This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Buckley, D. H.
Right arrow Articles by Schmidt, T. M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Buckley, D. H.
Right arrow Articles by Schmidt, T. M.
Agricola
Right arrow Articles by Buckley, D. H.
Right arrow Articles by Schmidt, T. M.

 Previous Article  |  Next Article 

Applied and Environmental Microbiology, November 1998, p. 4333-4339, Vol. 64, No. 11
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.

Phylogenetic Analysis of Nonthermophilic Members of the Kingdom Crenarchaeota and Their Diversity and Abundance in Soils

Daniel H. Buckley, Joseph R. Graber, and Thomas M. Schmidt*

Department of Microbiology and Center for Microbial Ecology, Michigan State University, East Lansing, Michigan 48824

Received 13 April 1998/Accepted 17 August 1998

Within the last several years, molecular techniques have uncovered numerous 16S rRNA gene (rDNA) sequences which represent a unique and globally distributed lineage of the kingdom Crenarchaeota that is phylogenetically distinct from currently characterized crenarchaeotal species. rDNA sequences of members of this novel crenarchaeotal group have been recovered from low- to moderate-temperature environments (-1.5 to 32°C), in contrast to the high-temperature environments (temperature, >80°C) required for growth of the currently recognized crenarchaeotal species. We determined the diversity and abundance of the nonthermophilic members of the Crenarchaeota in soil samples taken from cultivated and uncultivated fields located at the Kellogg Biological Station's Long-Term Ecological Research site (Hickory Corners, Mich.). Clones were generated from 16S rDNA that was amplified by using broad-specificity archaeal PCR primers. Twelve crenarchaeotal sequences were identified, and the phylogenetic relationships between these sequences and previously described crenarchaeotal 16S rDNA sequences were determined. Phylogenetic analyses included nonthermophilic crenarchaeotal sequences found in public databases and revealed that the nonthermophilic Crenarchaeota group is composed of at least four distinct phylogenetic clusters. A 16S rRNA-targeted oligonucleotide probe specific for all known nonthermophilic crenarchaeotal sequences was designed and used to determine their abundance in soil samples. The nonthermophilic Crenarchaeota accounted for as much as 1.42% ± 0.42% of the 16S rRNA in the soils analyzed.

* Corresponding author. Mailing address: Department of Microbiology, Giltner Hall, Michigan State University, E. Lansing, MI 48824-1101. Phone: (517) 353-1796. Fax: (517) 353-8957. E-mail: tschmidt{at}pilot.msu.edu.

