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Reference - PMID:39096900 - Nucleosome remodeler exclusion by histone deacetylation enforces heterochromatic silencing and epigenetic inheritance.

Reference summary

PubMed ID
PMID:39096900
Title
Nucleosome remodeler exclusion by histone deacetylation enforces heterochromatic silencing and epigenetic inheritance.
Authors
Sahu RK, Dhakshnamoorthy J, Jain S, Folco HD, Wheeler D, Grewal SIS
Citation
Mol Cell 2024 Sep 05;84(17):3175-3191.e8
Publication year
2024
Abstract
Heterochromatin enforces transcriptional gene silencing and can be epigenetically inherited, but the underlying mechanisms remain unclear. Here, we show that histone deacetylation, a conserved feature of heterochromatin domains, blocks SWI/SNF subfamily remodelers involved in chromatin unraveling, thereby stabilizing modified nucleosomes that preserve gene silencing. Histone hyperacetylation, resulting from either the loss of histone deacetylase (HDAC) activity or the direct targeting of a histone acetyltransferase to heterochromatin, permits remodeler access, leading to silencing defects. The requirement for HDAC in heterochromatin silencing can be bypassed by impeding SWI/SNF activity. Highlighting the crucial role of remodelers, merely targeting SWI/SNF to heterochromatin, even in cells with functional HDAC, increases nucleosome turnover, causing defective gene silencing and compromised epigenetic inheritance. This study elucidates a fundamental mechanism whereby histone hypoacetylation, maintained by high HDAC levels in heterochromatic regions, ensures stable gene silencing and epigenetic inheritance, providing insights into genome regulatory mechanisms relevant to human diseases.

Annotation

GO biological process

GO:0120262 - negative regulation of heterochromatin organization

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Multi-locus phenotype

FYPO:0007336 - abolished chromatin silencing at silent mating-type cassette

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FYPO:0002827 - decreased chromatin silencing at silent mating-type cassette

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Genotypes:

FYPO:0005845 - decreased histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

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FYPO:0005154 - decreased protein localization to heterochromatin at mat2P silent mating-type cassette

Genes:

Genotypes:

FYPO:0008416 - increased histone exchange at silent mating-type cassette during vegetative growth

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FYPO:0007633 - increased histone H3-K14 acetylation at silent mating-type cassette during vegetative growth

Genes:

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FYPO:0008327 - increased histone H3-K9 trimethylation at heterochromatin island during vegetative growth

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FYPO:0008419 - increased protein localization to heterochromatin island

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FYPO:0004749 - increased spatial extent of subtelomeric heterochromatin assembly

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FYPO:0007002 - normal histone exchange at silent mating-type cassette

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FYPO:0008364 - normal histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

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FYPO:0004378 - normal protein localization to heterochromatin at silent mating-type cassette

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Single locus phenotype

FYPO:0007336 - abolished chromatin silencing at silent mating-type cassette

Genes:

Genotypes:

FYPO:0007376 - abolished epigenetic heterochromatin inheritance

Genes:

Genotypes:

FYPO:0005844 - abolished histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

Genes:

Genotypes:

FYPO:0002827 - decreased chromatin silencing at silent mating-type cassette

Genes:

Genotypes:

FYPO:0000883 - decreased histone H3-K9 trimethylation at centromere during vegetative growth

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Genotypes:

FYPO:0005845 - decreased histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

Genes:

Genotypes:

FYPO:0004577 - decreased histone H3-K9 trimethylation at subtelomeric heterochromatin during vegetative growth

Genes:

Genotypes:

FYPO:0005154 - decreased protein localization to heterochromatin at mat2P silent mating-type cassette

Genes:

Genotypes:

FYPO:0008417 - increased epigenetic heterochromatin inheritance

Genes:

Genotypes:

FYPO:0008416 - increased histone exchange at silent mating-type cassette during vegetative growth

Genes:

Genotypes:

FYPO:0007633 - increased histone H3-K14 acetylation at silent mating-type cassette during vegetative growth

Genes:

Genotypes:

FYPO:0004377 - increased protein localization to heterochromatin at silent mating-type cassette

Genes:

Genotypes: