Comparison of the duplex-destabilizing effects of nucleobase-caged oligonucleotides

Nucleobase-caged oligonucleotide residues have photolabile “caging groups” that prevent the formation of Watson-Crick base pairs until the unmodified nucleobase is restored in a photolysis event. This principle can be used to put a growing variety of powerful nucleic acid-based applications under th...

Full description

Saved in:
Bibliographic Details
Published in:Analytical and bioanalytical chemistry 2011, Vol.399 (1), p.441-447
Main Authors: Rodrigues-Correia, Alexandre, Koeppel, Martin B, Schäfer, Florian, Joshi, K. B, Mack, Timo, Heckel, Alexander
Format: Article
Language:English
Subjects:
Analysis
Analytical Chemistry
Base Sequence
Biochemistry
Biological and medical sciences
Caged compounds
Characterization and Evaluation of Materials
Chemical properties
Chemistry
Chemistry and Materials Science
DNA duplex melting temperature
DNA duplex stability
Exact sciences and technology
Food Science
Fundamental and applied biological sciences. Psychology
Irradiation
Laboratory Medicine
Measurement
Melting points
Methods
Molecular and cellular biology
Molecular genetics
Molecular Sequence Data
Monitoring/Environmental Analysis
Nucleic Acid Conformation
Nucleic acids
Oligonucleotides
Oligonucleotides - chemistry
Optical properties
Original Paper
Physiological aspects
Spectrum analysis
Stability
Structure
Transcription. Transcription factor. Splicing. Rna processing
Transition Temperature
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Nucleobase-caged oligonucleotide residues have photolabile “caging groups” that prevent the formation of Watson-Crick base pairs until the unmodified nucleobase is restored in a photolysis event. This principle can be used to put a growing variety of powerful nucleic acid-based applications under the precise spatiotemporal control using light as an addressing mechanism. Examples for applications include light control of transcription, RNAi, nucleic acid folding, primer extension, and restriction endonuclease as well as DNAzyme, aptamer, and antisense activity. However, a comparison of the duplex-destabilization properties of the various caged residues that have been used up to date and rules for achieving a maximal duplex destabilization with a minimum amount of modified residues are still missing. We present both a comparison of the duplex-destabilizing capabilities of various nucleobase-caged residues and address the question of influence on neighboring base pairs. [graphic removed]
ISSN:1618-2642
1618-2650
DOI:10.1007/s00216-010-4274-7