An assessment of actinobacterial diversity in the marine environment
An assessment of actinobacterial diversity in the marine environment
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DOI：
10.1007/s10482-008-9239-x
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发表时间：
2008-06-01
影响因子：
2.6
通讯作者：
Lauro, Federico M.
中科院分区：
文献类型：
--
作者：
Jensen, Paul R.;Lauro, Federico M.
放线菌门内的16S rRNA基因序列多样性进行了评估，从四个来源：PCR产生的V6序列标签来自海水样品，宏基因组数据从全球海洋采样（GOS）探险，海洋衍生的序列中保持核糖体数据库项目（RDP），并选择培养菌株的序列数据尚未在RDP。这一荟萃分析揭示了显着水平的系统发育多样性，并确认存在的主要，根深蒂固的，但尚未在门的特点谱系。一个戏剧性的不一致，培养菌株和那些使用文化独立的技术检测也被发现。使用非培养技术检测到的放线菌中的Rednucleus表明，可能需要更大的序列覆盖率或提高DNA提取效率，以检测可以很容易地从海洋样品中培养的稀有放线菌类型。相反，需要开发新的策略来培养经常观察到但尚未培养的海洋放线菌。
The 16S rRNA gene sequence diversity within the Phylum Actinobacteria was assessed from four sources: PCR-generated V6 sequence tags derived from seawater samples, metagenomic data from the Global Ocean Sampling (GOS) expedition, marine-derived sequences maintained in the Ribosomal Database Project (RDP), and select cultured strains for which sequence data is not yet available in the RDP. This meta-analysis revealed remarkable levels of phylogenetic diversity and confirms the existence of major, deeply rooted, and as of yet uncharacterized lineages within the phylum. A dramatic incongruence among cultured strains and those detected using culture-independent techniques was also revealed. Redundancy among the actinobacteria detected using culture-independent techniques suggests that greater sequence coverage or improved DNA extraction efficiencies may be required to detect the rare phylotypes that can be readily cultured from marine samples. Conversely, new strategies need to be developed for the cultivation of frequently observed but yet to be cultured marine actinobacteria.