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| Status |
Public on Mar 18, 2020 |
| Title |
Myc-mediated SDHA Acetylation Triggers Epigenetic Regulation of Gene Expression and Tumorigenesis. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Trimethylated H3K4 (H3K4me3), which is often found surrounding the transcriptional start site of active genes, is strongly enriched in the promoter regions of Myc-targeted genes. Succinate, which inhibits JmjC domain-containing histone demethylases (JHDMs), can induce H3K4me3 level of the promoter regions. It's interesting to ask whether Myc can mediate H3K4me3 by regulating cellular succinate level. Here, We used ChIP-seq to study Myc modulates H3K4me3 by altering succinate levels, dimethyl succinate (DMS), a membrane-permeable succinate analog, was introduced to treat CA46 cells with high or depleted Myc expression. And we also performed RNA-seq assays in Myc expressed or depleted CA46 cells with or without DMS treatment.
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| Overall design |
CA46 cells were infected with viruses expressing non-targeting control (NTC) or Myc shRNA for 48h in presence of methyl succinate (DMS) and followed by H3K4me3 ChIP-seq to address whether succinate can induce H3K4me3 level of the promoter regions in CA46 cells with depleted Myc expression. For the CA46 cells’ ChIP-seq experiments with spike-in control, Drosophila chromatin (Active Motif 53083) and a Drosophila-specific antibody (Active Motif 61686) were used for each reaction. The D. melanogaster-specific antibody is used to immunoprecipitate D. melanogaster chromatin from each reaction, which is then used as a reference for normalization during data analysis. And ChIP-seq was sequenced at Novogene (Tianjin, China) on the Illumina novaseq6000 platform. Meanwhile, we also performed RNA extraction from these cell samples and sequenced on Illumina novaseq6000 platform.
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| Contributor(s) |
Li S, Shen S, Gao P, Zhang H |
| Citation |
Li S, Huang D, Shen S, Cai Y, Xing S, et al. Myc-mediated SDHA acetylation triggers epigenetic regulation of gene expression and tumorigenesis. Nat Metab 2020;2:256-269. doi:10.1038/s42255-020-0179-8
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| Submission date |
Dec 01, 2019 |
| Last update date |
Mar 18, 2020 |
| Contact name |
Shi-Ting Li |
| E-mail(s) |
ahulst@ustc.edu.cn
|
| Phone |
15956951752
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| Organization name |
University of Science and Technology of China
|
| Department |
Innovation Center for Cell Biology
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| Lab |
447 Room
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| Street address |
No.443, Huangshan Road
|
| City |
He Fei |
| State/province |
An Hui |
| ZIP/Postal code |
230027 |
| Country |
China |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA592816 |
| SRA |
SRP234173 |
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