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Environmental Microbiology
Current Issue Archiv
e
October 2003, 5:10 > Comparative 16S < Previous  |   Next >
rDNA and 16S rRNA...
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Comparative 16S rDNA and 16S rRNA sequence analysis
indicates that Actinobacteria might be a dominant part of the
metabolically active bacteria in heavy metal-contaminated bulk
and rhizosphere soil.
Research articles
Environmental Microbiology. 5(10):896-907, October 2003.
Gremion, Fabienne; Chatzinotas, Antonis *; Harms, Hauke
Abstract:
Summary: Bacterial diversity in 16S ribosomal DNA and reverse-
transcribed 16S rRNA clone libraries originating from the heavy
metal-contaminated rhizosphere of the metal-hyperaccumulating
plant Thlaspi caerulescens was analysed and compared with that of
contaminated bulk soil. Partial sequence analysis of 282 clones
revealed that most of the environmental sequences in both soils
affiliated with five major phylogenetic groups, the Actinobacteria,
[alpha]-Proteobacteria, [beta]-Proteobacteria, Acidobacteria and the
Planctomycetales. Only 14.7% of all phylotypes (sequences with
similarities >97%), but 45% of all clones, were common in the
rhizosphere and the bulk soil clone libraries. The combined use of
rDNA and rRNA libraries indicated which taxa might be
metabolically active in this soil. All dominant taxa, with the
exception of the Actinobacteria, were relatively less represented in
the rRNA libraries compared with the rDNA libraries. Clones
belonging to the Verrucomicrobiales, Firmicutes, Cytophaga-
Flavobacterium-Bacteroides and OP10 were found only in rDNA
clone libraries, indicating that they might not represent active
constituents in our samples. The most remarkable result was that
sequences belonging to the Actinobacteria dominated both bulk
and rhizosphere soil libraries derived from rRNA (50% and 60% of
all phylotypes respectively). Seventy per cent of these clone
sequences were related to the Rubrobacteria subgroups 2 and 3,
thus providing for the first time evidence that this group of bacteria
is probably metabolically active in heavy metal-contaminated soil.
(C) 2003 Blackwell Science Ltd.