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 Fierer, N.
Right arrow Articles by Jackson, R. B.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Fierer, N.
Right arrow Articles by Jackson, R. B.
Agricola
Right arrow Articles by Fierer, N.
Right arrow Articles by Jackson, R. B.

 Previous Article  |  Next Article 

Applied and Environmental Microbiology, July 2005, p. 4117-4120, Vol. 71, No. 7
0099-2240/05/$08.00+0     doi:10.1128/AEM.71.7.4117-4120.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.

SHORT REPORT

Assessment of Soil Microbial Community Structure by Use of Taxon-Specific Quantitative PCR Assays

Noah Fierer,1* Jason A. Jackson,1 Rytas Vilgalys,1 and Robert B. Jackson1,2

Department of Biology, Duke University, Durham, North Carolina 27708,1 Nicholas School of the Environment and Earth Sciences, Duke University, Durham, North Carolina 277082

Received 4 October 2004/ Accepted 21 January 2005

Here we describe a quantitative PCR-based approach to estimating the relative abundances of major taxonomic groups of bacteria and fungi in soil. Primers were thoroughly tested for specificity, and the method was applied to three distinct soils. The technique provides a rapid and robust index of microbial community structure.

* Corresponding author. Present address: Bren School of Environmental Science & Management, Bren Hall, UCSB, Santa Barbara, CA 93106-5131. Phone: (805) 729-1657. Fax: (805) 893-7612. E-mail: fierer{at}lifesci.ucsb.edu.

Applied and Environmental Microbiology, July 2005, p. 4117-4120, Vol. 71, No. 7
0099-2240/05/$08.00+0     doi:10.1128/AEM.71.7.4117-4120.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.



This article has been cited by other articles:

  • Ishii, S., Yamamoto, M., Kikuchi, M., Oshima, K., Hattori, M., Otsuka, S., Senoo, K. (2009). Microbial Populations Responsive to Denitrification-Inducing Conditions in Rice Paddy Soil, as Revealed by Comparative 16S rRNA Gene Analysis. Appl. Environ. Microbiol. 75: 7070-7078 [Abstract] [Full Text]  
  • van Doorn, R., Klerks, M. M., van Gent-Pelzer, M. P. E., Speksnijder, A. G. C. L., Kowalchuk, G. A., Schoen, C. D. (2009). Accurate Quantification of Microorganisms in PCR-Inhibiting Environmental DNA Extracts by a Novel Internal Amplification Control Approach Using Biotrove OpenArrays. Appl. Environ. Microbiol. 75: 7253-7260 [Abstract] [Full Text]  
  • Yergeau, E., Arbour, M., Brousseau, R., Juck, D., Lawrence, J. R., Masson, L., Whyte, L. G., Greer, C. W. (2009). Microarray and Real-Time PCR Analyses of the Responses of High-Arctic Soil Bacteria to Hydrocarbon Pollution and Bioremediation Treatments. Appl. Environ. Microbiol. 75: 6258-6267 [Abstract] [Full Text]  
  • Feinstein, L. M., Sul, W. J., Blackwood, C. B. (2009). Assessment of Bias Associated with Incomplete Extraction of Microbial DNA from Soil. Appl. Environ. Microbiol. 75: 5428-5433 [Abstract] [Full Text]  
  • Lauber, C. L., Hamady, M., Knight, R., Fierer, N. (2009). Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale. Appl. Environ. Microbiol. 75: 5111-5120 [Abstract] [Full Text]  
  • Davis, J. P., Youssef, N. H., Elshahed, M. S. (2009). Assessment of the Diversity, Abundance, and Ecological Distribution of Members of Candidate Division SR1 Reveals a High Level of Phylogenetic Diversity but Limited Morphotypic Diversity. Appl. Environ. Microbiol. 75: 4139-4148 [Abstract] [Full Text]  
  • Morales, S. E., Holben, W. E. (2009). Empirical Testing of 16S rRNA Gene PCR Primer Pairs Reveals Variance in Target Specificity and Efficacy Not Suggested by In Silico Analysis. Appl. Environ. Microbiol. 75: 2677-2683 [Abstract] [Full Text]  
  • Rahalkar, M., Deutzmann, J., Schink, B., Bussmann, I. (2009). Abundance and Activity of Methanotrophic Bacteria in Littoral and Profundal Sediments of Lake Constance (Germany). Appl. Environ. Microbiol. 75: 119-126 [Abstract] [Full Text]  
  • Elshahed, M. S., Youssef, N. H., Spain, A. M., Sheik, C., Najar, F. Z., Sukharnikov, L. O., Roe, B. A., Davis, J. P., Schloss, P. D., Bailey, V. L., Krumholz, L. R. (2008). Novelty and Uniqueness Patterns of Rare Members of the Soil Biosphere. Appl. Environ. Microbiol. 74: 5422-5428 [Abstract] [Full Text]  
  • Bryant, J. A., Lamanna, C., Morlon, H., Kerkhoff, A. J., Enquist, B. J., Green, J. L. (2008). Colloquium Paper: Microbes on mountainsides: Contrasting elevational patterns of bacterial and plant diversity. Proc. Natl. Acad. Sci. USA 105: 11505-11511 [Abstract] [Full Text]  
  • Hoppener-Ogawa, S., Leveau, J. H. J., Smant, W., van Veen, J. A., de Boer, W. (2007). Specific Detection and Real-Time PCR Quantification of Potentially Mycophagous Bacteria Belonging to the Genus Collimonas in Different Soil Ecosystems. Appl. Environ. Microbiol. 73: 4191-4197 [Abstract] [Full Text]  
  • Rogers, S. W., Moorman, T. B., Ong, S. K. (2007). Fluorescent In Situ Hybridization and Micro-autoradiography Applied to Ecophysiology in Soil. Soil Sci. 71: 620-631 [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]  


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