Triggering DNAzymes with Light:  A Photoactive C8 Thioether-Linked Adenosine

Ting, Richard; Lermer, Leonard; Perrin, David M.

doi:10.1021/ja046964y

Cited by 75 publications

(66 citation statements)

References 29 publications

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“…[1,2] Various oligonucleotides protected with photocleavable groups (caged oligonucleotides) have been reported to control events such as transcription, [3][4][5] translation, [6] RNA interference, [7] DNAzyme reactions, [8,9] DNA replication, [10,11] aptamer binding, [12] higher-order structure formation, [13][14][15] and PCR. [16] In this study we have A C H T U N G T R E N N U N G examined the use of a caged nucleotide as a site-selective terminator of the polymerase reaction in PCR.…”

Section: Introductionmentioning

confidence: 99%

Site‐Selective Blocking of PCR by a Caged Nucleotide Leading to Direct Creation of Desired Sticky Ends in The Products

et al. 2008

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In order to terminate the polymerase reaction at a desired position, a caged thymine derivative--4-O-[2-(2-nitrophenyl)propyl]thymine--was incorporated into PCR primers. In the PCR cycles, the elongation of the nascent strand (5'-->3' direction) by polymerase was site-selectively terminated at the 3'-side of T(NPP). Accordingly, predetermined protruding ends were obtained after the removal of the protecting group by short UVA irradiation. Recombinant vectors coding the GFP gene were successfully prepared by direct ligation of these light-assisted cohesive-ending PCR (LACE-PCR) products with scission fragments obtained by use either of restriction enzymes or of artificial restriction DNA cutters and were used for transformation of E. coli.

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Section: Introductionmentioning

confidence: 99%

Site‐Selective Blocking of PCR by a Caged Nucleotide Leading to Direct Creation of Desired Sticky Ends in The Products

et al. 2008

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“…Several RNA-cleaving deoxyribozymes have had their catalytic activities modulated photochemically. This has been accomplished irreversibly by photocleavage of a light-sensitive nucleobase protecting group [104,105]. Alternatively, reversible photochemical control of RNA cleavage activity has been achieved by photoisomerization of an azobenzene group appended either to a deoxyribose [106] or to a non-nucleotidic backbone spacer [107,108].…”

Section: Rna-cleaving Deoxyribozymes As In Vitro Biochemical and Analmentioning

confidence: 99%

Deoxyribozymes: useful DNA catalysts in vitro and in vivo

Baum

Silverman

2008

Cell. Mol. Life Sci.

166

129

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Deoxyribozymes (DNA enzymes; DNAzymes) are catalytic DNA sequences. Using the technique of in vitro selection, individual deoxyribozymes have been identified that catalyze RNA cleavage, RNA ligation, and a growing range of other chemical reactions. DNA enzymes have been used in vitro for applications such as biochemical RNA manipulation and analytical assays for metal ions, small organic compounds, oligonucleotides, and proteins. Deoxyribozymes have also been utilized as in vivo therapeutic agents to destroy specific mRNA targets. Although many conceptual and practical challenges remain to be addressed, deoxyribozymes have substantial promise to contribute meaningfully for applications both in vitro and in vivo.

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“…Recently, to improve the capabilities and extend the diversity of nucleic acid aptamers, SELEX methods using modified DNA libraries instead of RNA and DNA libraries have been developed. [8][9][10][11][12][13][14][15][16][17][18][19][20] In this paper, we report the screening of glutamic acid-binding aptamers from an arginine-modified DNA library. This unique modified DNA library was prepared by an enzymatic method using dATP, dGTP and dCTP together with a C5-modified dUTP, T Arg , bearing a cationic arginyl group, instead of natural TTP (Fig.…”

Section: Introductionmentioning

confidence: 99%