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Common mechanism of transcription termination at coding and noncoding RNA genes in fission yeast

ABSTRACT: Common mechanism of transcription termination at coding and noncoding RNA genes in fission yeast

PROVIDER: PRJNA475551 | ENA |

REPOSITORIES: ENA

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Common mechanism of transcription termination at coding and noncoding RNA genes in fission yeast

Project description:Termination of RNA polymerase II (RNAPII) transcription is a fundamental step of gene expression that is critical for determining the borders between genes. In budding yeast, termination at protein-coding genes is initiated by the cleavage/polyadenylation machinery, whereas termination of most noncoding RNA (ncRNA) genes occurs via the Nrd1-Nab3-Sen1 (NNS) pathway. Unexpectedly, we show here that NNS-like transcription termination is not conserved in fission yeast. Instead, genome-wide location analyses show global recruitment of mRNA 3’ end processing factors at the end of ncRNA genes, including snoRNAs and snRNAs, and that this recruitment coincides with high levels of Ser2 and Tyr1 phosphorylation on the RNAPII C-terminal domain. We further show that termination of mRNA and ncRNA transcription requires the conserved Ysh1/CPSF-73 and Dhp1/XRN2 nucleases, supporting widespread cleavage-dependent transcription termination in fission yeast. Our findings thus reveal that a common mode of transcription termination can produce functionally and structurally distinct types of polyadenylated and non-polyadenylated RNAs.

2018-08-10 | GSE115595 | GEO

Common mechanism of transcription termination at coding and noncoding RNA genes in fission yeast.

Project description:Termination of RNA polymerase II (RNAPII) transcription is a fundamental step of gene expression that is critical for determining the borders between genes. In budding yeast, termination at protein-coding genes is initiated by the cleavage/polyadenylation machinery, whereas termination of most noncoding RNA (ncRNA) genes occurs via the Nrd1-Nab3-Sen1 (NNS) pathway. Here, we find that NNS-like transcription termination is not conserved in fission yeast. Rather, genome-wide analyses show global recruitment of mRNA 3' end processing factors at the end of ncRNA genes, including snoRNAs and snRNAs, and that this recruitment coincides with high levels of Ser2 and Tyr1 phosphorylation on the RNAPII C-terminal domain. We also find that termination of mRNA and ncRNA transcription requires the conserved Ysh1/CPSF-73 and Dhp1/XRN2 nucleases, supporting widespread cleavage-dependent transcription termination in fission yeast. Our findings thus reveal that a common mode of transcription termination can produce functionally and structurally distinct types of polyadenylated and non-polyadenylated RNAs.

| S-EPMC6195540 | biostudies-literature

Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [RNA-Seq]

Project description:RNAse III is an evolutionarily conserved family of endoribonuclease that cleaves dsRNA structures. Here we studied RNAse III homolog Pac1 In fission yeast to shed light on underappreciated roles of Drosha. We found that Pac1 co-transcriptional cleavage of nascent hairpin RNA structures trigger transcriptional termination by creating an entry point for “torpedo” exonucleases – that is, exonuclease that degrade the nascent RNA until they bump into the transcribing polymerases. As such termination pathway decouple termination from pre-mRNA polyadenylation, the nascent transcript are destabilized upon Pac1 cleavage, therefore expending the paradigm of post-transcriptional regulation of gene expression.

2021-02-19 | GSE167041 | GEO

Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [ChIP-Seq]

2021-02-19 | GSE167040 | GEO

Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast.

Project description:Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast.

| PRJNA702813 | ENA

Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [ChIP-Seq]

Project description:Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [ChIP-Seq]

| PRJNA702775 | ENA

Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [RNA-Seq]

Project description:Cotranscriptional RNA cleavage by Drosha homolog Pac1 triggers transcription termination in fission yeast. [RNA-Seq]

| PRJNA702776 | ENA

A unified allosteric/torpedo mechanism for transcriptional termination on human protein-coding genes

Project description:The so-called allosteric and torpedo models have been used for the past thirty years to explain how transcription terminates on protein-coding genes. The former invokes conformational changes in the transcription complex and the latter involves degradation of the downstream product of poly(A) signal (PAS) processing. Here, we describe a single mechanism incorporating features of both models. We show that CPSF73 is indispensable for transcriptional termination on protein-coding and its loss causes profound read-through genome-wide. CPSF73 functions upstream of allosteric modifications to the elongation complex that cause Pol II to slow down after the PAS. This state is enriched by rapid depletion of XRN2 and promoted by protein phosphatase 1 (PP1), the inhibition of which confers runaway read-through in the absence of XRN2. These allosteric changes facilitate XRN2-dependent termination, by aiding its capture of Pol II, rather than constituting a termination pathway in themselves. Our experiments unify the long-standing allosteric and torpedo models for transcriptional termination.

2020-01-21 | GSE137727 | GEO

Increased long noncoding RNA maternally expressed gene 3 contributes to podocyte injury induced by high glucose through regulation of mitochondrial fission

Project description:Excessive mitochondrial fission plays a key role in podocyte injury in diabetic kidney disease (DKD), and long noncoding RNAs (lncRNAs) are important in the development and progression of DKD. However, lncRNA regulation of mitochondrial fission in podocytes is poorly understood. Here, we want to identify how lncRNA changes in human podocytes cultured with high glucose.

2020-07-28 | GSE155188 | GEO

Duf89 abets lncRNA control of fission yeast phosphate homeostasis via its antagonism of precocious lncRNA transcription termination

Project description:This RNA-Seq analysis compares gene expression of the Duf89 null mutant (duf89∆) contrasting to the WT in the fission yeast S. pombe

2023-04-11 | GSE216299 | GEO

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