Heterogeneous non-canonical nucleosomes predominate in yeast cells in situ

Nuclear processes depend on the organization of chromatin, whose basic units are cylinder-shaped complexes called nucleosomes. A subset of mammalian nucleosomes (inside cells) resembles the canonical structure determined 25 years ago. Nucleosome structure is otherwise poorly understood. Using cryo-e...

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Bibliographic Details
Published in:eLife 2023-07, Vol.12
Main Authors: Tan, Zhi Yang, Cai, Shujun, Noble, Alex J, Chen, Jon K, Shi, Jian, Gan, Lu
Format: Article
Language:English
Subjects:
Analysis
Cell Biology
Chromatin
Chromosomes and Gene Expression
Classification
cryo-ET
cryo-FIB
Crystal structure
Histone H2A
Histones - genetics
Lysates
nucleosome
Nucleosomes
Saccharomyces cerevisiae - genetics
Saccharomyces cerevisiae - metabolism
Saccharomyces cerevisiae Proteins - metabolism
Saccharomycetales - genetics
Scientific equipment and supplies industry
Yeast
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Summary:Nuclear processes depend on the organization of chromatin, whose basic units are cylinder-shaped complexes called nucleosomes. A subset of mammalian nucleosomes (inside cells) resembles the canonical structure determined 25 years ago. Nucleosome structure is otherwise poorly understood. Using cryo-electron tomography (cryo-ET) and 3D classification analysis of budding yeast cells, here we find that canonical nucleosomes account for less than 10% of total nucleosomes expected . In a strain in which H2A-GFP is the sole source of histone H2A, class averages that resemble canonical nucleosomes both with and without GFP densities are found (in nuclear lysates), but not . These data suggest that the budding yeast intranuclear environment favors multiple non-canonical nucleosome conformations. Using the structural observations here and the results of previous genomics and biochemical studies, we propose a model in which the average budding yeast nucleosome's DNA is partially detached .
ISSN:2050-084X
2050-084X
DOI:10.7554/eLife.87672