Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Small RNA expression in swi6 mutants or dcr1 delta fission yeast Schizosaccharomyces pombe

ABSTRACT: Small RNA expression in swi6 mutants, dcr1 delta, and wild type fission yeast Schizosaccharomcyces pombe

ORGANISM(S): Schizosaccharomyces pombe

PROVIDER: GSE42849 | GEO | 2013/07/20

SECONDARY ACCESSION(S): PRJNA183638

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Small RNA expression in swi6 mutants or dcr1 delta fission yeast Schizosaccharomyces pombe

Project description:Small RNA expression in swi6 mutants, dcr1 delta, and wild type fission yeast Schizosaccharomcyces pombe wild type, swi6 mutant, and dcr1 delta mutant

2013-07-20 | E-GEOD-42849 | biostudies-arrayexpress

DamID for Swi6, Rdp1 and Dcr1 in Schizosaccharomyces pombe

Project description:In the fission yeast Schizosaccharomyces pombe, the RNA interference (RNAi) pathway is required to generate small interfering RNAs (siRNAs) that mediate heterochromatic silencing of centromeric repeats. Here we demonstrate that RNAi also functions to repress genomic elements other than constitutive heterochromatin. Using DamID (DNA adenine methyltransferase identification) we show that Dcr1 and Rdp1 physically associate with some euchromatic genes, non-coding RNA (ncRNA) genes, and retrotransposon long terminal repeats (LTRs), and that this association is independent of the Clr4 histone methyltransferase. Physical association of RNAi with chromatin is sufficient to trigger a silencing response but not to assemble heterochromatin. The mode of silencing at the newly identified RNAi targets is consistent with a co-transcriptional gene silencing model as proposed earlier and functions with trace amounts of siRNAs. We anticipate that similar mechanisms could also be operational in other eukaryotes.

2010-09-25 | GSE24360 | GEO

Schizosaccharomyces pombe

Project description:Small RNA expression in swi6 mutants or dcr1 delta fission yeast Schizosaccharomyces pombe

| PRJNA183638 | ENA

Schizosaccharomyces pombe

Project description:DamID for Swi6, Rdp1 and Dcr1 in Schizosaccharomyces pombe

| PRJNA132819 | ENA

Gene expression and distribution of Swi6 in partial aneuploids of the fission yeast Schizosaccharomyces pombe

Project description:Imbalances of gene expression in aneuploids containing an abnormal number of chromosomes cause a variety of growth and developmental defects. Aneuploid cells of the fission yeast Schizosaccharomyces pombe are inviable, or very unstable, during mitotic growth. However, S. pombe haploid cells bearing a small portion (less than 20%) of the third chromosome can grow stably as a partial aneuploid. We compared the gene expression profiles of partial aneuploid strains with those of the normal haploid strain using DNA microarray analysis. The expression of genes in disomic or trisomic cells was found to increase approximately in proportion to their copy number. We also found that some genes in the monosomic regions of partial aneuploid strains changed their expression level despite there being no change in copy number. We initially speculated that this change in gene expression was a secondary effect resulting from increased expression of the genes in the disomic or trisomic regions. However, even in an aneuploid strain that bears a minichromosome containing no protein coding genes, genes located within about 50kb of the telomere showed similar increases in expression. This result indicates that the change in expression of the genes in the telomere-adjacent region is not a secondary effect of the increased gene dosage. Examining the distribution of the heterochromoatin protein Swi6 using DNA microarray analysis, we found that binding of Swi6 within ~50kb from the telomere occurred less in partial aneuploid strains compared to euploid strains. These results suggest that additional chromosomes in aneuploid strains could lead to imbalances in gene expression through derepression of heterochromatin. Keywords: Type of experiment: Comparing between partial aneuploid strains and normal haploid strains.

2007-12-01 | GSE8782 | GEO

DamID for Swi6, Rdp1, Dcr1, Ago1, Arb1, Cid14, Rrp6, Nup85 and Amo1 in Schizosaccharomyces pombe

Project description:RNA interference (RNAi) pathways are prevalent throughout the eukaryotic kingdom and well known to regulate gene expression on a post-transcriptional level in the cytoplasm. Less is known about possible functions of RNAi in the nucleus. In the fission yeast Schizosaccharomyces pombe, RNAi is crucial to establish and maintain centromeric heterochromatin and functions to repress genome activity by a chromatin silencing mechanism referred to as co-transcriptional gene silencing (CTGS). Mechanistic details and the physiological relevance of CTGS are unknown. Here we show that RNAi components interact with chromatin at nuclear pores to keep stress response genes in check. We demonstrate that RNAi-mediated CTGS represses stress inducible genes by degrading mRNAs under non-induced conditions. Under chronic heat stress conditions, a Dicer thermoswitch deports Dicer to the cytoplasm, thereby disrupting CTGS and enabling expression of genes implicated in the acquisition of thermotolerance. Taken together, our work highlights a role for nuclear pores and the stress response transcription factor Atf1 in coordinating the interplay between the RNAi machinery and the S. pombe genome and uncovers a novel mode of RNAi regulation in response to an environmental cue.

2012-03-19 | GSE36167 | GEO

RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe [Affymetrix]

Project description:RNA interference (RNAi) is a gene silencing mechanism conserved from fungi to mammals. Small interfering RNAs are products and mediators of the RNAi pathway and act as specificity factors in recruiting effector complexes. The Schizosaccharomyces pombe genome encodes one of each of the core RNAi proteins, Dicer, Argonaute and RNA-dependent RNA polymerase (dcr1, ago1, rdp1). Even though the function of RNAi in heterochromatin assembly in S. pombe is established, its role in controlling gene expression is elusive. Here, we report the identification of small RNAs mapped anti-sense to protein coding genes in fission yeast. We demonstrate that these genes are up-regulated at the protein level in RNAi mutants, while their mRNA levels are not significantly changed. We show that the repression by RNAi is not a result of heterochromatin formation. Thus, we conclude that RNAi is involved in post-transcriptional gene silencing in S. pombe.

2014-01-23 | GSE54190 | GEO

Genome wide map of H3K9me2 in fission yeast Schizosaccharomyces pombe.

Project description:Genome wide map of H3K9me2 in 4 different strains of fission yeast Schizosaccharomyces pombe.

2019-01-03 | GSE119604 | GEO

Genome-wide map of RNA-Seq in fission yeast Schizosaccharomyces pombe

Project description:RNA-Seq from 3 different strains of fission yeast Schizosaccharomyces pombe.

2020-05-26 | GSE148191 | GEO

RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe [Illumina Genome Analyzer]

2014-01-23 | GSE54194 | GEO