Analysis of bacterial core communities in the central Baltic by comparative RNA-DNA-based fingerprinting provides links to structure-function relationships
Analysis of bacterial core communities in the central Baltic by comparative RNA-DNA-based fingerprinting provides links to structure-function relationships
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DOI：
10.1038/ismej.2011.80
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发表时间：
2012-01-01
期刊：
影响因子：
11
通讯作者：
Hoefle, Manfred G.
中科院分区：
文献类型：
--
作者：
Brettar, Ingrid;Christen, Richard;Hoefle, Manfred G.
了解微生物群落的结构-功能联系是微生物生态学的中心主题。为此，我们研究了波罗的海中部四个站点浮游细菌群落结构和组成的空间变异性，这些站点相距450km，深度剖面代表中部（哥特兰深，235 m）。采用单链构象多态性（SSCP）电泳，对细菌群落结构进行16S核糖体RNA （rRNA）和16S rRNA基因指纹图谱分析。通过SSCP条带序列分析确定物种组成。利用基于RNA和dna的指纹图谱，在数百公里的地表水中观察到浮游细菌群落的高度相似性。在这些表层群落中，RNA指纹图谱和dna指纹图谱的模式差异很大，这可能表明以RNA指纹图谱为代表的活跃群落成员与以dna指纹图谱为代表的现有群落成员之间存在较大差异。这种巨大的差异随着深度的变化而逐渐改变，导致在130米以下的水柱缺氧部分出现了高度相似的RNA和dna指纹。解释这种高度相似性的一个可能的机制是缺氧区氧化应激的减少。表层和缺氧区稳定的群落结构表明，水体地形对浮游细菌群落结构的影响较大。基于RNA和dna的群落结构对比分析为鉴定核心群落、关键成员及其与生物地球化学功能的联系提供了标准。ISME学报（2012）6,195-212；doi: 10.1038 / ismej.2011.80;2011年6月23日在线发布
Understanding structure-function links of microbial communities is a central theme of microbial ecology since its beginning. To this end, we studied the spatial variability of the bacterioplankton community structure and composition across the central Baltic Sea at four stations, which were up to 450km apart and at a depth profile representative for the central part (Gotland Deep, 235 m). Bacterial community structure was followed by 16S ribosomal RNA (rRNA)- and 16S rRNA gene-based fingerprints using single-strand conformation polymorphism (SSCP) electrophoresis. Species composition was determined by sequence analysis of SSCP bands. High similarities of the bacterioplankton communities across several hundred kilometers were observed in the surface water using RNA- and DNA-based fingerprints. In these surface communities, the RNA- and DNA-based fingerprints resulted in very different pattern, presumably indicating large difference between the active members of the community as represented by RNA- based fingerprints and the present members represented by the DNA-based fingerprints. This large discrepancy changed gradually over depth, resulting in highly similar RNA- and DNA-based fingerprints in the anoxic part of the water column below 130m depth. A conceivable mechanism explaining this high similarity could be the reduced oxidative stress in the anoxic zone. The stable communities on the surface and in the anoxic zone indicate the strong influence of the hydrography on the bacterioplankton community structure. Comparative analysis of RNA- and DNA-based community structure provided criteria for the identification of the core community, its key members and their links to biogeochemical functions. The ISME Journal (2012) 6, 195-212; doi:10.1038/ismej.2011.80; published online 23 June 2011