Precise genome-wide mapping of single nucleosomes and linkers in vivo

By Răzvan V. Chereji, Srinivas Ramachandran, Terri D. Bryson, Steven Henikoff. 2018

143 citations recorded by the source corpus.

We developed a chemical cleavage method that releases single nucleosome dyad-containing fragments, allowing us to precisely map both single nucleosomes and linkers with high accuracy genome-wide in yeast. Our single nucleosome positioning data reveal that nucleosomes occupy preferred positions that differ by integral multiples of the DNA helical repeat. By comparing nucleosome dyad positioning maps to existing genomic and transcriptomic data, we evaluated the contributions of sequence, transcription, and histones H1 and H2A.Z in defining the chromatin landscape. We present a biophysical model that neglects DNA sequence and shows that steric occlusion suffices to explain the salient features of nucleosome positioning.

Subfields: Molecular Biology, Plant Science

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In Molecular Biology

1. Patrick Cramer
2. Shinya Watanabe
3. C. Peterson
4. K. Hopfner
5. Philipp Korber
6. Manuela Moldt
7. Björn Wallner

Citations in the corpus

• Ruler elements in chromatin remodelers set nucleosome array spacing and phasing (2020, background): “Locally, high transcription rate correlates with shorter spacing (Chereji et al., 2018; Ocampo et al., 2016), which points to increased Chd1 contribution, probably due to increased Chd1 recruitment by elongating RNA polymerase (Simic et al., 2003).”