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Series GSE83455 Query DataSets for GSE83455
Status Public on Jun 26, 2017
Title Transcript profiling of Saccharomyces cerevisiae cells overexpressing YOX1 before and after 2 and 4 hours of hydroxyurea (HU) treatment (200 mM)
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Summary mRNA processing bodies (P-bodies) are cytoplasmic granules that form in eukaryotic cells in response to numerous stresses to serve as sites of degradation and storage of mRNAs. Functional P-bodies are critical for the DNA replication stress response in yeast, yet the repertoire of P-body targets and the mechanisms by which P-bodies promote replication stress resistance are unknown. In this study, we identify the complete complement of mRNA targets of P-bodies during replication stress induced by hydroxyurea treatment. The key P-body protein Lsm1 controls the abundance of HHT1, ACF4, ARL3, TMA16, RRS1 and YOX1 mRNAs to prevent their toxic accumulation during replication stress. Accumulation of YOX1 mRNA causes aberrant down-regulation of a network of genes critical for DNA replication stress resistance. Among these genes we identify ALD6, whose de-repression is critical to prevent accumulation of acetaldehyde, a strongly toxic molecule during DNA replication stress.
 
Overall design WT containing pBY011 (control) or pBY011-YOX1 vectors were cultured in synthetic medium containing raffinose as unique carbon source. Cultures were then treated with hydroxyurea (HU) at a final concentration of 200 mM and galactose was added at the same time to induce YOX1 overexpression. Samples were collected before and after 2 and 4h of galactose induction and hydroxyurea treatment. Experiment was repeated twice.
 
Contributor(s) Loll-Krippleber R, Brown GW
Citation(s) 28916784
Submission date Jun 16, 2016
Last update date May 15, 2019
Contact name Raphael Loll-Krippleber
E-mail(s) raphael.loll.krippleber@gmail.com
Organization name University of Toronto
Department Biochemistry
Street address 160 College street
City Toronto
State/province Ontario
ZIP/Postal code M5S3E1
Country Canada
 
Platforms (1)
GPL17342 Illumina HiSeq 2500 (Saccharomyces cerevisiae)
Samples (12)
GSM2203528 WT cells + pBY011 control vector - untreated condition - replicate 1
GSM2203529 WT cells + pBY011 control vector - untreated condition - replicate 2
GSM2203530 WT cells + pBY011-YOX1 vector - untreated condition - replicate 1
This SubSeries is part of SuperSeries:
GSE83515 P-bodies regulate transcriptional rewiring to promote DNA replication stress resistance
Relations
BioProject PRJNA326241
SRA SRP076798

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE83455_RAW.tar 2.4 Mb (http)(custom) TAR (of TXT)
GSE83455_cuffdiff_alltimepoints.xlsx 2.0 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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