Recent Advances in Self-Assembled DNA Nanosensors

Karina M. M. Carneiro; Andrea A. Greschner

doi:doi:10.11648/j.nano.s.2015030101.11

| Peer-Reviewed |

Recent Advances in Self-Assembled DNA Nanosensors

Karina M. M. Carneiro, Andrea A. Greschner

Received: 30 November 2014 Accepted: 18 December 2014 Published: 27 December 2014

Views: Downloads:

Download PDF

Share This Article

Twitter
Linked In
Facebook

Abstract

Over the past 30 years DNA has been assembled into a plethora of structures by design, based on its reliable base pairing properties. As a result, many applications of DNA nanotechnology are emerging. Here, we review recent advances in the use of self-assembled DNA nanostructures as sensors. In particular, we focus on how defined nanostructures, such as rigid DNA tetrahedra, provide an advantage over traditional nanosensors consisting of arrays of single-stranded DNA. We also explore advances in DNA origami that have resulted in consistent detection of single molecules.

DOI	10.11648/j.nano.s.2015030101.11
Published in	American Journal of Nano Research and Applications (Volume 3, Issue 1-1, January 2015) This article belongs to the Special Issue Nanomaterials and Nanosensors for Chemical and Biological Detection
Page(s)	1-7
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

Self-Assembly, DNA, Nanosensors, Tetrahedron, DNA Origami

References

[1]	K.M. Carneiro, N. Avakyan, H.F. Sleiman, "Long-range assembly of DNA into nanofibers and highly ordered networks", Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology, 2013, pp.
[2]	J. Liu, Z. Cao, Y. Lu, "Functional nucleic acid sensors", Chemical Reviews, 109, 2009, pp. 1948-1998.
[3]	K. Wang, Z. Tang, C.J. Yang, Y. Kim, X. Fang, W. Li, Y. Wu, C.D. Medley, Z. Cao, J. Li, P. Colon, H. Lin, W. Tan, "Molecular engineering of DNA: Molecular beacons", Angewandte Chemie International Edition, 48, 2009, pp. 856-870.
[4]	C. Tuerk, L. Gold, "Systematic evolution of ligands by exponential enrichment: Rna ligands to bacteriophage t4 DNA polymerase", Science, 249, 1990, pp. 505-510.
[5]	S.D. Jayasena, "Aptamers: An emerging class of molecules that rival antibodies in diagnostics", Clinical Chemistry, 45, 1999, pp. 1628-1650.
[6]	K. Robison, A.M. McGuire, G.M. Church, "A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete escherichia coli k-12 genome", Journal of Molecular Biology, 284, 1998, pp. 241-254.
[7]	S. Tyagi, F.R. Kramer, "Molecular beacons: Probes that fluoresce upon hybridization", Nat Biotech, 14, 1996, pp. 303-308.
[8]	R.P. Goodman, R.M. Berry, A.J. Turberfield, "The single-step synthesis of a DNA tetrahedron", Chemical Communications, 2004, pp. 1372-1373.
[9]	J.-W. Keum, H. Bermudez, "Enhanced resistance of dnananostructures to enzymatic digestion", Chemical Communications, 2009, pp. 7036-7038.
[10]	N. Mitchell, R. Schlapak, M. Kastner, D. Armitage, W. Chrzanowski, J. Riener, P. Hinterdorfer, A. Ebner, S. Howorka, "A DNA nanostructure for the functional assembly of chemical groups with tunable stoichiometry and defined nanoscale geometry", Angewandte Chemie International Edition, 48, 2009, pp. 525-527.
[11]	M. Leitner, N. Mitchell, M. Kastner, R. Schlapak, H.J. Gruber, P. Hinterdorfer, S. Howorka, A. Ebner, "Single-molecule afm characterization of individual chemically tagged DNA tetrahedra", ACS Nano, 5, 2011, pp. 7048-7054.
[12]	D.Y. Petrovykh, V. Pérez-Dieste, A. Opdahl, H. Kimura-Suda, J.M. Sullivan, M.J. Tarlov, F.J. Himpsel, L.J. Whitman, "Nucleobase orientation and ordering in films of single-stranded DNA on gold", Journal of the American Chemical Society, 128, 2005, pp. 2-3.
[13]	H. Pei, X. Zuo, D. Pan, J. Shi, Q. Huang, C. Fan, "Scaffolded biosensors with designed DNA nanostructures", NPG Asia Mater, 5, 2013, pp. e51.
