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Isolation of an autotrophic ammonia-oxidizing marine archaeon - Nature

  • ️Stahl, David A.
  • ️Thu Sep 22 2005

References

  1. Burggraf, S., Huber, H. & Stetter, K. O. Reclassification of the crenarchaeal orders and families in accordance with 16S rRNA sequence data. Int. J. Syst. Bacteriol. 47, 657–660 (1997)

    Article  CAS  Google Scholar 

  2. Fuhrman, J. A., McCallum, K. & Davis, A. A. Novel major archaebacterial group from marine plankton. Nature 356, 148–149 (1992)

    Article  ADS  CAS  Google Scholar 

  3. DeLong, E. F. Archaea in coastal marine environments. Proc. Natl Acad. Sci. USA 89, 5685–5689 (1992)

    Article  ADS  CAS  Google Scholar 

  4. Dawson, S. C., Pace, N. R. & DeLong, E. F. Phylogenetic and ecological perspectives on uncultured Crenarchaeota and Korarchaeota. In The Prokaryotes—An Evolving Electronic Resource for the Microbiological Community 3rd edn (eds Dworkin, M., Falkow, S., Rosenberg, E., Schleifer, K.-H. & Stackebrandt, E.) http://link.springer-ny.com/link/service/books/10125/ release 3.3 (Springer, New York, 2000)

    Google Scholar 

  5. Karner, M. B., DeLong, E. F. & Karl, D. M. Archaeal dominance in the mesopelagic zone of the Pacific Ocean. Nature 409, 507–510 (2001)

    Article  ADS  CAS  Google Scholar 

  6. Pearson, A., McNichol, A. P., Benitez-Nelson, B. C., Hayes, J. M. & Eglinton, T. I. Origins of lipid biomarkers in Santa Monica Basin surface sediment: A case study using compound-specific Δ14C analysis. Geochim. Cosmochim. Acta 65, 3123–3137 (2001)

    Article  ADS  CAS  Google Scholar 

  7. Wuchter, C., Schouten, S., Boschker, H. T. & Sinninghe Damste, J. S. Bicarbonate uptake by marine Crenarchaeota. FEMS Microbiol. Lett. 219, 203–207 (2003)

    Article  CAS  Google Scholar 

  8. Ouverney, C. C. & Fuhrman, J. A. Marine planktonic Archaea take up amino acids. Appl. Environ. Microbiol. 66, 4829–4833 (2000)

    Article  CAS  Google Scholar 

  9. Bock, E. & Wagner, M. Oxidation of inorganic nitrogen compounds as an energy source. In The Prokaryotes—An Evolving Electronic Resource for the Microbiological Community 3rd edn (eds Dworkin, M., Falkow, S., Rosenberg, E., Schleifer, K.-H. & Stackebrandt, E.) http://link.springer-ny.com/link/service/books/10125/ release 3.7 (Springer, New York, 2001)

    Google Scholar 

  10. Hovanec, T. A. & DeLong, E. F. Comparative analysis of nitrifying bacteria associated with freshwater and marine aquaria. Appl. Environ. Microbiol. 62, 2888–2896 (1996)

    CAS  PubMed  PubMed Central  Google Scholar 

  11. Venter, J. C. et al. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304, 66–74 (2004)

    Article  ADS  CAS  Google Scholar 

  12. Preston, C. M., Wu, K. Y., Molinski, T. F. & DeLong, E. F. A psychrophilic crenarchaeon inhabits a marine sponge: Cenarchaeum symbiosum gen. nov., sp. nov. Proc. Natl Acad. Sci. USA 93, 6241–6246 (1996)

    Article  ADS  CAS  Google Scholar 

  13. Béjà, O. et al. Comparative genomic analysis of archaeal genotypic variants in a single population and in two different oceanic provinces. Appl. Environ. Microbiol. 68, 335–345 (2002)

    Article  Google Scholar 

  14. Treusch, A. H. et al. Characterization of large-insert DNA libraries from soil for environmental genomic studies of Archaea. Environ. Microbiol. 6, 970–980 (2004)

    Article  CAS  Google Scholar 

  15. DeLong, E. F., Taylor, L. T., Marsh, T. L. & Preston, C. M. Visualization and enumeration of marine planktonic archaea and bacteria by using polyribonucleotide probes and fluorescent in situ hybridization. Appl. Environ. Microbiol. 65, 5554–5563 (1999)

    CAS  PubMed  PubMed Central  Google Scholar 

  16. Capone, D. G. in Microbial Ecology of the Oceans (ed. Kirchman, D. L.) 455–493 (Wiley, New York, 2000)

    Google Scholar 

  17. Ducklow, H. in Microbial Ecology of the Oceans (ed. Kirchman, D. L.) 85–120 (Wiley, New York, 2000)

    Google Scholar 

  18. Hügler, M., Huber, H., Stetter, K. O. & Fuchs, G. Autotrophic CO2 fixation pathways in archaea (Crenarchaeota). Arch. Microbiol. 179, 160–173 (2003)

    Article  Google Scholar 

  19. Menendez, C. et al. Presence of acetyl-coenzyme A (CoA) carboxylase and propionyl-CoA carboxylase in autotrophic Crenarchaeota and indication for operation of a 3-hydroxypropionate cycle in autotrophic carbon fixation. J. Bacteriol. 181, 1088–1098 (1999)

    CAS  PubMed  PubMed Central  Google Scholar 

  20. Wada, E. & Hattori, A. Nitrite metabolism in the euphotic layer of the central North Pacific Ocean. Limnol. Oceanogr. 16, 766–772 (1971)

    Article  ADS  CAS  Google Scholar 

  21. Barns, S. M., Delwiche, C. F., Palmer, J. D. & Pace, N. R. Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proc. Natl Acad. Sci. USA 93, 9188–9193 (1996)

    Article  ADS  CAS  Google Scholar 

  22. Pearson, A. et al. Nonmarine crenarchaeol in Nevada hot springs. Appl. Environ. Microbiol. 70, 5229–5237 (2004)

    Article  CAS  Google Scholar 

  23. Widdel, F. & Bak, F. in The Prokaryotes. A Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Application 2nd edn (eds Ballows, A., Trüper, H. G., Dworkin, M., Harder, W. & Schleifer, K.-H.) 3352–3378 (Springer, New York, 1992)

    Google Scholar 

  24. Lane, D. J. in Nucleic Acid Techniques in Bacterial Systematics (eds Stackebrandt, E. & Goodfellow, M.) 115–175 (Wiley, New York, 1991)

    Google Scholar 

  25. Ludwig, W. et al. ARB: a software environment for sequence data. Nucleic Acids Res. 32, 1363–1371 (2004)

    Article  CAS  Google Scholar 

  26. Swofford, D. L. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods) (version 4.0 beta 10) http://paup.csit.fsu.edu/index.html (Sinauer, Sunderland, 2003)

  27. Stickland, J. D. H. & Parsons, T. R. A Practical Handbook of Seawater Analysis (Fisheries Research Board of Canada, Ottawa, 1972)

    Google Scholar 

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