WT_SK1 meiotic time course on expression/splicing microarrays
Ontology highlight
ABSTRACT:
ORGANISM(S): Saccharomyces cerevisiae
PROVIDER: GSE24681 | GEO | 2011/04/05
SECONDARY ACCESSION(S): PRJNA133627
REPOSITORIES: GEO
Similar Datasets
Project description:Synchronized mer1D_SK1 meiotic time course. mer1D diploid was generated in the SK1 strain background (ATCC: MYA-2089) by PCR-mediated cassette-based gene replacement where the MER1 ORF was replaced with HIS3 from S. kluyveri then the transformants were sporulated and the homozygous deletion was verified by PCR.
2011-04-05 | GSE24675 | GEO
Project description:mer1D_SK1, mer2D_SK1, mer3D_SK1, spo22D_SK1, spo70D_SK1 late 9h meiotic time point. mer1D, mer2D, mer3D, spo22D diploid, and spo70D diploid was generated in the SK1 strain background (ATCC: MYA-2089) by PCR-mediated cassette-based gene replacement where the MER1, MER2, MER3, SPO22, or SPO70 ORF respectively was replaced with HIS3 from S. kluyveri then the transformants were sporulated and the homozygous deletion was verified by PCR.
2011-04-05 | GSE24678 | GEO
Project description:mer1D_SK1, mer2D_SK1, mer3D_SK1, spo22D_SK1, spo70D_SK1 late 9h meiotic time point. mer1D, mer2D, mer3D, spo22D diploid, and spo70D diploid was generated in the SK1 strain background (ATCC: MYA-2089) by PCR-mediated cassette-based gene replacement where the MER1, MER2, MER3, SPO22, or SPO70 ORF respectively was replaced with HIS3 from S. kluyveri then the transformants were sporulated and the homozygous deletion was verified by PCR. Meiotic time point =9h; Dye swap; Reference WT_SK1 9h
2011-04-05 | E-GEOD-24678 | biostudies-arrayexpress
Project description:To investigate the dynamics of the meiotic transcriptome and to ensure meiotic synchrony of our samples, we measured RNA abundance in vegetative cells, respiratory (pre-meiotic) cells and in synchronously sporulating cells at various times after transfer to sporulation media (SM). SK1 yeast strain SHy002 (MATa/MATα ho::LYS2/ho::LYS2 leu2::hisG/leu2::hisG lys2/lys2 ura3/ura3)<br> Meiotic Time Course with samples collected during vegetative growth (YPD), respiratory growth (pre-meiotic/YPA 8 hours) and 0 hr, 1.5hr, 3hr, 4.5hr, 6hr, 9hr and 12hr after transfer to sporulation media (SM).<br> 3 separate biological replicates were used for each condition/time-point.<br> Total RNA from each sample was hybridized competitively with a genomic DNA common reference.<br> The expression analysis was carried out from the same biological samples as the FAIRE analysis.<br>
2010-05-22 | E-GEOD-18181 | biostudies-arrayexpress
Project description:Synchronized yeast meiotic culture timecourse
| PRJNA354329 | ENA
Project description:We used ChIP-seq to determine the whole-genome enrichment of histone H3 threonine 11 phosphorylation (H3 T11ph) during Saccharomyces cerevisiae meiosis. S. cerevisiae SK1 cells were synchronized for meiotic entry and 3 and 4 hour meiotic samples were obtained. As H3 T11ph is dependent on the formation of meiotic double strand breaks (DSBs), a negative control ChIP-seq sample was obtained from a strain lacking DSBs (spo11-yf). Concurrently, ChIP-seq was carried out for histone H3 as a control for comparision.
2017-06-28 | GSE100564 | GEO
Project description:To investigate the dynamics of the meiotic transcriptome and to ensure meiotic synchrony of our samples, we measured RNA abundance in vegetative cells, respiratory (pre-meiotic) cells and in synchronously sporulating cells at various times after transfer to sporulation media (SM).
2009-09-23 | GSE18181 | GEO
Project description:We used pCUP1-IME1 pCUP1-IME4 strain to generate synchronized yeast meiotic culture and measure the RNA expression through meiotic progression
2016-11-18 | GSE90008 | GEO
Project description:Ray2013 - Meiotic initiation in S. cerevisiae
A mathematical representation of early meiotic events, particularly feedback mechanisms at the system level and phosphorylation of signalling molecules for regulating protein activities, is described here
This model is described in the article:
Dynamic modeling of yeast meiotic initiation.
Ray D, Su Y, Ye P.
BMC Syst Biol. 2013 May 1;7:37
Abstract:
BACKGROUND:
Meiosis is the sexual reproduction process common to eukaryotes. The diploid yeast Saccharomyces cerevisiae undergoes meiosis in sporulation medium to form four haploid spores. Initiation of the process is tightly controlled by intricate networks of positive and negative feedback loops. Intriguingly, expression of early meiotic proteins occurs within a narrow time window. Further, sporulation efficiency is strikingly different for yeast strains with distinct mutations or genetic backgrounds. To investigate signal transduction pathways that regulate transient protein expression and sporulation efficiency, we develop a mathematical model using ordinary differential equations. The model describes early meiotic events, particularly feedback mechanisms at the system level and phosphorylation of signaling molecules for regulating protein activities.
RESULTS:
The mathematical model is capable of simulating the orderly and transient dynamics of meiotic proteins including Ime1, the master regulator of meiotic initiation, and Ime2, a kinase encoded by an early gene. The model is validated by quantitative sporulation phenotypes of single-gene knockouts. Thus, we can use the model to make novel predictions on the cooperation between proteins in the signaling pathway. Virtual perturbations on feedback loops suggest that both positive and negative feedback loops are required to terminate expression of early meiotic proteins. Bifurcation analyses on feedback loops indicate that multiple feedback loops are coordinated to modulate sporulation efficiency. In particular, positive auto-regulation of Ime2 produces a bistable system with a normal meiotic state and a more efficient meiotic state.
CONCLUSIONS:
By systematically scanning through feedback loops in the mathematical model, we demonstrate that, in yeast, the decisions to terminate protein expression and to sporulate at different efficiencies stem from feedback signals toward the master regulator Ime1 and the early meiotic protein Ime2. We argue that the architecture of meiotic initiation pathway generates a robust mechanism that assures a rapid and complete transition into meiosis. This type of systems-level regulation is a commonly used mechanism controlling developmental programs in yeast and other organisms. Our mathematical model uncovers key regulations that can be manipulated to enhance sporulation efficiency, an important first step in the development of new strategies for producing gametes with high quality and quantity.
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2017-02-03 | BIOMD0000000626 | BioModels
Project description:To study the meiotic dynamic of the methylation of H3K4, in relation with the transcriptomic regulation, we determine the meiotic time-course of H3 occupancy by ChIP-chip. Keywords: ChIP-chip, meiotic time course, histone modification
2008-11-01 | GSE10836 | GEO