Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum
Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum
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DOI：
10.1073/pnas.0608549103
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发表时间：
2006-11-28
影响因子：
11.1
通讯作者：
DeLong, Edward F.
中科院分区：
文献类型：
--
作者：
Hallam, Steven J.;Konstantinidis, Konstantinos T.;DeLong, Edward F.
泉古菌是土壤、沉积物、湖泊和海洋沃茨中普遍存在的丰富的微生物组分。为了进一步描述世界性的非嗜热Crenarchaeota，我们分析了一个代表性的基因组序列，未培养的海绵共生体Cenarchaeum symbiosum。C.共生基因型共存于同一主机划分成两个占主导地位的人口，对应于先前描述的a型和b型核糖体RNA变异。虽然它们是同线的，但重叠的a型和b型核糖体基因组具有显著的变异性。一个单一的平铺路径，包括占主导地位的a型基因型组装，并用于探索的基因组特性的C。共生体及其共生关系。在2,066个ORF中，55.6%的基因与先前测序的基因组中预测的功能相匹配。其余的基因在功能性RNA（2.4%）和假设性RNA（42%）之间分配，与已知的功能基因同源性有限。后一类包括一些可能参与古菌-海绵共生关系的基因。相反，525 C.共生菌ORI的序列是最高度相似的海洋环境基因组调查，他们显然代表orthopathic基因从自由生活的浮游Crenarchaeota。总的来说，共生藻的基因组与其他已知的共生藻基因组明显不同，并且与其自由生活的共生藻亲属共享许多核心代谢特征。
Crenarchaeota are ubiquitous and abundant microbial constituents of soils, sediments, lakes, and ocean waters. To further describe the cosmopolitan nonthermophilic Crenarchaeota, we analyzed the genome sequence of one representative, the uncultivated sponge symbiont Cenarchaeum symbiosum. C. symbiosum genotypes coinhabiting the same host partitioned into two dominant populations, corresponding to previously described a- and b-type ribosomal RNA variants. Although they were syntenic, overlapping a- and b-type ribotype genomes harbored significant variability. A single tiling path comprising the dominant a-type genotype was assembled and used to explore the genomic properties of C. symbiosum and its planktonic relatives. Of 2,066 ORFs, 55.6% matched genes with predicted function from previously sequenced genomes. The remaining genes partitioned between functional RNAs (2.4%) and hypotheticals (42%) with limited homology to known functional genes. The latter category included some genes likely involved in the archaeal-sponge symbiotic association. Conversely, 525 C. symbiosum ORI's were most highly similar to sequences from marine environmental genomic surveys, and they apparently represent orthologous genes from free-living planktonic Crenarchaeota. In total, the C symbiosum genome was remarkably distinct from those of other known Archaea and shared many core metabolic features in common with its free-living planktonic relatives.