Improved siRNA/shRNA functionality by Mismatched duplex

21Citations
Citations of this article
52Readers
Mendeley users who have this article in their library.

Abstract

siRNA (small interfering RNA) and shRNA (small hairpin RNA) are powerful and commonly used tools in biomedical research. Currently, siRNAs are generally designed as two 21 nt strands of RNA that include a 19 nt completely complementary part and a 2 nt overhang. However, since the si/shRNAs use the endogenous miRNA machinery for gene silencing and the miRNAs are generally 22 nt in length and contain multiple internal mismatches, we tested if the functionality can be increased by designing the si/shRNAs to mimic a miRNA structure. We systematically investigated the effect of single or multiple mismatches introduced in the passenger strand at different positions on siRNA functionality. Mismatches at certain positions could significantly increase the functionality of siRNAs and also, in some cases decreased the unwanted passenger strand functionality. The same strategy could also be used to design shRNAs. Finally, we showed that both si and miRNA structured oligos (siRNA with or without mismatches in the passenger strand) can repress targets in all individual Ago containing cells, suggesting that the Ago proteins do not differentiate between si/miRNA-based structure for silencing activity. © 2011 Wu et al.

Cite

CITATION STYLE

APA

Wu, H., Ma, H., Ye, C., Ramirez, D., Chen, S., Montoya, J., … Manjunath, N. (2011). Improved siRNA/shRNA functionality by Mismatched duplex. PLoS ONE, 6(12). https://doi.org/10.1371/journal.pone.0028580

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Save time finding and organizing research with Mendeley

Sign up for free