NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE81932 Query DataSets for GSE81932
Status Public on Jan 09, 2017
Title Ribosome profiling of synchronous, non-arrested yeast cells identifies translational control of lipid biosynthesis enzymes in the cell cycle
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Other
Summary The translational efficiency of mRNAs in cells progressing synchronously through the mitotic cell cycle and having to meet their growth requirements for cell division has not been interrogated. Here, we used ribosome profiling of a cell-size series from the time of cell birth, to identify for the first time yeast mRNAs under periodic translational control. Late in the cell cycle, there was coordinate translational activation of mRNAs encoding lipid biosynthesis enzymes. An upstream open reading frame (uORF) mediates the translational control of ACC1, the mRNA encoding the rate-limiting enzyme acetyl-CoA carboxylase. The ACC1 uORF also adjusts Acc1p protein levels in different nutrients. Mutating the ACC1 uORF delayed cell cycle progression, reduced cell size and suppressed the replicative longevity of cells lacking the Sch9p protein kinase, the yeast S6 kinase ortholog. These findings reveal unexpected links between lipogenesis and protein synthesis in mitotic cell divisions
 
Overall design We used centrifugal elutriation to isolate growing, highly synchronous, unbudded, early G1 cell populations and scored the elutriated cultures over time microscopically, recording the percentage of budded cells with a particle counter that directly measures their volume (channelyzer). Generation of both the Ribosome Profile (RP) and Transcriptional Profile (TP) libraries require at least ≥2E+09 yeast cells per sample. Such sample size could not be collected following a typical time-series experiment because only a small minority of the total cell population is in early G1 at any given moment. Instead, we allowed the entire cell population of each elutriated fraction to progress in the cell cycle until it reached a given cell size (e.g., 40 fl), at which point the sample was harvested. Elutriated cells of the same size were pooled together until enough cells per sample were obtained. This pool of same-size cells defined one experimental replicate (e.g., Sample01A). We harvested cells with 5fl cell size increments, from the time they are born (40 fl -- Sample01), until the end of the cell cycle (75 fl -- Sample08). In total we generated three independent Experimental Replicates for each cell size (A, B and C). We have: Sample01A, 01B and 01C (40 fl); Sample02A, 02B and 02C (45 fl), Sample03A, 03B and 03C (50 fl), Sample04A, 04B and 04C (55 fl), Sample05A, 05B and 05C (60 fl), Sample06A, 06B and 06C (65 fl), Sample07A, 07B and 07C (70 fl) and Sample08A, 08B and 08C (75 fl). Samples are divided into two series: Ribosome Profile (RP) and Transcriptional Profile (TP).
 
Contributor(s) Blank HM, Perez R, He C, Maitra N, Metz R, Hill J, Lin Y, Johnson CD, Bankaitis VA, Kennedy BK, Aramayo R, Polymenis M
Citation(s) 28057705
Submission date May 26, 2016
Last update date Mar 11, 2019
Contact name Rodolfo Aramayo
E-mail raramayo@tamu.edu
Organization name Texas A&M University
Department Biology
Lab AramayoLab
Street address Room 412, Biological Sciences Building West (BSBW)
City College Station
State/province Texas
ZIP/Postal code 77843-3258
Country USA
 
Platforms (1)
GPL17342 Illumina HiSeq 2500 (Saccharomyces cerevisiae)
Samples (48)
GSM2177884 1A_RP
GSM2177885 1B_RP
GSM2177886 1C_RP
Relations
BioProject PRJNA323467
SRA SRP075766

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
GSE81932_Dataset01.txt.gz 298.4 Kb (ftp)(http) TXT
GSE81932_Dataset02.txt.gz 485 b (ftp)(http) TXT
GSE81932_Dataset03.txt.gz 147.9 Kb (ftp)(http) TXT
GSE81932_Dataset04.txt.gz 113.0 Kb (ftp)(http) TXT
GSE81932_Dataset05.txt.gz 1.3 Kb (ftp)(http) TXT
GSE81932_Dataset06.txt.gz 740.2 Kb (ftp)(http) TXT
GSE81932_Dataset07.txt.gz 1.6 Kb (ftp)(http) TXT
GSE81932_Dataset08.txt.gz 255 b (ftp)(http) TXT
Raw data are available in SRA
Processed data is available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap