DNAmoreDB - A Database of Deoxyribozymes

Published on 2007 in Proc. Natl. Acad. Sci. U.S.A. volume 104 issue 7.

PubMed ID: 17284609

DOI:10.1073/pnas.0607875104

Abstract:

Here, we report a catalytic beacon sensor for uranyl (UO2 2+) based on an in vitro-selected UO2 2+-specific DNAzyme. The sensor consists of a DNA enzyme strand with a 3′ quencher and a DNA substrate with a ribonucleotide adenosine (rA) in the middle and a fluorophore and a quencher at the 5′ and 3′ ends, respectively. The presence of UO2 2+ causes catalytic cleavage of the DNA substrate strand at the rA position and release of the fluorophore and thus dramatic increase of fluorescence intensity. The sensor has a detection limit of 11 parts per trillion (45 pM), a dynamic range up to 400 nM, and selectivity of >1-million-fold over other metal ions. The most interfering metal ion, Th(IV), interacts with the fluorescein fluorophore, causing slightly enhanced fluorescence intensity, with an apparent dissociation constant of ≈230 μM. This sensor rivals the most sensitive analytical instruments for uranium detection, and its application in detecting uranium in contaminated soil samples is also demonstrated. This work shows that simple, cost-effective, and portable metal sensors can be obtained with similar sensitivity and selectivity as much more expensive and sophisticated analytical instruments. Such a sensor will play an important role in environmental remediation of radionuclides such as uranium.



DNAzymes linked to this article:

