Macromolecular Crowding and DNA: Bridging the Gap between In Vitro and In Vivo

Int J Mol Sci. 2023 Dec 15;24(24):17502. doi: 10.3390/ijms242417502.

Abstract

The cellular environment is highly crowded, with up to 40% of the volume fraction of the cell occupied by various macromolecules. Most laboratory experiments take place in dilute buffer solutions; by adding various synthetic or organic macromolecules, researchers have begun to bridge the gap between in vitro and in vivo measurements. This is a review of the reported effects of macromolecular crowding on the compaction and extension of DNA, the effect of macromolecular crowding on DNA kinetics, and protein-DNA interactions. Theoretical models related to macromolecular crowding and DNA are briefly reviewed. Gaps in the literature, including the use of biologically relevant crowders, simultaneous use of multi-sized crowders, empirical connections between macromolecular crowding and liquid-liquid phase separation of nucleic materials are discussed.

Keywords: DNA; bovine serum albumin (BSA); dextran; liquid–liquid phase separation (LLPS); macromolecular crowding; polyethylene glycol (PEG).

Publication types

  • Review

MeSH terms

  • DNA*
  • Macromolecular Substances
  • Thermodynamics

Substances

  • DNA
  • Macromolecular Substances