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Applied and Environmental Microbiology, December 1998, p. 4950-4957, Vol. 64, No. 12
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.

Analysis of the Dynamics of Bacterial Communities in the Rhizosphere of the Chrysanthemum via Denaturing Gradient Gel Electrophoresis and Substrate Utilization Patterns

Bernadette M. Duineveld,1,* Alexandre S. Rosado,2 Jan Dirk van Elsas,2 and Johannes A. van Veen1

Institute of Evolutionary and Ecological Sciences, University of Leiden, 2300 RA Leiden,1 and DLO-Research Institute for Plant Protection, 6700 GW Wageningen,2 The Netherlands

Received 24 February 1998/Accepted 23 July 1998

In order to gain a better understanding of the spatial and temporal dynamics of bacterial communities of the rhizosphere of the chrysanthemum, two complementary methods were used: a molecular bacterial community profiling method, i.e., 16S rRNA gene-based PCR followed by denaturing gradient gel electrophoresis (DGGE), and an agar plate method in which 11 sole-carbon-source utilization tests were used. The DGGE patterns showed that the bacterial communities as determined from direct rhizosphere DNA extracts were largely stable along developing roots of the chrysanthemum, with very little change over time or between root parts of different ages. The patterns were also similar to those produced with DNA extracts obtained from bulk soil samples. The DGGE patterns obtained by using microbial colonies from dilution plates as the source of target DNA were different from those found with the direct DNA extracts. Moreover, these patterns showed differences among plant replicates but also among replicate plates. Results obtained with the sole-carbon-source utilization tests indicated that the metabolic profile of the bacterial communities in the rhizosphere of the root tip did not change substantially during plant growth. This suggests selective development of specific bacterial populations by the presence of a root tip. On the other hand, the metabolic profile of bacterial communities in the rhizosphere of the root base changed during plant growth. With eight sole-carbon-source utilization tests, a significant effect of the development stage of the plant on the number of bacteria which were able to grow on these carbon sources was observed.

* Corresponding author. Mailing address: Institute of Evolutionary and Ecological Sciences, University of Leiden, P.O. Box 9516, 2300 RA Leiden, The Netherlands. Phone: 31 (0) 71 527 51 58. Fax: 31 (0) 71 527 49 00. E-mail: duineveld{at}rulsfb.leidenuniv.nl.

Applied and Environmental Microbiology, December 1998, p. 4950-4957, Vol. 64, No. 12
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.


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