title: Characterization of soil bacterial communities in rhizospheric and nonrhizospheric soil of Panax ginseng.
abstract: 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.
authors.affiliation: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, 151 Malianwa North Road, Beijing, 100193, China.
authors.forename: Yi Xin
authors.initials: YX
authors.lastname: Ying
authors.forename: Wan Long
authors.initials: WL
authors.lastname: Ding
authors.forename: Yong
authors.initials: Y
authors.lastname: Li
mesh_terms: D061271:Acidobacteria / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D001407:Bacillus / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D058448:Biota; D004269:DNA, Bacterial / Q000235:genetics; D005798:Genes, Bacterial; D020459:Genes, rRNA; D005894:Panax / Q000382:microbiology*; D010802:Phylogeny; D020560:Proteobacteria / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D058441:Rhizosphere; D012988:Soil Microbiology
chemical_list: D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S