Trioxsalen

Psoralens and their derivatives, such as trioxsalen, have unique crosslinking features to DNA. However, psoralen monomers do not have sequence‐specific crosslinking ability with the target DNA. With the development of psoralen‐conjugated oligonucleotides (Ps‐Oligos), sequence‐specific crosslinking with target DNA has become achievable, thereby expanding the application of psoralen‐conjugated molecules in gene transcription inhibition, gene knockout, and targeted recombination by genome editing. In this study, we developed two novel psoralen N‐hydroxysuccinimide (NHS) esters that allow the introduction of psoralens into any amino‐modified oligonucleotides. Quantitative evaluation of the photo‐crosslinking efficiencies of the Ps‐Oligos to target single‐stranded DNAs revealed that the crosslinking selectivity to 5‐mC is the unique feature of trioxsalen. We found that the introduction of an oligonucleotide via a linker at the C‐5 position of psoralen can promote favorable crosslinking to target double‐stranded DNA. We believe our findings are essential information for the development of Ps‐Oligos as novel gene regulation tools.

The online version contains supplementary material available at 10.1007/s12088-022-01044-7.