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Parallel genetics of regulatory sequences using scalable genome editing in vivo

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Item Type:Article
Title:Parallel genetics of regulatory sequences using scalable genome editing in vivo
Creators Name:Froehlich, J.J. and Uyar, B. and Herzog, M. and Theil, K. and Glažar, P. and Akalin, A. and Rajewsky, N.
Abstract:How regulatory sequences control gene expression is fundamental for explaining phenotypes in health and disease. Regulatory elements must ultimately be understood within their genomic environment and development- or tissue-specific contexts. Because this is technically challenging, few regulatory elements have been characterized in vivo. Here, we use inducible Cas9 and multiplexed guide RNAs to create hundreds of mutations in enhancers/promoters and 3' UTRs of 16 genes in C. elegans. Our software crispr-DART analyzes indel mutations in targeted DNA sequencing. We quantify the impact of mutations on expression and fitness by targeted RNA sequencing and DNA sampling. When applying our approach to the lin-41 3' UTR, generating hundreds of mutants, we find that the two adjacent binding sites for the miRNA let-7 can regulate lin-41 expression independently of each other. Finally, we map regulatory genotypes to phenotypic traits for several genes. Our approach enables parallel analysis of regulatory sequences directly in animals.
Keywords:Gene Regulation, Gene-Regulatory Elements, Animal Phenotype, Caenorhabditis elegans, In Vivo, CRISPR-Cas9, Parallel Genetics, Indel Mutations, lin-41 3′ UTR, let-7 microRNA, Animals, Caenorhabditis elegans
Source:Cell Reports
Publisher:Cell Press / Elsevier
Page Range:108988
Date:13 April 2021
Official Publication:https://doi.org/10.1016/j.celrep.2021.108988
PubMed:View item in PubMed
Related to:
https://edoc.mdc-berlin.de/19157/Preprint version

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