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Applied and Environmental Microbiology, August 2006, p. 5181-5189, Vol. 72, No. 8
0099-2240/06/$08.00+0     doi:10.1128/AEM.00231-06
Copyright © 2006, American Society for Microbiology. All Rights Reserved.

Quantitative Detection of the nosZ Gene, Encoding Nitrous Oxide Reductase, and Comparison of the Abundances of 16S rRNA, narG, nirK, and nosZ Genes in Soils

S. Henry,1 D. Bru,1 B. Stres,2 S. Hallet,1 and L. Philippot1*

INRA-University of Burgundy, Microbiology and Soil Geochemistry, CMSE, 17 rue Sully, B.P. 86510, 21065 Dijon Cedex, France,1 University of Ljubljana, Biotechnical Faculty, Department of Food Science and Technology, Vecna pot 111, 1000 Ljubljana, Slovenia2

Received 30 January 2006/ Accepted 17 May 2006

Nitrous oxide (N2O) is an important greenhouse gas in the troposphere controlling ozone concentration in the stratosphere through nitric oxide production. In order to quantify bacteria capable of N2O reduction, we developed a SYBR green quantitative real-time PCR assay targeting the nosZ gene encoding the catalytic subunit of the nitrous oxide reductase. Two independent sets of nosZ primers flanking the nosZ fragment previously used in diversity studies were designed and tested (K. Kloos, A. Mergel, C. Rösch, and H. Bothe, Aust. J. Plant Physiol. 28:991-998, 2001). The utility of these real-time PCR assays was demonstrated by quantifying the nosZ gene present in six different soils. Detection limits were between 101 and 102 target molecules per reaction for all assays. Sequence analysis of 128 cloned quantitative PCR products confirmed the specificity of the designed primers. The abundance of nosZ genes ranged from 105 to 107 target copies g–1 of dry soil, whereas genes for 16S rRNA were found at 108 to 109 target copies g–1 of dry soil. The abundance of narG and nirK genes was within the upper and lower limits of the 16S rRNA and nosZ gene copy numbers. The two sets of nosZ primers gave similar gene copy numbers for all tested soils. The maximum abundance of nosZ and nirK relative to 16S rRNA was 5 to 6%, confirming the low proportion of denitrifiers to total bacteria in soils.

* Corresponding author. Mailing address: INRA-University of Burgundy, Microbiology and Soil Geochemistry, CMSE, 17 rue Sully, B.P. 86510, 21065 Dijon Cedex, France. Phone: 33 3 80 69 33 46. Fax: 33 3 80 69 32 24. E-mail: philippo{at}dijon.inra.fr.

Applied and Environmental Microbiology, August 2006, p. 5181-5189, Vol. 72, No. 8
0099-2240/06/$08.00+0     doi:10.1128/AEM.00231-06
Copyright © 2006, American Society for Microbiology. All Rights Reserved.



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