Enzyme‐Free Unlabeled DNA Logic Circuits Based on Toehold‐Mediated Strand Displacement and Split G‐Quadruplex Enhanced Fluorescence

Adopting fluorescence of PPIX enhanced by a split G-quadruplex and toehold mediated strand displacement reaction, a series of unlabeled fluorescent logic gates is set up and some of them are cascaded into circuits. Controlled release of PPIX, which is also a photosensitizer in photodynamic diagnosis and therapy, is realized by this circuit, making it a wise choice for DNA computing.

[1]  Dongsheng Liu,et al.  Reversible regulation of protein binding affinity by a DNA machine. , 2012, Journal of the American Chemical Society.

[2]  Y. Li,et al.  Toward an efficient DNAzyme. , 1997, Biochemistry.

[3]  Jiangtao Ren,et al.  Contribution of potassium ion and split modes of G-quadruplex to the sensitivity and selectivity of label-free sensor toward DNA detection using fluorescence. , 2012, Biosensors & bioelectronics.

[4]  Lulu Qian,et al.  Supporting Online Material Materials and Methods Figs. S1 to S6 Tables S1 to S4 References and Notes Scaling up Digital Circuit Computation with Dna Strand Displacement Cascades , 2022 .

[5]  Michael Famulok,et al.  Input-Dependent Induction of Oligonucleotide Structural Motifs for Performing Molecular Logic , 2012, Journal of the American Chemical Society.

[6]  Y. Benenson.  Biomolecular computing systems: principles, progress and potential , 2012, Nature Reviews Genetics.

[7]  E. Wang,et al.  G-quadruplex DNAzyme based molecular catalytic beacon for label-free colorimetric logic gates. , 2011, Biomaterials.

[8]  Erkang Wang,et al.  Measurement of the base number of DNA using a special calliper made of a split G-quadruplex. , 2012, Chemical communications.

[9]  Brian M. Frezza,et al.  Modular multi-level circuits from immobilized DNA-based logic gates. , 2007, Journal of the American Chemical Society.

[10]  Jonathan Bath,et al.  Reversible logic circuits made of DNA. , 2011, Journal of the American Chemical Society.

[11]  D. Y. Zhang,et al.  Control of DNA strand displacement kinetics using toehold exchange. , 2009, Journal of the American Chemical Society.

[12]  I. Willner,et al.  Multiplexed aptasensors and amplified DNA sensors using functionalized graphene oxide: application for logic gate operations. , 2012, ACS nano.

[13]  Jehoshua Bruck,et al.  Neural network computation with DNA strand displacement cascades , 2011, Nature.

[14]  E. Shapiro,et al.  An autonomous molecular computer for logical control of gene expression , 2004, Nature.

[15]  J. Kjems,et al.  Self-assembly of a nanoscale DNA box with a controllable lid , 2009, Nature.

[16]  L M Adleman,et al.  Molecular computation of solutions to combinatorial problems. , 1994, Science.

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

[18]  R. Levine,et al.  DNA computing circuits using libraries of DNAzyme subunits. , 2010, Nature nanotechnology.

[19]  Hsieh-Chih Tsai,et al.  Stimulated release of photosensitizers from graft and diblock micelles for photodynamic therapy. , 2012, Biomaterials.

[20]  I. Willner,et al.  Coherent activation of DNA tweezers: a "SET-RESET" logic system. , 2009, Angewandte Chemie.

[21]  Ryan J. Kershner,et al.  Placement and orientation of individual DNA shapes on lithographically patterned surfaces. , 2009, Nature nanotechnology.

[22]  M Reza Ghadiri,et al.  Universal translators for nucleic acid diagnosis. , 2009, Journal of the American Chemical Society.

[23]  Shawn M. Douglas,et al.  A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads , 2012, Science.

[24]  L. Juillerat-Jeanneret,et al.  5-Aminolevulinic acid and its derivatives: physical chemical properties and protoporphyrin IX formation in cultured cells. , 2000, Journal of photochemistry and photobiology. B, Biology.

[25]  Xiang Zhou,et al.  Highly effective colorimetric and visual detection of nucleic acids using an asymmetrically split peroxidase DNAzyme. , 2008, Journal of the American Chemical Society.

[26]  David Yu Zhang,et al.  Cooperative hybridization of oligonucleotides. , 2011, Journal of the American Chemical Society.

[27]  G. Seelig,et al.  Enzyme-Free Nucleic Acid Logic Circuits , 2022 .

[28]  Tao Li,et al.  A lead(II)-driven DNA molecular device for turn-on fluorescence detection of lead(II) ion with high selectivity and sensitivity. , 2010, Journal of the American Chemical Society.