SsDNA Pairing Accuracy Increases When Abasic Sites Divide Nucleotides into Small Groups.

ABSTRACT: Accurate sequence dependent pairing of single-stranded DNA (ssDNA) molecules plays an important role in gene chips, DNA origami, and polymerase chain reactions. In many assays accurate pairing depends on mismatched sequences melting at lower temperatures than matched sequences; however, for sequences longer than ~10 nucleotides, single mismatches and correct matches have melting temperature differences of less than 3°C. We demonstrate that appropriately grouping of 35 bases in ssDNA using abasic sites increases the difference between the melting temperature of correct bases and the melting temperature of mismatched base pairings. Importantly, in the presence of appropriately spaced abasic sites mismatches near one end of a long dsDNA destabilize the annealing at the other end much more eff

SUBMITTER: Peacock-Villada A 

PROVIDER: S-EPMC4482597 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature