Hybridization kinetics of out-of-equilibrium mixtures of short RNA oligonucleotides.

ABSTRACT: Hybridization and strand displacement kinetics determine the evolution of the base paired configurations of mixtures of oligonucleotides over time. Although much attention has been focused on the thermodynamics of DNA and RNA base pairing in the scientific literature, much less work has been done on the time dependence of interactions involving multiple strands, especially in RNA. Here we provide a study of oligoribonucleotide interaction kinetics and show that it is possible to calculate the association, dissociation and strand displacement rates displayed by short oligonucleotides (5nt-12nt) that exhibit no expected secondary structure as simple functions of oligonucleotide length, CG content, ΔG of hybridization and ΔG of toehold binding. We then show that the resultant calculated kinet

SUBMITTER: Todisco M 

PROVIDER: S-EPMC9508827 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature