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Abundance, composition, diversity and novelty of soil Proteobacteria
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Journal Article
Abundance, composition, diversity and novelty of soil Proteobacteria
2009
Overview
Small subunit (16S) rRNA gene surveys generating near full-length 16S rRNA clones offer a unique opportunity for in-depth phylogenetic analysis to highlight the breadth of diversity within various major bacterial phyla encountered in soil. This study offers a detailed phylogenetic analysis of the
Proteobacteria
-affiliated clones identified from 13 001 nearly full-length 16S rRNA gene clones derived from Oklahoma tall-grass prairie soil.
Proteobacteria
was the most abundant phylum in the community, and comprised 25% of the total clones. The most abundant and diverse class within the
Proteobacteria
was
Alphaproteobacteria
, followed by the
Delta-
,
Beta-
and
Gammaproteobacteria
. Members of the
Epsilon-
and
Zetaproteobacteria
were not detected in the dataset. Our analysis identified 15 novel order-level and 48 novel family-level
Proteobacteria
lineages. In addition, we show that the majority of
Proteobacteria
clones in the dataset belong to orders and families containing no described cultivated representatives (50% and 65%, respectively). An examination of the ecological distribution of the six most abundant
Proteobacteria
lineages in this dataset with no characterized pure culture representatives provided important information regarding their global distribution and environmental preferences. This level of novel phylogenetic diversity indicates that our understanding of the functions of soil microorganisms, even those belonging to phyla with numerous and diverse well-characterized cultured representatives such as the
Proteobacteria
, remains far from adequate.
Publisher
Nature Publishing Group UK,Oxford University Press
