Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations
- R. Amann, B. Binder, R. Olson, S. Chisholm, R. Devereux, D. Stahl
- Biology, ChemistryApplied and Environmental Microbiology
- 1 June 1990
Fluorescent oligonucleotide hybridization probes were used to label bacterial cells for analysis by flow cytometry and the intensity of fluorescence was increased additively by the combined use of two or three fluorescent probes complementary to different regions of the same 16S rRNA.
Isolation of an autotrophic ammonia-oxidizing marine archaeon
- M. Könneke, A. Bernhard, J. D. L. Torré, C. Walker, J. Waterbury, D. Stahl
- Environmental Science, BiologyNature
- 22 September 2005
The isolation of a marine crenarchaeote that grows chemolithoautotrophically by aerobically oxidizing ammonia to nitrite—the first observation of nitrification in the Archaea is reported, suggesting that nitrifying marine Cren archaeota may be important to global carbon and nitrogen cycles.
Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology
- R. Amann, L. Krumholz, D. Stahl
- BiologyJournal of Bacteriology
- 1 February 1990
Fluorescent-dye-conjugated oligonucleotides were used to classify 14 Fibrobacter strains by fluorescence microscopy and the direct detection of F. intestinalis in mouse cecum samples demonstrated the application of this technique to the characterization of complex natural samples.
Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria
- W. Martens-Habbena, P. Berube, H. Urakawa, J. D. L. Torré, D. Stahl
- Environmental ScienceNature
- 15 October 2009
Oligotrophic ammonia oxidation kinetics and cellular characteristics of the mesophilic crenarchaeon ‘Candidatus Nitrosopumilus maritimus’ strain SCM1 support the hypothesis that nitrification is more prevalent in the marine nitrogen cycle than accounted for in current biogeochemical models.
Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses.
- D. Lane, B. Pace, G. Olsen, D. Stahl, M. Sogin, N. Pace
- BiologyProceedings of the National Academy of Sciences…
- 1 October 1985
A protocol is described for rapidly generating large blocks of 16S rRNA sequence data without isolation of the 16 S rRNA or cloning of its gene, and its phylogenetic usefulness is evaluated by examination of several 17S rRNAs whose gene sequences are known.
Phylogeny of Dissimilatory Sulfite Reductases Supports an Early Origin of Sulfate Respiration
- M. Wagner, A. Roger, J. Flax, G. A. Brusseau, D. Stahl
- BiologyJournal of Bacteriology
- 1 June 1998
It is concluded that the high similarity of bacterial and archaeal DSRs reflects their common origin from a conserved DSR, which was either present before the split between the domains Bacteria, Archaea, and Eucarya or laterally transferred between Bacteria and Archaea soon after domain divergence.
Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria
- B. Mobarry, M. Wagner, V. Urbain, B. Rittmann, D. Stahl
- BiologyApplied and Environmental Microbiology
- 1 June 1996
A hierarchical set of five 16S rRNA-targeted oligonucleotide DNA probes for phylogenetically defined groups of autotrophic ammonia- and nitrite-oxidizing bacteria was developed for environmental and…
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
- C. Walker, J. R. de la Torre, D. Stahl
- Biology, Environmental ScienceProceedings of the National Academy of Sciences
- 26 April 2010
The isolation of Candidatus “Nitrosopumilus maritimus” strain SCM1 is reported, revealing highly copper-dependent systems for ammonia oxidation and electron transport that are distinctly different from known ammonia-oxidizing bacteria.
Group-specific 16S rRNA hybridization probes to describe natural communities of methanogens
- L. Raskin, J. Stromley, B. Rittmann, D. Stahl
- BiologyApplied and Environmental Microbiology
- 1 April 1994
Eight oligonucleotides which are complementary to conserved tracts of 16S rRNA from phylogenetically defined groups of methanogens were designed and characterized for use as hybridization probes for…
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