Cultivation of the ubiquitous SAR11 marine bacterioplankton clade (original) (raw)

References

1. Giovannoni, S. J., Britschgi, T. B., Moyer, C. L. & Field, K. G. Genetic diversity in Sargasso Sea bacterioplankton. Nature 345, 60–63 (1990)
   Article ADS CAS PubMed Google Scholar
2. Giovannoni, S. & Rappé, M. in Microbial Ecology of the Oceans (ed. Kirchman, D. L.) 47–84 (Wiley, New York, 2000)
   Google Scholar
3. Hugenholtz, P., Goebel, B. M. & Pace, N. R. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180, 4765–4774 (1998)
   CAS PubMed PubMed Central Google Scholar
4. Pace, N. R. A molecular view of microbial diversity and the biosphere. Science 276, 734–740 (1997)
   Article CAS PubMed Google Scholar
5. Ward, D. M., Bateson, M. M., Weller, R. & Ruff-Roberts, A. L. Ribosomal RNA analysis of microorganisms as they occur in nature. Adv. Microb. Ecol. 12, 219–286 (1992)
   Article CAS Google Scholar
6. Béjà, O., Spudich, E. N., Spudich, J. L., Leclerc, M. & DeLong, E. F. Proteorhodopsin phototrophy in the ocean. Nature 411, 786–789 (2001)
   Article ADS PubMed Google Scholar
7. Stein, J. L., Marsh, T. L., Wu, K. Y., Shizuya, H. & DeLong, E. F. Characterization of uncultivated prokaryotes: isolation and analysis of a 40-kilobase-pair genome fragment from a planktonic marine archaeon. J. Bacteriol. 178, 591–599 (1996)
   Article CAS PubMed PubMed Central Google Scholar
8. Schut, F. et al. Isolation of typical marine bacteria by dilution culture: growth, maintenance, and characteristics of isolates under laboratory conditions. Appl. Environ. Microbiol. 59, 2150–2160 (1993)
   CAS PubMed PubMed Central Google Scholar
9. Button, D. K., Schut, F., Quang, P., Martin, R. & Robertson, B. Viability and isolation of marine bacteria by dilution culture: theory, procedures, and initial results. Appl. Environ. Microbiol. 59, 881–891 (1993)
   CAS PubMed PubMed Central Google Scholar
10. Giovannoni, S. J., DeLong, E. F., Olsen, G. J. & Pace, N. R. Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells. J. Bacteriol. 170, 720–726 (1988)
    Article CAS PubMed PubMed Central Google Scholar
11. Amann, R. I., Krumholz, L. & Stahl, D. A. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 172, 762–770 (1990)
    Article CAS PubMed PubMed Central Google Scholar
12. Porter, K. G. & Feig, Y. S. The use of DAPI for identifying and counting aquatic microflora. Limnol. Oceanogr. 25, 943–948 (1980)
    Article ADS Google Scholar
13. Bano, N. & Hollibaugh, J. T. Phylogenetic composition of bacterioplankton assemblages from the Arctic Ocean. Appl. Environ. Microbiol. 68, 505–518 (2002)
    Article CAS PubMed PubMed Central Google Scholar
14. Yager, P. L. et al. Dynamic bacterial and viral response to an algal bloom at subzero temperatures. Limnol. Oceanogr. 46, 790–801 (2001)
    Article ADS CAS Google Scholar
15. Rochelle, P. A., et al. in Nucleic Acids in the Environment (eds Trevors, J. T. & van Elsas, J. D.) 219–239 (Springer, Berlin, 1995)
    Book Google Scholar
16. DeLong, E. F., Franks, D. G. & Alldredge, A. L. Phylogenetic diversity of aggregate-attached vs free-living marine bacterial assemblages. Limnol. Oceanogr. 38, 924–934 (1993)
    Article ADS Google Scholar
17. Rappé, M. S., Kemp, P. F. & Giovannoni, S. J. Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatteras, North Carolina. Limnol. Oceanogr. 42, 811–826 (1997)
    Article ADS Google Scholar
18. Fuhrman, J. A. & Davis, A. A. Widespread Archaea and novel Bacteria from the deep sea as shown by 16S rRNA gene sequences. Mar. Ecol. Prog. Ser. 150, 275–285 (1997)
    Article ADS Google Scholar
19. Bahr, M., Hobbie, J. E. & Sogin, M. L. Bacterial diversity in an arctic lake: a freshwater SAR11 cluster. Aquat. Microb. Ecol. 11, 271–277 (1996)
    Article Google Scholar
20. Ducklow, H. in Microbial Ecology of the Oceans (ed. Kirchman, D. L.) 85–120 (Wiley, New York, 2000)
    Google Scholar
21. Davis, H. C. & Guillard, R. R. L. Relative value of ten genera of micro-organisms as food for oyster and clam larvae. USFWS Fish Bull. 58, 293–304 (1958)
    Google Scholar
22. Glöckner, F. O. et al. An in situ hybridization protocol for detection and identification of planktonic bacteria. System. Appl. Microbiol. 19, 403–406 (1996)
    Article Google Scholar
23. Hicks, R. E., Amann, R. I. & Stahl, D. A. Dual staining of natural bacterioplankton with 4′,6-diamidino-2-phenylindole and fluorescent oligonucleotide probes targeting kingdom-level 16S rRNA sequences. Appl. Environ. Microbiol. 58, 2158–2163 (1992)
    CAS PubMed PubMed Central Google Scholar
24. Giovannoni, S. J., DeLong, E. F., Schmidt, T. M. & Pace, N. R. Tangential flow filtration and preliminary phylogenetic analysis of marine picoplankton. Appl. Environ. Microbiol. 56, 2572–2575 (1990)
    CAS PubMed PubMed Central Google Scholar
25. García-Martínez, J. & Rodríguez-Valera, F. Microdiversity of uncultured marine porkaryotes: the SAR11 cluster and the marine Archaea of Group I. Mol. Ecol. 9, 935–948 (2000)
    Article PubMed Google Scholar
26. Ludwig, W. et al. Bacterial phylogeny based on comparative sequence analysis. Electrophoresis 19, 554–568 (1998)
    Article CAS PubMed Google Scholar
27. Swofford, D. PAUP* 4.0 (Sinauer Associates, Sunderland, Massachusetts, 2000)
    Google Scholar

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