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KMID : 0364820070430030210
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Korean Journal of Microbiology
2007 Volume.43 No. 3 p.210 ~ p.216
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Comparison of the Phylogenetic Diversity of Humus Forest Soil Bacterial Populations via Different Direct DNA Extraction Methods
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Son Hee-Seong
Whang Kyung-Sook
Han Song-Ih
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Abstract
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The principal objective of this study was to analyze 16S rDNA-ARDRA of the humus forest soil via an improved manual method and an ISOIL kit on the basis of the UPGMA clustering of the 16S rDNA combined profile, 44 ARDRA clusters of 76 clones via the ISOIL kit method and 45 ARDRA clusters of 136 clones via the improved manual method. On the basis of the 16S rDNA sequences, 44 clones from the ARDRA clusters by the ISOIL kit were classified into 3 phyla : α-, β-, γ-, δ-Proteobacteria, Acidobacteria and Actinobacteria. Using the improved manual method, the specimens were classified into 6 phyla : the α-, β-, γ-, δ-Proteobacteria, Acidobacteria, Bacteroides, Verrucomicrobia, Planctomycetes and Gemmatomonadetes. As a result, the modified manual method indicated greater phylogenetic diversity than was detected by the ISOIL kit. Approximately 40 percent of the total clones were identified as α-Proteobacteria and 30 percent of the total clones were γ-Proteobacteria and assigned to dominant phylogenetic groups using the ISOIL kit. Using the modified manual method, 41 percent of the total clones were identified as Acidobacteria and 28 percent of total clones were identified as α-proteobacteria and assigned to dominant phylogenetic groups.
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KEYWORD
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DNA extraction, humus forest soil, ISOIL kit, manual method, phylogenetic diversity
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