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PreprintCited by 5Genomics and Chromatin DynamicsNuclear Structure and FunctionDNA and Nucleic Acid Chemistry

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Nucleosome structural variations in interphase and metaphase chromosomes

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Arimura, Yasuhiro, Shih, Rochelle M., Froom, Ruby, Funabiki, Hironori·2020·bioRxiv (Cold Spring Harbor Laboratory)
DOI 10.1101/2020.11.12.380386

Preprint — published as 10.1016/j.molcel.2021.08.010 · Paper page

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Abstract

Summary: Structural heterogeneity of nucleosomes in functional chromosomes is unknown. Here we report cryo-EM structures of nucleosomes isolated from interphase and metaphase chromosomes at up to 3.4 Å resolution. Averaged chromosomal nucleosome structures are highly similar to canonical left-handed recombinant nucleosome crystal structures, with DNA being selectively stabilized at two defined locations. Compared to free mono-nucleosomes, which exhibit diverse linker DNA angles and large structural variations in H3 and H4, chromosomal nucleosome structures are much more uniform, characterized by a closed linker DNA angle with interactions between the H2A C-terminal tail and DNA. Exclusively for metaphase nucleosomes, structures of the linker histone H1.8 at the on-dyad position of nucleosomes can be reconstituted at 4.4 Å resolution. We also report diverse minor nucleosome structural variants with rearranged core histone configurations, which are more prevalent in metaphase than in interphase chromosomes. This study presents structural characteristics of nucleosomes in interphase and mitotic chromosomes. Highlights: 3.4~ Å resolution nucleosome structures from interphase and metaphase chromosomes Nucleosome structures in chromosomes are more uniform than in free mono-nucleosomes Histone H1.8 binds to the nucleosome dyad axis in metaphase chromosomes Nucleosome structural variants are more prevalent in metaphase than in interphase NOTES TO READERS: We would like to emphasize the importance of supplemental movies S1-S3, which should greatly help readers to understand characteristics of the nucleosome structural variants that we report in this study.

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Metadata

Authors
Arimura, Y., Shih, R. M., Froom, R., & Funabiki, H.
Affiliations
Rockefeller University (US)
Corresponding author
  • Arimura, Yasuhiro
  • Funabiki, Hironori
ORCID
Venue
bioRxiv (Cold Spring Harbor Laboratory)
Publisher
openRxiv
Published
2020-11-12
DOI
10.1101/2020.11.12.380386
OpenAlex
W3100212633
Cited by
5
References
4
Citations by year
2023: 1 · 2022: 1 · 2021: 3
Type
posted content
Language
en
Open access
Licence
Locations
bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
Funders
  • National Institutes of Health
  • Japan Society for the Promotion of Science
  • National Institute of General Medical Sciences (R35GM132111)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
Keywords
nucleosome structure, chromatin, interphase chromosomes, metaphase chromosomes, cryo-electron microscopy

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