title: Macromolecular crowding impacts on the diffusion and conformation of DNA hairpins.
abstract: Biochemical reactions in crowded fluids differ significantly from those in dilute solutions. Both, excluded-volume interactions with surrounding macromolecules ("crowders") and an enhanced rebinding of reaction partners due to crowding-induced viscoelasticity and subdiffusion have been hypothesized to shift chemical equilibria towards the associated state. We have explored the impact of both cues in an experimentally tunable system by monitoring the steady-state fraction of open DNA hairpins in crowded fluids with varying viscoelastic characteristics but similar occupied volume fractions. As a result, we observed an increased fraction of closed DNA hairpins in viscoelastic crowded fluids. Our observations compare favorably to a simple statistical model that considers both facets of crowding, while preferential interactions between crowders and DNA hairpins appear to have little influence.
authors: Experimental Physics I, University of Bayreuth, Universitätsstrasse 30, D-95440 Bayreuth, Germany.
authors: Olivia
authors: O
authors: Stiehl
authors: Experimental Physics I, University of Bayreuth, Universitätsstrasse 30, D-95440 Bayreuth, Germany.
authors: Kathrin
authors: K
authors: Weidner-Hertrampf
authors: Experimental Physics I, University of Bayreuth, Universitätsstrasse 30, D-95440 Bayreuth, Germany.
authors: Matthias
authors: M
authors: Weiss
mesh_terms: D004247:DNA / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D004058:Diffusion; D004548:Elasticity; D055029:Inverted Repeat Sequences; D009690:Nucleic Acid Conformation; D012212:Rheology; D014783:Viscosity
chemical_list: D004247:DNA