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TitleStructural and functional interrelationships of histone H2A with its variants H2A.Z and H2A.W in Arabidopsis.
Journal, issue, pagesStructure, Year 2025
Publish dateMay 6, 2025
AuthorsYouchao Wang / Jiabing Wu / Shuoming Yang / Xiang Li / Jiachen Wang / Qinghe Lv / Xiaoyu Zhu / Guoliang Lu / Jinru Zhang / Wen-Hui Shen / Bing Liu / Jinzhong Lin / Aiwu Dong /
PubMed AbstractMultiple histone H2A variants are known in eukaryotes. However, the functional relationship between H2A and its variants in plants remains largely obscure. Using CRISPR-Cas9 editing, we generated a ...Multiple histone H2A variants are known in eukaryotes. However, the functional relationship between H2A and its variants in plants remains largely obscure. Using CRISPR-Cas9 editing, we generated a mutant lacking four H2A isoforms in Arabidopsis and analyzed the functional and structural relationships between H2A, H2A.Z, and H2A.W. RNA sequencing and phenotype analyses revealed mild changes in gene transcription and plant development in mutants lacking H2A, H2A.Z, or H2A.W compared with the wild-type plants. Chromatin immunoprecipitation sequencing analysis showed that H2A can substitute for both H2A.Z and H2A.W across the genome, including in euchromatin and heterochromatin regions. However, H2A.Z replaced both H2A and H2A.W primarily within the euchromatin regions. By using DNA and histones from Arabidopsis, we constructed nucleosomes containing H2A, H2A.Z, or H2A.W and resolved their cryogenic electron microscopy (cryo-EM) structures at near-atomic resolution. Collectively, the results reveal the structural similarity and functional redundancy of H2A and its variants in Arabidopsis.
External linksStructure / PubMed:40359943
MethodsEM (single particle)
Resolution2.75 - 3.15 Å
Structure data

62034

9k3z

EMDB-62034, PDB-9k3z:
Cryo-EM structure of Arabidopsis thaliana H2A.Z-nucleosome with Arabidopsis native 147bp DNA 15.2.2 (C2 symmetry)
Method: EM (single particle) / Resolution: 2.75 Å

62036

9k40

EMDB-62036, PDB-9k40:
Cryo-EM structure of Arabidopsis thaliana H2A-nucleosome with Arabidopsis native 147bp DNA 15.2.2 (C2 symmetry)
Method: EM (single particle) / Resolution: 3.15 Å

62038

9k41

EMDB-62038, PDB-9k41:
Cryo-EM structure of Arabidopsis thaliana H2A.W-nucleosome with Arabidopsis native 147bp DNA 15.2.2 (C2 symmetry)
Method: EM (single particle) / Resolution: 2.81 Å

62040

9k42

EMDB-62040, PDB-9k42:
Cryo-EM structure of Arabidopsis thaliana H2A-nucleosome with 147bp Widom 601 DNA (C2 symmetry)
Method: EM (single particle) / Resolution: 3.14 Å

62042

9k43

EMDB-62042, PDB-9k43:
Cryo-EM structure of Arabidopsis thaliana H2A.Z-nucleosome with 147bp Widom 601 DNA (C2 symmetry)
Method: EM (single particle) / Resolution: 2.87 Å

Source
  • arabidopsis thaliana (thale cress)
KeywordsNUCLEAR PROTEIN/DNA / nucleosome / histone / H2A.Z / Arabidopsis / NUCLEAR PROTEIN-DNA complex / H2A / H2A.W

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