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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1 [RNA-seq & Ribo-seq]

ABSTRACT: The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1 [RNA-seq & Ribo-seq]

PROVIDER: PRJNA541924 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9029630.fastq.gz	Fastqsanger.gz
	SRR9029640.fastq.gz	Fastqsanger.gz
	SRR9029650.fastq.gz	Fastqsanger.gz
	SRR9029660.fastq.gz	Fastqsanger.gz
	SRR9029670.fastq.gz	Fastqsanger.gz

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1 [RNA-seq]

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1 [RNA-seq]

Project description:We demonstrate that TRIM71 alters stem cell splicing patterns through modulation of MBNL1 levels.

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1

Project description:We demonstrate that global effects of TRIM71 on the cellular transcriptome of mouse embryonic stem cells (mESCs) are largely attributable to its RNA binding activity, and map the transcriptome-wide targets of wild-type TRIM71, NHL domain mutant TRIM71, and RING domain mutant TRIM71.

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing Mbnl1 [RNA-seq & Ribo-seq]

Project description:We demonstrate that global effects of TRIM71 on the cellular transcriptome of mouse embryonic stem cells (mESCs) are largely attributable to its RNA binding activity. We observe that target repression by TRIM71 in mESCs occurs predominantly through transcript degradation. We identify a core set of targets consistently regulated by TRIM71 in different human and mouse cell lines.

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1.

Project description:TRIM71/LIN-41, a phylogenetically conserved regulator of development, controls stem cell fates. Mammalian TRIM71 exhibits both RNA-binding and protein ubiquitylation activities, but the functional contribution of either activity and relevant primary targets remain poorly understood. Here, we demonstrate that TRIM71 shapes the transcriptome of mouse embryonic stem cells (mESCs) predominantly through its RNA-binding activity. We reveal that TRIM71 binds targets through 3' untranslated region (UTR) hairpin motifs and that it acts predominantly by target degradation. TRIM71 mutations implicated in etiogenesis of human congenital hydrocephalus impair target silencing. We identify a set of primary targets consistently regulated in various human and mouse cell lines, including MBNL1 (Muscleblind-like protein 1). MBNL1 promotes cell differentiation through regulation of alternative splicing, and we demonstrate that TRIM71 promotes embryonic splicing patterns through MBNL1 repression. Hence, repression of MBNL1-dependent alternative splicing may contribute to TRIM71's function in regulating stem cell fates.

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The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1

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

2019-08-01 | GSE134125 | GEO

MBNL1-dependent modulation of transcript stability

Project description:In order to identify MBNL1-dependent changes in MBNL1 target transcript stability, MBNL1 levels in MDA-MB-231 breast cancer cells were stably knocked-down using short-hairpin RNAs. The cells were then treated with alpha-amanitin to inhibit transcription, RNA was isolated at 0 and 9 hours post-alpha-amanitin treatment, and the samples were transcriptomically profiled.

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