Preparation of a Conditional RNA Switch

Paul Zakrevsky; Lorena Parlea; Mathias Viard; Eckart Bindewald; Kirill A Afonin; Bruce A Shapiro

doi:10.1007/978-1-4939-7138-1_20

Preparation of a Conditional RNA Switch

Methods Mol Biol. 2017:1632:303-324. doi: 10.1007/978-1-4939-7138-1_20.

Authors

Paul Zakrevsky¹, Lorena Parlea¹, Mathias Viard^{2

3}, Eckart Bindewald⁴, Kirill A Afonin^{5

6}, Bruce A Shapiro⁷

Affiliations

¹ RNA Structure and Design Section, RNA Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA.
² RNA Structure and Design Section, RNA Biology Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA.
³ Leidos Biomedical Research Inc., Center for Cancer Research, National Cancer Institute, National Institutes of Health, Frederick, MD, USA.
⁴ Frederick National Laboratory for Cancer Research, Leidos Biomedical Research, Frederick, MD, USA.
⁵ Nanoscale Science Program, Department of Chemistry, University of North Carolina at Charlotte, Charlotte, NC, 28223, USA.
⁶ The Center for Biomedical Engineering and Science, University of North Carolina at Charlotte, Charlotte, NC, 28223, USA.
⁷ RNA Structure and Design Section, RNA Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA. shapirbr@mail.nih.gov.

Abstract

RNA has gained great interest for use in biomedical and therapeutic applications. This is due in part to RNA's ability to perform multiple functions, including the regulation of endogenously expressed genes. However, the ability of RNA based drugs to distinguish target diseased cells from healthy tissue remains challenging. Here we present methods for the production of a recently developed conditional RNA switch that releases a Dicer substrate RNA in response to interaction with a specific RNA biomarker.

Keywords: Conditional RNA; Nanomedicine; Nanotechnology; RNA; RNA switch; RNase H; Toehold.

Publication types

Research Support, N.I.H., Extramural
Research Support, N.I.H., Intramural

MeSH terms

Cell Line, Tumor
Electrophoresis, Polyacrylamide Gel
Gene Knockdown Techniques
Gene Silencing
Humans
Nanomedicine
Nanotechnology
Nucleic Acid Conformation
RNA / chemistry
RNA / genetics*
Ribonuclease H / chemistry
Ribonuclease H / metabolism
Riboswitch*

Substances

Riboswitch
RNA
Ribonuclease H

Abstract

Publication types

MeSH terms

Substances

Grants and funding