Title |
Functional CRISPR screen identifies AP1-associated enhancer regulating FOXF1 to modulate oncogene-induced senescence
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Published in |
Genome Biology, August 2018
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DOI | 10.1186/s13059-018-1494-1 |
Pubmed ID | |
Authors |
Ruiqi Han, Li Li, Alejandro Piñeiro Ugalde, Arieh Tal, Zohar Manber, Eric Pinto Barbera, Veronica Della Chiara, Ran Elkon, Reuven Agami |
Abstract |
Functional characterization of non-coding elements in the human genome is a major genomic challenge and the maturation of genome-editing technologies is revolutionizing our ability to achieve this task. Oncogene-induced senescence, a cellular state of irreversible proliferation arrest that is enforced following excessive oncogenic activity, is a major barrier against cancer transformation; therefore, bypassing oncogene-induced senescence is a critical step in tumorigenesis. Here, we aim at further identification of enhancer elements that are required for the establishment of this state. We first apply genome-wide profiling of enhancer-RNAs (eRNAs) to systematically identify enhancers that are activated upon oncogenic stress. DNA motif analysis of these enhancers indicates AP-1 as a major regulator of the transcriptional program induced by oncogene-induced senescence. We thus constructed a CRISPR-Cas9 sgRNA library designed to target senescence-induced enhancers that are putatively regulated by AP-1 and used it in a functional screen. We identify a critical enhancer that we name EnhAP1-OIS1 and validate that mutating the AP-1 binding site within this element results in oncogene-induced senescence bypass. Furthermore, we identify FOXF1 as the gene regulated by this enhancer and demonstrate that FOXF1 mediates EnhAP1-OIS1 effect on the senescence phenotype. Our study elucidates a novel cascade mediated by AP-1 and FOXF1 that regulates oncogene-induced senescence and further demonstrates the power of CRISPR-based functional genomic screens in deciphering the function of non-coding regulatory elements in the genome. |
X Demographics
Geographical breakdown
Country | Count | As % |
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United States | 3 | 33% |
United Kingdom | 1 | 11% |
Unknown | 5 | 56% |
Demographic breakdown
Type | Count | As % |
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Members of the public | 5 | 56% |
Scientists | 3 | 33% |
Science communicators (journalists, bloggers, editors) | 1 | 11% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 81 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 25 | 31% |
Researcher | 17 | 21% |
Student > Master | 9 | 11% |
Student > Bachelor | 7 | 9% |
Student > Doctoral Student | 6 | 7% |
Other | 8 | 10% |
Unknown | 9 | 11% |
Readers by discipline | Count | As % |
---|---|---|
Biochemistry, Genetics and Molecular Biology | 39 | 48% |
Agricultural and Biological Sciences | 20 | 25% |
Computer Science | 4 | 5% |
Pharmacology, Toxicology and Pharmaceutical Science | 2 | 2% |
Medicine and Dentistry | 2 | 2% |
Other | 6 | 7% |
Unknown | 8 | 10% |