Structural and dynamics studies of post-transcriptionally modified snRNAs

转录后修饰 snRNA 的结构和动力学研究

• 批准号: 9911667
• 负责人: Hala Abou Assi
• 金额: $ 6.53万
• 依托单位: DUKE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2022-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9911667
• 关键词: Affect; Antiviral Response; Base Pairing; Binding; Binding Proteins; Biological; Biological Models; Biological Process; Biology; Cardiac; Catalysis; Cell Line; Cell physiology; Cells; Chemicals; Clinical; Code; Complement; Complex; Cues; Elements; Equilibrium; Exons; Gene Expression; Genes; Genetic Transcription; Goals; HIV-1; Interferons; Kinetics; Knock-out; Knowledge; Label; Lead; Ligands; Ligation; Link; Measures; Mediating; Messenger RNA; Metals; Methods; Methylation; MicroRNAs; Mission; Modification; Molecular; Molecular Conformation; National Institute of General Medical Sciences; Nuclear Magnetic Resonance; Nucleosides; Nucleotides; Outcome; Play; Positioning Attribute; Property; Proteins; Public Health; RNA; RNA Folding; RNA Splicing; RNA Stability; RNA, Messenger, Splicing; RNA-Protein Interaction; Reader; Relaxation; Research; Response Elements; Ribose; Ribosomal RNA; Role; Site; Small Interfering RNA; Small Nuclear RNA; Spliceosome Assembly Pathway; Spliceosomes; Structure; Techniques; Testing; Tetralogy of Fallot; Thermodynamics; Transactivation; Transfer RNA; Translations; U6 small nuclear RNA; Untranslated RNA; X-linked intellectual disability; base; biophysical techniques; congenital heart disorder; epitranscriptomics; experimental study; functional outcomes; human disease; knock-down; melting; non-Native; response; sugar

Project Summary: There is increasing evidence that post-transcriptional modifications play essential roles in the biological functions of coding and non-coding RNAs. More than 100 chemically-modified RNA nucleosides have been identified to date that can impact RNA fate and function. 2'-O-methylation (Nm) of the 2'-OH position is a unique modification that impacts the ribose sugar moiety of all four nucleosides. Nm is found in high abundance in ribosomal RNA (rRNA), transfer RNA (tRNA), and small nuclear RNA (snRNA). It is also present on microRNA, at the 5'-cap of messenger RNA (mRNA), and recently discovered internally on mRNA. Nm is critical for the proper functioning of many of the above RNAs, and in several cases, loss of Nm has been linked to clinical conditions. Despite its importance, how Nm affects RNA cellular activity remains poorly understood at the molecular level for the majority of these RNAs. The cellular functions of many regulatory RNAs rely on finely-tuned changes in RNA structural dynamics that take place in response to specific cellular cues such as the binding proteins, ligands, or other RNAs. A prominent example is the spliceosome machinery, which catalyzes mRNA maturation. RNA dynamics plays essential roles in the assembly and disassembly of the spliceosome as well as in cycling between the different conformational states required for catalysis. U2-U6 and U4-U6 snRNA complexes are critical dynamic structural elements of the spliceosome, which are highly enriched in Nm modifications. The role of these modifications on snRNAs remains poorly understood. This project will determine how Nm modifications influence snRNA structure and splicing. Aims 1 and 2 will utilize advanced Nuclear Magnetic Resonance (NMR) techniques, including Relaxation Dispersion experiments (RD), and additional biophysical techniques to test the hypothesis that loss of Nm modifications affects the stability, hybridization kinetics, and conformational dynamics of snRNA structures. Aim 3 will use siRNA-mediated knockdown and genetically-defined knockout cell lines to determine which snRNA modifications have the greatest impact on mRNA splicing in cardiac cells. The structural dynamics studies of Aims 1 and 2 will therefore complement the functional studies of Aim 3. Together, these studies will significantly expand our knowledge of how Nm modifications contribute to activity (for instance splicing of cardiac genes) via altering the dynamic and structural properties of snRNAs.

项目总结： 越来越多的证据表明，转录后修饰在生物学中起着至关重要的作用。 编码和非编码RNA的功能。已有100多种化学修饰的RNA核苷被 到目前为止，已发现可以影响RNA命运和功能的基因。2‘-羟基位置的2’-O-甲基化(Nm)是 影响所有四种核苷的核糖部分的独特修饰。NM位于高电平 核糖体核糖核酸(RRNA)、转移核糖核酸(TRNA)和小核糖核酸(SnRNA)的丰度。它也存在 在microRNA上，在信使RNA(信使RNA)的5‘-帽上，最近在mRNA上发现。NM是 对上述许多RNA的正常运行至关重要，在某些情况下，Nm的丢失与 到临床条件。尽管Nm很重要，但它如何影响RNA细胞活动仍然知之甚少 在分子水平上，这些RNA的大多数。许多调控RNA的细胞功能依赖于 RNA结构动力学的微调变化，这些变化响应于特定的细胞提示，如 结合蛋白、配体或其他核糖核酸。一个突出的例子是拼接体机械，它 催化mRNA成熟。RNA动力学在细胞的组装和拆卸过程中起着至关重要的作用 剪接体以及催化所需的不同构象状态之间的循环。U2-U6和 U4-U6SnRNA复合体是剪接体的关键动态结构元件，具有高度的 富含Nm修饰。这些修饰对SnRNA的作用仍然知之甚少。这 该项目将确定Nm修饰如何影响SnRNA结构和剪接。目标1和目标2将利用 先进的核磁共振技术，包括弛豫色散实验(RD)， 以及额外的生物物理技术来测试Nm修饰的损失影响稳定性的假设， 杂交动力学和单链RNA结构的构象动力学。AIM 3将使用siRNA介导的 敲除和基因定义的敲除细胞系，以确定哪些SnRNA修饰具有 对心肌细胞的信使核糖核酸剪接影响最大。目标1和目标2的结构动力学研究将 因此补充了目标3的功能研究。总之，这些研究将极大地扩展我们的 了解Nm修饰如何通过改变来促进活性(例如心脏基因的剪接) 小核糖核酸的动力学和结构特性。