Characterization of Soil Bacterial Communities in Rhizospheric and Nonrhizospheric Soil of Panax ginseng

A culture-independent approach was used to evaluate the bacterial community in rhizospheric and nonrhizospheric soil in which Panax ginseng had grown for 3 years. For each sample, soil was randomly collected from multiple sampling points and mixed thoroughly before genomic DNA extraction. Universal...

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Bibliographic Details
Published in:Biochemical genetics 2012-12, Vol.50 (11-12), p.848-859
Main Authors: Ying, Yi Xin, Ding, Wan Long, Li, Yong
Format: Article
Language:English
Subjects:
Acidobacteria
Acidobacteria - classification
Acidobacteria - genetics
Acidobacteria - isolation & purification
Bacillus
Bacillus - classification
Bacillus - genetics
Bacillus - isolation & purification
bacterial communities
Biochemistry
Biomedical and Life Sciences
Biomedicine
Biota
clones
DNA
DNA, Bacterial - genetics
Endonuclease
genes
Genes, Bacterial
Genes, rRNA
genomics
Ginseng
Human Genetics
Medical Microbiology
Panax - microbiology
Panax ginseng
Phylogeny
Primers
Proteobacteria
Proteobacteria - classification
Proteobacteria - genetics
Proteobacteria - isolation & purification
restriction endonucleases
Rhizosphere
rhizosphere bacteria
ribosomal RNA
RNA, Ribosomal, 16S - genetics
rRNA 16S
Sampling
Soil
Soil Microbiology
Soil microorganisms
Soils
Zoology
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Summary:A culture-independent approach was used to evaluate the bacterial community in rhizospheric and nonrhizospheric soil in which Panax ginseng had grown for 3 years. For each sample, soil was randomly collected from multiple sampling points and mixed thoroughly before genomic DNA extraction. Universal primers 27f and 1492r were used to amplify 16S rRNA genes. Clone libraries were constructed using the amplified 16S rRNA genes, and 192 white clones were chosen for further sequencing. After digestion with restriction endonuclease, 44 operational taxonomic units (OTUs) were generated for rhizospheric and 21 OTUs for nonrhizospheric soils, and the clones of each OTU were sequenced. Blast analysis showed that bacillus, acidobacteria, and proteobacteria were the dominant populations in rhizospheric soil, and proteobacteria were dominant in nonrhizospheric soil. Phylogenetic results showed that bacillus and acidobacteria were clustered into the group of uncultured bacteria in rhizospheric soil; however, proteobacteria were the unique dominant in nonrhizospheric soil.
ISSN:0006-2928
1573-4927
DOI:10.1007/s10528-012-9525-1