RNA Therapeutics Institute; Proram in Molecular Medicine; Program in Bioinformatics and Integrative Biology
Bioinformatics | Computational Biology | Genetics and Genomics | Genomics | Molecular Biology
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.
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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
Li, Yingxiang; Park, Angela I.; Mou, Haiwei; Colpan, Cansu; Bizhanova, Aizhan; Akama-Garren, Elliot; Joshi, Nik; Hendrickson, Eric A.; Feldser, David; Yin, Hao; Anderson, Daniel G.; Jacks, Tyler; Weng, Zhiping; and Xue, Wen, "A versatile reporter system for CRISPR-mediated chromosomal rearrangements" (2015). Open Access Articles. 2567.
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