Polymers under confinement: single polymers, how they interact, and as model chromosomes

BY Ha, Y Jung - Soft Matter, 2015 - pubs.rsc.org
How confinement or a physical constraint modifies polymer chains is not only a classical
problem in polymer physics but also relevant in a variety of contexts such as single-molecule …

Physical manipulation of the Escherichia coli chromosome reveals its soft nature

J Pelletier, K Halvorsen, BY Ha… - Proceedings of the …, 2012 - National Acad Sciences
Replicating bacterial chromosomes continuously demix from each other and segregate
within a compact volume inside the cell called the nucleoid. Although many proteins …

Compaction of bacterial genomic DNA: clarifying the concepts

M Joyeux - Journal of Physics: Condensed Matter, 2015 - iopscience.iop.org
The unconstrained genomic DNA of bacteria forms a coil, whose volume exceeds 1000
times the volume of the cell. Since prokaryotes lack a membrane-bound nucleus, in sharp …

A statistical theory of globular polyelectrolyte complexes

VY Borue, IY Erukhimovich - Macromolecules, 1990 - ACS Publications
A microscopic statistical theory of a symmetrical polyelectrolyte complex (PEC) is developed.
PEC is shown to form a polymer globule. The equilibrium density of PEC, the width of a PEC …

Effects of macromolecular crowding on the collapse of biopolymers

H Kang, PA Pincus, C Hyeon, D Thirumalai - Physical review letters, 2015 - APS
Experiments show that macromolecular crowding modestly reduces the size of intrinsically
disordered proteins even at a volume fraction (ϕ) similar to that in the cytosol, whereas DNA …

Effects of long DNA folding and small RNA stem–loop in thermophoresis

YT Maeda, T Tlusty… - Proceedings of the …, 2012 - National Acad Sciences
In thermophoresis, with the fluid at rest, suspensions move along a gradient of temperature.
In an aqueous solution, a PEG polymer suspension is depleted from the hot region and …

A polymer in a crowded and confined space: effects of crowder size and poly-dispersity

J Kim, C Jeon, H Jeong, Y Jung, BY Ha - Soft Matter, 2015 - pubs.rsc.org
DNA compaction in a bacterial cell is in part carried out by entropic (depletion) forces
induced by “free” proteins or crowding particles in the cytoplasm. Indeed, recent in vitro …

Structure of collapsed persistent macromolecule: Toroid vs. spherical globule

VV Vasilevskaya, AR Khokhlov… - Biopolymers …, 1997 - Wiley Online Library
We studied theoretically the behavior of a collapsed persistent macromolecule in poor
solvent as a model of collapse transition of single double‐stranded DNA chain, and …

[HTML][HTML] Na+ shows a markedly higher potential than K+ in DNA compaction in a crowded environment

AA Zinchenko, K Yoshikawa - Biophysical journal, 2005 - cell.com
Whereas many physicochemical investigations have shown that among monovalent cations
Na+ ion possesses minimal potential for DNA binding, biological assays have shown that …

Invited Article Liquid-crystalline dispersions of nucleic acids

YM Yevdokimov, SG Skuridin, GB Lortkipanidze - Liquid Crystals, 1992 - Taylor & Francis
The formation and properties of dispersions of double stranded natural and synthetic nucleic
acids are described. Evidence is given for the liquid-crystalline state of the nucleic acid …