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General Approach for Introduction of Various Chemical Labels in Specific RNA Locations Based on Insertion of Amino Linkers
Laboratory of Ribosome Structure and Functions, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Prospect Lavrentieva 8, Novosibirsk 630090, Russia
Department of Molecular Biology, Novosibirsk State University, Ul. Pirogova 2, Novosibirsk 630090, Russia
* Author to whom correspondence should be addressed.
Received: 8 October 2013; in revised form: 12 November 2013 / Accepted: 18 November 2013 / Published: 25 November 2013
Abstract: Introduction of reporter groups at designed RNA sites is a widely accepted approach to gain information about the molecular environment of RNAs in their complexes with other biopolymers formed during various cellular processes. A general approach to obtain RNAs bearing diverse reporter groups at designed locations is based on site-specific insertion of groups containing primary aliphatic amine functions (amino linkers) with their subsequent selective derivatization by appropriate chemicals. This article is a brief review on methods for site-specific introduction of amino linkers in different RNAs. These methods comprise: (i) incorporation of a nucleoside carrying an amino-linker or a function that can be substituted with it into oligoribonucleotides in the course of their chemical synthesis; (ii) assembly of amino linker-containing RNAs from short synthetic fragments via their ligation; (iii) synthesis of amino linker-modified RNAs using T7 RNA polymerase; (iv) insertion of amino linkers into unmodified RNAs at functional groups of a certain type such as the 5'-phosphates and N7 of guanosine residues and (v) introduction of an amino linker into long highly structured RNAs exploiting an approach based on sequence-specific modification of nucleic acids. Particular reporter groups used for derivatization of amino linker-containing RNAs together with types of RNA derivatives obtained and fields of their application are presented.
Keywords: ribonucleic acids; amino linkers; chemical synthesis; sequence-specific modification; reporter groups
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Graifer, D.; Karpova, G. General Approach for Introduction of Various Chemical Labels in Specific RNA Locations Based on Insertion of Amino Linkers. Molecules 2013, 18, 14455-14469.
Graifer D, Karpova G. General Approach for Introduction of Various Chemical Labels in Specific RNA Locations Based on Insertion of Amino Linkers. Molecules. 2013; 18(12):14455-14469.
Graifer, Dmitri; Karpova, Galina. 2013. "General Approach for Introduction of Various Chemical Labels in Specific RNA Locations Based on Insertion of Amino Linkers." Molecules 18, no. 12: 14455-14469.