Name Isolated sequence Length Reaction
Clone83 TGCAGTCGGGTAGTTARACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone24 ATTCATCGCGCGTTACGCGACTTCAAACGTAGGGAGGCGGCTGGTAGTT      49 RNA cleavage
Clone91 TGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone74 ATTCATCGTGCGTTACACGACTTCAAACGTAGGGAGGCGGCTGGTAGTT      49 RNA cleavage
Clone33 TGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone79 ATTCATCGTGCGTTACACGACTTCAAACGTAGGGAGGCGGCTGGTAGTT      49 RNA cleavage
Clone51 TGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGGCAGGCGTATGTCT      49 RNA cleavage
Clone53 TTTATTGGATACCACTCCAACTTCAAACATACAGAATCGCTGAGTCTCC      49 RNA cleavage
Clone44 CGTATGCCGGACATAATCGAGAAGGTGAATCGTGTAATGTATTTGTCCCCG      51 RNA cleavage
Clone48 CGTATGCCGGACATAATCGAGAAGGTGAATCGTGTAATGTATTTGTCCCCG      51 RNA cleavage
Clone63 TACATCGACTGCCGGCAGACAGGCGACTTCAAATATGAGTGAGACATAG      49 RNA cleavage
Clone45 TACATCGACTGCCGGCAGACAGGCGACTTAAATATGAGTGAGACATAG      48 RNA cleavage
Clone47 CAGACGCCATAATCGGCGTACCGGTCGGAGTGCAACAATGACTAACGTTG      50 RNA cleavage
Clone46 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAGCGTTG      51 RNA cleavage
Clone14 TACAGTACCACAACGTGTACCTTCAARCACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone93 TACAGTACCACAACGTGTACCTTCARACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone65 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone84 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone18 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone73 TACAGTACCACAACGTGTACCTTCARACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone23 TACAGTACCACAACGTGTACCTTCAAACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone22 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone12 CAGACGCCATAATCGGCGTACCGGTCGGAAGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone9 CAGACGCCATAATCGGCGTACCGGTCGGACGTGCAACAATGACTAACGTTG      51 RNA cleavage
Clone39 TGCAGTCGGGTAGTTARACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone70 TGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone4 TACAGCACACAGTGCCTTCAGACAGAGGGAACGTAGAGATTGGCCCCGA      49 RNA cleavage
Clone17 TACAGCACACAGTGCCTTCAGACAGAGGGAACGTAGAGATTGGCCCCGA      49 RNA cleavage
Clone5 TTCATCGTGGCACACGACCACCAAAACATACGTCCTCAGGAATTGTCCCCG      51 RNA cleavage
Clone30 TTCATCGTGGCACACGACCACCAAAACATACGTCCTCAGGAATTGTCCCCG      51 RNA cleavage
Clone49 TTCATCGTGGCACACGACCACCAAAACATACGTCCTCAGGAATTGTCCCCG      51 RNA cleavage
Clone43 CTCATCGTGGCACACGACCACCAAAACATACGTCCTCAGGAATTGTCCCCG      51 RNA cleavage
Clone41 TTCATCGTGGCACACGACCACCAAAACATACGTCCTCAGGAATTGTCCCCG      51 RNA cleavage
Clone82 GTCACTCACARAGGGAGCTTCARACATAGTGGTCAAAGTCGTTGTCGCTCGT      52 RNA cleavage
Clone7 TGCATGCGGAGCACTTCAGATATAGTTCGATGGCGGTGCAGACCAATCC      49 RNA cleavage
Clone61 TGCATGCGGAGCACTTCAGATATAGTTCGATGGCGGTGCAGACCAATCC      49 RNA cleavage
Clone36 TACATCTAGGAGTAGACTTCARACATAGGATGTCGTGGAGGACGTGTAC      49 RNA cleavage
Clone80 TACATCTAGGAGTAGACTTCARACATAGGATGTCGTGGAGGACGTGTAC      49 RNA cleavage
Clone16 TGCATCCATAATATATCCATGTAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone20 TGCATCCATAATATATCCATGTAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone29 TGCATCCATAATATATCCATGTAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone42 TGCATCCATAATATATCCATGTAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone68 TGCATCCATAATATATCCATGTAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone71 TGCATCCATAATATATCCATGCAGTAGGGACCTCGAACTACGTGTGAGC      49 RNA cleavage
Clone62 ATCATACACCACGTAGCTACAAAAGTGGTGGACTTCAAACATAGGGCCC      49 RNA cleavage
Clone66 ATCATACACCACGTAGCTACAAAAGTGGTGGACTTCAAACATAGGGCCC      49 RNA cleavage
Clone19 ATCATACACCACGTAGCTACARAAGTGGTGGACTTCARACATAGGGCCC      49 RNA cleavage
Clone59 ATCATACACCACGTAGCTACARAAGTGGTGACTTCARACATAGGGCCC      48 RNA cleavage
Clone69 ATCATACACCACGTAGCTACAAAAGTGGTGGACTTCARACATAGGGCCC      49 RNA cleavage
Clone75 CTCATTGCTTATGCAACCCCTAACATAGCGGTAGATCCCTCAATGTCC      48 RNA cleavage
Clone72 TTTATTGGATGCCATTCCAACTTCAAACATACAGAATCGCTGAGTCTCC      49 RNA cleavage
Clone26 TTTATTGGATACCATTCCAACTTCAAACATACAGAATCGCTGAGTCTCC      49 RNA cleavage
Clone13 TTTATTGGATACCATTCCAACTTCAAACATACAGAATCGCTGAGTCTCC      49 RNA cleavage
Clone2 ATTCATCGTGCGTTACACGACTTCARACGTAGGGAGGCGGCTGGTAGTT      49 RNA cleavage
Clone35 ATTCATCGTGCGTTACACGACTTCAAACGTAGGGAGGCGGCTGGTAGTT      49 RNA cleavage
Clone78 TGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGGCAGGCGTATATCT      49 RNA cleavage
Clone81 TACAGTACCACAACGTGTACCTTCAAACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone52 TACAGTACCACAACGTGTACCTTCAAACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone38 TACAGTACCACAACGTGTACCTTCAAACACAGGGATCGGGAATACATCG      49 RNA cleavage
Clone54 TACAGCTANCACAACGTGTACCTTCARACCAGGGATCGGGAATACATCG      49 RNA cleavage
Clone28 TGCAGTGCCTGAAAGGCATCCTACCAACATAGTAAGTACTCAGACCGCT      49 RNA cleavage
Clone34 TGCAGTGCCTGAAAGGCATCCTACCAACATAGTAAGTACTCAGACCGCT      49 RNA cleavage
Clone89 TGCAGTGCCTGAAAGGCATCCTACCAACATAGTAAGTACTCAGACCGCT      49 RNA cleavage
Clone86 TGCAGTGCCTGARAGGCATCCTACCAACATAGTAAGTACTCAGACCGCT      49 RNA cleavage
Clone50 TGCAGTGCCTGAAAGGCATCCTACCAACAAGTAAGTACTCAGACCGCT      48 RNA cleavage
Clone55 TGCAGTGCCTGAAAGGCATCCTACCAACAAGTAAGTACTCAGACCGCT      48 RNA cleavage
Clone57 TGCAGTGCCCGAAAGGCATCCTACCAACAAGTAAGTACTCAGGCCGCT      48 RNA cleavage
Clone87 CTTCATTACCAATAGAGTAACTTCAGAAATAGCAGGCGTGTAGAGAATC      49 RNA cleavage
39E CACGTCCATCTCTGCAGTCGGGTAGTTAAACCGACCTTCAGACATAGTGAGT      52 RNA cleavage
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