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Volumn 5, Issue , 2015, Pages

Protected DNA strand displacement for enhanced single nucleotide discrimination in double-stranded DNA

Author keywords

[No Author keywords available]

Indexed keywords

DNA; MITOCHONDRIAL DNA; NUCLEOTIDE;

EID: 84929997424     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep08721     Document Type: Article
Times cited : (27)

References (46)
  • 1
    • 84890094443 scopus 로고    scopus 로고
    • Emerging technologies for hybridization based single nucleotide polymorphism detection
    • Knez, K., Spasic, D., Janssen, K. P. F. & Lammertyn, J. Emerging technologies for hybridization based single nucleotide polymorphism detection. Analyst 139, 353-370 (2014).
    • (2014) Analyst , vol.139 , pp. 353-370
    • Knez, K.1    Spasic, D.2    Janssen, K.P.F.3    Lammertyn, J.4
  • 2
    • 84930239589 scopus 로고    scopus 로고
    • Springer Berlin Heidelberg: Berlin, Heidelberg
    • Yang, C. J. Molecular Beacons. (Springer Berlin Heidelberg: Berlin, Heidelberg, 2013). doi:10.1007/978-3-642-39109-5.
    • (2013) Molecular Beacons.
    • Yang, C.J.1
  • 3
    • 78650601509 scopus 로고    scopus 로고
    • Simultaneous detection of dual single-base mutations by capillary electrophoresis using quantum dot-molecular beacon probe
    • Li, Y.-Q. et al. Simultaneous detection of dual single-base mutations by capillary electrophoresis using quantum dot-molecular beacon probe. Biosensors & bioelectronics 26, 2317-2322 (2011).
    • (2011) Biosensors & Bioelectronics , vol.26 , pp. 2317-2322
    • Li, Y.-Q.1
  • 4
    • 84899791511 scopus 로고    scopus 로고
    • Design of molecular beacons: 39 couple quenchers improve fluorogenic properties of a probe in real-time PCR assay
    • Ryazantsev, D. Y. et al.Design of molecular beacons: 39 couple quenchers improve fluorogenic properties of a probe in real-time PCR assay. Analyst 139, 2867-2872 (2014).
    • (2014) Analyst , vol.139 , pp. 2867-2872
    • Ryazantsev, D.Y.1
  • 5
    • 84868674696 scopus 로고    scopus 로고
    • Enzymatic amplification of DNA/RNA hybrid molecular beacon signaling in nucleic acid detection
    • Jacroux, T., Rieck, D. C., Cui, R., Ouyang, Y. & Dong, W.-J. Enzymatic amplification of DNA/RNA hybrid molecular beacon signaling in nucleic acid detection. Anal. Biochem. 432, 106-114 (2013).
    • (2013) Anal. Biochem. , vol.432 , pp. 106-114
    • Jacroux, T.1    Rieck, D.C.2    Cui, R.3    Ouyang, Y.4    Dong, W.-J.5
  • 6
    • 84892798562 scopus 로고    scopus 로고
    • A differential fluorescent receptor for nucleic acid analysis
    • Bengtson, H. N. & Kolpashchikov, D. M. A differential fluorescent receptor for nucleic acid analysis. Chembiochem 15, 228-231 (2014).
    • (2014) Chembiochem , vol.15 , pp. 228-231
    • Bengtson, H.N.1    Kolpashchikov, D.M.2
  • 7
    • 0037139486 scopus 로고    scopus 로고
    • Method for detection of single-base mismatches using bimolecular beacons
    • Frutos, A. G., Pal, S., Quesada, M. & Lahiri, J. Method for detection of single-base mismatches using bimolecular beacons. J. Am. Chem. Soc. 124, 2396-2397 (2002).
    • (2002) J. Am. Chem. Soc. , vol.124 , pp. 2396-2397
    • Frutos, A.G.1    Pal, S.2    Quesada, M.3    Lahiri, J.4
  • 8
    • 84906053873 scopus 로고    scopus 로고
    • Detection of a long non-coding RNA (CCAT1) in living cells and human adenocarcinoma of colon tissues using FIT-PNA molecular beacons
    • Kam, Y. et al. Detection of a long non-coding RNA (CCAT1) in living cells and human adenocarcinoma of colon tissues using FIT-PNA molecular beacons. Cancer Lett. 1-7 (2013). doi:10.1016/j.canlet.2013.02.014.