[14]	H. Pei, N. Lu, Y. Wen, S. Song, Y. Liu, H. Yan, C. Fan, "A DNA nanostructure-based biomolecular probe carrier platform for electrochemical biosensing", Advanced Materials, 22, 2010, pp. 4754-4758.
[15]	H. Pei, L. Liang, G. Yao, J. Li, Q. Huang, C. Fan, "Reconfigurable three-dimensional DNA nanostructures for the construction of intracellular logic sensors", Angewandte Chemie International Edition, 51, 2012, pp. 9020-9024.
[16]	A. Abi, M. Lin, H. Pei, C. Fan, E.E. Ferapontova, X. Zuo, "Electrochemical switching with 3d DNA tetrahedral nanostructures self-assembled at gold electrodes", ACS Applied Materials & Interfaces, 6, 2014, pp. 8928-8931.
[17]	L. Yuan, M. Giovanni, J. Xie, C. Fan, D.T. Leong, "Ultrasensitive igg quantification using DNA nano-pyramids", NPG Asia Mater, 6, 2014, pp. e112.
[18]	X. Chen, G. Zhou, P. Song, J. Wang, J. Gao, J. Lu, C. Fan, X. Zuo, "Ultrasensitive electrochemical detection of prostate-specific antigen by using antibodies anchored on a DNA nanostructural scaffold", Analytical Chemistry, 86, 2014, pp. 7337-7342.
[19]	Z. Li, B. Zhao, D. Wang, Y. Wen, G. Liu, H. Dong, S. Song, C. Fan, "DNA nanostructure-based universal microarray platform for high-efficiency multiplex bioanalysis in biofluids", ACS Applied Materials & Interfaces, 6, 2014, pp. 17944-17953.
[20]	M. Zhang, B.-C. Ye, "Label-free fluorescent detection of copper (ii) using DNA-templated highly luminescent silver nanoclusters", Analyst, 136, 2011, pp. 5139-5142.
[21]	M. Zhang, S.-M. Guo, Y.-R. Li, P. Zuo, B.-C. Ye, "A label-free fluorescent molecular beacon based on DNA-templated silver nanoclusters for detection of adenosine and adenosine deaminase", Chemical Communications, 48, 2012, pp. 5488-5490.
[22]	T. Do, F. Ho, B. Heidecker, K. Witte, L. Chang, L. Lerner, "A rapid method for determining dynamic binding capacity of resins for the purification of proteins", Protein Expression and Purification, 60, 2008, pp. 147-150.
[23]	M. Zhang, X.-Q. Jiang, H.-N. Le, P. Wang, B.-C. Ye, "Dip-and-read method for label-free renewable sensing enhanced using complex DNA structures", ACS Applied Materials & Interfaces, 5, 2013, pp. 473-478.
[24]	P.W.K. Rothemund, "Folding DNA to create nanoscale shapes and patterns", Nature, 440, 2006, pp. 297-302.
[25]	E.S. Andersen, M. Dong, M.M. Nielsen, K. Jahn, A. Lind-Thomsen, W. Mamdouh, K.V. Gothelf, F. Besenbacher, J. Kjems, "DNA origami design of dolphin-shaped structures with flexible tails", ACS nano, 2, 2008, pp. 1213-1218.
[26]	E.S. Andersen, M. Dong, M.M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M.M. Golas, B. Sander, H. Stark, C.L.P. Oliveira, J.S. Pedersen, V. Birkedal, F. Besenbacher, K.V. Gothelf, J. Kjems, "Self-assembly of a nanoscale DNA box with a controllable lid", Nature, 459, 2009, pp. 73-U75.
[27]	Y. Ke, S. Lindsay, Y. Chang, Y. Liu, H. Yan, "Self-assembled water-soluble nucleic acid probe tiles for label-free rna hybridization assays", Science, 319, 2008, pp. 180-183.
[28]	Z. Zhang, Y. Wang, C. Fan, C. Li, Y. Li, L. Qian, Y. Fu, Y. Shi, J. Hu, L. He, "Asymmetric DNA origami for spatially addressable and index-free solution-phase DNA chips", Advanced Materials, 22, 2010, pp. 2672-2675.
[29]	Z. Zhang, D. Zeng, H. Ma, G. Feng, J. Hu, L. He, C. Li, C. Fan, "A DNA-origami chip platform for label-free snp genotyping using toehold-mediated strand displacement", Small, 6, 2010, pp. 1854-1858.
[30]	H.K.K. Subramanian, B. Chakraborty, R. Sha, N.C. Seeman, "The label-free unambiguous detection and symbolic display of single nucleotide polymorphisms on DNA origami", Nano Letters, 11, 2011, pp. 910-913.
[31]	A. Kuzuya, Y. Sakai, T. Yamazaki, Y. Xu, M. Komiyama, "Nanomechanical DNA origami 'single-molecule beacons' directly imaged by atomic force microscopy", Nat Commun, 2, 2011, pp. 449.
[32]	A. Kuzuya, R. Watanabe, Y. Yamanaka, T. Tamaki, M. Kaino, Y. Ohya, "Nanomechanical DNA origami ph sensors", Sensors, 14, 2014, pp. 19329-19335.

