Use of RNA secondary structure for studying the evolution of RNase P and RNase MRP
Use of RNA secondary structure for studying the evolution of RNase P and RNase MRP
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DOI：
10.1007/s002390010081
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发表时间：
2000-09-01
影响因子：
3.9
通讯作者：
Penny, D
中科院分区：
文献类型：
--
作者：
Collins, LJ;Moulton, V;Penny, D
二级结构的评估是为了确定催化RNA分子之间的进化关系，这些分子是如此遥远的亲缘关系，它们几乎无法对齐。核糖核蛋白RNase P (P)和RNase MRP （MRP）由于在功能和二级结构上的相似性而被认为是进化相关的。然而，它们的RNA序列无法精确地对齐，这导致了从序列推断出的树的不确定性。我们报告了几种使用二级结构来推断进化树的方法，并强调定量测试来证明进化信息可以被恢复。对于P和MRP，考虑了相关性的三个假设。首先，MRP来源于早期真核生物的P。其次，MRP来源于早期内共生体的P。第三，P和MRP都是在rna世界中进化而来的（对MRP的需求在原核生物中已经消失了）。pRNA和mrpRNA二级结构的定量比较发现，MRP的细胞器起源的可能性不大。此外，二级结构的比较支持玉米叶绿体基因组中RNase p样序列的身份。总的来说，我们得出的结论是，RNA二级结构对评估进化亲缘关系是有用的，即使是不能确定的序列。
Secondary structure is evaluated for determining evolutionary relationships between catalytic RNA molecules that are so distantly related they are scarcely alignable. The ribonucleoproteins RNase P (P) and RNase MRP (MRP) have been suggested to be evolutionarily related because of similarities in both function and secondary structure. However, their RNA sequences cannot be aligned with any confidence, and this leads to uncertainty in any trees inferred from sequences. We report several approaches to using secondary structures for inferring evolutionary trees and emphasize quantitative tests to demonstrate that evolutionary information can be recovered. For P and MRP, three hypotheses for the relatedness are considered. The first is that MRP is derived from P in early eukaryotes. The next is that MRP is derived from P from an early endosymbiont. The third is that both P and MRP evolved in the RNA-world (and the need for MRP has since been lost in prokaryotes). Quantitative comparisons of the pRNA and mrpRNA secondary structures have found that the possibility of an organellar origin of MRP is unlikely. In addition, comparison of secondary structures support the identity of an RNase P-like sequence in the maize chloroplast genome. Overall, it is concluded that RNA secondary structure is useful for evaluating evolutionary relatedness, even with sequences that cannot be aligned with confidence.