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人类核糖体 RNA 的组成和可变 2'-O-甲基化 (Nm)。

Constitutive and variable 2'-O-methylation (Nm) in human ribosomal RNA.

机构信息

Université de Lorraine, CNRS, UMR7365 IMoPA, F-54000 Nancy, France.

Université de Lorraine, CNRS, INSERM, UMS2008/US40 IBSLor, EpiRNA-Seq Core Facility, F-54000 Nancy, France.

出版信息

RNA Biol. 2021 Oct 15;18(sup1):88-97. doi: 10.1080/15476286.2021.1974750. Epub 2021 Sep 10.

Abstract

Epitranscriptomic modifications of stable RNAs are dynamically regulated and specific profiles of 2'-O-methylation in rRNA have been associated with distinct cancer types. However, these observations pointed out the existence of at least two distinct groups: a rather large group with constitutive rRNA Nm residues exhibiting a stable level of methylation and a more restricted set of variable modifications, giving rise to the concept of 'specialized ribosomes'. These heterogeneous ribosomes can modulate their translational properties and be key regulatory players, depending on the physiological state of the cell. However, these conclusions were drawn from a limited set of explored human cell lines or tissues, mostly related to cancer cells of the same type. Here, we report a comprehensive analysis of human rRNA Nm modification variability observed for >15 human cell lines grown in different media and conditions. Our data demonstrate that human Nm sites can be classified into four groups, depending on their observed variability. About ⅓ of rRNA 2'-O-methylations are almost invariably modified at the same level in all tested samples (stable modifications), the second group of relatively invariant modifications (another ½ of the total) showing a slightly higher variance (low variable group) and two variable groups, showing an important heterogeneity. Mapping of these four classes on the human ribosome 3D structure shows that stably modified positions are preferentially located in the important ribosome functional sites, while variable and highly variable residues are mostly distributed to the ribosome periphery. Possible relationships of such stable and variable modifications to the ribosome functions are discussed.

摘要

稳定 RNA 的转录后修饰是动态调节的,rRNA 的 2'-O-甲基化的特定模式与不同的癌症类型有关。然而,这些观察结果指出了至少存在两个不同的群体:一个相当大的群体,其 rRNA Nm 残基具有稳定的甲基化水平,并且具有更受限制的可变修饰集,从而产生了“专门化核糖体”的概念。这些异质核糖体可以调节它们的翻译性质,并成为关键的调节因子,这取决于细胞的生理状态。然而,这些结论是从一组有限的人类细胞系或组织中得出的,这些细胞系或组织主要与同一类型的癌细胞有关。在这里,我们报告了对超过 15 种在不同培养基和条件下生长的人类细胞系中观察到的 rRNA Nm 修饰变异性的全面分析。我们的数据表明,人类 Nm 位点可以根据其观察到的变异性分为四组。大约三分之一的 rRNA 2'-O-甲基化在所有测试样品中几乎以相同的水平被修饰(稳定修饰),第二组相对不变的修饰(总共的另一半)显示出略高的变异性(低变异性组),还有两个可变组,显示出重要的异质性。将这四个类别映射到人类核糖体 3D 结构上表明,稳定修饰的位置优先位于核糖体的重要功能部位,而可变和高度可变的残基主要分布在核糖体的外围。讨论了这种稳定和可变修饰与核糖体功能的可能关系。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/547c/8677024/4ff7e97dc0c5/KRNB_A_1974750_F0001_OC.jpg

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