Tracing the evolution of RNA structure in ribosomes
Tracing the evolution of RNA structure in ribosomes
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DOI：
10.1093/nar/30.11.2575
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发表时间：
2002-06-01
影响因子：
14.9
通讯作者：
Caetano-Anollés, G
中科院分区：
文献类型：
--
作者：
Caetano-Anollés, G
核糖体结构的阐明表明，核糖体的功能基本上局限于核糖体系综的RNA组分之间建立的动态相互作用。这些发现现在可以详细分析核糖体RNA（rRNA）结构的进化。rRNA的起源和多样化的研究在这里直接在结构水平上使用系统发育工具。一个有根的通用树重建的组合二级结构的大亚基（LSU）和小亚基（SSU）rRNA使用分支的方法和统计力学的考虑。结构核糖体字符的完整剧目的演变正式追查谱系的树，显示出分子简化和核糖体结构变化随时间的均匀减少的趋势。字符跟踪显示模式的演变亚基间的桥梁联系和tRNA结合位点的tRNA易位和亚基运动的耦合是一致的。这些模式支持两个亚基中tRNA结合位点的协同进化，以及某些结构核糖体特征的祖先性质和共同起源，例如肽基（P）位点，SSU rRNA倒数第二个茎螺旋的功能中继，以及参与核糖体动力学的其他结构。总体结果提供了一个罕见的深入了解核糖体结构的演变。
The elucidation of ribosomal structure has shown that the function of ribosomes is fundamentally confined to dynamic interactions established between the RNA components of the ribosomal ensemble. These findings now enable a detailed analysis of the evolution of ribosomal RNA (rRNA) structure. The origin and diversification of rRNA was studied here using phylogenetic tools directly at the structural level. A rooted universal tree was reconstructed from the combined secondary structures of large (LSU) and small (SSU) subunit rRNA using cladistic methods and considerations in statistical mechanics. The evolution of the complete repertoire of structural ribosomal characters was formally traced lineage-by-lineage in the tree, showing a tendency towards molecular simplification and a homogeneous reduction of ribosomal structural change with time. Character tracing revealed patterns of evolution in inter-subunit bridge contacts and tRNA-binding sites that were consistent with the proposed coupling of tRNA translocation and subunit movement. These patterns support the concerted evolution of tRNA-binding sites in the two subunits and the ancestral nature and common origin of certain structural ribosomal features, such as the peptidyl (P) site, the functional relay of the penultimate stem helix of SSU rRNA, and other structures participating in ribosomal dynamics. Overall results provide a rare insight into the evolution of ribosomal structure.