Sun Fengjie, Caetano-Anollés Gustavo
School of Science and Technology, Georgia Gwinnett College, Lawrenceville, GA 30043, USA.
Evolutionary Bioinformatics Laboratory, Department of Crop Sciences, University of Illinois, Urbana, IL 61801, USA.
Life (Basel). 2021 May 27;11(6):489. doi: 10.3390/life11060489.
RNA evolves by adding substructural parts to growing molecules. Molecular accretion history can be dissected with phylogenetic methods that exploit structural and functional evidence. Here, we explore the statistical behaviors of lengths of double-stranded and single-stranded segments of growing tRNA, 5S rRNA, RNase P RNA, and rRNA molecules. The reconstruction of character state changes along branches of phylogenetic trees of molecules and trees of substructures revealed strong pushes towards an economy of scale. In addition, statistically significant negative correlations and strong associations between the average lengths of helical double-stranded stems and their time of origin (age) were identified with the Pearson's correlation and Spearman's rho methods. The ages of substructures were derived directly from published rooted trees of substructures. A similar negative correlation was detected in unpaired segments of rRNA but not for the other molecules studied. These results suggest a principle of diminishing returns in RNA accretion history. We show this principle follows a tendency of substructural parts to decrease their size when molecular systems enlarge that follows the Menzerath-Altmann's law of language in full generality and without interference from the details of molecular growth.
RNA 通过向生长中的分子添加亚结构部分而进化。分子增长历史可以用利用结构和功能证据的系统发育方法来剖析。在这里,我们探索了生长中的 tRNA、5S rRNA、核糖核酸酶 P RNA 和 rRNA 分子的双链和单链片段长度的统计行为。沿着分子系统发育树和亚结构树的分支对特征状态变化的重建揭示了对规模经济的强烈推动。此外,通过皮尔逊相关法和斯皮尔曼等级相关法,确定了螺旋双链茎的平均长度与其起源时间(年龄)之间具有统计学意义的负相关和强关联。亚结构的年龄直接来自已发表的亚结构有根树。在 rRNA 的未配对片段中检测到类似的负相关,但在所研究的其他分子中未检测到。这些结果表明了 RNA 增长历史中的收益递减原则。我们表明,这一原则遵循了分子系统扩大时亚结构部分尺寸减小的趋势,这完全符合门泽拉斯 - 阿尔特曼语言定律,且不受分子生长细节的干扰。