   Sugihara, Maki ^b   Yamamoto, Hiroyuki ^c   Patel, Bharat K C ^d   Kato, Kenji ^a   Hanada, Satoshi ^b  

^a SHIZUOKA UNIVERSITY   (Japan)

^b NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^c JAPAN AGENCY FOR MARINE EARTH SCIENCE AND TECHNOLOGY   (Japan)

^d GRIFFITH UNIVERSITY   (Australia)

Author keywords

Deep aquifer; Geothermal groundwater; Great Artesian Basin; Hydrogen oxidizer; Methanogen; Subsurface biosphere

Indexed keywords

BACTERIAL DNA; RIBOSOME DNA; RNA 16S;

ARCHAEBACTERIUM; ARTICLE; AUSTRALIA; BACTERIUM; BIOMASS; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; PHYLOGENY; THERMAL SPRING;

ARCHAEA; AUSTRALIA; BACTERIA; BIOMASS; DNA, BACTERIAL; DNA, RIBOSOMAL; HOT SPRINGS; PHYLOGENY; RNA, RIBOSOMAL, 16S;

AQUASPIRILLUM; ARCHAEA; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; HYDROGENOBACTER; HYDROGENOPHILUS; METHANOBACTERIALES; METHANOSAETA; METHANOSPIRILLUM; OTUS; THERMODESULFOVIBRIO; THERMOPLASMA; THERMUS;

EID: 26444451605     PISSN: 14310651     EISSN: 14334909     Source Type: Journal    
DOI: 10.1007/s00792-005-0454-3     Document Type: Article

