title: Sequence-specific RNA Photocleavage by Single-stranded DNA in Presence of Riboflavin.
abstract: Constant efforts have been made to develop new method to realize sequence-specific RNA degradation, which could cause inhibition of the expression of targeted gene. Herein, by using an unmodified short DNA oligonucleotide for sequence recognition and endogenic small molecule, vitamin B2 (riboflavin) as photosensitizer, we report a simple strategy to realize the sequence-specific photocleavage of targeted RNA. The DNA strand is complimentary to the target sequence to form DNA/RNA duplex containing a G • U wobble in the middle. The cleavage reaction goes through oxidative elimination mechanism at the nucleoside downstream of U of the G • U wobble in duplex to obtain unnatural RNA terminal, and the whole process is under tight control by using light as switch, which means the cleavage could be carried out according to specific spatial and temporal requirements. The biocompatibility of this method makes the DNA strand in combination with riboflavin a promising molecular tool for RNA manipulation.
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Yongyun
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Gangyi
authors.initials: G
authors.lastname: Chen
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Yi
authors.initials: Y
authors.lastname: Yuan
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Na
authors.initials: N
authors.lastname: Li
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Juan
authors.initials: J
authors.lastname: Dong
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Xin
authors.initials: X
authors.lastname: Huang
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Xin
authors.initials: X
authors.lastname: Cui
authors.affiliation: Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences. Chengdu 610041, P.R. China.
authors.forename: Zhuo
authors.initials: Z
authors.lastname: Tang
mesh_terms: D001483:Base Sequence / Q000528:radiation effects; D001665:Binding Sites / Q000528:radiation effects; D004247:DNA / Q000737:chemistry* / Q000528:radiation effects; D008027:Light; D008969:Molecular Sequence Data; D017319:Photosensitizing Agents / Q000737:chemistry* / Q000528:radiation effects; D012313:RNA / Q000737:chemistry* / Q000528:radiation effects; D012256:Riboflavin / Q000737:chemistry* / Q000528:radiation effects; D013329:Structure-Activity Relationship
chemical_list: D017319:Photosensitizing Agents; D012313:RNA; D004247:DNA; D012256:Riboflavin