Journal of Tropical Oceanography >
Phylogenetic diversity analysis of bacteria in the deep-sea sediments from the Bashi Channel by 16S rDNA BLAST
Received date: 2008-05-13
Revised date: 2009-04-15
Online published: 2010-05-24
Supported by
国家“973”计划项目(2010CB833801), 广东省科技计划项目(2008A030203004)和中科院引进国外杰出人才项目(百人计划)
Using modified DNA extraction and purification method, high-quailty environmental DNA was obtainedfrom deep-sea sediments of the Bashi Channel in the northern South China Sea. Diversity of eubacteria was studied by PCR, ARDRA and sequence analysis of 16S rDNA and compared with the published sequences in the GenBank. Based on the ARDRA profile generated, 118 clones from the 16S rDNA library were divided into 23 operational taxonomic units (OTUs). Phylogenetic analysis showed that the representative clones of the 23 OUT fell into nine groups: Actinobacteria (26%), Proteobacteria (22%), Planctomycetes (18%), Verrucomicrobia (4.5%), Sphingobacteria (4.5%), Nitrospira (4.5%), Chloroflexi (5%), Firmicutes (4.5%), and Acidobacteria (4.5%), repspectively. Among the 23 clones, there was no clone being identical to the known 16S rDNA sequences in the Ribosomal Database Project small subunit RNA database. In this clone library, 11 clones had less than 95% similarity to rDNA sequences retrieved from the DNA databases. The results suggested that bacterial population in the Bashi Channel of the northern South China Sea is very diverse in phylogeny and there are the massive unknown microorganism deserve further studying and exploration as valuable resources.
Key words： South China Sea; deep-sea sediment; bacteria diversity
SUN Hui-min,DAI Shi-kun,WANG Guang-hua,XIE Lian-wu,LI Xiang . Phylogenetic diversity analysis of bacteria in the deep-sea sediments from the Bashi Channel by 16S rDNA BLAST[J]. Journal of Tropical Oceanography, 2010 , 29(3) : 41 -46 . DOI: 10.11978/j.issn.1009-5470.2010.03.041
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