Applied and Environmental Microbiology, November 1998, p. 4333-4339, Vol. 64, No. 11
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Bomberg, M., Timonen, S. (2009). Effect of Tree Species and Mycorrhizal Colonization on the Archaeal Population of Boreal Forest Rhizospheres. Appl. Environ. Microbiol. 75: 308-315 [Abstract] [Full Text]  
  • Hansel, C. M., Fendorf, S., Jardine, P. M., Francis, C. A. (2008). Changes in Bacterial and Archaeal Community Structure and Functional Diversity along a Geochemically Variable Soil Profile. Appl. Environ. Microbiol. 74: 1620-1633 [Abstract] [Full Text]  
  • Nakatsu, C. H. (2007). Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis. Soil Sci. 71: 562-571 [Abstract] [Full Text]  
  • Janssen, P. H. (2006). Identifying the Dominant Soil Bacterial Taxa in Libraries of 16S rRNA and 16S rRNA Genes.. Appl. Environ. Microbiol. 72: 1719-1728 [Full Text]  
  • Simon, H. M., Jahn, C. E., Bergerud, L. T., Sliwinski, M. K., Weimer, P. J., Willis, D. K., Goodman, R. M. (2005). Cultivation of Mesophilic Soil Crenarchaeotes in Enrichment Cultures from Plant Roots. Appl. Environ. Microbiol. 71: 4751-4760 [Abstract] [Full Text]  
  • Sliwinski, M. K., Goodman, R. M. (2004). Spatial Heterogeneity of Crenarchaeal Assemblages within Mesophilic Soil Ecosystems as Revealed by PCR-Single-Stranded Conformation Polymorphism Profiling. Appl. Environ. Microbiol. 70: 1811-1820 [Abstract] [Full Text]  
  • Stres, B., Mahne, I., Avgustin, G., Tiedje, J. M. (2004). Nitrous Oxide Reductase (nosZ) Gene Fragments Differ between Native and Cultivated Michigan Soils. Appl. Environ. Microbiol. 70: 301-309 [Abstract] [Full Text]  
  • Nicol, G. W., Glover, L. A., Prosser, J. I. (2003). Spatial Analysis of Archaeal Community Structure in Grassland Soil. Appl. Environ. Microbiol. 69: 7420-7429 [Abstract] [Full Text]  
  • Do, Y. S., Schmidt, T. M., Zahn, J. A., Boyd, E. S., de la Mora, A., DiSpirito, A. A. (2003). Role of Rhodobacter sp. Strain PS9, a Purple Non-Sulfur Photosynthetic Bacterium Isolated from an Anaerobic Swine Waste Lagoon, in Odor Remediation. Appl. Environ. Microbiol. 69: 1710-1720 [Abstract] [Full Text]  
  • Watanabe, K., Kodama, Y., Hamamura, N., Kaku, N. (2002). Diversity, Abundance, and Activity of Archaeal Populations in Oil-Contaminated Groundwater Accumulated at the Bottom of an Underground Crude Oil Storage Cavity. Appl. Environ. Microbiol. 68: 3899-3907 [Abstract] [Full Text]  
  • Furlong, M. A., Singleton, D. R., Coleman, D. C., Whitman, W. B. (2002). Molecular and Culture-Based Analyses of Prokaryotic Communities from an Agricultural Soil and the Burrows and Casts of the Earthworm Lumbricus rubellus. Appl. Environ. Microbiol. 68: 1265-1279 [Abstract] [Full Text]  
  • Takai, K., Moser, D. P., DeFlaun, M., Onstott, T. C., Fredrickson, J. K. (2001). Archaeal Diversity in Waters from Deep South African Gold Mines. Appl. Environ. Microbiol. 67: 5750-5760 [Abstract] [Full Text]  
  • Friedrich, M. W., Schmitt-Wagner, D., Lueders, T., Brune, A. (2001). Axial Differences in Community Structure of Crenarchaeota and Euryarchaeota in the Highly Compartmentalized Gut of the Soil-Feeding Termite Cubitermes orthognathus. Appl. Environ. Microbiol. 67: 4880-4890 [Abstract] [Full Text]  
  • Schmalenberger, A., Schwieger, F., Tebbe, C. C. (2001). Effect of Primers Hybridizing to Different Evolutionarily Conserved Regions of the Small-Subunit rRNA Gene in PCR-Based Microbial Community Analyses and Genetic Profiling. Appl. Environ. Microbiol. 67: 3557-3563 [Abstract] [Full Text]  
  • Phillips, C. J., Harris, D., Dollhopf, S. L., Gross, K. L., Prosser, J. I., Paul, E. A. (2000). Effects of Agronomic Treatments on Structure and Function of Ammonia-Oxidizing Communities. Appl. Environ. Microbiol. 66: 5410-5418 [Abstract] [Full Text]  
  • Takai, K., Horikoshi, K. (2000). Rapid Detection and Quantification of Members of the Archaeal Community by Quantitative PCR Using Fluorogenic Probes. Appl. Environ. Microbiol. 66: 5066-5072 [Abstract] [Full Text]  
  • LaPara, T. M., Nakatsu, C. H., Pantea, L., Alleman, J. E. (2000). Phylogenetic Analysis of Bacterial Communities in Mesophilic and Thermophilic Bioreactors Treating Pharmaceutical Wastewater. Appl. Environ. Microbiol. 66: 3951-3959 [Abstract] [Full Text]  
  • Nakatsu, C. H., Torsvik, V., Øvreås, L. (2000). Soil Community Analysis Using DGGE of 16S rDNA Polymerase Chain Reaction Products. Soil Sci. 64: 1382-1388 [Abstract] [Full Text]  
  • Massana, R., DeLong, E. F., Pedrós-Alió, C. (2000). A Few Cosmopolitan Phylotypes Dominate Planktonic Archaeal Assemblages in Widely Different Oceanic Provinces. Appl. Environ. Microbiol. 66: 1777-1787 [Abstract] [Full Text]  
  • Vetriani, C., Jannasch, H. W., MacGregor, B. J., Stahl, D. A., Reysenbach, A.-L. (1999). Population Structure and Phylogenetic Characterization of Marine Benthic Archaea in Deep-Sea Sediments. Appl. Environ. Microbiol. 65: 4375-4384 [Abstract] [Full Text]  
  • Sandaa, R.-A., Enger, O., Torsvik, V. (1999). Abundance and Diversity of Archaea in Heavy-Metal-Contaminated Soils. Appl. Environ. Microbiol. 65: 3293-3297 [Abstract] [Full Text]  
  • Chin, K.-J., Lukow, T., Conrad, R. (1999). Effect of Temperature on Structure and Function of the Methanogenic Archaeal Community in an Anoxic Rice Field Soil. Appl. Environ. Microbiol. 65: 2341-2349 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»