Dynamic chromatin organization without the 30-nm fiber

K Maeshima, S Ide, M Babokhov - Current opinion in cell biology, 2019 - Elsevier
Chromatin in eukaryotic cells is a negatively charged polymer composed of DNA, histones,
and various associated proteins. Over the past ten years, our view of chromatin has shifted …

The interchromatin compartment participates in the structural and functional organization of the cell nucleus

T Cremer, M Cremer, B Hübner, A Silahtaroglu… - …, 2020 - Wiley Online Library
This article focuses on the role of the interchromatin compartment (IC) in shaping nuclear
landscapes. The IC is connected with nuclear pore complexes (NPCs) and harbors splicing …

Single-cell nuclear architecture across cell types in the mouse brain

Y Takei, S Zheng, J Yun, S Shah, N Pierson, J White… - Science, 2021 - science.org
Diverse cell types in tissues have distinct gene expression programs, chromatin states, and
nuclear architectures. To correlate such multimodal information across thousands of single …

Nucleosome plasticity is a critical element of chromatin liquid–liquid phase separation and multivalent nucleosome interactions

SE Farr, EJ Woods, JA Joseph, A Garaizar… - Nature …, 2021 - nature.com
Liquid–liquid phase separation (LLPS) is an important mechanism that helps explain the
membraneless compartmentalization of the nucleus. Because chromatin compaction and …

Phase imaging with computational specificity (PICS) for measuring dry mass changes in sub-cellular compartments

ME Kandel, YR He, YJ Lee, THY Chen… - Nature …, 2020 - nature.com
Due to its specificity, fluorescence microscopy has become a quintessential imaging tool in
cell biology. However, photobleaching, phototoxicity, and related artifacts continue to limit …

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 …

RNA-mediated demixing transition of low-density condensates

T Kim, J Yoo, S Do, DS Hwang, YK Park… - Nature …, 2023 - nature.com
Biomolecular condensates play a key role in organizing cellular reactions by concentrating a
specific set of biomolecules. However, whether condensate formation is accompanied by an …

Super-resolution microscopy reveals how histone tail acetylation affects DNA compaction within nucleosomes in vivo

J Otterstrom, A Castells-Garcia, C Vicario… - Nucleic acids …, 2019 - academic.oup.com
Chromatin organization is crucial for regulating gene expression. Previously, we showed
that nucleosomes form groups, termed clutches. Clutch size correlated with the pluripotency …

Rhodamine–Hoechst positional isomers for highly efficient staining of heterochromatin

J Bucevičius, J Keller-Findeisen, T Gilat, SW Hell… - Chemical …, 2019 - pubs.rsc.org
Hoechst conjugates to fluorescent dyes are popular DNA stains for live-cell imaging, but the
relationship between their structure and performance remains elusive. This study of …

The relative densities of cytoplasm and nuclear compartments are robust against strong perturbation

K Kim, J Guck - Biophysical journal, 2020 - cell.com
The cell nucleus is a compartment in which essential processes such as gene transcription
and DNA replication occur. Although the large amount of chromatin confined in the finite …