    • (2013) Cancer Lett. , pp. 1-7
    • Kam, Y.1
  • 9
    • 80555144145 scopus 로고    scopus 로고
    • Molecularbeacon-based tricomponent probe for SNP analysis in folded nucleic acids
    • Nguyen, C., Grimes, J., Gerasimova, Y. V. & Kolpashchikov, D. M. Molecularbeacon-based tricomponent probe for SNP analysis in folded nucleic acids. Chem. 17, 13052-13058 (2011).
    • (2011) Chem. , vol.17 , pp. 13052-13058
    • Nguyen, C.1    Grimes, J.2    Gerasimova, Y.V.3    Kolpashchikov, D.M.4
  • 10
    • 84874188442 scopus 로고    scopus 로고
    • Operating Cooperatively (OC) sensor for highly specific recognition of nucleic acids
    • Cornett, E. M., O'Steen, M. R. & Kolpashchikov, D. M. Operating Cooperatively (OC) sensor for highly specific recognition of nucleic acids. PloS ONE 8, e55919 (2013).
    • (2013) PloS ONE , vol.8 , pp. e55919
    • Cornett, E.M.1    O'steen, M.R.2    Kolpashchikov, D.M.3
  • 11
    • 84879770007 scopus 로고    scopus 로고
    • Selective nucleic acid capture with shielded covalent probes
    • Vieregg, J. R., Nelson, H. M., Stoltz, B. M. & Pierce, N. A. Selective nucleic acid capture with shielded covalent probes. J. Am. Chem. Soc. 135, 9691-9 (2013).
    • (2013) J. Am. Chem. Soc. , vol.135 , pp. 9691-9699
    • Vieregg, J.R.1    Nelson, H.M.2    Stoltz, B.M.3    Pierce, N.A.4
  • 12
    • 84858019925 scopus 로고    scopus 로고
    • Detection of endogenous K-ras mRNA in living cells at a single base resolution by a PNA molecular beacon
    • Kam, Y., Rubinstein, A.,Nissan,A., Halle, D.&Yavin, E. Detection of endogenous K-ras mRNA in living cells at a single base resolution by a PNA molecular beacon. Mol. Pharmaceutics 9, 685-693 (2012).
    • (2012) Mol. Pharmaceutics , vol.9 , pp. 685-693
    • Kam, Y.1    Rubinstein, A.2    Nissan, A.3    Halle, D.4    Yavin, E.5
  • 13
    • 84873719566 scopus 로고    scopus 로고
    • Peptide nucleic acid molecular beacons for the detection of PCR amplicons in droplet-based microfluidic devices
    • Zanoli, L. M. et al. Peptide nucleic acid molecular beacons for the detection of PCR amplicons in droplet-based microfluidic devices. Anal. Bioanal. Chem. 405, 615-624 (2013).
    • (2013) Anal. Bioanal. Chem. , vol.405 , pp. 615-624
    • Zanoli, L.M.1
  • 14
    • 84858698182 scopus 로고    scopus 로고
    • Applications of peptide nucleic acids (PNAs) and locked nucleic acids (LNAs) in biosensor development
    • Briones, C. & Moreno, M. Applications of peptide nucleic acids (PNAs) and locked nucleic acids (LNAs) in biosensor development. Anal Bioanal. Chem. 402, 3071-3089 (2012).
    • (2012) Anal Bioanal. Chem. , vol.402 , pp. 3071-3089
    • Briones, C.1    Moreno, M.2
  • 15
    • 79955037365 scopus 로고    scopus 로고
    • LNA for optimization of fluorescent oligonucleotide probes: Improved spectral properties and target binding
    • Astakhova, I. V., Ustinov, A. V., Korshun, V. A. & Wengel, J. LNA for optimization of fluorescent oligonucleotide probes: improved spectral properties and target binding. J. Bioconjugate Chem. 22, 533-539 (2011).
    • (2011) J. Bioconjugate Chem. , vol.22 , pp. 533-539
    • Astakhova, I.V.1    Ustinov, A.V.2    Korshun, V.A.3    Wengel, J.4
  • 16
    • 84886823775 scopus 로고    scopus 로고
    • DNA strands with alternating incorporations of LNA and 29-O-(pyren-1-yl)methyluridine: SNP-discriminating RNA detection probes
    • Karmakar, S. & Hrdlicka, P. J. DNA strands with alternating incorporations of LNA and 29-O-(pyren-1-yl)methyluridine: SNP-discriminating RNA detection probes. Chem. Sci. 4, 3447-3454 (2013).
    • (2013) Chem. Sci. , vol.4 , pp. 3447-3454
    • Karmakar, S.1    Hrdlicka, P.J.2
  • 18
    • 78649865037 scopus 로고    scopus 로고
    • Effect of diluent chain length on the performance of the electrochemical DNA sensor at elevated temperature
    • Yang, W. & Lai, R. Y. Effect of diluent chain length on the performance of the electrochemical DNA sensor at elevated temperature. Analyst 136, 134-139 (2011).
