Archaeal diversity associated with in situ samplers deployed on hydrothermal vents on the East Pacific Rise

Environmental Microbiology

Volumn 5, Issue 6, 2003, Pages 492-502

  Nercessian, Olivier ^a   Reysenbach, Anna Louise ^b   Prieur, Daniel ^a   Jeanthon, Christian ^a  

^a INSTITUT UNIVERSITAIRE EUROPÉEN DE LA MER   (France)

^b PORTLAND STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARCHAEA; DNA, BACTERIAL; MOLECULAR SEQUENCE DATA; PACIFIC OCEAN; PHYLOGENY; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEAWATER; SULFIDES; VARIATION (GENETICS);

ARCHAEA; ARCHAEOGLOBALES; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; DESULFUROCOCCALES; EURYARCHAEOTA; KORARCHAEOTA; METHANOCOCCALES; METHANOPYRALES; PROKARYOTA; THERMOCOCCALES;

EID: 0038347385     PISSN: 14622912     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1462-2920.2003.00437.x     Document Type: Article

References (40)

1. Barns, S., Fundyga, R.E., Jeffries, M.W., and Pace, N.R. (1994) Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. Proc Natl Acad Sci USA 91: 1609-1613.
2. Brosius, J., Palmer, J.L., Kennedy, J.P., and Noller, H.F. (1978) Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci USA 75: 4801-4805.
3. Cary, S.C., Shank, T., and Stein, J. (1998) Worms bask in extreme temperatures. Nature 391: 545-546.
4. Charbonnier, F., Forterre, P., Erauso, G., and Prieur, D. (1995) Purification of plasmids from thermophilic and hyperthermophilic archaea. In Archaea: a Laboratory Manual. Robb, F.T., and Place, A.R. (eds). New York: Cold Spring Harbor Laboratory Press, pp. 87-90.
5. Corre, E. (2000) Approches moleculaires de la diversité microbienne de deux environnements extrêmes: les sources hydrothermales profondes et les réservoirs pétroliers. Thèse de l'Université de Bretagne Occidentale.
6. Dalgaard, J.Z., and Garrett, R.A. (1993) Archaeal hyperthermophilic genes. In The Biochemistry of Archaea (Archaebacteria). Vol. 26. Kates, M., Kushner, D.J., and Matheson, A.T. (eds). Amsterdam: Elsevier, pp. 535-563.
7. DeLong, E.F. (1992) Archaea in coastal marine environments. Proc Natl Acad Sci USA 89: 5685-5689.
8. Galtier, N., Tourasse, N., and Gouy, M. (1999) A non hyperthermophilic common ancestor to extant life forms. Science 283: 220-221.
9. Goldenberger, D., and Altwegg, M. (1995) Eubacterial PCR: contaminating DNA in primer preparations and its elimination by UV light. J Microbiol Meth 21: 27-32.
10. Haddad, A., Camacho, F., Durand, P., and Cary, S.C. (1995) Phylogenetic characterization of the epibiotic bacteria associated with the hydrothermal vent polychaete Alvinella pompejana. Appl Environ Microbiol 61: 1679-1687.
11. Harmsen, H.J.M., Prieur, D., and Jeanthon, C. (1997) Distribution of microorganisms in deep-sea hydrothermal vent chimneys investigated by whole-cell hybridization and enrichment culture of thermophilic subpopulations. Appl Environ Microbiol 63: 2876-2883.
12. Head, I.M., Saunders, J.R., and Pickup, R.W. (1998) Microbial evolution, diversity, and ecology: a decade of ribosomal RNA analysis of uncultivated microorganisms. Microb Ecol 35: 1-21.
13. Hekinian, R., and Fouquet, Y. (1985) Volcanism and metallogenesis of axial and off-axial structures on the East Pacific Rise near 13°N. Econ Geol 80: 221-249.
14. Huber, H., Jannasch, H., Rachel, R., Fuchs, T., and Stetter, K.O. (1997) Archaeoglobus venificus sp. nov., a novel facultative chemolithoautotrophic hyperthermophilic sulfite-reducer, isolated from abyssal black smokers. Syst Appl Microbiol 20: 374-380.
15. Huber, R., and Stetter, K.O. (2001a) Methanopyrus. In The Archaea and the Deeply Branching and Phototrophic Bacteria. Boone, D.R., Castenholz, R.W and Garrity, G. (eds). New York: Springer-Verlag, pp. 354-355.
16. Huber, H., and Stetter, K.O. (2001b) Desulfurococcales. In The Archaea and the Deeply Branching and Phototrophic Bacteria. Boone D.R., Castenholz, R.W and Garrity, G. (eds). New York: Springer-Verlag, pp. 179-197.
17. Huber, J.A., Butterfield, D.A., and Baross, J.A. (2002) Temporal changes in archaeal diversity and chemistry in a mid-ocean ridge subseafloor habitat. Appl Environ Microbiol 68: 1585-1594.
18. Jukes, T.H., and Cantor, C.R. (1969) Evolution of protein molecules. In Mammalian Protein Metabolism. Munro, H.N. (ed.). New York: Academic Press, pp. 21-32.
19. Karl, D.M. (1995) Ecology of free-living, hydrothermal vent microbial communities. In The Microbiology of Deep-Sea Hydrothermal Vents. Karl, D.M. (ed.). Boca Raton: CRC Press, pp. 35-124.
