Short nucleosome repeats impose rotational modulations on chromatin fibre folding

Sarah J. Correll, Michaela H. Schubert, Sergei Grigoryev

Research output: Contribution to journalArticle

54 Citations (Scopus)

Abstract

In eukaryotic cells, DNA is organized into arrays of repeated nucleosomes where the shorter nucleosome repeat length (NRL) types are associated with transcriptionally active chromatin. Here, we tested a hypothesis that systematic variations in the NRL influence nucleosome array folding into higher-order structures. For NRLs with fixed rotational settings, we observed a negative correlation between NRL and chromatin folding. Rotational variations within a range of longer NRLs (188 bp and above) typical of repressed chromatin in differentiated cells did not reveal any changes in chromatin folding. In sharp contrast, for the shorter NRL range of 165g-177 bp, we observed a strong periodic dependence of chromatin folding upon the changes in linker DNA lengths, with the 172 bp repeat found in highly transcribed yeast chromatin imposing an unfolded state of the chromatin fibre that could be reversed by linker histone. Our results suggest that the NRL may direct chromatin higher-order structure into either a nucleosome position-dependent folding for short NRLs typical of transcribed genes or an architectural factor-dependent folding typical of longer NRLs prevailing in eukaryotic heterochromatin.

Original languageEnglish (US)
Pages (from-to)2416-2426
Number of pages11
JournalEMBO Journal
Volume31
Issue number10
DOIs
StatePublished - May 16 2012

Fingerprint

Nucleosomes
Chromatin
Modulation
Fibers
Heterochromatin
DNA
Eukaryotic Cells
Histones
Yeast
Genes
Yeasts

All Science Journal Classification (ASJC) codes

  • Neuroscience(all)
  • Molecular Biology
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)

Cite this

Correll, Sarah J. ; Schubert, Michaela H. ; Grigoryev, Sergei. / Short nucleosome repeats impose rotational modulations on chromatin fibre folding. In: EMBO Journal. 2012 ; Vol. 31, No. 10. pp. 2416-2426.
@article{82bf20ce5f794326bcbd2124c3c63fd9,
title = "Short nucleosome repeats impose rotational modulations on chromatin fibre folding",
abstract = "In eukaryotic cells, DNA is organized into arrays of repeated nucleosomes where the shorter nucleosome repeat length (NRL) types are associated with transcriptionally active chromatin. Here, we tested a hypothesis that systematic variations in the NRL influence nucleosome array folding into higher-order structures. For NRLs with fixed rotational settings, we observed a negative correlation between NRL and chromatin folding. Rotational variations within a range of longer NRLs (188 bp and above) typical of repressed chromatin in differentiated cells did not reveal any changes in chromatin folding. In sharp contrast, for the shorter NRL range of 165g-177 bp, we observed a strong periodic dependence of chromatin folding upon the changes in linker DNA lengths, with the 172 bp repeat found in highly transcribed yeast chromatin imposing an unfolded state of the chromatin fibre that could be reversed by linker histone. Our results suggest that the NRL may direct chromatin higher-order structure into either a nucleosome position-dependent folding for short NRLs typical of transcribed genes or an architectural factor-dependent folding typical of longer NRLs prevailing in eukaryotic heterochromatin.",
author = "Correll, {Sarah J.} and Schubert, {Michaela H.} and Sergei Grigoryev",
year = "2012",
month = "5",
day = "16",
doi = "10.1038/emboj.2012.80",
language = "English (US)",
volume = "31",
pages = "2416--2426",
journal = "EMBO Journal",
issn = "0261-4189",
publisher = "Nature Publishing Group",
number = "10",

}

Short nucleosome repeats impose rotational modulations on chromatin fibre folding. / Correll, Sarah J.; Schubert, Michaela H.; Grigoryev, Sergei.

In: EMBO Journal, Vol. 31, No. 10, 16.05.2012, p. 2416-2426.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Short nucleosome repeats impose rotational modulations on chromatin fibre folding

AU - Correll, Sarah J.

AU - Schubert, Michaela H.

AU - Grigoryev, Sergei

PY - 2012/5/16

Y1 - 2012/5/16

N2 - In eukaryotic cells, DNA is organized into arrays of repeated nucleosomes where the shorter nucleosome repeat length (NRL) types are associated with transcriptionally active chromatin. Here, we tested a hypothesis that systematic variations in the NRL influence nucleosome array folding into higher-order structures. For NRLs with fixed rotational settings, we observed a negative correlation between NRL and chromatin folding. Rotational variations within a range of longer NRLs (188 bp and above) typical of repressed chromatin in differentiated cells did not reveal any changes in chromatin folding. In sharp contrast, for the shorter NRL range of 165g-177 bp, we observed a strong periodic dependence of chromatin folding upon the changes in linker DNA lengths, with the 172 bp repeat found in highly transcribed yeast chromatin imposing an unfolded state of the chromatin fibre that could be reversed by linker histone. Our results suggest that the NRL may direct chromatin higher-order structure into either a nucleosome position-dependent folding for short NRLs typical of transcribed genes or an architectural factor-dependent folding typical of longer NRLs prevailing in eukaryotic heterochromatin.

AB - In eukaryotic cells, DNA is organized into arrays of repeated nucleosomes where the shorter nucleosome repeat length (NRL) types are associated with transcriptionally active chromatin. Here, we tested a hypothesis that systematic variations in the NRL influence nucleosome array folding into higher-order structures. For NRLs with fixed rotational settings, we observed a negative correlation between NRL and chromatin folding. Rotational variations within a range of longer NRLs (188 bp and above) typical of repressed chromatin in differentiated cells did not reveal any changes in chromatin folding. In sharp contrast, for the shorter NRL range of 165g-177 bp, we observed a strong periodic dependence of chromatin folding upon the changes in linker DNA lengths, with the 172 bp repeat found in highly transcribed yeast chromatin imposing an unfolded state of the chromatin fibre that could be reversed by linker histone. Our results suggest that the NRL may direct chromatin higher-order structure into either a nucleosome position-dependent folding for short NRLs typical of transcribed genes or an architectural factor-dependent folding typical of longer NRLs prevailing in eukaryotic heterochromatin.

UR - http://www.scopus.com/inward/record.url?scp=84861116574&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84861116574&partnerID=8YFLogxK

U2 - 10.1038/emboj.2012.80

DO - 10.1038/emboj.2012.80

M3 - Article

C2 - 22473209

AN - SCOPUS:84861116574

VL - 31

SP - 2416

EP - 2426

JO - EMBO Journal

JF - EMBO Journal

SN - 0261-4189

IS - 10

ER -