    • (2011) Analyst , vol.136 , pp. 134-139
    • Yang, W.1    Lai, R.Y.2
  • 19
    • 70349901334 scopus 로고    scopus 로고
    • Separate production of single-stranded DNA is not necessary: Circuit denaturation of double-stranded DNA followed by hybridization of single strands on oligonucleotide microchips
    • Vasiliskov, V. A. et al. Separate production of single-stranded DNA is not necessary: circuit denaturation of double-stranded DNA followed by hybridization of single strands on oligonucleotide microchips. J. Biomol. Struct. Dyn. 27, 347-360 (2009).
    • (2009) J. Biomol. Struct. Dyn. , vol.27 , pp. 347-360
    • Vasiliskov, V.A.1
  • 20
    • 78049498155 scopus 로고    scopus 로고
    • Hepatitis C virus genotyping using an oligonucleotide microarray based on the NS5B sequence
    • Gryadunov, D. et al. Hepatitis C virus genotyping using an oligonucleotide microarray based on the NS5B sequence. J. Clin. Microbiol. 48, 3910-3917 (2010).
    • (2010) J. Clin. Microbiol. , vol.48 , pp. 3910-3917
    • Gryadunov, D.1
  • 21
    • 84878004393 scopus 로고    scopus 로고
    • Detection of second-line drug resistance in Mycobacterium tuberculosis using oligonucleotide microarrays
    • Zimenkov, D. V. et al. Detection of second-line drug resistance in Mycobacterium tuberculosis using oligonucleotide microarrays. BMC Infect. Dis. 13, 240-248 (2013).
    • (2013) BMC Infect. Dis. , vol.13 , pp. 240-248
    • Zimenkov, D.V.1
  • 22
    • 79251621970 scopus 로고    scopus 로고
    • Dynamic DNA nanotechnology using stranddisplacement reactions
    • Zhang, D. Y. & Seelig, G. Dynamic DNA nanotechnology using stranddisplacement reactions. Nat. Chem. 3, 103-113 (2011).
    • (2011) Nat. Chem. , vol.3 , pp. 103-113
    • Zhang, D.Y.1    Seelig, G.2
  • 23
    • 84887968813 scopus 로고    scopus 로고
    • On the biophysics and kinetics of toehold-mediated DNA strand displacement
    • Srinivas, N. et al.On the biophysics and kinetics of toehold-mediated DNA strand displacement. Nucleic Acids Res. 41, 10641-58 (2013).
    • (2013) Nucleic Acids Res , vol.41 , pp. 10641-10658
    • Srinivas, N.1
  • 24
    • 79851473411 scopus 로고    scopus 로고
    • Cooperative hybridization of oligonucleotides
    • Zhang, D. Y. Cooperative hybridization of oligonucleotides. J. Am. Chem. Soc. 133, 1077-1086 (2011).
    • (2011) J. Am. Chem. Soc. , vol.133 , pp. 1077-1086
    • Zhang, D.Y.1
  • 25
    • 77956628861 scopus 로고    scopus 로고
    • ADNA-Origami chip platform for label-free SNP genotyping using toehold-mediated strand displacement
    • Zhang, Z. et al. A DNA-Origami chip platform for label-free SNP genotyping using toehold-mediated strand displacement. Small 6, 1854-1858 (2010).
    • (2010) Small , vol.6 , pp. 1854-1858
    • Zhang, Z.1
  • 26
    • 77955064536 scopus 로고    scopus 로고
    • Robustness and modularity properties of a noncovalent DNA catalytic reaction
    • Zhang, D. Y. & Winfree, E. Robustness and modularity properties of a noncovalent DNA catalytic reaction. Nucleic Acids Res. 38, 4182-97 (2010).
    • (2010) Nucleic Acids Res. , vol.38 , pp. 4182-4197
    • Zhang, D.Y.1    Winfree, E.2
  • 27
    • 84865508080 scopus 로고    scopus 로고
    • Highly Selective Detection of Single-Nucleotide Polymorphisms Using a Quartz Crystal Microbalance Biosensor Based on the Toehold-Mediated Strand Displacement Reaction
    • Wang, D. et al. Highly Selective Detection of Single-Nucleotide Polymorphisms Using a Quartz Crystal Microbalance Biosensor Based on the Toehold-Mediated Strand Displacement Reaction. Anal. Chem. 84, 708-714 (2012).
