New aspects of magnesium function: a key regulator in nucleosome self-assembly, chromatin folding and phase separation

T Ohyama - International journal of molecular sciences, 2019 - mdpi.com
Metal cations are associated with many biological processes. The effects of these cations on
nucleic acids and chromatin were extensively studied in the early stages of nucleic acid and …

Methods for identifying higher-order chromatin structure

SA Sajan, RD Hawkins - Annual review of genomics and human …, 2012 - annualreviews.org
Eukaryotic genomic DNA is combined with histones, nonhistone proteins, and RNA to form
chromatin, which is extensively packaged hierarchically to fit inside a cell's nucleus. The …

Bookmarking by specific and nonspecific binding of FoxA1 pioneer factor to mitotic chromosomes

JM Caravaca, G Donahue, JS Becker, X He… - Genes & …, 2013 - genesdev.cshlp.org
While most transcription factors exit the chromatin during mitosis and the genome becomes
silent, a subset of factors remains and “bookmarks” genes for rapid reactivation as cells …

The nucleosome surface regulates chromatin compaction and couples it with transcriptional repression

J Zhou, JY Fan, D Rangasamy… - Nature structural & …, 2007 - nature.com
Although it is believed that the interconversion between permissive and refractory chromatin
structures is important in regulating gene transcription, this process is poorly understood …

Electron microscopy and atomic force microscopy studies of chromatin and metaphase chromosome structure

JR Daban - Micron, 2011 - Elsevier
The folding of the chromatin filament and, in particular, the organization of genomic DNA
within metaphase chromosomes has attracted the interest of many laboratories during the …

Frozen‐hydrated chromatin from metaphase chromosomes has an interdigitated multilayer structure

A Chicano, E Crosas, J Otón, R Melero… - The EMBO …, 2019 - embopress.org
Cryo‐electron tomography and small‐angle X‐ray scattering were used to investigate the
chromatin folding in metaphase chromosomes. The tomographic 3D reconstructions show …

Stacked thin layers of metaphase chromatin explain the geometry of chromosome rearrangements and banding

JR Daban - Scientific reports, 2015 - nature.com
The three-dimensional organization of tightly condensed chromatin within metaphase
chromosomes has been one of the most challenging problems in structural biology since the …

Chromatin fibers: from classical descriptions to modern interpretation

MA Kuznetsova, EV Sheval - Cell biology international, 2016 - Wiley Online Library
The first description of intrachromosomal fibers was made by Baranetzky in 1880. Since that
time, a plethora of fibrillar substructures have been described inside the mitotic …

Supramolecular multilayer organization of chromosomes: possible functional roles of planar chromatin in gene expression and DNA replication and repair

JR Daban - FEBS letters, 2020 - Wiley Online Library
Experimental evidence indicates that the chromatin filament is self‐organized into a
multilayer planar structure that is densely stacked in metaphase and unstacked in …

Soft-matter properties of multilayer chromosomes

JR Daban - Physical Biology, 2021 - iopscience.iop.org
This perspective aims to identify the relationships between the structural and dynamic
properties of chromosomes and the fundamental properties of soft-matter systems …