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Series GSE73406 Query DataSets for GSE73406
Status Public on Jun 15, 2016
Title Transcriptional regulation by Set1 H3K4 methyltransferase and Jhd2 H3K4 demethylase
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Summary Histone H3K4 methylation is connected to gene transcription from yeast to humans, but its mechanistic role in transcription and chromatin dynamics remains poorly understood. Here, we investigated the functions for Set1 and Jhd2, the sole H3K4 methyltransferase and H3K4 demethylase, respectively, in S. cerevisiae. Our data show that Set1 and Jhd2 predominantly co-regulate transcription. To further understand the role for H3K4 methylation, we overexpressed Flag epitope-tagged SET1-G990E (a dominant hyperactive allele of SET1) in yeast using the constitutive ADH1 promoter (ADH1p). As a control, we also overexpressed Flag epitope-tagged wild type SET1 in yeast. Analysis of gene expression in set1-null, jhd2-null and wild type SET1 or hypeactive SET1-G990E overexpressing mutants together revealed that the transcriptional regulation at a sub-set of genes, inclduing those governing glycogen metabolism and ribosome biogenesis, is highly sensitive to any change (i.e., loss or gain) in H3K4 methylation levels. Overall, we find combined activities of Set1 and Jhd2 via dynamic modulation of H3K4 methylation contribute to positive or negative transcriptional regulation at shared target genes.
Overall design Gene expression changes were generated from five different yeast strains representing wild type control, set1 null and jhd2 null mutants, and wild type SET1 or dominant hyperacive SET1-G990E overexpressing mutants. Three independent biological samples were grown for each strain, total RNA was isolated, libraries were prepared, sequenced, and analyzed separately.
Contributor(s) Ramakrishnan S, Pokhrel S, Pflueger C, Parnell TJ, Cairns BR, Bhaskara S, Chandrasekharan MB
Citation(s) 27325136
Submission date Sep 24, 2015
Last update date May 15, 2019
Contact name Timothy J Parnell
Organization name Huntsman Cancer Institute
Street address 2000 Circle of Hope
City Salt Lake City
State/province UT
ZIP/Postal code 84112
Country USA
Platforms (1)
GPL13821 Illumina HiSeq 2000 (Saccharomyces cerevisiae)
Samples (15)
GSM1892898 WT_1
GSM1892899 jhd2_1
GSM1892900 set1_1
This SubSeries is part of SuperSeries:
GSE73407 Set1 H3K4 methyltransferase and Jhd2 H3K4 demethylase
BioProject PRJNA296903
SRA SRP064177

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Supplementary file Size Download File type/resource 13.4 Mb (ftp)(http) BW 15.5 Mb (ftp)(http) BW
GSE73406_Ramakrishnan_RNAseq_Processed.xlsx 8.9 Mb (ftp)(http) XLSX 13.0 Mb (ftp)(http) BW 15.0 Mb (ftp)(http) BW 15.9 Mb (ftp)(http) BW 15.9 Mb (ftp)(http) BW 12.7 Mb (ftp)(http) BW 12.7 Mb (ftp)(http) BW 15.6 Mb (ftp)(http) BW 15.7 Mb (ftp)(http) BW
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