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ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ChIP-seq]

ABSTRACT: ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ChIP-seq]

PROVIDER: PRJNA1063744 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27497411_1.fastq.gz	Fastqsanger.gz
	SRR27497411_2.fastq.gz	Fastqsanger.gz
	SRR27497412_1.fastq.gz	Fastqsanger.gz
	SRR27497412_2.fastq.gz	Fastqsanger.gz
	SRR27497413_1.fastq.gz	Fastqsanger.gz

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ChAHP and ChAHP2 control diverse retrotransposons by complementary activities

Project description:ChAHP and ChAHP2 control diverse retrotransposons by complementary activities

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ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ATAC-seq]

Project description:Retrotransposon control in mammals is an intricate process that is effectuated by a broad network of chromatin regulatory pathways. We previously discovered ChAHP, a protein complex with repressive activity against SINE retrotransposons, composed of the transcription factor ADNP, chromatin remodeler CHD4, and HP1 proteins. Here we identify ChAHP2, a protein complex homologous to ChAHP, wherein ADNP is replaced by ADNP2. ChAHP2 is predominantly targeted to ERVs and LINEs, via HP1b-mediated binding of H3K9 trimethylated histones. We further demonstrate that ChAHP also binds these elements in a mechanistically equivalent manner to ChAHP2, and distinct from DNA sequence-specific recruitment at SINEs. Genetic ablation of ADNP2 alleviates ERV and LINE1 repression, which is synthetically exacerbated by additional depletion of ADNP. Together, our results reveal that the ChAHP and ChAHP2 complexes function to control both non-autonomous and autonomous retrotransposons by complementary activities, further adding to the complexity of mammalian transposon control.

2024-06-25 | GSE253065 | GEO

ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [RNA-seq]

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ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ChIP-seq]

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ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ATAC-seq]

Project description:ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [ATAC-seq]

| PRJNA1063742 | ENA

ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [RNA-seq]

Project description:ChAHP and ChAHP2 control diverse retrotransposons by complementary activities [RNA-seq]

| PRJNA1063745 | ENA

ChAHP2 and ChAHP control diverse retrotransposons by complementary activities.

Project description:Retrotransposon control in mammals is an intricate process that is effectuated by a broad network of chromatin regulatory pathways. We previously discovered ChAHP, a protein complex with repressive activity against short interspersed element (SINE) retrotransposons that is composed of the transcription factor ADNP, chromatin remodeler CHD4, and HP1 proteins. Here we identify ChAHP2, a protein complex homologous to ChAHP, in which ADNP is replaced by ADNP2. ChAHP2 is predominantly targeted to endogenous retroviruses (ERVs) and long interspersed elements (LINEs) via HP1β-mediated binding of H3K9 trimethylated histones. We further demonstrate that ChAHP also binds these elements in a manner mechanistically equivalent to that of ChAHP2 and distinct from DNA sequence-specific recruitment at SINEs. Genetic ablation of ADNP2 alleviates ERV and LINE1 repression, which is synthetically exacerbated by additional depletion of ADNP. Together, our results reveal that the ChAHP and ChAHP2 complexes function to control both nonautonomous and autonomous retrotransposons by complementary activities, further adding to the complexity of mammalian transposon control.

| S-EPMC11293393 | biostudies-literature

ChAHP and ChAHP2 control diverse retrotransposons by complementary activities

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

2024-06-25 | GSE253069 | GEO

Genomic environments scale the activities of diverse core promoters

Project description:Genomic environments scale the activities of diverse core promoters

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The ChAHP complex counteracts chromatin looping at Ctcf sites that have emerged from recent SINE expansions

Project description:Ctcf and cohesin are key players in the three dimensional organization of chromatin. Whereas genome-wide Ctcf binding has diverged substantially between species due to transposon-mediated motif expansions, demarcation of topologically associating domains (TADs) by Ctcf is remarkably well conserved. Yet, the Ctcf consensus motif poorly predicts TADs and the majority of Ctcf sites are not at TAD boundaries. Here we demonstrate that the ChAHP complex (Chd4, Adnp, HP1) competes with Ctcf for a common set of genomic binding sites. In absence of ChAHP, novel insulated regions are formed at ChAHP bound sites, whereas proximal canonical boundaries are weakened. These data reveal that Ctcf-mediated loop formation is modulated by a distinct zinc-finger protein complex. Strikingly, ChAHP bound loci are mainly situated within evolutionary young SINE B2 transposable elements. This further implicates ChAHP in maintenance of evolutionary conserved spatial chromatin organization by buffering novel Ctcf binding sites that emerged through SINE expansions.

2019-09-05 | GSE125129 | GEO

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