Single-molecule localization microscopy

M Lelek, MT Gyparaki, G Beliu, F Schueder… - Nature reviews …, 2021 - nature.com
Single-molecule localization microscopy (SMLM) describes a family of powerful imaging
techniques that dramatically improve spatial resolution over standard, diffraction-limited …

Chromatin accessibility: methods, mechanisms, and biological insights

AR Mansisidor, VI Risca - Nucleus, 2022 - Taylor & Francis
Access to DNA is a prerequisite to the execution of essential cellular processes that include
transcription, replication, chromosomal segregation, and DNA repair. How the proteins that …

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 …

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 …

Fluorescent protein lifetimes report densities and phases of nuclear condensates during embryonic stem-cell differentiation

K Joron, JO Viegas, L Haas-Neill, S Bier, P Drori… - Nature …, 2023 - nature.com
Fluorescent proteins (FP) are frequently used for studying proteins inside cells. In advanced
fluorescence microscopy, FPs can report on additional intracellular variables. One variable …

Transcription dynamics and genome organization in the mammalian nucleus: Recent advances

K Wagh, DA Stavreva, GL Hager - Molecular Cell, 2024 - cell.com
Single-molecule tracking (SMT) has emerged as the dominant technology to investigate the
dynamics of chromatin-transcription factor (TF) interactions. How long a TF needs to bind to …

Single-nucleosome imaging reveals steady-state motion of interphase chromatin in living human cells

S Iida, S Shinkai, Y Itoh, S Tamura, MT Kanemaki… - Science …, 2022 - science.org
Dynamic chromatin behavior plays a critical role in various genome functions. However, it
remains unclear how chromatin behavior changes during interphase, where the nucleus …

Dynamic switching of transcriptional regulators between two distinct low-mobility chromatin states

K Wagh, DA Stavreva, RAM Jensen, V Paakinaho… - Science …, 2023 - science.org
How chromatin dynamics relate to transcriptional activity remains poorly understood. Using
single-molecule tracking, coupled with machine learning, we show that histone H2B and …

In diverse conditions, intrinsic chromatin condensates have liquid-like material properties

BA Gibson, C Blaukopf, T Lou, L Chen… - Proceedings of the …, 2023 - National Acad Sciences
Nuclear DNA in eukaryotes is wrapped around histone proteins to form nucleosomes on a
chromatin fiber. Dynamic folding of the chromatin fiber into loops and variations in the …

Physical nature of chromatin in the nucleus

K Maeshima, S Iida, S Tamura - Cold Spring Harbor …, 2021 - cshperspectives.cshlp.org
Genomic information is encoded on long strands of DNA, which are folded into chromatin
and stored in a tiny nucleus. Nuclear chromatin is a negatively charged polymer composed …