External Regulation of Hairpin Ribozyme Activity by an Oligonucleotide Effector

Vauléon, Stéphanie; Müller, Sabine

doi:10.1002/cbic.200390035

Cited by 18 publications

(15 citation statements)

References 30 publications

(14 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…396,397 Approaches for the direct detection of oligonucleotides without the requirement of any external labeling become increasingly important because they would allow for the analysis and quantification of a nucleic acid in an organism, cell, or tissue which is incompatible with extra chemical steps such as attachment of fluorophores or radioactive residues. 398 One of our aims, therefore, was to design allosteric hairpin ribozyme constructs allowing the direct detection of microRNAs 393 (miRNAs).…”

Section: Aptazymes Based On the Hairpin Ribozymementioning

confidence: 99%

Functional Aptamers and Aptazymes in Biotechnology, Diagnostics, and Therapy

2007

View full text Add to dashboard Cite

Introduction 3715 2. Aptamers 3717 2.1. Aptamers as Protein Detecting Reagents 3717 2.1.1. Aptamers in Standard Diagnostic Assays 3718 2.1.2. Aptamers as Capture Ligands 3719 2.2. Aptamers as Therapeutics 3720 3. Intramers 3724 3.1. Applications of Aptamers in Vivo 3724 3.1.1. Intracellular Expression 3724 3.1.2. Optimization Studies for in Vivo Applications 3726 3.2. Aptamers as Antiviral Agents 3726 3.3. Aptamers in Animal Models 3728 3.4. Aptamers as Delivery Molecules 3729 4. Allosteric Ribozymes and Riboswitches 3729 4.1. Aptamers and Aptazymes as Molecular Switches 3729 4.1.1. Aptazymes Based on the Hammerhead Ribozyme (HHR) 3730 4.1.2. Aptazymes Based on the Hairpin Ribozyme 3732 4.1.3. Aptazymes Based on Ligase Ribozymes 3733 4.1.4. Aptazymes Based on the Diels−Alderase Ribozyme 3734 4.2. Riboswitches: Natural Regulatory Aptamers 3734 4.3. Artificial Riboswitches 3735 4.4. Natural versus in Vitro Selected Aptamers 3735 5. Conclusion 3736 6. Acknowledgments 3737 7. References 3737

show abstract

Section: Aptazymes Based On the Hairpin Ribozymementioning

confidence: 99%

Functional Aptamers and Aptazymes in Biotechnology, Diagnostics, and Therapy

2007

View full text Add to dashboard Cite

show abstract

“…Previously, we have shown that hairpin ribozyme activity can be allosterically controlled by external cofactors. 79,80 Therefore, a possible scenario of hairpin ribozyme supported RNA circularization could exist of enzymatic or chemical synthesis of linear precursors containing the hairpin ribozyme structure at the ligation junction, but requiring an additional cofactor, such as an oligonucleotide effector or an allosteric activator, for induction of ligation. After reaction, the cofactor can be removed, thus switching off hairpin ribozyme activity and leaving behind the ligated RNA as stable circle.…”

Section: Ribozymes For Rna Circularizationmentioning

confidence: 99%

In vitro circularization of RNA

Müller

Appel

2016

RNA Biology

Self Cite

View full text Add to dashboard Cite

Over the past 2 decades, different types of circular RNAs have been discovered in all kingdoms of life, and apparently, those circular species are more abundant than previously thought. Apart from circRNAs in viroids and viruses, circular transcripts have been discovered in rodents more than 20 y ago and recently have been reported to be abundant in many organisms including humans. Their exact function remains still unknown, although one may expect extensive functional studies to follow the currently dominant research into identification and discovery of circRNA by sophisticated sequencing techniques and bioinformatics. Functional studies require models and as such methods for preparation of circRNA in vitro. Here, we will review current protocols for RNA circularization and discuss future prospects in the field.Abbreviations: AMP, adenosine monophosphate; AppRNA, 5 0 -adenylated RNA; ATP, adenosine triphosphate; bp, base pair; CEV-A, citrus exocortis viroid strain A; circRNA, circular RNA; ciRNA, circular intronic RNA; CuAAC, cupper catalyzed azide alkyne cycloaddition; EDC, ethyl-3-(3 0 -dimethylaminopropyl)-carbodiimide; HIV, human immunodeficiency virus; IEciRNA, intron-exon circular RNA; nt, nucleotide; PIE, permuted intron exon; T4 Dnl, T4 DNA Ligase; T4 Rnl, T4 RNA Ligase

show abstract

“…These reporter ribozymes join other ribozymes that report nucleic acids. [83][84][85][86] They are entirely RNAbased and thus could be expressed endogenously, requiring only the addition of the short substrate oligonucleotide to report the presence of a certain miRNA in an in vivo context.…”

Section: Aptamers As Probes For Screening Approachesmentioning

confidence: 99%