In vitro selection of RNA aptamers that bind to domain II of HCV IRES.
The translation of HCV starts at the internal ribosomal entry site (IRES) within the 5' untranslated region and domain II of IRES is essential for translation activity. However, the information of function is limited. We attempted to obtain RNA that bind HCV IRES domain II. Selected aptamers will give us much information, such as RNA-RNA interaction between IRES and other cellular RNAs as well as target sites for anti-HCV drugs. We developed a novel selection method using biotinylated DNA probe. This method can be applied to many RNAs and would identify the most suitable target position experimentally and simply. The binding kinetics of aptamers were analyzed by using Biacore. Furthermore, inhibition of translation by aptamers was analyzed.
Kikuchi
Kunio
K
Institute of Molecular and Cell Biology, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki 305-8566, Japan.
Fukuda
Kotaro
K
Umehara
Takuya
T
Hwang
Joonsung
J
Kuno
Atsushi
A
Hasegawa
Tsunemi
T
Nishikawa
Satoshi
S
D001483:Base Sequence; D001710:Biotin / Q000378:metabolism; D015342:DNA Probes; D016174:Hepacivirus / Q000235:genetics*; D007700:Kinetics; D012313:RNA / Q000737:chemistry* / Q000378:metabolism; D012270:Ribosomes / Q000235:genetics* / Q000378:metabolism
D015342:DNA Probes; D012313:RNA; D001710:Biotin