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Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes

ABSTRACT: Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes

PROVIDER: PRJNA336107 | ENA |

REPOSITORIES: ENA

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Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [ChIP-Seq]

Project description:Antisense RNAs are non-coding RNAs, which can regulate their corresponding sense RNAs and are generally produced from specific promoters. By genome-wide approaches and in depth analyses at specific loci in human cells undergoing senescence, we uncover a family of antisense RNAs produced by transcriptional read-through at convergent protein-coding genes. Importantly, these antisense RNAs, that we named STARTs, repress the expression of their corresponding sense RNAs. We found that the elongation rate of RNA pol II is limited downstream of the TTS at START loci in proliferative cells. This allows transcription termination to occur before the RNA pol II reaches the convergent genes, thus preventing antisense RNA production and interference with the expression of the convergent genes. In proliferative cells, STARTs are repressed by the histone variant H2A.Z, whose local occupancy decreases in senescence. Our results thus uncover a novel mechanism of gene expression regulation, relying on the control of the expression of read-through antisense transcripts at convergent genes and underline the functional importance of the epigenetic control of RNA pol II elongation rate at intergenic regions.

2017-11-28 | GSE85081 | GEO

Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [RNA-Seq siRNA H2A.Z]

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Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [RNA-Seq PROLIF-SEN]

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Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes

Project description:This SuperSeries is composed of the SubSeries listed below.

2017-11-28 | GSE85085 | GEO

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Project description:Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [ChIP-Seq]

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Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation

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Project description:Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [RNA-Seq PROLIF-SEN]

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Project description:Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes [RNA-Seq siRNA H2A.Z]

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modified iCLIP experiment with the addition of a 5'marker to identify read-through reads

Project description:We added an oligonucleotide to the 5′ end of RNA fragments —5′ marker— to differentiate between truncated and read–through cDNAs. By applying the protocol to PTBP1 and eIF4A3 iCLIP, we determined that the start sites of read–through cDNAs are enriched in adenosines, while the truncated cDNAs preferentially contained thymidines at their starts.

2018-06-15 | E-MTAB-6927 | biostudies-arrayexpress

Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation

Project description:We identify a lncRNA (SVALKA) in a cold-sensitive region of the Arabidopsis genome. Mutations in SVALKA affect the timing of maximal CBF1 expression and freezing tolerance. RNAPII read-through transcription of SVALKA results in a cryptic lncRNA overlapping CBF1 on the antisense strand, termed asCBF1. asCBF1 transcription is anti-correlated with CBF1 expression. Our molecular dissection reveals that CBF1 is suppressed by RNAPII collision stemming from the SVALKA-asCBF1 lncRNA cascade.

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