    • (2012) Anal. Chem. , vol.84 , pp. 708-714
    • Wang, D.1
  • 28
    • 67649973776 scopus 로고    scopus 로고
    • Universal translators for nucleic acid diagnosis
    • Picuri, J. M., Frezza, B. M. & Ghadiri, M. R. Universal translators for nucleic acid diagnosis. J. Am. Chem. Soc. 131, 9368-9377 (2009).
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 9368-9377
    • Picuri, J.M.1    Frezza, B.M.2    Ghadiri, M.R.3
  • 29
    • 84964312659 scopus 로고    scopus 로고
    • Exquisite allele discrimination by toehold hairpin primers
    • Byrom, M., Bhadra, S., Jiang, Y. S. & Ellington, A. D. Exquisite allele discrimination by toehold hairpin primers. Nucleic Acids Res. 1-13 (2014). doi:10.1093/nar/gku558.
    • (2014) Nucleic Acids Res. , pp. 1-13
    • Byrom, M.1    Bhadra, S.2    Jiang, Y.S.3    Ellington, A.D.4
  • 30
    • 84862165711 scopus 로고    scopus 로고
    • A self-assembled DNA nanostructureamplified quartz crystal microbalance with dissipation biosensing platform for nucleic acids
    • Tang,W., Wang, D., Xu, Y., Li, N. & Liu, F. A self-assembled DNA nanostructureamplified quartz crystal microbalance with dissipation biosensing platform for nucleic acids. Chem. Comm. 48, 6678-6680 (2012).
    • (2012) Chem. Comm. , vol.48 , pp. 6678-6680
    • Tang, W.1    Wang, D.2    Xu, Y.3    Li, N.4    Liu, F.5
  • 31
    • 84900670832 scopus 로고    scopus 로고
    • Detection of single-nucleotide polymorphisms using an ON-OFF switching of regenerated biosensor based on a locked nucleic acid-integrated and toehold-mediated strand displacement reaction
    • Gao, Z. F. et al. Detection of single-nucleotide polymorphisms using an ON-OFF switching of regenerated biosensor based on a locked nucleic acid-integrated and toehold-mediated strand displacement reaction. Anal. Chem. 86, 2543-2548 (2014).
    • (2014) Anal. Chem. , vol.86 , pp. 2543-2548
    • Gao, Z.F.1
  • 32
    • 84863116178 scopus 로고    scopus 로고
    • Optimizing the specificity of nucleic acid hybridization
    • Zhang, D. Y., Chen, S. X. & Yin, P. Optimizing the specificity of nucleic acid hybridization. Nat. Chem. 4, 208-214 (2012).
    • (2012) Nat. Chem. , vol.4 , pp. 208-214
    • Zhang, D.Y.1    Chen, S.X.2    Yin, P.3
  • 33
    • 84883190867 scopus 로고    scopus 로고
    • Conditionally fluorescent molecular probes for detecting single base changes in double-stranded DNA
    • Chen, S. X., Zhang, D. Y. & Seelig, G. Conditionally fluorescent molecular probes for detecting single base changes in double-stranded DNA. Nat. Chem. 5, 782-789 (2013).
    • (2013) Nat. Chem. , vol.5 , pp. 782-789
    • Chen, S.X.1    Zhang, D.Y.2    Seelig, G.3
  • 34
    • 79851471472 scopus 로고    scopus 로고
    • The label-free unambiguous detection and symbolic display of single nucleotide polymorphisms on DNA origami
    • Subramanian, H., Chakraborty, B., Sha, R. & Seeman, N. C. The Label-Free Unambiguous Detection and Symbolic Display of Single Nucleotide Polymorphisms on DNA Origami. Nano Lett. 11, 910-913 (2011).
    • (2011) Nano Lett. , vol.11 , pp. 910-913
    • Subramanian, H.1    Chakraborty, B.2    Sha, R.3    Seeman, N.C.4
  • 35
    • 70349777767 scopus 로고    scopus 로고
    • Fluorescence detection of single-nucleotide polymorphisms with a single, self-complementary, triple-stem DNA probe
    • Xiao, Y. et al. Fluorescence detection of single-nucleotide polymorphisms with a single, self-complementary, triple-stem DNA probe. Angew. Chem., Int. Ed. Engl. 48, 4354-4358 (2009).
    • (2009) Angew. Chem., Int. Ed. Engl. , vol.48 , pp. 4354-4358
    • Xiao, Y.1
  • 36
    • 84876462674 scopus 로고    scopus 로고
    • Toehold-mediated nonenzymatic DNA strand displacement as a platform for DNA genotyping
    • Khodakov, D. A., Khodakova, A. S., Linacre, A. & Ellis, A. V. Toehold-mediated nonenzymatic DNA strand displacement as a platform for DNA genotyping. J. Am. Chem. Soc. 135, 5612-5619 (2013).
