Aptamer-Mediated Control of Polyadenylation for Gene Expression Regulation in Mammalian Cells

Spöring, Maike; Boneberg, Ronja; Hartig, Jörg S.

doi:10.1021/acssynbio.0c00222

Cited by 24 publications

(16 citation statements)

References 49 publications

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“…Several groups have developed riboswitches which regulate eukaryote-specific steps in mRNA processing (Figure 1). A notable example is provided in a recent publication by Spöring et al, who reported 5.2-fold suppression of reporter gene expression in human cells mediated by ligand-induced sequestration of the eukaryotic polyadenylation signal (Figure 1a) [66]. This switch was combined synergistically with other regulators such as miRNAs or aptazyme riboswitches to achieve higher regulatory ranges.…”

Section: Riboswitches Regulating Mrna Processingmentioning

confidence: 94%

“…(a) Regulation of polyadenylation.In the absence of ligand, the polyadenylation site (PAS, orange) is bound by the polyadenylation complex (orange), which removes a downstream miRNA target site (miR-T, red) and adds a poly-A tail to enable expression. Ligand binding (purple) to an aptamer domain (blue) sequesters the PAS, blocking processing and promoting mRNA degradation by exonucleases and miRNA-induced silencing[66]. (b) Regulation of splicing by ligand-induced exon skipping.…”

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confidence: 99%

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Riboswitches for Controlled Expression of Therapeutic Transgenes Delivered by Adeno-Associated Viral Vectors

Tickner

Farzan

2021

Pharmaceuticals

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Vectors developed from adeno-associated virus (AAV) are powerful tools for in vivo transgene delivery in both humans and animal models, and several AAV-delivered gene therapies are currently approved for clinical use. However, AAV-mediated gene therapy still faces several challenges, including limited vector packaging capacity and the need for a safe, effective method for controlling transgene expression during and after delivery. Riboswitches, RNA elements which control gene expression in response to ligand binding, are attractive candidates for regulating expression of AAV-delivered transgene therapeutics because of their small genomic footprints and non-immunogenicity compared to protein-based expression control systems. In addition, the ligand-sensing aptamer domains of many riboswitches can be exchanged in a modular fashion to allow regulation by a variety of small molecules, proteins, and oligonucleotides. Riboswitches have been used to regulate AAV-delivered transgene therapeutics in animal models, and recently developed screening and selection methods allow rapid isolation of riboswitches with novel ligands and improved performance in mammalian cells. This review discusses the advantages of riboswitches in the context of AAV-delivered gene therapy, the subsets of riboswitch mechanisms which have been shown to function in human cells and animal models, recent progress in riboswitch isolation and optimization, and several examples of AAV-delivered therapeutic systems which might be improved by riboswitch regulation.

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Section: Riboswitches Regulating Mrna Processingmentioning

confidence: 94%

mentioning

confidence: 99%

Riboswitches for Controlled Expression of Therapeutic Transgenes Delivered by Adeno-Associated Viral Vectors

Tickner

Farzan

2021

Pharmaceuticals

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“…Artificial riboswitch (aptazyme) has been used to regulate gene expression precisely via binding between RNA and ligand (Pu et al, 2020). Aptazyme was utilized to control mRNA cleavage through self-cleavage within the mRNA (Takahashi and Yokobayashi, 2019;Spöring et al, 2020). Aptazyme can be inserted into 5' or 3' UTR of gene mRNA for controlling gene expression (Chen et al, 2018a).…”

Section: Discussionmentioning

confidence: 99%

“…The hammerhead ribozyme (HHR) is the common ribozyme platform (Zhong et al, 2016). When aptamer combines with ligand, the induced conformational change will be transferred to HHR via the communication module, generating cleavage activity (Spöring et al, 2020). OFF-switch and ON-switch are two types of aptazymes (Nomura et al, 2013;Beilstein et al, 2015;Yokobayashi, 2019).…”

Section: Introductionmentioning

confidence: 99%

Engineered CRISPR/Cas13d Sensing hTERT Selectively Inhibits the Progression of Bladder Cancer In Vitro

Zhuang

Zhou

et al. 2021

Front. Mol. Biosci.

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Aptazyme and CRISPR/Cas gene editing system were widely used for regulating gene expression in various diseases, including cancer. This work aimed to reconstruct CRISPR/Cas13d tool for sensing hTERT exclusively based on the new device OFF-switch hTERT aptazyme that was inserted into the 3’ UTR of the Cas13d. In bladder cancer cells, hTERT ligand bound to aptamer in OFF-switch hTERT aptazyme to inhibit the degradation of Cas13d. Results showed that engineered CRISPR/Cas13d sensing hTERT suppressed cell proliferation, migration, invasion and induced cell apoptosis in bladder cancer 5637 and T24 cells without affecting normal HFF cells. In short, we constructed engineered CRISPR/Cas13d sensing hTERT selectively inhibited the progression of bladder cancer cells significantly. It may serve as a promising specifically effective therapy for bladder cancer cells.

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“…Small aptamer-based regulatory devices can be designed to control a range of RNA-dependent cellular processes and emerged as promising tools for fine-tuning gene expression in synthetic biology. Research achieved a polyadenylation-modulating riboswitch with a modest dynamic range which can be functional with different poly(A) signals and proved the modularity of the switch by exchanging the sensor module to a tetracycline aptamer [ 26 ].…”

Section: Introductionmentioning

confidence: 99%

Analysis Polyadenylation Signal Usage in Sus scrofa

Zhang

Song

Zhang

et al. 2022

Animals

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RNA polyadenylation is an important step in the messenger RNA (mRNA) maturation process, and the first step is recognizing the polyadenylation signal (PAS). The PAS type and distribution is a key determinant of post-transcriptional mRNA modification and gene expression. However, little is known about PAS usage and alternative polyadenylation (APA) regulation in livestock species. Recently, sequencing technology has enabled the generation of a large amount of sequencing data revealing variation in poly(A) signals and APA regulation in Sus scrofa. We identified 62,491 polyadenylation signals in Sus scrofa using expressed sequence tag (EST) sequences combined with RNA-seq analysis. The composition and usage frequency of polyadenylation signal in Sus scrofa is similar with that of human and mouse. The most highly conserved polyadenylation signals are AAUAAA and AUUAAA, used for over 63.35% of genes. In addition, we also analyzed the U/GU-rich downstream sequence (DSE) element, located downstream of the cleavage site. Our results indicate that APA regulation was widely occurred in Sus scrofa, as in other organisms. Our result was useful for the accurate annotation of RNA 3′ ends in Sus scrofa and the analysis of polyadenylation signal usage in Sus scrofa would give the new insights into the mechanisms of transcriptional regulation.

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Aptamer-Mediated Control of Polyadenylation for Gene Expression Regulation in Mammalian Cells

Cited by 24 publications

References 49 publications

Riboswitches for Controlled Expression of Therapeutic Transgenes Delivered by Adeno-Associated Viral Vectors

Riboswitches for Controlled Expression of Therapeutic Transgenes Delivered by Adeno-Associated Viral Vectors

Engineered CRISPR/Cas13d Sensing hTERT Selectively Inhibits the Progression of Bladder Cancer In Vitro

Analysis Polyadenylation Signal Usage in Sus scrofa

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