Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Direct sequencing of polyadenylation sites in fission yeast S. pombe

ABSTRACT: We sequenced the 3' ends of polyadenylated transcripts among total RNA in fission yeast wildtype and rdp1∆ cells and mapped the 3'-most nucleotide prior to polyadenylation. We find that mRNA-coding open reading frames have a low number of polyadenylation sites with most of the reads, whereas pericentromeric dg and dh repeats have a high number of polyadenylation sites throughout the transcribed region, mapping to both strands.

ORGANISM(S): Schizosaccharomyces pombe

PROVIDER: GSE52533 | GEO | 2013/12/26

SECONDARY ACCESSION(S): PRJNA229167

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Direct sequencing of polyadenylation sites in fission yeast S. pombe

Project description:We sequenced the 3' ends of polyadenylated transcripts among total RNA in fission yeast wildtype and rdp1∆ cells and mapped the 3'-most nucleotide prior to polyadenylation. We find that mRNA-coding open reading frames have a low number of polyadenylation sites with most of the reads, whereas pericentromeric dg and dh repeats have a high number of polyadenylation sites throughout the transcribed region, mapping to both strands. direct sequencing of polyadenylated 3' ends of RNA (Helicos)

2013-12-26 | E-GEOD-52533 | biostudies-arrayexpress

Polymerase pausing induced by sequence-specific RNA binding protein drives heterochromatin assembly (ChIP-Seq)

Project description:In S. pombe, transcripts derived from the pericentromeric dg and dh repeats promote heterochromatin formation via RNAi as well as an RNAi-independent mechanism involving the RNAPII-associated RNA-binding protein Seb1 and RNA processing activities. We show that Seb1 promotes long-lived RNAPII pauses at pericentromeric repeat regions and their presence correlates with the heterochromatin-triggering activities of the corresponding dg and dh DNA fragments. Globally increasing RNAPII stalling by other means induces the formation of novel large ectopic heterochromatin domains. Such ectopic heterochromatin occurs even in cells lacking RNAi. These results uncover Seb1-mediated polymerase stalling as a signal necessary for heterochromatin nucleation.

2018-07-03 | GSE114535 | GEO

Polymerase pausing induced by sequence-specific RNA binding protein drives heterochromatin assembly (RNA-Seq)

2018-07-03 | GSE114538 | GEO

Polymerase pausing induced by sequence-specific RNA binding protein drives heterochromatin assembly (PAR-CLIP)

2018-07-03 | GSE114537 | GEO

Polymerase pausing induced by sequence-specific RNA binding protein drives heterochromatin assembly (NET-Seq)

2018-07-03 | GSE114536 | GEO

Schizosaccharomyces pombe

Project description:Generation of Rdp1-independent primary siRNAs

| PRJNA229166 | ENA

Schizosaccharomyces pombe

Project description:Direct sequencing of polyadenylation sites in fission yeast S. pombe

| PRJNA229167 | ENA

Effects of RNAi protein overexpression in mutant cells on H3K9 dimethylation in fission yeast cells

Project description:We test the effects of overexpressing RNAi proteins Dcr1, Rdp1, or Ago1 in wildtype, dcr1∆, ago1∆, or rdp1∆ cells. We find that overexpression does not generally affect H3K9me2 at euchromatic loci, but there are varying effects in H3K9me2 on centromeric heterochromatin.

2013-12-26 | GSE52444 | 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

Schizosaccharomyces pombe

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

| PRJNA132819 | ENA