Organization and function of the 3D genome

B Bonev, G Cavalli - Nature Reviews Genetics, 2016 - nature.com
Understanding how chromatin is organized within the nucleus and how this 3D architecture
influences gene regulation, cell fate decisions and evolution are major questions in cell …

Is euchromatin really open in the cell?

K Maeshima, S Iida, MA Shimazoe, S Tamura… - Trends in Cell Biology, 2024 - cell.com
Genomic DNA is wrapped around a core histone octamer and forms a nucleosome. In
higher eukaryotic cells, strings of nucleosomes are irregularly folded as chromatin domains …

Condensed but liquid-like domain organization of active chromatin regions in living human cells

T Nozaki, S Shinkai, S Ide, K Higashi, S Tamura… - Science …, 2023 - science.org
In eukaryotes, higher-order chromatin organization is spatiotemporally regulated as
domains, for various cellular functions. However, their physical nature in living cells remains …

ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells

HD Ou, S Phan, TJ Deerinck, A Thor, MH Ellisman… - Science, 2017 - science.org
INTRODUCTION In human cells, 2 m of DNA are compacted in the nucleus through
assembly with histones and other proteins into chromatin structures, megabase three …

Condensed chromatin behaves like a solid on the mesoscale in vitro and in living cells

H Strickfaden, TO Tolsma, A Sharma, DA Underhill… - Cell, 2020 - cell.com
The association of nuclear DNA with histones to form chromatin is essential for temporal and
spatial control of eukaryotic genomes. In this study, we examined the physical state of …

Dynamic organization of chromatin domains revealed by super-resolution live-cell imaging

T Nozaki, R Imai, M Tanbo, R Nagashima, S Tamura… - Molecular cell, 2017 - cell.com
The eukaryotic genome is organized within cells as chromatin. For proper information
output, higher-order chromatin structures can be regulated dynamically. How such structures …

Liquid–liquid phase separation in chromatin

K Rippe - Cold Spring Harbor perspectives in biology, 2022 - cshperspectives.cshlp.org
In eukaryotic cells, protein and RNA factors involved in genome activities like transcription,
RNA processing, DNA replication, and repair accumulate in self-organizing membraneless …

[HTML][HTML] Chromatin fibers are formed by heterogeneous groups of nucleosomes in vivo

MA Ricci, C Manzo, MF García-Parajo, M Lakadamyali… - Cell, 2015 - cell.com
Nucleosomes help structure chromosomes by compacting DNA into fibers. To gain insight
into how nucleosomes are arranged in vivo, we combined quantitative super-resolution …

Organization of the mitotic chromosome

N Naumova, M Imakaev, G Fudenberg, Y Zhan… - Science, 2013 - science.org
Mitotic chromosomes are among the most recognizable structures in the cell, yet for over a
century their internal organization remains largely unsolved. We applied chromosome …

Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II

R Nagashima, K Hibino, SS Ashwin, M Babokhov… - Journal of Cell …, 2019 - rupress.org
Although chromatin organization and dynamics play a critical role in gene transcription, how
they interplay remains unclear. To approach this issue, we investigated genome-wide …