title: Synthesis of terminally modified oligonucleotides and their hybridization dependence on the size of the target RNAs.
abstract: We have developed new artificial oligonucleotide probes that show selective recognition for short RNA targets over long RNA targets. Our results suggested that modification of the termini of the oligonucleotide probes by bulky substituents such as cyclohexyl and 4-(3,6,9-trioxaundecylenedioxy)phenyl (Bzcr) groups significantly improved the selectivity of the probes toward the short RNA targets. The selectivity was further improved by the addition of a phosphate group on the cyclohexane ring. Although much improved selectivity toward short RNA targets is desirable in a general sense, it is particularly applicable to the selective detection of matured-miRNA over pre-miRNAs.
authors.affiliation: Department of Life Science, Tokyo Institute of Technology, 4259 Nagatsuka, Midori-ku, Yokohama, 226-8501, Japan. kseio@bio.titech.ac.jp
authors.forename: Kohji
authors.initials: K
authors.lastname: Seio
authors.forename: Yusuke
authors.initials: Y
authors.lastname: Takaku
authors.forename: Kazuya
authors.initials: K
authors.lastname: Miyazaki
authors.forename: Sayako
authors.initials: S
authors.lastname: Kurohagi
authors.forename: Yoshiaki
authors.initials: Y
authors.lastname: Masaki
authors.forename: Akihiro
authors.initials: A
authors.lastname: Ohkubo
authors.forename: Mitsuo
authors.initials: M
authors.lastname: Sekine
mesh_terms: D003562:Cytidine / Q000031:analogs & derivatives* / Q000138:chemical synthesis / Q000737:chemistry; D003839:Deoxyadenosines / Q000138:chemical synthesis* / Q000737:chemistry; D035683:MicroRNAs / Q000378:metabolism; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D009693:Nucleic Acid Hybridization; D009841:Oligonucleotides / Q000138:chemical synthesis* / Q000737:chemistry / Q000378:metabolism*; D009943:Organophosphorus Compounds / Q000138:chemical synthesis* / Q000737:chemistry; D012313:RNA / Q000378:metabolism*; D013329:Structure-Activity Relationship; D013816:Thermodynamics
chemical_list: D003839:Deoxyadenosines; D035683:MicroRNAs; D009841:Oligonucleotides; D009943:Organophosphorus Compounds; D003562:Cytidine; D012313:RNA