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KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [array]

ABSTRACT: A multilayered transcription regulatory system is unveiled, where protein- and RNA-based repressors are super-imposed in combinatorial fashion to govern the timely triggering of an essential step of erythropoiesis

ORGANISM(S): Mus musculus

PROVIDER: GSE44063 | GEO | 2013/04/03

SECONDARY ACCESSION(S): PRJNA188562

REPOSITORIES: GEO

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KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [array]

Project description:A multilayered transcription regulatory system is unveiled, where protein- and RNA-based repressors are super-imposed in combinatorial fashion to govern the timely triggering of an essential step of erythropoiesis Analyses of transcriptional profiles and chromatin state in KAP1 WT and KO cells

2013-04-03 | E-GEOD-44063 | biostudies-arrayexpress

KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [Seq]

2013-04-03 | E-GEOD-44061 | biostudies-arrayexpress

KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [Seq]

2013-04-03 | GSE44061 | GEO

A KRAB/KAP1-miRNA cascade regulates erythropoiesis through stage-specific control of mitophagy.

Project description:During hematopoiesis, lineage- and stage-specific transcription factors work in concert with chromatin modifiers to direct the differentiation of all blood cells. We explored the role of KRAB-containing zinc finger proteins (KRAB-ZFPs) and their cofactor KAP1 in this process. In mice, hematopoietic-restricted deletion of Kap1 resulted in severe hypoproliferative anemia. Kap1-deleted erythroblasts failed to induce mitophagy-associated genes and retained mitochondria. This was due to persistent expression of microRNAs (miRNAs) targeting mitophagy transcripts, itself secondary to a lack of repression by stage-specific KRAB-ZFPs. The KRAB/KAP1-miRNA regulatory cascade is evolutionarily conserved, as it also controls mitophagy during human erythropoiesis. Thus, a multilayered transcription regulatory system is present, in which protein- and RNA-based repressors are superimposed in combinatorial fashion to govern the timely triggering of an important differentiation event.

| S-EPMC3678075 | biostudies-literature

[A KRAB/KAP1-miRNA cascade regulates erythropoiesis through stage-specific control of mitophagy].

Project description: Not available

| S-EPMC4894476 | biostudies-literature

KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-04-03 | E-GEOD-44065 | biostudies-arrayexpress

KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy

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

2013-04-03 | GSE44065 | GEO

KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [Seq]

Project description:KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [Seq]

| PRJNA188561 | ENA

PEG3 Interacts with KAP1 through KRAB-A.

Project description:Peg3 (Paternally Expressed Gene 3) is an imprinted gene that encodes a zinc finger DNA-binding protein. Peg3 itself is localized in the middle of a KRAB-A (Kruppel-Associated Box) zinc finger gene cluster. The amino acid sequence encoded by its exon 7 also shows sequence similarity to that of KRAB-A, suggesting Peg3 as a KRAB-containing zinc finger gene. As predicted, the PEG3 protein was co-immunoprecipitated with KAP1, a co-repressor that interacts with KRAB-A. A series of follow-up experiments further demonstrated that the exon 7 of PEG3 is indeed responsible for its physical interaction with KAP1. ChIP and promoter assays also indicated that PEG3 likely controls its downstream genes through the KAP1-mediated repression mechanism. Overall, the current study identifies PEG3 as a KRAB-containing zinc finger protein that interacts with the co-repressor protein KAP1.

| S-EPMC5127583 | biostudies-literature

Structure and functional mapping of the KRAB-KAP1 repressor complex.

Project description:Transposable elements are a genetic reservoir from which new genes and regulatory elements can emerge. However, expression of transposable elements can be pathogenic and is therefore tightly controlled. KRAB domain-containing zinc finger proteins (KRAB-ZFPs) recruit the co-repressor KRAB-associated protein 1 (KAP1/TRIM28) to regulate many transposable elements, but how KRAB-ZFPs and KAP1 interact remains unclear. Here, we report the crystal structure of the KAP1 tripartite motif (TRIM) in complex with the KRAB domain from a human KRAB-ZFP, ZNF93. Structure-guided mutations in the KAP1-KRAB binding interface abolished repressive activity in an epigenetic transcriptional silencing assay. Deposition of H3K9me3 over thousands of loci is lost genome-wide in cells expressing a KAP1 variant with mutations that abolish KRAB binding. Our work identifies and functionally validates the KRAB-KAP1 molecular interface, which is critical for a central transcriptional control axis in vertebrates. In addition, the structure-based prediction of KAP1 recruitment efficiency will enable optimization of KRABs used in CRISPRi.

| S-EPMC9753469 | biostudies-literature

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