References (50)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
2. Apps JA, van de Kamp PC (1993) Energy gases of abiogenic origin in the Earth's crust. In: Reston VA (ed) The future of energy gases. US Geological Survey, pp 81-132
3. Button DK, Robertson BR (2001) Determination of DNA content of aquatic bacteria by flow cytometry. Appl Environ Microbiol 67:1636-1645
4. Byers HK, Stackebrandt E, Hayward C, Blackall LL (1998) Molecular investigation of a microbial mat associated with the Great Artesian Basin. FEMS Microbial Ecol 25:391-403
5. Chandler DP, Brockman FJ, Bailey TJ, Fredrickson JK (1998) Phylogenetic diversity of archaea and bacteria in a deep subsurface paleosol. Microbial Ecol 36:37-50
6. Chung AP, Rainey FA, Valente M, Nobre MF, da Costa MS (2000) Thermus igniterrae sp nov and Thermus antranikianii sp nov, two new species from Iceland. Int J Syst Evol Microbiol 50:209-217
7. 81 Kr in the Great Artesian Basin, Australia: a new method for dating very old groundwater. Earth Planet Sci Lett 182:103-113
8. Darland G, Brock TD, Samsonoff W, Conti SF (1970) A thermophilic, acidophilic mycoplasma isolated from a coal refuse pile. Science 170:1416-1418
9. DeLong EF (1992) Archaea in coastal marine environments. Proc Natl Acad Sci USA 89:5685-5689
10. 36 Cl in environmental water samples using an electrostatic accelerator. Nature 277:22-25
11. Ferry JG, Smith PH, Wolfe RS (1974) Methanospirillum, a new genus of methanogenic bacteria, and characterization of Methanospirillum hungateii sp nov. Int J Syst Bacteriol 24:465-469
12. Großkopf R, Janssen PH, Liesack W (1998) Diversity and structure of the methanogenic community in anoxic rice paddy soil microcosms as examined by cultivation and direct 16S rRNA gene sequence retrieval. Appl Environ Microbiol 64:960-969
13. Habermehl MA (1980) The Great Artesian Basin, Australia. BMR J Aust Geol Geophys 5:9-38
14. Hayashi NR, Ishida T, Yokota A, Kodama T, Igarashi Y (1999) Hydrogenophilus thermoluteolus gen nov, sp nov, a thermophilic, facultatively chemolithoautotrophic, hydrogen-oxidizing bacterium. Int J Syst Bacteriol 49:783-786
15. Henry EA, Devereux R, Maki JS, Gilmour CC, Woese CR, Mandelco L, Schauder R, Remsen CC, Mitchell R (1994) Characterization of a new thermophilic sulfate-reducing bacterium Thermodesulfovibrio yellowstonii, gen nov and sp nov: its phylogenetic relationship to Thermodesulfobacterium commune and their origins deep within the bacterial domain. Arch Microbiol 161:62-69
16. Hobbie JE, Daley RJ, Jasper S (1977) Use of nuclepore filters for counting bacteria by fluorescence microscopy. Appl Environ Microbiol 33:1225-1228
17. Hudson JA, Morgan HW, Daniel RM (1987) Thermus filiformis sp, nov, a filamentous caldoactive bacterium. Int J Syst Bacteriol 37:431-436
18. Hugenholtz P, Pitulle C, Hershberger KL, Pace NP (1998) Novel division level bacterial diversity in a Yellowstone hot spring. J Bacteriol 180:366-376
19. Inagaki F, Suzuki M, Takai K, Oida H, Sakamoto T, Aoki K, Nealson KH, Horikoshi K (2003) Microbial communities associated with geological horizons in coastal subseafloor sediments from the Sea of Okhotsk. Appl Environ Microbiol 69:7224-7235
20. Kamagata Y, Kawasaki H, Oyaizu H, Nakamura K, Mikami E, Endo G, Koga Y, Yamasato K (1992) Characterization of three thermophilic strains of Methanothrix ("Methanosaeta") thermophila sp nov and rejection of Methanothrix ("Methanosaeta") thermoacetophila. Int J Syst Bacteriol 42:463-468
21. Kawasumi T, Igarashi Y, Kodama T, Minoda Y (1984) Hydrogenobacter thermophilus gen nov, sp nov, an extremely thermophilic, aerobic, hydrogen-oxidizing bacteria. Int J System Bacteriol 34:5-10
22. Kimura H, Fukuba T, Naganuma T (1999) Biomass of thraustochytrid protoctists in coastal water. Mar Ecol Prog Ser 189:27-33
23. Kimura H, Asada R, Masta A, Naganuma T (2003) Distribution of microorganisms in the subsurface of the Manus Basin hydrothermal vent field in Papua New Guinea. Appl Environ Microbiol 69:644-648
24. Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley and Sons, New York, pp 115-175
25. Lipman DJ, Person WR (1985) Rapid and sensitive protein similarity searches. Science 227:1435-1441
26. Maidak BL, Cole JR, Lilburn TG, Parker CT, Saxman PR, Farris RJ, Garrity GM, Olsen GJ, Schmidt TM, Tiedje JM (2001) The RDP-II (Ribosomal Database Project). Nucleic Acids Res 29:173-174
27. Marteinsson VT, Hauksdóttir S, Hobel CFV, Kristmannsdóttir H, Hreggvidsson GO, Kristjánsson JK (2001) Phylogenetic diversity analysis of subterranean hot springs in Iceland. Appl Environ Microbiol 67:4242-4248
28. Moreira C, Rainey FA, Nobre MF, da Silva MT, da Costa MS (2000) Tepidimonas ignava gen nov, sp nov, a new chemolithoheterotrophic and slightly thermophilic member of the beta-Proteobacteria. Int J Syst Evol Microbiol 50:735-742
29. 2 the universal energy source for long-term survival?. Microb Ecol 38:307-320
30. Page RD (1996) Tree view: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12:357-358
31. Patel GB (1992) A contrary view of the proposal to assign a neotype strain for Methanothrix soehngenii. Int J Syst Bacteriol 42:324-326
32. Polak EJ, Horsfall CL (1979) Geothermal gradients in the Great Artesian Basin, Australia. Bull Aust Soc Explor Geophys 10:144-148
33. Saitou N, Nei M, (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
34. Segerer A, Langworthy TA, Stetter KO (1988) Thermoplasma acidophilum and Thermoplasma volcanium sp nov from solfatara fieds. Syst Appl Microbiol 10:161-171
35. Seidel G (1980) Application of the GABHYD groundwater model of the Great Artesian Basin, Australia. BMR J Aust Geol Geophys 5:39-45
36. Sekiguchi Y, Kamagata Y, Syutsubo K, Ohashi A, Harada H, Nakamura K (1998) Phylogenetic diversity of mesophilic and thermophilic granular sludges determined by 16S rRNA gene analysis. Microbiology 144:2655-2665
37. Senior BR, Mond A, Harrison PL (1978) Geology of the Eromanga Basin Bulletin 167. Bureau of Mineral Resources, Australia
38. Shima S, Suzuki KI (1993) Hydrogenobacter acidophilus sp nov, a thermoacidophilic, aerobic, hydrogen-oxidizing bacterium requiring elemental sulfur for growth. Int J Syst Bacteriol 43:703-708
39. Somerville CC, Knight IT, Straube WL, Colwell RR (1989) Simple, rapid method for direct isolation of nucleic acids from aquatic environments. Appl Environ Microbiol 55:548-554
40. Spanevello MD, Yamamoto H, Patel BKC (2002) Thermaerobacter subterraneus sp nov, a novel aerobic bacterium from the Great Artesian Basin of Australia, and emendation of the genus Thermaerobacter. Int J Syst Evol Microbiol 52:795-800
41. Stackebrandt E, Charfreitag O (1990) Partial 16S rRNA primary structure of five Actimomyces species: phylogenetic implications and development of an Actinomyces israelii-specific oligonucleotide probe. J Gen Microbiol 136:37-43
42. Stahl DA, Amann R (1991) Development and application of nucleic acid probes in bacterial systematics. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley and Sons, New York, pp 205-248
43. Summit M, Baross JA (2001) A novel microbial habitat in the mid-ocean ridge subseafloor. Proc Natl Acad Sci USA 98:2158-2163
44. Takai K, Horikoshi K (2000) Rapid detection and quantification of members of the archaeal community by quantitative PCR using fluorogenic probes. Appl Environ Microbiol 66:5066-5072
45. Takai K, Gamo T, Tsunogai U, Nakayama N, Hirayama H, Nelson KH, Horikoshi K (2004) Geochemical and microbiological evidence for a hydrogen-based, hyperthermophilic subsurface lithoautotrophic microbial ecosystem (HyperSLiME) beneath an active deep-sea hydrothermal field. Extremophiles 8:269-282
46. Teske A, Hinrichs K-U, Edgcomb V, Gomez AV, Kysela D, Sylva SP, Sogin ML, Jannasch HW (2002) Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. Appl Environ Microbiol 68:1994-2007
47. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting position specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
48. Welhan JA, Lupton JE (1987) Light hydrocarbon gases in Guaymas Basin hydrothermal fluids: thermogenic vs abiogenic origin. Bull Assoc Petrol Geol 71:215-223
49. Wen A, Fegan M, Hayward C, Chakraborty S, Sly LI (1999) Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen nov, comb nov. Int J Syst Bacteriol 49:567-576
50. Williams RA, Smith KE, Welch SG, Micallef J (1996) Thermus oshimai sp nov, isolated from hot springs in Portugal, Iceland, and the Azores, and comment on the concept of a limited geographical distribution of Thermus species. Int J Syst Bacteriol 46:403-408