iMEF SDHC-loss ChIP-seq

We have developed a tet-inducible immortalized mouse embryonic fibroblast (iMEF) cell culture system for studying the cross-talk between TCA cycle metabolism and the epigenome, in which silencing gene rearrangement of the Sdhc floxed allele is driven by doxycycline-dependent expression of cre-recombinase from a tet-inducible promoter (R26M2rtTA/+;TetOcre;Sdhcfl/fl). Using this model and an isogenic Sdhc wt control line (R26M2rtTA/+;TetOcre;Sdhcfl/wt), we have characterized differences in H3K4me3, H3K27me3, and chromatin succinylation that occur genome-wide in response to SDHC loss. For these experiments, both cell lines were grown in standard DMEM media containing 10% FBS at 37˚C and 5% CO2. 16 days after induction of Sdhc gene rearrangement by doxycycline induction, chromatin from the respective lines was prepared and patterns of H3K4me3, H3K27me3, and chromatin succinylation were studied via ChIP-seq. Included in this dataset are duplicate ChIP-seq experiments and input chromatin for experimental (R26M2rtTA/+;TetOcre;Sdhcfl/fl) and control (R26M2rtTA/+;TetOcre;Sdhcfl/wt) cell lines at day 16 after induction with doxycycline.