Triggered amplification by hybridization chain reaction.

We introduce the concept of hybridization chain reaction (HCR), in which stable DNA monomers assemble only upon exposure to a target DNA fragment. In the simplest version of this process, two stable species of DNA hairpins coexist in solution until the introduction of initiator strands triggers a cascade of hybridization events that yields nicked double helices analogous to alternating copolymers. The average molecular weight of the HCR products varies inversely with initiator concentration. Amplification of more diverse recognition events can be achieved by coupling HCR to aptamer triggers. This functionality allows DNA to act as an amplifying transducer for biosensing applications.

[1]  F. Young.  Biochemistry , 1955, The Indian Medical Gazette.

[2]  N. Seeman.  Nucleic acid junctions and lattices. , 1982, Journal of theoretical biology.

[3]  N C Seeman,et al.  Design of immobile nucleic acid junctions. , 1983, Biophysical journal.

[4]  K. Mullis,et al.  Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. , 1988, Science.

[5]  L. Gold,et al.  Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. , 1990, Science.

[6]  J. Szostak,et al.  In vitro selection of RNA molecules that bind specific ligands , 1990, Nature.

[7]  N. Seeman,et al.  Synthesis from DNA of a molecule with the connectivity of a cube , 1991, Nature.

[8]  Walter Fontana,et al.  Fast folding and comparison of RNA secondary structures , 1994 .

[9]  J. Szostak,et al.  A DNA aptamer that binds adenosine and ATP. , 1995, Biochemistry.

[10]  Sanjay Tyagi,et al.  Molecular Beacons: Probes that Fluoresce upon Hybridization , 1996, Nature Biotechnology.

[11]  N. Seeman,et al.  Antiparallel DNA Double Crossover Molecules As Components for Nanoconstruction , 1996 .

[12]  J. Storhoff,et al.  Selective colorimetric detection of polynucleotides based on the distance-dependent optical properties of gold nanoparticles. , 1997, Science.

[13]  N. Seeman,et al.  Design and self-assembly of two-dimensional DNA crystals , 1998, Nature.

[14]  D. Patel,et al.  Adaptive recognition by nucleic acid aptamers. , 2000, Science.

[15]  P. Schuster,et al.  RNA folding at elementary step resolution. , 1999, RNA.

[16]  A. Turberfield,et al.  A DNA-fuelled molecular machine made of DNA , 2022 .

[17]  J. Reif,et al.  Construction, analysis, ligation, and self-assembly of DNA triple crossover complexes , 2000 .

[18]  A Warsinke,et al.  Research and development in biosensors. , 2001, Current opinion in biotechnology.

[19]  R. Osman,et al.  Probing structure and dynamics of DNA with 2-aminopurine: effects of local environment on fluorescence. , 2001, Biochemistry.

[20]  P. Stadler,et al.  Design of multistable RNA molecules. , 2001, RNA.

[21]  N. Seeman,et al.  A robust DNA mechanical device controlled by hybridization topology , 2002, Nature.

[22]  Weihong Tan,et al.  A Single DNA Molecule Nanomotor , 2002 .

[23]  Bernard Yurke,et al.  A DNA-based molecular device switchable between three distinct mechanical states , 2002 .

[24]  N. Seeman.  DNA in a material world , 2003, Nature.

[25]  T. G. Drummond,et al.  Electrochemical DNA sensors , 2003, Nature Biotechnology.

[26]  J. Reif,et al.  Directed nucleation assembly of DNA tile complexes for barcode-patterned lattices , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[27]  Jean-Louis Mergny,et al.  DNA duplex–quadruplex exchange as the basis for a nanomolecular machine , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[28]  Yi Lu,et al.  A colorimetric lead biosensor using DNAzyme-directed assembly of gold nanoparticles. , 2003, Journal of the American Chemical Society.

[29]  Yingfu Li,et al.  Structure-switching signaling aptamers. , 2003, Journal of the American Chemical Society.

[30]  A. Turberfield,et al.  DNA fuel for free-running nanomachines. , 2003, Physical review letters.

[31]  Anne Condon,et al.  A new algorithm for RNA secondary structure design. , 2004, Journal of molecular biology.

[32]  William M. Shih,et al.  A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron , 2004, Nature.

[33]  N. Seeman,et al.  A precisely controlled DNA biped walking device , 2004 .

[34]  C. Mao,et al.  Tensegrity: construction of rigid DNA triangles with flexible four-arm DNA junctions. , 2004, Journal of the American Chemical Society.

[35]  J. Reif,et al.  DNA nanotubes self-assembled from triple-crossover tiles as templates for conductive nanowires. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[36]  N. Pierce,et al.  A synthetic DNA walker for molecular transport. , 2004, Journal of the American Chemical Society.

[37]  N. Pierce,et al.  Rewritable Memory by Controllable Nanopatterning of DNA , 2004 .

[38]  S. Kern,et al.  Sodium boric acid: a Tris-free, cooler conductive medium for DNA electrophoresis. , 2004, BioTechniques.

[39]  Robert M. Dirks,et al.  Paradigms for computational nucleic acid design. , 2004, Nucleic acids research.