Tricyclic cytosines (tC and tCO frameworks) have emerged as a
unique class of fluorescent nucleobase analogues that minimally perturb the
structure of B-form DNA and that are not quenched in duplex nucleic acids.
Systematic derivatization of these frameworks is a likely approach to improve on
and diversify photophysical properties, but has not so far been examined.
Synthetic methods were refined to improve on tolerance for electron donating and
electron withdrawing groups, resulting in a series of eight new, fluorescent
cytidine analogues. Photophysical studies show that substitution of the
framework results in a pattern of effects largely consistent across tC and
tCO and provides nucleoside fluorophores that are brighter than
either parent. Moreover, a range of solvent sensitivities is observed, offering
promise that this family of probes can be extended to new applications that
require reporting on the local environment.
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