title: Analysis of small interfering RNA by capillary electrophoresis in hydroxyethylcellulose solutions.
abstract: The analysis of small interfering RNA (siRNA) is important for gene function studies and drug developments. We employed CE to study the separation of siRNA ladder marker, which were ten double-stranded RNA (dsRNA) fragments ranged from 20 to 1000 bp, in solutions of hydroxyethylcellulose (HEC) polymer with different concentrations and molecular weights (Mws). Migration mechanism of dsRNA during CE was studied by the mobility and resolution length (RL) plots. We found that the RL depended on not only the concentration of HEC, but also the Mw of HEC. For instance, RL of small dsRNA fragment was more influenced by concentration of high Mw HEC than large dsRNA fragment and RL of large dsRNA fragment was more influenced by concentration of low Mw HEC than small dsRNA fragment. In addition, we found electrophoretic evidence that the structure of dsRNA was more compact than dsDNA with the same length. In practice, we succeeded to separate the glyceraldehyde 3-phosphate dehydrogenase siRNA in the mixture of the siRNA ladder marker within 4 min.
authors: Engineering Research Center of Optical Instrument and System, University of Shanghai for Science and Technology, Shanghai, P. R. China.
authors: Chenchen
authors: C
authors: Liu
authors: Institute of Photonics and Biomedicine (IPBM), Graduate School of Science, East China University of Science and Technology (ECUST), Shanghai, P. R. China.|Department of Applied Physics, Graduate School of Engineering, Osaka University, Yamadaoka, Suita-city, Osaka, Japan.
authors: Yoshinori
authors: Y
authors: Yamaguchi
authors: School of Optoelectronic Engineering, Changzhou Institute of Technology, Changzhou, Jiangsu, P. R. China.
authors: Xifang
authors: X
authors: Zhu
authors: Engineering Research Center of Optical Instrument and System, University of Shanghai for Science and Technology, Shanghai, P. R. China.
authors: Zhenqing
authors: Z
authors: Li
authors: Institute of Photonics and Biomedicine (IPBM), Graduate School of Science, East China University of Science and Technology (ECUST), Shanghai, P. R. China.
authors: Yi
authors: Y
authors: Ni
authors: Institute of Photonics and Biomedicine (IPBM), Graduate School of Science, East China University of Science and Technology (ECUST), Shanghai, P. R. China.|School of Optoelectronic Engineering, Changzhou Institute of Technology, Changzhou, Jiangsu, P. R. China.
authors: Xiaoming
authors: X
authors: Dou
mesh_terms: D002482:Cellulose / Q000031:analogs & derivatives / Q000737:chemistry; D019075:Electrophoresis, Capillary / Q000379:methods*; D034741:RNA, Small Interfering / Q000737:chemistry*; D012996:Solutions
chemical_list: D034741:RNA, Small Interfering; D012996:Solutions; D002482:Cellulose; C002283:hydroxyethylcellulose
keywords: Capillary electrophoresis; Hydroxyethylcellulose; double-stranded DNA; double-stranded RNA; small interfering RNA