Microbial diversity in Nankai Trough sediments at a depth of 3,843 m

Journal of Oceanography

Volumn 55, Issue 5, 1999, Pages 635-642

  Li, Lina ^a   Guenzennec, Jean ^b   Nichols, Peter ^c   Henry, Pierre ^d   Yanagibayashi, Miki ^a   Kato, Chiaki ^a  

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

^b IFREMER   (France)

^c CSIRO   (Australia)

^d LABORATOIRE DE GÉOLOGIE   (France)

Author keywords

16S ribosomal RNA gene; Calyptogena; Cold seep; Deep sea; Microbial diversity; Nankai Trough; PLFA

Indexed keywords

BACTERIAL RNA; BACTERIUM IDENTIFICATION; BIODIVERSITY; BIOMASS; DNA ANALYSIS; DNA FRAGMENT; ISOMERISM; LIPID ANALYSIS; LOW TEMPERATURE; POLYMERASE CHAIN REACTION; RIBOSOMAL RNA; SEDIMENT; SYMBIOSIS;

BACTERIUM; COLD SEEP ORGANISM; DEEP-SEA SEDIMENT; MICROBIAL COMMUNITY; SPECIES DIVERSITY;

PACIFIC OCEAN;

EID: 0033382048     PISSN: 09168370     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1007897020042     Document Type: Article

References (30)

