Caged oligonucleotides for bidirectional photomodulation of let-7 miRNA in zebrafish embryos

Griepenburg, Julianne C.; Ruble, Brittani K.; Dmochowski, Ivan J.

doi:10.1016/j.bmc.2013.04.082

Cited by 50 publications

(53 citation statements)

References 34 publications

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“…Biological activity can be tuned by varying the length and placement of the blocking strand, but this optimization process is time-consuming. We recently improved the caging and uncaging efficiency of oligonucleotide hairpins by incorporating a second photocleavable linker [51]. …”

Section: Introductionmentioning

confidence: 99%

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Caged oligonucleotides for studying biological systems

Ruble

Yeldell

Dmochowski

2015

Journal of Inorganic Biochemistry

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Light-activated (“caged”) compounds have been widely employed for studying biological processes with high spatial and temporal control. In the past decade, several new approaches for caging the structure and function of DNA and RNA oligonucleotides have been developed. This review focuses on caged oligonucleotides that incorporate site-specifically one or two photocleavable linkers, whose photolysis yields oligonucleotides with dramatic structural and functional changes. This technique has been employed by our laboratory and others to photoregulate gene expression in cells and living organisms, typically using near UV-activated organic chromophores. To improve capabilities for in vivo studies, we harnessed the rich inorganic photochemistry of ruthenium bipyridyl complexes to synthesize Ru-caged morpholino antisense oligonucleotides that remain inactive in zebrafish embryos until uncaged with visible light. Expanding into new caged oligonucleotide applications, our lab has developed Transcriptome In Vivo Analysis (TIVA) technology, which provides the first noninvasive, unbiased method for isolating mRNA from single neurons in brain tissues. TIVA-isolated mRNA can be amplified and then analyzed using next-generation sequencing (RNA-seq).

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Section: Introductionmentioning

confidence: 99%

“…Our lab developed a caged antagomir to photomodulate let-7 miRNA activity in zebrafish embryos by using a novel caged hairpin design [51]. A 2′-OMe strand antisense to the let-7 miRNA sequence was caged using two photocleavable groups to divide the blocking strand into two parts (Fig.…”

Section: Introductionmentioning

confidence: 99%

Caged oligonucleotides for studying biological systems

Ruble

Yeldell

Dmochowski

2015

Journal of Inorganic Biochemistry

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“…In an additional study caged constructs were used to turn let-7 miRNA on and off in developing zebrafish embryos. [18] Two of these studies made use of non-nucleosidic photocleavable linkers; the other one used caged 2'-OMeuridine. The latter strategy restricts the applicability to suitable sequences containing multiple uridines.…”

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confidence: 99%

Regulating Angiogenesis with Light‐Inducible AntimiRs

et al. 2013

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The inhibition of microRNAs (miRs) in a spatiotemporally defined manner by an exogenous trigger would help to specifically target the biological activity and avoid off-target effects. Novel antimiRs directed against miR-92a can be activated by irradiation (see scheme; 3'-UTR=3'-untranslated region) In this way miR-92a is inhibited, the miR-92a target integrin α5 is derepressed, and angiogenesis of endothelial cells is enhanced.

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“…The resulting inactive circular RNAs could be activated in zebrafish embryos by their exposure to 365 nm light. 10 In all known systems uncaging of miRNA inhibitors or mimics has been conducted by using toxic to cells UV-light 11 that limits broader applications of these reagents. To date neither an inhibitor nor miRNA mimics activated by non-toxic visible light are known.…”

Section: 6mentioning

confidence: 99%