UMMS Affiliation

RNA Therapeutics Institute; Proram in Molecular Medicine; Program in Bioinformatics and Integrative Biology

Publication Date

5-28-2015

Document Type

Article

Disciplines

Bioinformatics | Computational Biology | Genetics and Genomics | Genomics | Molecular Biology

Abstract

Although chromosomal deletions and inversions are important in cancer, conventional methods for detecting DNA rearrangements require laborious indirect assays. Here we develop fluorescent reporters to rapidly quantify CRISPR/Cas9-mediated deletions and inversions. We find that inversion depends on the non-homologous end-joining enzyme LIG4. We also engineer deletions and inversions for a 50 kb Pten genomic region in mouse liver. We discover diverse yet sequence-specific indels at the rearrangement fusion sites. Moreover, we detect Cas9 cleavage at the fourth nucleotide on the non-complementary strand, leading to staggered instead of blunt DNA breaks. These reporters allow mechanisms of chromosomal rearrangements to be investigated.

Rights and Permissions

Citation: Genome Biol. 2015 May 28;16:111. doi: 10.1186/s13059-015-0680-7. Link to article on publisher's site

DOI of Published Version

10.1186/s13059-015-0680-7

Comments

© 2015 Li et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http:// creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

Related Resources

Link to Article in PubMed

Journal/Book/Conference Title

Genome biology

PubMed ID

26018130

Creative Commons License

Creative Commons Attribution 4.0 License
This work is licensed under a Creative Commons Attribution 4.0 License.

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