Aptamers in RNA-based switches of gene expression

Spöring, Maike; Finke, Monika; Hartig, Jörg S.

doi:10.1016/j.copbio.2019.11.008

Cited by 28 publications

(20 citation statements)

References 47 publications

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“…with adjoining self-cleaving small ribozymes of natural origin (hammerhead, HDV, twister, pistol, etc.). [128][129][130] Such allosteric RNA devices are increasingly being regarded as effective tools for monitoring enzyme evolution, optimizing engineered metabolic pathways, modulating splicing, facilitating gene discovery, and as regulators of nucleic acid-based therapeutics, including next-generation gene therapy.…”

Section: Riboswitch Goes Ribozyme -And An Outlook On Non-protein Rna mentioning

confidence: 99%

Fundamental studies of functional nucleic acids: aptamers, riboswitches, ribozymes and DNAzymes

2020

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Section: Riboswitch Goes Ribozyme -And An Outlook On Non-protein Rna mentioning

confidence: 99%

Fundamental studies of functional nucleic acids: aptamers, riboswitches, ribozymes and DNAzymes

2020

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“…In fact, in addition to these artificial developments, nature also employs a similar strategy to transduce the ligand signals into nucleic acids. For instance, riboswitch, a typical example that has been widely discovered in cells, is a class of regulatory RNA aptamers in which ligand-induced strand displacement of nucleic acids can regulate specific gene expressions 29 , 56 , 57 . Not limited to aptamers, some other types of ligand-nucleic acid interactions can also function through the competition behavior to regulate the strand dynamics 58 .…”

Section: Introductionmentioning

confidence: 99%

“…Nucleic acid structures are highly dynamic and can be regulated by a variety of interacting ligands, including both small molecules and proteins. In some cases, ligand-binding can induce a conformational switch between different functional states of nucleic acids [28][29][30][31] . This is of particular significance as structural changes of nucleic acids may impact the strand binding and disassociation, which can be potentially employed in strand-displacement reactions 15,32,33 .…”

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confidence: 99%

A kinetically controlled platform for ligand-oligonucleotide transduction

et al. 2021

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Ligand-oligonucleotide transduction provides the critical pathway to integrate non-nucleic acid molecules into nucleic acid circuits and nanomachines for a variety of strand-displacement related applications. Herein, a general platform is constructed to convert the signals of ligands into desired oligonucleotides through a precise kinetic control. In this design, the ligand-aptamer binding sequence with an engineered duplex stem is introduced between the toehold and displacement domains of the invading strand to regulate the strand-displacement reaction. Employing this platform, we achieve efficient transduction of both small molecules and proteins orthogonally, and more importantly, establish logical and cascading operations between different ligands for versatile transduction. Besides, this platform is capable of being directly coupled with the signal amplification systems to further enhance the transduction performance. This kinetically controlled platform presents unique features with designing simplicity and flexibility, expandable complexity and system compatibility, which may pave a broad road towards nucleic acid-based developments of sophisticated transduction networks.

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“…We then review advances in expanding analyte sensing and mechanisms of action with engineered RNA. Recent reviews have comprehensively covered the topics of aptamer selection via systematic evolution of ligands by exponential enrichment (SELEX) 18 and mammalian post-transcriptional circuits 19 . Here, we examine novel strategies to create new ligand sensors and engineered RNAs that regulate diverse cellular processes.…”

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confidence: 99%