Transcription-coupled H3.3 recycling: A link with chromatin states

Delaney, Kamila; Almouzni, Geneviève

doi:10.1016/j.semcdb.2022.05.003

Cited by 8 publications

(4 citation statements)

References 105 publications

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“…Acetylation and all three methylation states at H3K36 that are associated with active chromatin were likewise found on both H3.1 and H3.3 but with higher enrichment on H3.3 ( Figure 1D and E ; Figure 1—figure supplement 1E-G ). This is consistent with western blot analyses ( Figure 1C ) and with the established role of H3.3 as a replacement variant during transcription ( Delaney and Almouzni, 2023 ). The levels of H3K27 and H3K36 modifications on H3.1 and H3.3 displayed the same trends irrespective of whether they were precipitated with either H3.1 or H3.3 nucleosomes, contrasting with the predominant enrichment of H3K37 modifications on H3.3 ( Figure 1E ).…”

Section: Resultssupporting

confidence: 91%

Histone variants shape chromatin states in Arabidopsis

Jamge

Lorković

Axelsson

et al. 2023

eLife

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How different intrinsic sequence variation or regulatory modifications of histones regulate nucleosome interactions with transcription remain unclear. To clarify this question, we examine how histone variants and histone modifications assemble in the Arabidopsis thaliana genome, and show that a limited number of chromatin states divide euchromatin and heterochromatin into biologically significant subdomains. We find that histone variants are as significant as histone modifications in determining the composition of chromatin states. Loss of function of the chromatin remodeler DECREASED IN DNA METHYLATION (DDM1) prevents the exchange of the histone variant H2A.Z to H2A.W and impacts the definition and distribution of chromatin states. In the mutant deprived of DDM1 transposons harbor chromatin states normally found only on proteins coding genes in the wild type. We propose that the dynamics of histone variant exchange control the organization of histone modifications into chromatin states, resulting in molecular landmarks that signify whether genes could be transcribed.

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Section: Resultssupporting

confidence: 91%

Histone variants shape chromatin states in Arabidopsis

Jamge

Lorković

Axelsson

et al. 2023

eLife

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“…While transcription 66 and DNA damage repair 67 have been linked to local chromatin dynamics, replication is the most disruptive process genome-wide. The doubling of genetic information during S-phase requires replicating not only DNA but the entire chromatin.…”

Section: H3 Dynamics At the Replication Forkmentioning

confidence: 99%

The cell-cycle choreography of H3 variants shapes the genome

Delaney,

Weiss,

Almouzni

2023

Molecular Cell

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“…Actually, the H3.3 protein is not so different with respect to the canonical H3.1 and H3.2 isoforms: indeed, it differs by only five and four amino acids, respectively, from them [ 35 , 36 , 37 ]. However, these amino acids are, for example, sufficient to allow H3.3 to interact with specific histone chaperones, such as the Death domain-associated protein (DAXX), the alpha-thalassemia/mental retardation X-linked protein (ATRX) complex, and the histone regulator A (Hira)/calcineurin-binding protein 1 (Cabin 1)/ubinuclein1 (Ubn1) complex, involved in its loading on chromatin [ 7 , 38 , 39 , 40 , 41 ].…”

Section: General Properties Of Genes Encoding Histone Variantsmentioning

confidence: 99%

“…The importance of the events that allow transgenerational transmission of these marks is also underlined by the fact that in vertebrates, loss of chromatin assembly factor 1 (CAF1), the main chaperone involved in the DNA replication-dependent deposition of canonical H3 histones, blocks embryo development [ 71 , 72 ]. On the other hand, the non-canonical H3.3 histone seems to be specifically loaded at chromatin sites where nucleosomes should face rapid turnover, thus allowing active transcription [ 37 , 73 , 74 ]. Indeed, the position of H3.3 in chromatin often coincides with that of RNA polymerase II (RNAPII) [ 58 ].…”

Section: The H33 Variant In Brain Development and Maturation As Well ...mentioning

confidence: 99%

Involvement of the H3.3 Histone Variant in the Epigenetic Regulation of Gene Expression in the Nervous System, in Both Physiological and Pathological Conditions

Schiera

Schirò

Liegro

2023

IJMS

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All the cells of an organism contain the same genome. However, each cell expresses only a minor fraction of its potential and, in particular, the genes encoding the proteins necessary for basal metabolism and the proteins responsible for its specific phenotype. The ability to use only the right and necessary genes involved in specific functions depends on the structural organization of the nuclear chromatin, which in turn depends on the epigenetic history of each cell, which is stored in the form of a collection of DNA and protein modifications. Among these modifications, DNA methylation and many kinds of post-translational modifications of histones play a key role in organizing the complex indexing of usable genes. In addition, non-canonical histone proteins (also known as histone variants), the synthesis of which is not directly linked with DNA replication, are used to mark specific regions of the genome. Here, we will discuss the role of the H3.3 histone variant, with particular attention to its loading into chromatin in the mammalian nervous system, both in physiological and pathological conditions. Indeed, chromatin modifications that mark cell memory seem to be of special importance for the cells involved in the complex processes of learning and memory.

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Transcription-coupled H3.3 recycling: A link with chromatin states

Cited by 8 publications

References 105 publications

Histone variants shape chromatin states in Arabidopsis

Histone variants shape chromatin states in Arabidopsis

The cell-cycle choreography of H3 variants shapes the genome

Involvement of the H3.3 Histone Variant in the Epigenetic Regulation of Gene Expression in the Nervous System, in Both Physiological and Pathological Conditions

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