20. L'Haridon, S., Cilia, V., Messner, P., Raguenes, G., Gambacorta, A., Sleytr, U.B. et al. (1998) Desulfurobacterium thermolithotrophum gen nov., sp. nov., a novel autotrophic, sulphur-reducing bacterium isolated from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 3: 701-711.
21. Massana, R., Murray, A.E., Preston, C.M., and DeLong, E.F. (1997) Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel. Appl Environ Microbiol 63: 50-56.
22. Miller, T.L., and Wolin, M.J. (1974) A serum bottle modification of hungate technique for cultivating obligate anaerobes. Appl Environ Microbiol 27: 985-987.
23. Moyer, C.L., Dobbs, F.C., and Karl, D.M. (1994) Estimation of diversity and community structure through restriction fragment length polymorphism distribution analysis of bacterial 16S rRNA genes from a microbial mat at an active, hydrothermal vent system, Loihi Seamount, Hawaii. Appl Environ Microbiol 60: 871-879.
24. Moyer, C.L., Tiedje, J.M., Dobbs, F.C., and Karl, D.M. (1998) Diversity of deep-sea hydrothermal vent Archaea from Loihi Seamount, Hawaii. Deep-Sea Res II 45: 303-317.
25. Porteous, L.A., Armstrong, J.L., Seidler, R.J., and Watrud, L.S. (1994) An effective method to extract DNA from environmental samples for polymerase chain reaction amplification and DNA fingerprint. Curr Microbiol 29: 301-307.
26. Ravot, G., Ollivier, B., Magot, M, Patel, B.K.C., Crolet, J.-L., Fardeau, M-L., and Garcia, J.-L. (1995) Thiosulfate reduction, an important physiological feature shared by members of the order Thermotogales. Appl Environ Microbiol 61: 2053-2055.
27. Reysenbach, A.-L., Longnecker, K., and Kirshtein, J. (2000) Novel bacterial and archaeal lineages from an in situ growth chamber deployed at a Mid-Atlantic Ridge hydrothermal vent. Appl Environ Microbiol 66: 3798-3806.
28. Reysenbach, A.-L., Götz, D., and Yernool, D. (2001) Microbial diversity of marine and terrestrial thermal springs. In Biodiversity of Microbial Life: Foundations of Earth's Biosphere. Staley, J.T and Reysenbach, A.-L. (eds). New York: Wiley Publishers, pp. 345-421.
29. Saitou, N., and Nei, M. (1987) The neighbor joining method: a new tool for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
30. Singleton, D.R., Furlong, M.A., Rathburn, S.L., and Whitman, W.B. (2002) Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples. Appl Environ Microbiol 67: 4374-4376.
31. Takai, K., and Horikoshi, K. (1999) Genetic diversity of Archaea in deep-sea hydrothermal vent environments. Genetics 152: 1285-1297.
32. Takai, K., and Sako, Y. (1999) A molecular view of archaeal diversity in marine and terrestrial hot water environments. FEMS Microbiol Ecol 28: 177-188.
33. Takai, K., Komatsu, T., Inagaki, F., and Horikoshi, K. (2001) Distribution of Archaea in a black smoker chimney structure. Appl Environ Microbiol 67: 3618-3629.
34. Taylor, C.D., Wirsen, C.O., and Gaill, F. (1999) Rapid microbial production of filamentous sulfur mats at hydrothermal vents. Appl Environ Microbiol 65: 2253-2255.
35. Vetriani, C., Jannasch, H.W., MacGregor, B.J., Stahl, D.A., and Reysenbach, A.-L. (1999) Population structure and phylogenetic characterization of marine benthic Archaea in deep-sea sediments. Appl Environ Microbiol 65: 4375-4384.
36. Whitman, W.B., Boone, D.R., and Koga, Y. (2001) Methanocaldococcaceae. In The Archaea and the Deeply Branching and Phototrophic Bacteria. Boone, D.R., Castenholz, R.W., and Garrity, G. (eds). New York: Springer-Verlag, pp. 242-246.
37. Widdel, F., and Bak, F. (1992) Gram-negative mesophilic sulfate-reducing bacteria. In The Prokaryotes. Balows, A., Truper, H.G., Dworkin, M., Harder, W., and Schleifer, K.H. (eds). New York: Springer-Verlag, pp. 3352-3378.
38. Winker, S., and Woese, C.R. (1991) A definition of the domains Archaea, Bacteria and Eucarya in terms of small subunit ribosomal RNA characteristics. Syst Appl Microbiol 14: 305-310.
39. Wirsen, C.O., Brinkhoff, T., Kuever, J., Muyzer, G., Molyneaux, S., and Jannasch, H.W. (1998) Comparison of a new Thiomicrospira strain from the mid-atlantic ridge with known hydrothermal vent isolates. Appl Environ Microbiol 64: 4057-4059.
40. Zillig, W., and Reysenbach, A.-L. (2001) Thermococcales. In The Archaea and the Deeply Branching and Phototrophic Bacteria. Boone, D.R., Castenholz, R.W and Garrity, G. (eds). New York: Springer-Verlag, pp. 341-348.