Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Reprogramming mRNA expression in response to defect in RNA polymerase III assembly in the yeast Saccharomyces cerevisiae

ABSTRACT: Interplay between nuclear RNA polymerases is key to growth control. Here, we explored the ways in which mRNA transcription by polymerase II (Pol II) is influenced by a defect in the biogenesis of Pol III. We used the cold-sensitive yeast mutant rpc128-1007, which prevents assembly of the Pol III complex and consequently leads to low tRNA levels. mRNA upregulation in rpc128-1007 cells was generally stronger and involved more genes than downregulation. The observed induction of mRNA expression was mostly indirect and resulted from the de-repression of general control transcription factor Gcn4. mRNA genes that were downregulated by the reduction of Pol III assembly comprise the proteasome complex. We also investigated the ways in which the reprogramming of Pol II genes is influenced by the rpc128-1007 suppressors RBS1 and PRT1, which encode the Pol III assembly factor and the subunit of translation initiation factor eIF3, respectively. Both of the suppressor genes countered the effects of rpc128-1007 on the expression of Gcn4-dependent genes and the effects of PRT1 were stronger than the effects of RBS1. Additionally, Rbs1 modulates Gcn4 activity in a manner that depends on of the Pho85 cyclin Pcl5. We have shown that the downregulation of Pcl5 protein levels by Rbs1 overproduction leads to a Gcn4 response that is likely related to the stabilization of Gcn4 protein. Altogether, our data contribute to the regulatory network which links transcription of different RNA classes

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE166918 | GEO | 2021/07/28

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Pol II and its associated epigenetic marks are present at pol III-transcribed non-coding RNA genes (I)

Project description:Epigenetic control is an important aspect of gene regulation. Despite detailed understanding of many examples, the transcription of non-coding RNA genes by RNA polymerase (pol) III is less well characterized. Here we profile the epigenetic features of pol III target genes throughout the human genome. This reveals that the chromatin landscape of pol III-transcribed genes resembles that of pol II templates in many ways, although there are also clear differences. Our analysis also discovered an entirely unexpected phenomenon, namely that pol II co-localizes with the majority of genomic loci that are bound by pol III. Chip-Seq experiments for six samples: Pol III, TFIIIB, TFIIIC, H3K4me3 in HeLa cells and Pol III, S2 phos Pol II in CD4+ cells.

2010-04-25 | E-GEOD-20040 | biostudies-arrayexpress

Pol II and its associated epigenetic marks are present at pol III-transcribed non-coding RNA genes (II)

2010-04-25 | GSE20071 | GEO

Pol II and its associated epigenetic marks are present at pol III-transcribed non-coding RNA genes (I)

2010-04-25 | GSE20040 | GEO

Pol II and its associated epigenetic marks are present at pol III-transcribed non-coding RNA genes (II)

2010-04-25 | E-GEOD-20071 | biostudies-arrayexpress

Cross-regulome profiling of RNA polymerases highlights the regulatory role of polymerase III on mRNA transcription by maintaining local chromatin architecture [RNA-seq]

Project description:Mammalian nuclei contain Pol I, Pol II, and Pol III. However, to what extent and how they are cross-regulated remains elusive. Here, we performed orthogonal multi-omics profiling after acute degradation of the largest subunits of Pol I, Pol II, and Pol III, and showed that they mainly affect specific genes. In contrast, the loss of Pol I or Pol II causes few changes for other RNA polymerases and confirms those known. The changes of Pol II transcription after Pol III depletion are the largest among all the cross-regulatory types. Meta-analyses reveal that Pol III depletion increases nucleosome positioning, reduces the FACT complex occupancy, and perturbs Pol II elongation for nearby mRNA genes. Furthermore, the nucleosome positioning changes also underpinning the Pol II effects on Pol III-mediated tRNA transcription. Our results suggest that Pol III works together with Pol II to coordinate their transcription activities by maintaining local chromatin architecture.

2022-11-07 | GSE217477 | GEO

Cross-regulome profiling of RNA polymerases highlights the regulatory role of polymerase III on mRNA transcription by maintaining local chromatin architecture [EU-Seq]

2022-11-07 | GSE217478 | GEO

Cross-regulome profiling of RNA polymerases highlights the regulatory role of polymerase III on mRNA transcription by maintaining local chromatin architecture [ATAC-seq]

Project description:Genome binding/occupancy profiling by high throughput sequencing ｜ Expression profiling by high throughput sequencing | Other Mammalian nuclei contain Pol I, Pol II, and Pol III. However, to what extent and how they are cross-regulated remains elusive. Here, we performed orthogonal multi-omics profiling after acute degradation of the largest subunits of Pol I, Pol II, and Pol III, and showed that they mainly affect specific genes. In contrast, the loss of Pol I or Pol II causes few changes for other RNA polymerases and confirms those known. The changes of Pol II transcription after Pol III depletion are the largest among all the cross-regulatory types. Meta-analyses reveal that Pol III depletion increases nucleosome positioning, reduces the FACT complex occupancy, and perturbs Pol II elongation for nearby mRNA genes. Furthermore, the nucleosome positioning changes also underpinning the Pol II effects on Pol III-mediated tRNA transcription. Our results suggest that Pol III works together with Pol II to coordinate their transcription activities by maintaining local chromatin architecture.

2022-11-07 | GSE181696 | GEO