Mapping nucleosome-resolution chromatin organization and enhancer-promoter loops in plants using Micro-C-XL

L Sun, J Zhou, X Xu, Y Liu, N Ma, Y Liu, W Nie… - Nature …, 2024 - nature.com
Although chromatin organizations in plants have been dissected at the scales of
compartments and topologically associating domain (TAD)-like domains, there remains a …

[HTML][HTML] Interphase chromatin biophysics and mechanics: new perspectives and open questions

A Coulon - Current Opinion in Genetics & Development, 2025 - Elsevier
The physical organization and properties of chromatin within the interphase nucleus are
intimately linked to a wide range of functional DNA-based processes. In this context …

Transcriptional machinery as an architect of genome structure

NA Fursova, DR Larson - Current Opinion in Structural Biology, 2024 - Elsevier
Chromatin organization, facilitated by compartmentalization and loop extrusion, is crucial for
proper gene expression and cell viability. Transcription has long been considered important …

[HTML][HTML] Dynamics of microcompartment formation at the mitosis-to-G1 transition

VY Goel, NG Aboreden, JM Jusuf, H Zhang, LP Mori… - BioRxiv, 2024 - pmc.ncbi.nlm.nih.gov
As cells exit mitosis and enter G1, mitotic chromosomes decompact and transcription is
reestablished. Previously, Hi-C studies showed that essentially all interphase 3D genome …

Chromatin folding through nonuniform motorization by responsive motor proteins

Z Cao, PG Wolynes - The Journal of Chemical Physics, 2024 - pubs.aip.org
Chromatin is partially structured through the effects of biological motors.“Swimming motors”
such as RNA polymerases and chromatin remodelers are thought to act differentially on the …

[HTML][HTML] DNA Gene's Basic Structure as a Nonperturbative Circuit Quantum Electrodynamics: Is RNA Polymerase II the Quantum Bus of Transcription?

R Riera Aroche, YM Ortiz García… - Current issues in …, 2024 - mdpi.com
Previously, we described that Adenine, Thymine, Cytosine, and Guanine nucleobases were
superconductors in a quantum superposition of phases on each side of the central hydrogen …

Micro-C reveals MORC/ApiAP2-mediated links between distant, functionally related genes in the human malaria parasite

P Singh, J Serizay, J Couble, MD Cabahug, C Rosa… - bioRxiv, 2024 - biorxiv.org
Genome organization plays a significant role in silencing heterochromatinized genes in the
most virulent human malaria parasite, Plasmodium falciparum. However, it remains unclear …

Entropic organization of topologically modified ring polymers in spherical confinement

K Roychoudhury, S Pande, IS Shashank… - arXiv preprint arXiv …, 2025 - arxiv.org
It has been shown that under high cylindrical confinement, two ring polymers with excluded
volume interactions between monomers, segregate to two halves of the cylinder to maximize …

The genome in space and time comes of age

M Rey-Millet, K Bystricky… - 2024 - Taylor & Francis
ABSTRACT DNA sequencing is not enough to grasp the complexity of genome organization
and function. The four-dimensional (three in space, one in time) configuration of the …

Condensin loop extrusion properties, roadblocks, and role in homology search in S. cerevisiae

V Piveteau, H Salari, A Dumont, J Savocco, C Dupont… - bioRxiv, 2024 - biorxiv.org
The in vivo mechanism, regulations by cis-acting roadblocks, and biological functions of
loop extrusion by eukaryotic SMC complexes are incompletely defined. Here, using Hi-C, we …