Evidence map›Paper›PMID 40447801›Full record

ArticleThe EMBO journal2025

Structural basis of RNAPII transcription on the nucleosome containing histone variant H2A.B.

Munetaka Akatsu, Rina Hirano, Tomoya Kujirai, Mitsuo Ogasawara, Haruhiko Ehara, Shun-Ichi Sekine, Yoshimasa Takizawa, Hitoshi Kurumizaka

Abstract read
In one paragraph

Article in The EMBO journal, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Munetaka AkatsuLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.ORCID http://orcid.org/0009-0001-6002-3656
Rina HiranoLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.ORCID http://orcid.org/0000-0001-8871-6166
Tomoya KujiraiLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.
Mitsuo OgasawaraLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.ORCID http://orcid.org/0000-0003-3248-2270
Haruhiko EharaLaboratory for Transcription Structural Biology, RIKEN Center for Integrative Medical Sciences, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045, Japan.ORCID http://orcid.org/0000-0002-7420-145X
Shun-Ichi SekineLaboratory for Transcription Structural Biology, RIKEN Center for Integrative Medical Sciences, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045, Japan.ORCID http://orcid.org/0000-0001-8174-8704
Yoshimasa TakizawaLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.
Hitoshi KurumizakaLaboratory of Chromatin Structure and Function, Institute for Quantitative Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan. kurumizaka@iqb.u-tokyo.ac.jp.ORCID http://orcid.org/0000-0001-7412-3722

Funding

Japan Agency for Medical Research and Development (AMED) JP25ama121002Japan Agency for Medical Research and Development (AMED) JP25ama121009MEXT | Japan Science and Technology Agency (JST) JPMJCR24T3MEXT | Japan Science and Technology Agency (JST) JPMJER1901MEXT | Japan Science and Technology Agency (JST) JPMJSP2108MEXT | Japan Society for the Promotion of Science (JSPS) JP22K06098MEXT | Japan Society for the Promotion of Science (JSPS) JP22K15033MEXT | Japan Society for the Promotion of Science (JSPS) JP23H05475MEXT | Japan Society for the Promotion of Science (JSPS) JP23K17392MEXT | Japan Society for the Promotion of Science (JSPS) JP23K20300MEXT | Japan Society for the Promotion of Science (JSPS) JP24H00062MEXT | Japan Society for the Promotion of Science (JSPS) JP24H02319MEXT | Japan Society for the Promotion of Science (JSPS) JP24H02328
6 · The paper itself

Abstract

H2A.B is a distant histone H2A variant associated with actively transcribed regions of the genome, suggesting its positive role in promoting transcription. In the present study, we demonstrate that the RNA polymerase II elongation complex (EC) transcribes the nucleosome containing H2A.B more efficiently than that with canonical H2A in vitro. Our cryo-electron microscopy analysis of the H2A.B nucleosome during transcription revealed that the proximal H2A.B-H2B dimer is released from the nucleosome as the EC transcribes the proximal half of the nucleosomal DNA. This dissociation, which is not observed in the canonical H2A nucleosome, likely enhances the EC elongation efficiency in the H2A.B nucleosome. Mutational analyses suggested that the unique short C-terminal region of H2A.B alone enhances EC elongation efficiency when substituted for its counterpart in canonical H2A. Additionally, other regions of H2A.B contribute to this enhancement. These structural and biochemical findings provide new insights into the role of H2A.B in regulating gene expression.

Indexed as

HistonesNucleosomesRNA Polymerase IITranscription, GeneticAnimalsCryoelectron MicroscopyHumansHistonesNucleosomesRNA Polymerase IIChromatinH2A.BHistone VariantNucleosomeTranscription

Identifiers

PMID40447801
PMCPMC12264295

What OpenQuestion holds

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Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.