Fluorescent detection of ATP based on signaling DNA aptamer attached silica nanoparticles

Novel methods for rapid, sensitive and low-cost biomolecule detection have attracted particular interest because of their wide use in medical diagnostics, food inspection and biomedical research applications. In this work, we report a simple and efficient silica nanoparticle (NP)-based fluorescent assay for ATP detection. It takes advantage of the washing and separation properties of NPs and the structure-switch property of DNA aptamers, resulting in fluorescence change of the supernatant in the presence of targets. A linear response for ATP detection was observed from 0 to 6 mM with a detection limit of ∼34 µM. This detection strategy could be generalized to other aptamer-based detection systems.

[1]  Yingfu Li,et al.  Simple and Rapid Colorimetric Biosensors Based on DNA Aptamer and Noncrosslinking Gold Nanoparticle Aggregation , 2007, Chembiochem : a European journal of chemical biology.

[2]  L. Wackett,et al.  Isolation and Characterization of a Pseudomonas sp. That Mineralizes the s-Triazine Herbicide Atrazine , 1995, Applied and environmental microbiology.

[3]  How nanoparticles encapsulating fluorophores allow a double detection of biomolecules by localized surface plasmon resonance and luminescence. , 2008, Nanotechnology.

[4]  M. Nilsen-Hamilton,et al.  Allosteric aptamers: targeted reversibly attenuated probes. , 2005, Biochemistry.

[5]  M. Stojanović,et al.  Modular aptameric sensors. , 2004, Journal of the American Chemical Society.

[6]  D. Drolet,et al.  An enzyme-linked oligonucleotide assay , 1996, Nature Biotechnology.

[7]  Ciara K O'Sullivan,et al.  Reagentless, reusable, ultrasensitive electrochemical molecular beacon aptasensor. , 2006, Journal of the American Chemical Society.

[8]  B. Liu,et al.  Silica nanoparticle assisted DNA assays for optical signal amplification of conjugated polymer based fluorescent sensors. , 2007, Chemical communications.

[9]  V. Tomás,et al.  Determination of ATP via the photochemical generation of hydrogen peroxide using flow injection luminol chemiluminescence detection , 2003, Analytical and bioanalytical chemistry.

[10]  A. Ellington,et al.  Aptamer beacons for the direct detection of proteins. , 2001, Analytical biochemistry.

[11]  W. Stöber,et al.  Controlled growth of monodisperse silica spheres in the micron size range , 1968 .

[12]  Weihong Tan,et al.  Molecular aptamer beacons for real-time protein recognition. , 2002, Biochemical and biophysical research communications.

[13]  Jun Wang,et al.  Aptamer-based ATP assay using a luminescent light switching complex. , 2005, Analytical chemistry.

[14]  Chun Li,et al.  A sensitive colorimetric and fluorescent probe based on a polythiophene derivative for the detection of ATP. , 2005, Angewandte Chemie.

[15]  M. Stojanović,et al.  Aptamer-based folding fluorescent sensor for cocaine. , 2001, Journal of the American Chemical Society.

[16]  D. Barker,et al.  Strategies for covalent attachment of DNA to beads. , 2004, Biopolymers.

[17]  T. Fitzwater,et al.  Potent 2′-amino-, and 2′-fluoro-2′- deoxyribonucleotide RNA inhibitors of keratinocyte growth factor , 1997, Nature Biotechnology.

[18]  Y Wang,et al.  RNA molecules that specifically and stoichiometrically bind aminoglycoside antibiotics with high affinities. , 1996, Biochemistry.

[19]  S. Manalis,et al.  Micromechanical detection of proteins using aptamer-based receptor molecules. , 2004, Analytical chemistry.

[20]  A. Buhot,et al.  Hybridization at a surface: the role of spacers in DNA microarrays. , 2006, Langmuir : the ACS journal of surfaces and colloids.

[21]  S. Turner,et al.  Hybridization of DNA targets to glass-tethered oligonucleotide probes , 1995, Molecular biotechnology.

[22]  Chengde Mao,et al.  An autonomous DNA nanomotor powered by a DNA enzyme. , 2004, Angewandte Chemie.

[23]  P. Burgstaller,et al.  RNA aptamers that bind L-arginine with sub-micromolar dissociation constants and high enantioselectivity. , 1996, Nucleic acids research.

[24]  Yan Li,et al.  Electrogenerated chemiluminescence aptamer-based biosensor for the determination of cocaine , 2007 .

[25]  Yi Lu,et al.  Smart “Turn‐on” Magnetic Resonance Contrast Agents Based on Aptamer‐Functionalized Superparamagnetic Iron Oxide Nanoparticles , 2007, Chembiochem : a European journal of chemical biology.

[26]  Yingfu Li,et al.  Nucleic acid aptamers and enzymes as sensors. , 2006, Current opinion in chemical biology.

[27]  A. Waggoner,et al.  Cyanine dye labeling reagents for sulfhydryl groups. , 1989, Cytometry.

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

[29]  Yusuke Ohtani,et al.  Bis-pyrene labeled DNA aptamer as an intelligent fluorescent biosensor. , 2003, Bioorganic & medicinal chemistry letters.

[30]  Nadine H. Elowe,et al.  Ultrasensitive ATP detection using firefly luciferase entrapped in sugar-modified sol-gel-derived silica. , 2004, Journal of the American Chemical Society.

[31]  Gajendra S Shekhawat,et al.  Label-free ultra-sensitive detection of atrazine based on nanomechanics , 2008, Nanotechnology.

[32]  Milan N Stojanovic,et al.  Fluorescent Sensors Based on Aptamer Self-Assembly. , 2000, Journal of the American Chemical Society.

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

[34]  A. Pardi,et al.  High-resolution molecular discrimination by RNA. , 1994, Science.

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

[36]  Andrew D. Ellington,et al.  Designed signaling aptamers that transduce molecular recognition to changes in fluorescence intensity , 2000 .

[37]  A. Roda,et al.  Bioluminescent continuous-flow assay of adenosine 5'-triphosphate using firefly luciferase immobilized on nylon tubes. , 1986, Analytical Chemistry.

[38]  J. E. Mattson,et al.  A Group-IV Ferromagnetic Semiconductor: MnxGe1−x , 2002, Science.

[39]  Mitsunobu Nakamura,et al.  Pyrene-modified DNA aptamer as a fluorescent biosensor with high affinity and specificity for ATP sensing , 2006 .

[40]  Weihong Tan,et al.  Watching Silica Nanoparticles Glow in the Biological World , 2006 .

[41]  J Wang,et al.  Magnetic bead-based label-free electrochemical detection of DNA hybridization. , 2001, The Analyst.

[42]  Razvan Nutiu,et al.  Signaling Aptamers for Monitoring Enzymatic Activity and for Inhibitor Screening , 2004, Chembiochem : a European journal of chemical biology.

[43]  Chunhai Fan,et al.  A target-responsive electrochemical aptamer switch (TREAS) for reagentless detection of nanomolar ATP. , 2007, Journal of the American Chemical Society.

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