Mitotically heritable, RNA polymerase II-independent H3K4 dimethylation stimulates INO1 transcriptional memory
- Department of Molecular Biosciences, Northwestern University, United States
Figures
Figure 1 with 2 supplements
INO1 transcriptional memory stimulates faster transcription and provides a competitive fitness advantage.
(A) Model of INO1 in the active, memory, and long-term repressed states, highlighting factors that are specifically required for memory. (B) Activation (left) and reactivation (right) of INO1 in …
Figure 1—figure supplement 1
CHO1 exhibits inositol transcriptional memory.
(A) Peripheral localization of CHO1 under repressing (+inositol), activating (−inositol), or memory (−inositol →+inositol, 3 hr) conditions in either a wild type (WT) or nup100∆ strain. The average …
Figure 1—figure supplement 2
INO1 memory does not require transcription.
(A) Cells grown in the repressing (+inositol) condition, switched to the activating conditions (−inositol) for the indicated amount of time before being returned to the repressing condition for 3 …
Figure 2
INO1 transcriptional memory requires a positive feedback loop.
(A) Activation and reactivation of INO1 in wild type (WT) (left) and set1∆ (right) strains upon removal of Opi1 by Anchor Away. Cells were harvested at indicated time points and INO1 mRNA was …
Figure 3 with 1 supplement
Two different Hsf1-like TFs are required for inositol memory.
(A–C) Chromatin immunoprecipitation (ChIP) against Hms2-myc (A), RNAPII (B, left), H3K4me2 (B, right), or Sfl1-GFP (D) in the indicated strains grown under activating, repressing, or memory (3 hr) …
Figure 3—figure supplement 1
Some, but not all, Hsf1-like TFs are required for INO1 transcriptional memory.
Peripheral localization of INO1 in either wildtype (WT), sfl1∆, hms2∆, mga1∆, and skn7∆ strains. Cells grown without inositol were switched to complete media and then imaged after 3 hr. The average …
Figure 4
RNA polymerase II (RNAPII) binding during INO1 memory requires H3K4me2, but H3K4 dimethylation does not depend on RNAPII.
Chromatin immunoprecipitation (ChIP) against RNAPII (A) or H3K4me2 (D) in ssn3 analog-sensitive (ssn3-as) and SPT15-FRB Anchor Away strains upon addition of either 1-Napthyl-PP1 (NaPP1) or rapamycin …
Figure 5 with 1 supplement
The Leo1 protein of the Paf1 complex is specifically required for INO1 memory.
(A) Chromatin immunoprecipitation (ChIP) against H3K4me2 in the indicated strains under repressing (+inositol), activating (−inositol), or memory (−inositol →+inositol, 3 hr) conditions, …
Figure 5—figure supplement 1
Effects of loss of Leo1 on H3K4me3 and INO1 localization.
(A) Chromatin immunoprecipitation (ChIP) against H3K4me3 in wild type (WT), cdc73∆, ctr9∆, leo1∆, paf1∆, and rtf1∆ strains in repressing (+inositol), activating (−inositol), memory (−inositol …
Figure 6 with 1 supplement
Distinct molecular requirements for establishment and inheritance of H3K4me2 during INO1 memory.
(A) Experimental set-up to test the role of Sfl1 in establishment and inheritance of INO1 memory, using auxin-inducible degradation of Sfl1 before or after establishing memory. The top arrow …
Figure 6—figure supplement 1
Rapid loss of H3K4me2 from the INO1 promoter in the absence of transcriptional memory.
Time course chromatin immunoprecipitation (ChIP) against H3K4me2 in the mrs mutant strain. Cells were switched from activating (−inositol) to repressing (+inositol) medium at t=0 and fixed for ChIP …
Figure 7
Models for INO1 transcriptional memory.
(A). INO1 under activating conditions. Interaction with the nuclear pore complex (NPC) is mediated by Put3 (and, potentially, Cbf1; Ahmed et al., 2010; Randise-Hinchliff et al., 2016). Ino2/Ino4 …
Additional files
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Transparent reporting form
- https://cdn.elifesciences.org/articles/77646/elife-77646-transrepform1-v2.docx
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Supplementary file 1
Yeast strains.
- https://cdn.elifesciences.org/articles/77646/elife-77646-supp1-v2.docx
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Supplementary file 2
Oligonucleotides.
- https://cdn.elifesciences.org/articles/77646/elife-77646-supp2-v2.docx