    • (2013) J. Am. Chem. Soc. , vol.135 , pp. 5612-5619
    • Khodakov, D.A.1    Khodakova, A.S.2    Linacre, A.3    Ellis, A.V.4
  • 37
    • 84925643800 scopus 로고    scopus 로고
    • An efficient DNA-fueled molecular machine for the discrimination of single-base
    • Song, T. et al. An Efficient DNA-Fueled Molecular Machine for the Discrimination of Single-Base Changes. Adv. Mater. (2014). doi:10.1002/ adma.201402314.
    • (2014) Changes. Adv. Mater.
    • Song, T.1
  • 38
    • 84894477089 scopus 로고    scopus 로고
    • Toehold-initiated rolling circle amplification for visualizing individual microRNAs in situ in single cells
    • Deng, R. et al. Toehold-initiated rolling circle amplification for visualizing individual microRNAs in situ in single cells. Angew. Chem., Int. Ed. Engl. 53, 2389-2393 (2014).
    • (2014) Angew. Chem., Int. Ed. Engl. , vol.53 , pp. 2389-2393
    • Deng, R.1
  • 39
    • 79951841779 scopus 로고    scopus 로고
    • Remote toehold: A mechanism for flexible control of DNA hybridization kinetics
    • Genot, A., Zhang, D., Bath, J. & Turberfield, A. Remote toehold: a mechanism for flexible control of DNA hybridization kinetics. J. Am. Chem. Soc. 133, 2177-2182 (2011).
    • (2011) J. Am. Chem. Soc. , vol.133 , pp. 2177-2182
    • Genot, A.1    Zhang, D.2    Bath, J.3    Turberfield, A.4
  • 40
    • 80055092942 scopus 로고    scopus 로고
    • Hybridization kinetics between immobilized doublestranded DNA probes and targets containing embedded recognition segments
    • Baker, B. A. &Milam, V. T. Hybridization kinetics between immobilized doublestranded DNA probes and targets containing embedded recognition segments. Nucleic Acids Res. 39, e99 (2011).
    • (2011) Nucleic Acids Res. , vol.39 , pp. e99
    • Baker, B.A.1    Milam, V.T.2
  • 41
    • 0032546751 scopus 로고    scopus 로고
    • Branch migration through DNA sequence heterology
    • Biswas, I., Yamamoto, A. & Hsieh, P. Branch migration through DNA sequence heterology. J. Mol. Biol. 279, 795-806 (1998).
    • (1998) J. Mol. Biol. , vol.279 , pp. 795-806
    • Biswas, I.1    Yamamoto, A.2    Hsieh, P.3
  • 42
    • 0028343925 scopus 로고
    • The kinetics of spontaneous DNA branch migration
    • Panyutin, I. G. & Hsieh, P. The kinetics of spontaneous DNA branch migration. Proc. Natl. Acad. Sci. U. S. A. 91, 2021-2025 (1994).
    • (1994) Proc. Natl. Acad. Sci. U. S. A. , vol.91 , pp. 2021-2025
    • Panyutin, I.G.1    Hsieh, P.2
  • 44
    • 0025769766 scopus 로고
    • Effects of base mismatches on the structure of the four-way DNA junction
    • Duckett, D. R. & Lilley, D. M. Effects of base mismatches on the structure of the four-way DNA junction. J. Mol. Biol. 221, 147-161 (1991).
    • (1991) J. Mol. Biol. , vol.221 , pp. 147-161
    • Duckett, D.R.1    Lilley, D.M.2
  • 45
    • 84889888680 scopus 로고    scopus 로고
    • Amelogenin locus typing using toehold-assisted fluorescent DNA melting analysis
    • Khodakov, D. A., Khodakova, A. S., Linacre, A. & Ellis, A. V. Amelogenin locus typing using toehold-assisted fluorescent DNA melting analysis. Forensic Sci. Int.: Genet. 4, e119-e120 (2013).
    • (2013) Forensic Sci. Int.: Genet. , vol.4 , pp. e119-e120
    • Khodakov, D.A.1    Khodakova, A.S.2    Linacre, A.3    Ellis, A.V.4
  • 46
    • 72249110882 scopus 로고    scopus 로고
    • Control of DNA strand displacement kinetics using toehold exchange
    • Zhang, D. Y. & Winfree, E. Control of DNA strand displacement kinetics using toehold exchange. J. Am. Chem. Soc. 131, 17303-17314 (2009).
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 17303-17314
    • Zhang, D.Y.1    Winfree, E.2


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