Coupling two different nucleic acid circuits in an enzyme-free amplifier

Molecules

Volumn 17, Issue 11, 2012, Pages 13211-13220

  Jiang, Yu ^a   Li, Bingling ^a   Chen, Xi ^a   Ellington, Andrew D ^a  

^a The University of Texas at Austin   (United States)

Author keywords

96 well plate; Catalyzed hairpin assembly (CHA); Enzyme free; Hybridization chain reaction (HCR)

Indexed keywords

BIOTIN; CONCATENATED DNA; DEOXYRIBOZYME; FLUORESCENT DYE; GUANINE QUADRUPLEX; HEMIN; IMMOBILIZED NUCLEIC ACID; IMMOBILIZED PROTEIN; PEROXIDASE; STREPTAVIDIN;

ARTICLE; CHEMISTRY; INVERTED REPEAT; NUCLEIC ACID AMPLIFICATION; SYNTHESIS;

BIOTIN; DNA, CATALYTIC; DNA, CONCATENATED; FLUORESCENT DYES; G-QUADRUPLEXES; HEMIN; IMMOBILIZED NUCLEIC ACIDS; IMMOBILIZED PROTEINS; INVERTED REPEAT SEQUENCES; NUCLEIC ACID AMPLIFICATION TECHNIQUES; PEROXIDASE; STREPTAVIDIN;

EID: 84870224299     PISSN: None     EISSN: 14203049     Source Type: Journal    
DOI: 10.3390/molecules171113211     Document Type: Article

References (20)

1. Zhang, D.Y.; Turberfield, A.J.; Yurke, B.; Winfree, E. Engineering entropy-driven reactions and networks catalyzed by DNA. Science 2007, 318, 1121-1125.
2. Li, B.; Ellington, A.D.; Chen, X. Rational, modular adaptation of enzyme-free DNA circuits to multiple detection methods. Nucleic Acids Res. 2011, 39, e110.
3. Niu, S.; Jiang, Y.; Zhang, S. Fluorescence detection for DNA using hybridization chain reaction with enzyme-amplification. Chem. Commun. 2010, 46, 3089-3091.
4. Dirks, R.M.; Pierce, N.A. Triggered amplification by hybridization chain reaction. Proc. Natl. Acad. Sci. USA 2004, 101, 15275-15278.
5. Choi, H.M.; Chang, J.Y.; Trinhle, A.; Padilla, J.E.; Fraser, S.E.; Pierce, N.A. Programmable in situ amplification for multiplexed imaging of mRNA expression. Nat. Biotechnol. 2010, 28, 1208-1212.
6. Shimron, S.; Wang, F.; Orbach, R.; Willner, I. Amplified detection of DNA through the enzyme-free autonomous assembly of hemin/G-Quadruplex DNAzyme nanowires. Anal. Chem. 2012, 84, 1042-1048.
7. Zheng, A.; Li, J.; Wang, J.; Song, X.; Chen, G.; Yang, H. Enzyme-free signal amplification in the DNAzyme sensor via target-catalyzed hairpin assembly. Chem. Commun. 2012, 48, 3112-3114.
8. Wang, F.; Elbaz, J.; Orbach, R.; Magen, N.; Willner, I. Amplified analysis of DNA by the autonomous assembly of polymers consisting of DNAzyme wires. J. Am. Chem. Soc. 2011, 133, 17149-17151.
9. Li, B.; Jiang, Y.; Chen, X.; Ellington, A.D. Probing spatial organization of DNA strands using enzyme-free hairpin assembly circuits. J. Am. Chem. Soc. 2012, 134, 13918-13921.
10. Niu, S.; Li, Q.; Ren, R.; Zhang, S. Enzyme-enhanced fluorescence detection of DNA on etched optical fibers. Biosens. Bioelectron. 2009, 24, 2943-2946.
11. Chen, Y.; Xu, J.; Su, J.; Xiang, Y.; Yuan, R.; Chai, Y. In situ hybridization chain reaction amplification for universal and highly sensitive electrochemiluminescent detection of DNA. Anal. Chem. 2012, 84, 7750-7755.
12. Fu, J.; Cai, K.; Johnston, S.A.; Woodbury, N.W. Exploring peptide space for enzyme modulators. J. Am. Chem. Soc. 2010, 132, 6419-6424.
13. Mishra, N.N.; Pedersen, J.A.; Rogers, K.R. Highly Sensitive Assay for Anticholinesyerase Compounds Using 96 Well Plate Format. In Chemicals in the Environment; Phillips, M.L., Ed.; American Chemical Society: Washington, DC, USA, 2002; Volume 806, Chapter 16, pp. 289-305.
14. Zhang, D.Y.; Winfree, E. Control of DNA strand displacement kinetics using toehold exchange. J. Am. Chem. Soc. 2009, 131, 17303-17314.
15. Ribble, D.; Goldstein, N.B.; Norris, D.A.; Shellman, Y.G. A simple technique for quantifying apoptosis in 96-well plates. BMC Biotechnol. 2005, 5, doi:10.1186/1472-6750-5-12.
16. Mao, X.; Jiang, J.; Xu, X.; Chu, X.; Luo, Y.; Shen, G.; Yu, R. Enzymatic amplification detection of DNA based on "molecular beacon" biosensors. Biosensor 2008, 23, 1555-1561.
17. Niu, Y.; Zhao, Y.; Fan, A. Conformational switching immobilized hairpin DNA probes following subsequent expanding of gold nanoparticles enables visual detecting sequence-specific DNA. Anal. Chem. 2011, 83, 7500-7506.
18. Liu, J.; Cao, Z.; Lu, Y. Functional nucleic acid sensors. Chem. Rev. 2009, 109, 1948-1998.
19. Willner, I.; Shlyahovsky, B.; Zayats, M.; Willner, B. DNAzymes for sensing, nanobiotechnology and logic gate applications. Chem. Soc. Rev. 2008, 37, 1153-1165.
20. Cheng, X.; Liu, X.; Bing, T.; Gao, Z.; Shangguan, D. General peroxidase activity of G-quadruplex-hemin complexes and its application in ligand screening. Biochemistry 2009, 48, 7817-7823.