Synthesis of terminally modified oligonucleotides and their hybridization dependence on the size of the target RNAs.
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.
Seio
Kohji
K
Department of Life Science, Tokyo Institute of Technology, 4259 Nagatsuka, Midori-ku, Yokohama, 226-8501, Japan. kseio@bio.titech.ac.jp
Takaku
Yusuke
Y
Miyazaki
Kazuya
K
Kurohagi
Sayako
S
Masaki
Yoshiaki
Y
Ohkubo
Akihiro
A
Sekine
Mitsuo
M
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
D003839:Deoxyadenosines; D035683:MicroRNAs; D009841:Oligonucleotides; D009943:Organophosphorus Compounds; D003562:Cytidine; D012313:RNA