收稿日期: 2008-05-13
修回日期: 2009-04-15
网络出版日期: 2010-05-24
基金资助
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)
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)
从南海北部巴士海峡深海沉积物中提取到高质量的总DNA, 通过TA克隆构建了含有23个可操作分类单元(OTU)的16S rRNA基因文库, 选择各OTU中代表性克隆子进行测序与系统发育分析, 结果表明, 南海北部巴士海峡深海沉积物中细菌在系统进化树中至少分属于9个类群: 其中放线菌Actinobacteria, 变形细菌Proteobacteria, 和浮霉菌Planctomycetes为优势种; 其他细菌如疣微菌Verrucomicrobia, 鞘脂杆菌Sphingobacteria, 硝化螺旋菌门(Nitrospira), 绿弯菌Chloroflexi, 厚壁菌Firmicute, 酸杆菌Acidobacteria等为非优势种群; 另外有两个克隆子属于未知种群。在所获得的23个代表克隆子序列中,有11个序列与已知细菌的同源性≤95%, 占到了所有序列的48%, 这一结果说明在南海北部巴士海峡海区具有非常丰富的微生物多样性, 这一海区蕴含着大量未知的微生物资源, 因而值得进行进一步的研究探索。
孙慧敏,戴世鲲,王广华,谢练武,李翔 . 南海北部巴士海峡深海沉积物中细菌多样性分析[J]. 热带海洋学报, 2010 , 29(3) : 41 -46 . DOI: 10.11978/j.issn.1009-5470.2010.03.041
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
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