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Nucleic Acids Research Advance Access first published online on April 25, 2007
This version published online on May 5, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm202
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Chemistry

Chemical synthesis of a very long oligoribonucleotide with 2-cyanoethoxymethyl (CEM) as the 2'-O-protecting group: structural identification and biological activity of a synthetic 110mer precursor-microRNA candidate

Yoshinobu Shiba, Hirofumi Masuda, Naoki Watanabe, Takeshi Ego, Kazuchika Takagaki, Kouichi Ishiyama, Tadaaki Ohgi* and Junichi Yano

Discovery Research Laboratories, Nippon Shinyaku Co. Ltd, 3-14-1 Sakura, Tsukuba City, Ibaraki 305-0003, Japan

*To whom correspondence should be addressed. Tel: + 81-29-850-6243; Fax: + 81-29-850-6217; Email: t.ohgi{at}po.nippon-shinyaku.co.jp

Received February 13, 2007. Revised March 22, 2007. Accepted March 22, 2007.

A long RNA oligomer, a 110mer with the sequence of a precursor-microRNA candidate, has been chemically synthesized in a single synthesizer run by means of standard automated phosphoramidite chemistry. The synthetic method involved the use of 2-cyanoethoxymethyl (CEM), a 2'-hydroxyl protecting group recently developed in our laboratory. We improved the methodology, introducing better coupling and capping conditions. The overall isolated yield of highly pure 110mer was 5.5%. Such a yield on a 1-µmol scale corresponds to 1 mg of product and emphasizes the practicality of the CEM method for synthesizing oligomers of more than 100 nt in sufficient quantity for biological research. We confirmed the identity of the 110mer by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry, as well as HPLC, electrophoretic methods, and RNase-digestion experiments. The 110mer also showed sense-selective specific gene-silencing activity. As far as we know, this is the longest chemically synthesized RNA oligomer reported to date. Furthermore, the identity of the 110mer was confirmed by both physicochemical and biological methods.


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