Characterizing the regulation of co-transcriptional splicing rates in human cells

表征人类细胞共转录剪接率的调节

• 批准号: 9250584
• 负责人: Heather Landry
• 金额: $ 3.66万
• 依托单位: HARVARD MEDICAL SCHOOL
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-02-01 至 2019-01-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9250584
• 关键词: Affect; Alternative Splicing; Biological Assay; Cell Line; Cells; Characteristics; Chromatin; Cis-Acting Sequence; DNA Polymerase II; DNA Sequence Alteration; DNA-Directed RNA Polymerase; Data; Disease; Elements; Engineering; Enhancers; Exons; Foundations; Genes; Genetic Transcription; Goals; Human; Impairment; Introns; Kinetics; Malignant Neoplasms; Measures; Methods; Modeling; Neurodegenerative Disorders; Outcome; Pattern; Positioning Attribute; Process; Proteins; RNA; RNA Splicing; Reaction; Regulation; Reporter; Research Proposals; Resolution; Role; Site; Techniques; Testing; Time; Transcript; Travel; Variant; cell type; developmental disease; experimental study; in vivo; inhibitor/antagonist; insight; mRNA Precursor; new technology; novel; novel strategies; small molecule inhibitor; time use

Abstract Alternative splicing has a vital role in generating extensive protein diversity across human cell types. However, misregulation of alternative splicing is commonly found in diseases ranging from developmental disorders to cancer. Despite clear progress in identifying the features, such as cis-acting sequences and trans factors, that predict alternative splicing outcomes, there remains a lack of understanding into key mechanisms of alternative splicing regulation. For instance, there is strong indication that the kinetic rate of splicing is crucial for alternative splicing decisions; however, due to limitations in current approaches for measuring splicing rate, this concept has yet to be directly measured. The overall goal of this proposal is to investigate the variation in splicing kinetics at higher resolution than previously possible and determine how splicing rate is regulated in human cells. I hypothesize that the kinetic rate of splicing is an important regulatory step in determining alternative splicing outcomes. In order to fully test this hypothesis, it is necessary to first expose what regulates splicing kinetics in vivo. By determining the variation and regulation of splicing rates, I will be able to expose how splicing kinetics influence alternative splicing decisions in human cells. First, I will uncover new insights into the variation of co-transcriptional splicing kinetics by probing the splicing rate of 50 constitutive and 50 alternative splicing reactions using a novel approach that measures splicing rates at high resolution. Second, I will reveal how different components of the splicing machinery control splicing kinetics using splicing inhibitors and cell lines with genetic mutations in splicing factors. Third, I will investigate how splicing enhancer and silencer sequences influence the kinetic rate of alternative splicing reactions in order to resolve a connection between splicing kinetics and alternative splicing decisions. Ultimately, the results from this proposal will reveal the variation in co-transcriptional splicing rates in human cells with more accuracy than previously possible and set the foundation for how splicing kinetics are regulated and influence alternative splicing in vivo.

摘要 选择性剪接在人类细胞类型中产生广泛的蛋白质多样性方面起着至关重要的作用。然而， 选择性剪接调控不当常见于从发育障碍到 癌症。尽管在识别特征方面取得了明显的进展，如顺式作用序列和反式因子，但 预测替代剪接的结果，仍然缺乏对替代的关键机制的了解 拼接监管。例如，有强烈的迹象表明，剪接的动力学速度对 可选的剪接决策；然而，由于当前用于测量剪接率的方法的局限性， 这一概念尚未被直接衡量。这项提案的总体目标是调查 比以前可能的更高分辨率的剪接动力学，并确定如何调节剪接率 人类细胞。我假设剪接的动力学速率是决定 可选的剪接结果。为了充分检验这一假设，有必要首先揭示是什么调节了这一假设 体内剪接动力学。通过确定剪接率的变化和调节，我将能够揭露 剪接动力学如何影响人类细胞中的选择性剪接决定。首先，我将发现新的见解 从50个组分和50个组分的剪接率探讨共转录剪接动力学的变化 另一种剪接反应使用一种新的方法，在高分辨率下测量剪接率。第二，我 将揭示剪接机械的不同组件如何使用剪接抑制剂控制剪接动力学 以及剪接因子基因突变的细胞系。第三，我将研究剪接增强剂和 为了解决连接问题，消音器序列会影响选择性剪接反应的动力学速率 剪接动力学和选择性剪接决策之间的关系。最终，这项提案的结果将揭示 人类细胞共转录剪接率的变化比以前可能的更准确 为体内剪接动力学的调控和影响选择性剪接奠定基础。