1. Ashi, J. (1997): Distribution of cold seepage at the fault scarp of the eastern Nankai accretionary prism. JAMSTEC J. Deep Sea Res., 13, 495-501.
2. Balkwill, D. L., F. R. Leach, J. T. Wilson, J. F. McNabb and D. C. White (1988): Equivalence of microbial biomass measures based on membrane lipid and cell wall components, adenosine triphosphate, and direct counts in subsurface sediments. Microb. Ecol., 16, 73-84.
3. Ben-Mlih, F., J.-C. Marty and A. Fiala-Medioni (1992): Fatty acid composition in deep-sea hydrothermal vent symbiotic bivalves. J. Lipid Res., 33, 1797-1806.
4. Bligh, E. G. and W. J. Dyer (1959): A rapid method of total lipid extraction and purification. Can. J. Biochem. Physiol., 37, 911-917.
5. Boon, J. J., J. W. De Leeuw, G. J. Van Der Hoek and J. H. Vosjan (1977): Significance and taxonomic value of iso and anteiso monoenoïc fatty acids and branched beta hydroxy fatty acids in Desulfovibrio desulfuricans. J. Bacteriol., 129, 1183-1191.
6. Bowman, J. P., J. Cavanagh, J. J. Austin and K. Sanderson (1996): Novel Psychrobacter species from Antarctic ornithogenic soils. Int. J. Syst. Bacteriol., 46, 841-848.
7. DeLong, E. F. (1992): Archaea in coastal marine environments. Proc. Natl. Acad. Sci. USA. 89, 5685-5689.
8. Distel, D. L., D. J. Lane, G. J. Olsen, S. J. Giovannoni, B. Pace, N. R. Pace, D. A. Stahl and H. Felbeck (1988): Sulfur-oxidizing bacterial endosymbionts: analysis of phytogeny and specificity by 16S rRNA sequences. J. Bacteriol., 170, 2506-2510.
9. Dowling, N. J. E., J. G. Guezennec and D. C. White (1988): Methods for insight into mechanisms of microbially influenced metal corrosion, p. 404-410. In Biodeterioration, ed. by D. R. Hougton, R. T. Smith and H. O. U. Eggins, Elsevier Applied Science Publ., London.
10. Gamo, T., J. Ishibashi, K. Shitashima, T. Nakatsuka, U. Tsunogai, T. Masuzawa, H. Sakai and K. Mitsuzawa (1994): Chemical characteristics of cold seepage at the eastern Nankai Trough accretionary prism (KAIKO-TOKAI Program): a preliminary report of the dive 113 of "Shinkai 6500". JAMSTEC J. Deep Sea Res., 10, 343-352.
11. Gill, C. O. (1975): Effect of growth temperature on the lipids of Pseudomonas fluorescens. J. Gen. Microbiol., 89, 293-298.
12. Guckert, J. B., C. P. Anthworth, P. D. Nichols and D. C. White (1985): Phospholipid ester-linked fatty acid profiles as reproducible assays for changes in prokaryotic community structure of estuarine sediments. FEMS Microbiol. Ecol., 31, 147-158.
13. Guezennec, J. G. (1991): Influence of cathodic protection of mild steel on the growth of sulphate-reducing bacteria at 35°C in marine sediments. Biofouling, 3, 339-348.
14. Haddad, A., F. Camacho, P. Durand and S. C. Cary (1995): Phylogenetic characterization of the epibiotic bacteria associated with the hydrothermal vent polychaete Alvinella pompejana. Appl. Environ. Microbiol., 61, 1679-1687.
15. Henderson, R. J., R. M. Millar, J. R. Sargent and J. P. Jostensen (1993): Trans-monoenoic and polyunsaturated fatty acids in phospholipids of a Vibrio species of bacterium in relation to growth conditions. Lipids, 28, 389-396.
16. Kalo, C., L. Li, J. Tamaoka and K. Horikoshi (1997): Molecular analyses of the sediment of the 11000 m deep Mariana Trench. Extremophiles, 1, 117-123.
17. Keweloh, H. and H. J. Heipieper (1996): Trans unsaturated fatty acids in bacteria. Lipids, 31, 129-137.
18. Le Chevalier, M. P. (1977): Lipids in bacterial taxonomy - A taxonomist's view. Crit. Rev. Microbiol., 7, 109-210.
19. Le Pichon, X., T. Iiyama, J. Boulegue, J. Charvet, M. Faure, K. Kano, S. Lallemant, H. Okada, C. Rangin, A. Taira, T. Urabe and S. Uyeda (1987): Nankai Trough and Zenisu Ridge: A deep-sea submersible survey. Earth Planet Sci. Lett., 83, 285-299.
20. Le Pichon, X. and Kaiko-Nankai Scientific Crew (1992): Fluid venting activity within the eastern Nankai Trough accretionary wedge: A summary of the 1989 Kaiko-Nankai results. Earth Planet Sci. Lett., 109, 303-318.
21. Marr, A. G. and J. L. Ingraham (1962): Effect of temperature on the composition of fatty acids in Escherichia coli. J. Bacteriol., 84, 1260-1267.
22. Masuzawa, T., N. Handa, H. Kitagawa and M. Kusakabe (1992): Sulfate reduction using methane in sediments beneath a bathyal "cold seep" giant clam community off Hatsushima Island, SagamiBay, Japan. Earth Planet Sci. Lett., 110, 39-50.
23. Naganuma, T., C. Kato, H. Hirayama, N. Moriyama, J. Hashimoto and K. Horikoshi (1997): Intracellular occurrence of ε-Proteobacterial 16S rDNA sequences in the Vestimentiferan trophosome. J. Oceanogr, 53, 193-197.
24. Saitou, N. and M. Nei (1987): The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol., 4, 406-425.
25. Sambrook, J., E. F. Fritsch and T. Maniatis (1989): Molecular cloning: a laboratory manual. Cold Spring Harbor, New York.
26. Suzuki, M. T., M. S. Rappe, Z. W. Haimberger, H. Winfield, N. Adair, J. Strobel and S. J. Giovannoni (1997): Bacterial diversity among small-subunit rRNA gene clones and cellular isolates from the same seawater sample. Appl. Environ. Microbiol., 63, 983-989.
27. Vincent, P., P. Pignet, F. Talmont, L. Bozzi, B. Fournet, J. Guezennec, C. Jeanthon and D. Prieur (1994): Production and characterization of an exopolysaccharide excreted by a deep-sea hydrothermal vent bacterium isolated from the polychaete Alvinella pompejana. Appl. Environ. Microbiol., 60, 4134-4141.
28. Ward, D. M., M. M. Bateson, R. Weller and A. L. Ruff-Roberts (1992): Ribosomal RNA analysis for microorganisms as they occur in nature. Adv. Microbiol. Ecol., 12, 219-286.
29. White, D. C. (1988): Validation of quantitative analysis for microbial biomass, community structure, and metabolic activity. Adv Limnol., 31, 1-18.
30. White, D. C., W. M. Davis, J. S. Nickels, J. D. King and R. J. Bobbie (1979): Determination of the sedimentary microbial biomass by extractable lipid phosphate. Oceologia, 40, 51-62.