Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes

Research output: Contribution to journal › Journal article › Research › peer-review

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Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes. / Narita, Takeo; Higashijima, Yoshiki; Kilic, Sinan; Liebner, Tim; Walter, Jonas; Choudhary, Chunaram.

In: Nature Genetics, Vol. 55, 2023, p. 679-692.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Narita, T, Higashijima, Y, Kilic, S, Liebner, T, Walter, J & Choudhary, C 2023, 'Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes', Nature Genetics, vol. 55, pp. 679-692. https://doi.org/10.1038/s41588-023-01348-4

APA

Narita, T., Higashijima, Y., Kilic, S., Liebner, T., Walter, J., & Choudhary, C. (2023). Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes. Nature Genetics, 55, 679-692. https://doi.org/10.1038/s41588-023-01348-4

Vancouver

Narita T, Higashijima Y, Kilic S, Liebner T, Walter J, Choudhary C. Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes. Nature Genetics. 2023;55:679-692. https://doi.org/10.1038/s41588-023-01348-4

Author

Narita, Takeo ; Higashijima, Yoshiki ; Kilic, Sinan ; Liebner, Tim ; Walter, Jonas ; Choudhary, Chunaram. / Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes. In: Nature Genetics. 2023 ; Vol. 55. pp. 679-692.

Bibtex

@article{0c4a816a527f449580877e03a4cba540,
title = "Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes",
abstract = "Chromatin features are widely used for genome-scale mapping of enhancers. However, discriminating active enhancers from other cis-regulatory elements, predicting enhancer strength and identifying their target genes is challenging. Here we establish histone H2B N-terminus multisite lysine acetylation (H2BNTac) as a signature of active enhancers. H2BNTac prominently marks candidate active enhancers and a subset of promoters and discriminates them from ubiquitously active promoters. Two mechanisms underlie the distinct H2BNTac specificity: (1) unlike H3K27ac, H2BNTac is specifically catalyzed by CBP/p300; (2) H2A–H2B, but not H3–H4, are rapidly exchanged through transcription-induced nucleosome remodeling. H2BNTac-positive candidate enhancers show a high validation rate in orthogonal enhancer activity assays and a vast majority of endogenously active enhancers are marked by H2BNTac and H3K27ac. Notably, H2BNTac intensity predicts enhancer strength and outperforms current state-of-the-art models in predicting CBP/p300 target genes. These findings have broad implications for generating fine-grained enhancer maps and modeling CBP/p300-dependent gene regulation.",
author = "Takeo Narita and Yoshiki Higashijima and Sinan Kilic and Tim Liebner and Jonas Walter and Chunaram Choudhary",
note = "Publisher Copyright: {\textcopyright} 2023, The Author(s).",
year = "2023",
doi = "10.1038/s41588-023-01348-4",
language = "English",
volume = "55",
pages = "679--692",
journal = "Nature Genetics",
issn = "1061-4036",
publisher = "nature publishing group",

}

RIS

TY - JOUR

T1 - Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes

AU - Narita, Takeo

AU - Higashijima, Yoshiki

AU - Kilic, Sinan

AU - Liebner, Tim

AU - Walter, Jonas

AU - Choudhary, Chunaram

N1 - Publisher Copyright: © 2023, The Author(s).

PY - 2023

Y1 - 2023

N2 - Chromatin features are widely used for genome-scale mapping of enhancers. However, discriminating active enhancers from other cis-regulatory elements, predicting enhancer strength and identifying their target genes is challenging. Here we establish histone H2B N-terminus multisite lysine acetylation (H2BNTac) as a signature of active enhancers. H2BNTac prominently marks candidate active enhancers and a subset of promoters and discriminates them from ubiquitously active promoters. Two mechanisms underlie the distinct H2BNTac specificity: (1) unlike H3K27ac, H2BNTac is specifically catalyzed by CBP/p300; (2) H2A–H2B, but not H3–H4, are rapidly exchanged through transcription-induced nucleosome remodeling. H2BNTac-positive candidate enhancers show a high validation rate in orthogonal enhancer activity assays and a vast majority of endogenously active enhancers are marked by H2BNTac and H3K27ac. Notably, H2BNTac intensity predicts enhancer strength and outperforms current state-of-the-art models in predicting CBP/p300 target genes. These findings have broad implications for generating fine-grained enhancer maps and modeling CBP/p300-dependent gene regulation.

AB - Chromatin features are widely used for genome-scale mapping of enhancers. However, discriminating active enhancers from other cis-regulatory elements, predicting enhancer strength and identifying their target genes is challenging. Here we establish histone H2B N-terminus multisite lysine acetylation (H2BNTac) as a signature of active enhancers. H2BNTac prominently marks candidate active enhancers and a subset of promoters and discriminates them from ubiquitously active promoters. Two mechanisms underlie the distinct H2BNTac specificity: (1) unlike H3K27ac, H2BNTac is specifically catalyzed by CBP/p300; (2) H2A–H2B, but not H3–H4, are rapidly exchanged through transcription-induced nucleosome remodeling. H2BNTac-positive candidate enhancers show a high validation rate in orthogonal enhancer activity assays and a vast majority of endogenously active enhancers are marked by H2BNTac and H3K27ac. Notably, H2BNTac intensity predicts enhancer strength and outperforms current state-of-the-art models in predicting CBP/p300 target genes. These findings have broad implications for generating fine-grained enhancer maps and modeling CBP/p300-dependent gene regulation.

U2 - 10.1038/s41588-023-01348-4

DO - 10.1038/s41588-023-01348-4

M3 - Journal article

C2 - 37024579

AN - SCOPUS:85152090956

VL - 55

SP - 679

EP - 692

JO - Nature Genetics

JF - Nature Genetics

SN - 1061-4036

ER -

ID: 344431225