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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Ribonucleoprotein immunoprecipitation of S. pombe cells during meiosis using TAP-tagged RNA-binding protein Meu5

ABSTRACT: Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using the RNA-binding protein Meu5 from the fission Schizosaccaromyces pombe

ORGANISM(S): Schizosaccharomyces pombe

SUBMITTER: Juan Mata

PROVIDER: E-TABM-777 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Ribonucleoprotein immunoprecipitation of Schizosaccharomyces pombe cells using the RNA-binding protein Meu5

Project description:Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using the RNA-binding protein Meu5 from the fission Schizosaccaromyces pombe

2011-01-01 | E-TABM-932 | biostudies-arrayexpress

Transcription profiling of S. pombe wild type and meu5delta cells during pat1 induced meiosis, wild type meiosis and overexpression of the mei4 transcription factor

Project description:The Meu5 RNA-binding protein stabilises its targets during meiosis. We compared wild type and meu5delta cells transcriptome under different conditions: pat1-induced meiosis in diploid cells, wild type meiosis in diploid cells and cells overexpressing the Mei4 transcription factor.

2011-01-01 | E-TABM-775 | biostudies-arrayexpress

Ribonucleoprotein immunoprecipitation of fission yeast to study myosin proteins and other cytoskeletal components

Project description:Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using various myosin proteins and other cytoskeletal components from the fission Schizosaccaromyces pombe

2009-09-01 | E-TABM-656 | biostudies-arrayexpress

Ribonucleoprotein immunoprecipitation of fission yeast to study myosin proteins and myosin-specific chaperones

Project description:Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using various myosin proteins and myosin-specific chaperones from the fission Schizosaccaromyces pombe. Two strains were used. In rng3TAP the rng3 protein has been tagged with TAP to allow its detection and immunoprecipitation. The TAP strain expresses the TAP sequence alone (without being attached to an other protein)

2008-12-23 | E-TABM-516 | biostudies-arrayexpress

Transcription profiling of S. pombe wild type and meu5 deletion mutants during meiosis

Project description:The Meu5 RNA-binding protein stabilises its targets during meiosis. To investigate the function of Meu5 we induced synchronous meiosis in wild type or meu5delta cells (using pat1 thermo-sensitive mutations), and measured mRNA levels at regular intervals.

2011-01-01 | E-TABM-774 | biostudies-arrayexpress

Transcription profiling of S. pombe meu5delta and wild type cells over-expressing the transcription factor mei4 to determine mRNA half-lives

Project description:The Meu5 RNA-binding protein stabilises its targets during meiosis. We used an in vivo labelling system (Cleary et al. 2005 Nat Biotechnol. 23, 232-7) to estimate the decay rates of meu5delta and wild type cells over-expressing the transcription factor Mei4.

2011-01-01 | E-TABM-776 | biostudies-arrayexpress

Ribonucleoprotein immunoprecipitation of myosin proteins and myosin-specific chaperones in fission yeast

Project description:Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using various myosin proteins and myosin-specific chaperones from the fission Schizosaccaromyces pombe

2010-03-01 | E-TABM-335 | biostudies-arrayexpress

Transcription profiling by array of Schizosaccharomyces pombe transcriptome during both proliferation and quiescence

Project description:Data on absolute molecule numbers are rare but will empower the modeling, understanding and comparison of cellular functions and biological systems. We quantified transcriptomes and proteomes in fission yeast during both proliferation and quiescence. This rich resource provides the first comprehensive reference for all RNA and most protein concentrations in a eukaryote under key physiological conditions. This integrated dataset will support quantitative biology and afford unique biological insights into cell regulation. While mRNAs are typically expressed in a narrow range above 1 copy/cell, most long non-coding RNAs, except for a specific subset, are strongly repressed below 1 copy/cell. Cell cycle-regulated transcription tunes mRNA numbers to phase-specific requirements but can also lead to switch-like expression. Proteins greatly exceed mRNAs in abundance and dynamic range, and their numbers scales with functional demands. Upon transition to quiescence, the proteome composition changes substantially but, in stark contrast to mRNAs, proteins do not uniformly decrease but scale with cell volume.

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TORC1 signaling pathway inhibition by rapamycin and caffeine affect lifespan, global gene expression and cell proliferation of fission yeast

Project description:Target of rapamycin complex 1 (TORC1) is implicated in growth control and aging from yeast to humans. Fission yeast is emerging as a popular model organism to study TOR signaling, although rapamycin has been thought to not affect cell growth in this organism. Here we analyzed the effects of rapamycin and caffeine, singly and combined, on multiple cellular processes in fission yeast. The two drugs led to diverse and specific phenotypes that depended on TORC1 signaling pathway inhibition, including prolonged chronological lifespan, inhibition of global translation, inhibition of cell growth and division, and reprogramming of global gene expression mimicking nitrogen starvation. Rapamycin and caffeine differentially affected these various TORC1-dependent processes. Combined drug treatment augmented most phenotypes and effectively blocked cell growth. Although rapamycin showed a much more subtle effect on global translation than did caffeine, rapamycin was more effective in prolonging chronological lifespan. Rapamycin prolonged the lifespan of non-growing cells only when applied during the growth phase but not when applied after cells had stopped proliferation. The doses of rapamycin and caffeine strongly correlated with growth inhibition and with lifespan extension. This comprehensive analysis will inform future studies into TORC1 function and cellular aging in fission yeast and beyond.

2013-05-05 | E-MTAB-1489 | biostudies-arrayexpress

RNP immunoprecipitation of fission yeast using Rng3p myosin-specific chaperones to investigate if the association of Rng3p with RNAs occurs on ribosomes

Project description:Ribonucleoprotein immunoprecipitation microarray (RIp-chip) study using the Rng3p myosin-specific chaperones from the fission Schizosaccaromyces pombe. Rng3p associates with RNAs encoding myosins. To investigate if the association of Rng3p with these RNAs occurs on ribosomes, Rng3-purified fractions were immunoprecipitated with antibodies against a ribosomal RNA or an unrelated antibody. The RNAs present in the second immunoprecipitate were analysed using DNA microarrays

2008-12-23 | E-TABM-564 | biostudies-arrayexpress

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