Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in a mesotrophic lake (Lac du Bourget - France)
Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in a mesotrophic lake (Lac du Bourget - France)
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DOI：
10.1111/j.1462-2920.2009.01969.x
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发表时间：
2009-09-01
影响因子：
5.1
通讯作者：
Cornillot, Emmanuel
中科院分区：
文献类型：
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作者：
Debroas, Didier;Humbert, Jean-Francois;Cornillot, Emmanuel
这项工作的主要目标是确定湖泊生态系统中细菌群落的代谢途径，并在分类组成和这些代谢途径的相对丰度之间建立联系。为此，我们分析了通过基因扩增获得的16S rRNA基因文库和C.7700融合基因两端的序列文库。无论使用哪种文库，放线杆菌都是最丰富的细菌群，其次是变形杆菌和拟杆菌。在这两个文库中都发现了特定的水生分支，如ACI和acIV(放线杆菌)或LD12和GOBB-C201(阿尔法蛋白细菌)。从元基因组文库的比较分析来看，该湖的元基因组的特征是主要与甲蛋白细菌相关的外源物质降解相关基因的过度表达。放线菌主要涉及核苷酸代谢、辅因子、维生素、能量、复制和修复等代谢途径。贝塔蛋白细菌的特征似乎是存在大量与环境信息处理(膜运输和信号转导)有关的基因，而糖和碳水化合物代谢途径在拟杆菌中过度表达。这些结果促使我们提出了关于这些细菌类别在湖泊生态系统中的生态作用的假设。
P>The main goals of this work were to identify the metabolic pathways of the bacterial community in a lacustrine ecosystem and to establish links between taxonomic composition and the relative abundances of these metabolic pathways. For this purpose, we analysed a 16S rRNA gene library obtained by gene amplification together with a sequence library of both insert ends on c. 7700 fosmids. Whatever the library used, Actinobacteria was the most abundant bacterial group, followed by Proteobacteria and Bacteroidetes. Specific aquatic clades such as acI and acIV (Actinobacteria) or LD12 and GOBB-C201 (Alphaproteobacteria) were found in both libraries. From comparative analysis of metagenomic libraries, the metagenome of this lake was characterized by overrepresentation of genes involved in the degradation of xenobiotics mainly associated with Alphaproteobacteria. Actinobacteria were mainly related to metabolic pathways involved in nucleotide metabolism, cofactors, vitamins, energy, replication and repair. Betaproteobacteria appeared to be characterized by the presence of numerous genes implicated in environmental information processing (membrane transport and signal transduction) whereas glycan and carbohydrate metabolism pathways were overrepresented in Bacteroidetes. These results prompted us to propose hypotheses on the ecological role of these bacterial classes in lacustrine ecosystems.