DNA origami as a DNA repair nanosensor at the single-molecule level.

The folding of DNA molecules by DNA origami is used in a nanosensor to analyze enzymatic DNA repair activity of hAGT. The method uses conformational changes that condition α-thrombin interaction with DNA aptamers, and illustrates the use of DNA origami as a proteinrecognition biosensor.

[1]  J. Plavec,et al.  Cation localization and movement within DNA thrombin binding aptamer in solution. , 2009, Organic & biomolecular chemistry.

[2]  R. Shafer,et al.  Effect of loop sequence and size on DNA aptamer stability. , 2000, Biochemistry.

[3]  Wael Mamdouh,et al.  Single-molecule chemical reactions on DNA origami. , 2010, Nature nanotechnology.

[4]  M. Dolan,et al.  Effect of O6-methylguanine on DNA interstrand cross-link formation by chloroethylnitrosoureas and 2-chloroethyl(methylsulfonyl)methanesulfonate. , 1988, Cancer research.

[5]  Hao Yan,et al.  Self-Assembled Water-Soluble Nucleic Acid Probe Tiles for Label-Free RNA Hybridization Assays , 2008, Science.

[6]  Hao Yan,et al.  Challenges and opportunities for structural DNA nanotechnology. , 2011, Nature nanotechnology.

[7]  Antonio Morreale,et al.  Structure-Based Discovery of Novel Non-nucleosidic DNA Alkyltransferase Inhibitors: Virtual Screening and in Vitro and in Vivo Activities , 2008, J. Chem. Inf. Model..

[8]  Hao Yan,et al.  Self-assembled DNA nanostructures for distance-dependent multivalent ligand-protein binding. , 2008, Nature nanotechnology.

[9]  L. Marky,et al.  Folding of the thrombin aptamer into a G-quadruplex with Sr(2+): stability, heat, and hydration. , 2001, Journal of the American Chemical Society.

[10]  M F Kubik,et al.  Oligonucleotide inhibitors of human thrombin that bind distinct epitopes. , 1997, Journal of molecular biology.

[11]  E. Vermaas,et al.  Selection of single-stranded DNA molecules that bind and inhibit human thrombin , 1992, Nature.

[12]  E. Hoal-van Helden,et al.  An assay for O6-alkylguanine-DNA alkyltransferase based on restriction endonuclease inhibition and magnetic bead separation of products. , 1994, Carcinogenesis.

[13]  Hao Yan,et al.  Spatially addressable multiprotein nanoarrays templated by aptamer-tagged DNA nanoarchitectures. , 2007, Journal of the American Chemical Society.

[14]  Kersten S. Rabe,et al.  Orthogonal protein decoration of DNA origami. , 2010, Angewandte Chemie.

[15]  P. Rothemund.  Folding DNA to create nanoscale shapes and patterns , 2006, Nature.

[16]  A. Pegg.  Multifaceted roles of alkyltransferase and related proteins in DNA repair, DNA damage, resistance to chemotherapy, and research tools. , 2011, Chemical research in toxicology.

[17]  N. Seeman.  Nanomaterials based on DNA. , 2010, Annual review of biochemistry.

[18]  Hari K. K. Subramanian,et al.  The label-free unambiguous detection and symbolic display of single nucleotide polymorphisms on DNA origami. , 2011, Nano letters.

[19]  S. Balasubramanian,et al.  Quantitative visualization of DNA G-quadruplex structures in human cells. , 2013, Nature chemistry.

[20]  N. Seeman,et al.  A Proximity-Based Programmable DNA Nanoscale Assembly Line , 2010, Nature.

[21]  K. Kohn,et al.  Measurement of O6-alkylguanine-DNA alkyltransferase activity in human cells and tumor tissues by restriction endonuclease inhibition. , 1987, Cancer research.

[22]  Alexandre Restrepo,et al.  Aptasensor development: elucidation of critical parameters for optimal aptamer performance. , 2004, Analytical chemistry.

[23]  J. Jiricny,et al.  The Effect of O 6-Alkylguanine-DNA Alkyltransferase and Mismatch Repair Activities on the Sensitivity of Human Melanoma Cells to Temozolomide, 1,3-bis(2-Chloroethyl)1-nitrosourea, and Cisplatin , 2003, Journal of Pharmacology and Experimental Therapeutics.

[24]  Jonathan Bath,et al.  A DNA-based molecular motor that can navigate a network of tracks. , 2012, Nature nanotechnology.

[25]  F. Balis,et al.  Real-time fluorescence assay for O6-alkylguanine-DNA alkyltransferase. , 2000, Analytical biochemistry.

[26]  Hao Yan,et al.  DNA-origami-directed self-assembly of discrete silver-nanoparticle architectures. , 2010, Angewandte Chemie.

[27]  Erik Winfree,et al.  Self-assembly of carbon nanotubes into two-dimensional geometries using DNA origami templates. , 2010, Nature nanotechnology.