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一种利用剪接反义RNA模板通过转录RNA检测和研究DNA双链断裂修复的方法。

An Approach to Detect and Study DNA Double-Strand Break Repair by Transcript RNA Using a Spliced-Antisense RNA Template.

作者信息

Keskin Havva, Storici Francesca

机构信息

Georgia Institute of Technology, Atlanta, GA, United States.

Georgia Institute of Technology, Atlanta, GA, United States.

出版信息

Methods Enzymol. 2018;601:59-70. doi: 10.1016/bs.mie.2017.11.026. Epub 2018 Feb 3.

Abstract

A double-strand break (DSB) is one of the most dangerous DNA lesion, and its repair is crucial for genome stability. Homologous recombination is considered the safest way to repair a DNA DSB and requires an identical or nearly identical DNA template, such as a sister chromatid or a homologous chromosome for accurate repair. Can transcript RNA serve as donor template for DSB repair? Here, we describe an approach that we developed to detect and study DNA repair by transcript RNA. Key features of the method are: (i) use of antisense (noncoding) RNA as template for DSB repair by RNA, (ii) use of intron splicing to distinguish the sequence of the RNA template from that of the DNA that generates the RNA template, and (iii) use of a trans and cis system to study how RNA repairs a DSB in homologous but distant DNA or in its own DNA, respectively. This chapter provides details on how to use a spliced-antisense RNA template to detect and study DSB repair by RNA in trans or cis in yeast cells. Our approach for detection of DSB repair by RNA in cells can be applied to cell types other than yeast, such as bacteria, mammalian cells, or other eukaryotic cells.

摘要

双链断裂(DSB)是最危险的DNA损伤之一,其修复对于基因组稳定性至关重要。同源重组被认为是修复DNA双链断裂最安全的方式,并且需要一个相同或几乎相同的DNA模板,例如姐妹染色单体或同源染色体来进行精确修复。转录RNA能否作为DSB修复的供体模板?在这里,我们描述了一种我们开发的用于检测和研究转录RNA介导的DNA修复的方法。该方法的关键特征包括:(i)使用反义(非编码)RNA作为RNA介导的DSB修复的模板;(ii)利用内含子剪接来区分RNA模板的序列与产生RNA模板的DNA的序列;(iii)使用反式和顺式系统分别研究RNA如何修复同源但距离较远的DNA或自身DNA中的DSB。本章详细介绍了如何使用剪接反义RNA模板来检测和研究酵母细胞中RNA介导的反式或顺式DSB修复。我们在细胞中检测RNA介导的DSB修复的方法可应用于酵母以外的其他细胞类型,如细菌、哺乳动物细胞或其他真核细胞。

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