Molecular signatures of ribosomal evolution
Molecular signatures of ribosomal evolution
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DOI：
10.1073/pnas.0804861105
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发表时间：
2008-09-16
影响因子：
11.1
通讯作者：
Luthey-Schulten, Zaida
中科院分区：
文献类型：
--
作者：
Roberts, Elijah;Sethi, Anurag;Luthey-Schulten, Zaida
核糖体特征，即核糖体RNA(RRNA)和/或蛋白质的特性，是生命各个领域的特征。因此，可以通过比较分析它们在翻译机构中的各自签名来洞察这些域的早期演变。在这项工作中，我们识别了rRNA序列和结构中的特征，并使用基于序列和结构的方法分析了它们对通用系统发育树的贡献。结构域特定的核糖体蛋白本身就可以被认为是标志。虽然人们普遍认为它们是在通用核糖体蛋白之后发展起来的，但我们提出的证据表明，在生物谱系分化之前，至少有一个可能已经存在。我们发现rRNA签名和核糖体蛋白中的签名之间的相关性表明，rRNA签名与结构域特定的和通用的核糖体蛋白共同进化。最后，我们证明了通用核糖体成分的基因组组织也包含这些特征。从这些研究中，我们认为核糖体签名是随着细胞谱系开始合并而发生的进化阶段转变的残余，因此应该反映在整个细胞及其基因组的相应签名中。
Ribosomal signatures, idiosyncrasies in the ribosomal RNA (rRNA) and/or proteins, are characteristic of the individual domains of life. As such, insight into the early evolution of the domains can be gained from a comparative analysis of their respective signatures in the translational apparatus. In this work, we identify signatures in both the sequence and structure of the rRNA and analyze their contributions to the universal phylogenetic tree using both sequence- and structure-based methods. Domain-specific ribosomal proteins can be considered signatures in their own right. Although it is commonly assumed that they developed after the universal ribosomal proteins, we present evidence that at least one may have been present before the divergence of the organismal lineages. We find correlations between the rRNA signatures and signatures in the ribosomal proteins showing that the rRNA signatures coevolved with both domain-specific and universal ribosomal proteins. Finally, we show that the genomic organization of the universal ribosomal components contains these signatures as well. From these studies, we propose the ribosomal signatures are remnants of an evolutionary-phase transition that occurred as the cell lineages began to coalesce and so should be reflected in corresponding signatures throughout the fabric of the cell and its genome.