如何在测序数据中识别CRISPRs。

How to identify CRISPRs in sequencing data.

作者信息

Drevet Christine, Pourcel Christine

机构信息

Institut de Génétique et Microbiologie, Université Paris-Sud, Orsay, France.

出版信息

Methods Mol Biol. 2012;905:15-27. doi: 10.1007/978-1-61779-949-5_2.

DOI:10.1007/978-1-61779-949-5_2

PMID:22735995

Abstract

Clustered regularly interspaced short palindromic repeats (CRISPRs) are DNA sequences composed of a succession of repeats (23-50 bp long) separated by unique sequences called spacers. CRISPRs together with a set of genes called cas for CRISPR associated, constitute a defence mechanism against invasion by foreign sequences. We describe protocols and bioinformatics tools that allow the identification of CRISPRs, their comparison and their component determination (the direct repeats and the spacers). A schematic representation of the spacer organization can be produced, allowing an easy comparison between strains.

摘要

成簇规律间隔短回文重复序列（CRISPRs）是由一系列重复序列（23 - 50个碱基对长）组成的DNA序列，这些重复序列被称为间隔序列的独特序列隔开。CRISPRs与一组名为CRISPR相关序列（cas）的基因共同构成了一种抵御外来序列入侵的防御机制。我们描述了一些方案和生物信息学工具，可用于鉴定CRISPRs、对其进行比较以及确定其组成部分（直接重复序列和间隔序列）。可以生成间隔序列组织的示意图，便于在不同菌株之间进行比较。