Transcription-driven genome organization: a model for chromosome structure and the regulation of gene expression tested through simulations

PR Cook, D Marenduzzo - Nucleic acids research, 2018 - academic.oup.com
Current models for the folding of the human genome see a hierarchy stretching down from
chromosome territories, through A/B compartments and topologically-associating domains …

Real-time imaging of DNA loop extrusion by condensin

M Ganji, IA Shaltiel, S Bisht, E Kim, A Kalichava… - Science, 2018 - science.org
It has been hypothesized that SMC protein complexes such as condensin and cohesin
spatially organize chromosomes by extruding DNA into large loops. We directly visualized …

Emerging evidence of chromosome folding by loop extrusion

G Fudenberg, N Abdennur, M Imakaev… - Cold Spring Harbor …, 2017 - symposium.cshlp.org
Chromosome organization poses a remarkable physical problem with many biological
consequences: How can molecular interactions between proteins at the nanometer scale …

SMC5/6: multifunctional player in replication

JJ Palecek - Genes, 2018 - mdpi.com
The genome replication process is challenged at many levels. Replication must proceed
through different problematic sites and obstacles, some of which can pause or even reverse …

The condensin holocomplex cycles dynamically between open and collapsed states

JK Ryu, AJ Katan, EO van der Sluis, T Wisse… - Nature structural & …, 2020 - nature.com
Structural maintenance of chromosome (SMC) protein complexes are the key organizers of
the spatiotemporal structure of chromosomes. The condensin SMC complex has recently …

Force spectroscopy on single molecules of life

SS Mandal - ACS omega, 2020 - ACS Publications
Biomolecules such as nucleic acids and proteins constitute the cells and its organelles that
form the crucial components in all living organisms. They are associated with a variety of …

Genetic conflicts in budding yeast: The 2μ plasmid as a model selfish element

M Hays - Seminars in Cell & Developmental Biology, 2024 - Elsevier
Antagonistic coevolution, arising from genetic conflict, can drive rapid evolution and
biological innovation. Conflict can arise both between organisms and within genomes. This …

[PDF][PDF] Structure-function relationships of SMC protein complexes for DNA loop extrusion

H Lee, H Noh, JK Ryu - BioDesign, 2021 - scholar.archive.org
SMC complexes are believed to be key universal mechanochemical motor proteins that
extrude DNA loops processively using ATP hydrolysis, contributing to macroscale …

Escherichia coli CrfC Protein, a Nucleoid Partition Factor, Localizes to Nucleoid Poles via the Activities of Specific Nucleoid-Associated Proteins

S Taniguchi, K Kasho, S Ozaki… - Frontiers in microbiology, 2019 - frontiersin.org
The Escherichia coli CrfC protein is an important regulator of nucleoid positioning and
equipartition. Previously we revealed that CrfC homo-oligomers bind the clamp, a DNA …

AFM images of open and collapsed states of yeast condensin suggest a scrunching model for DNA loop extrusion

JK Ryu, AJ Katan, EO van der Sluis, T Wisse… - BioRxiv, 2019 - biorxiv.org
SUMMARY Structural Maintenance of Chromosome (SMC) protein complexes are the key
organizers of the spatiotemporal structure of chromosomes. The condensin SMC complex …