Cite This Article

Plain Text BibTeX RIS

APA Style

Karina M. M. Carneiro, Andrea A. Greschner. (2014). Recent Advances in Self-Assembled DNA Nanosensors. American Journal of Nano Research and Applications, 3(1-1), 1-7. https://doi.org/10.11648/j.nano.s.2015030101.11

Copy | Download

ACS Style

Karina M. M. Carneiro; Andrea A. Greschner. Recent Advances in Self-Assembled DNA Nanosensors. Am. J. Nano Res. Appl. 2014, 3(1-1), 1-7. doi: 10.11648/j.nano.s.2015030101.11

Copy | Download

AMA Style

Karina M. M. Carneiro, Andrea A. Greschner. Recent Advances in Self-Assembled DNA Nanosensors. Am J Nano Res Appl. 2014;3(1-1):1-7. doi: 10.11648/j.nano.s.2015030101.11

Copy | Download

@article{10.11648/j.nano.s.2015030101.11,
  author = {Karina M. M. Carneiro and Andrea A. Greschner},
  title = {Recent Advances in Self-Assembled DNA Nanosensors},
  journal = {American Journal of Nano Research and Applications},
  volume = {3},
  number = {1-1},
  pages = {1-7},
  doi = {10.11648/j.nano.s.2015030101.11},
  url = {https://doi.org/10.11648/j.nano.s.2015030101.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.nano.s.2015030101.11},
  abstract = {Over the past 30 years DNA has been assembled into a plethora of structures by design, based on its reliable base pairing properties. As a result, many applications of DNA nanotechnology are emerging. Here, we review recent advances in the use of self-assembled DNA nanostructures as sensors. In particular, we focus on how defined nanostructures, such as rigid DNA tetrahedra, provide an advantage over traditional nanosensors consisting of arrays of single-stranded DNA. We also explore advances in DNA origami that have resulted in consistent detection of single molecules.},
 year = {2014}
}

Copy | Download

TY  - JOUR
T1  - Recent Advances in Self-Assembled DNA Nanosensors
AU  - Karina M. M. Carneiro
AU  - Andrea A. Greschner
Y1  - 2014/12/27
PY  - 2014
N1  - https://doi.org/10.11648/j.nano.s.2015030101.11
DO  - 10.11648/j.nano.s.2015030101.11
T2  - American Journal of Nano Research and Applications
JF  - American Journal of Nano Research and Applications
JO  - American Journal of Nano Research and Applications
SP  - 1
EP  - 7
PB  - Science Publishing Group
SN  - 2575-3738
UR  - https://doi.org/10.11648/j.nano.s.2015030101.11
AB  - Over the past 30 years DNA has been assembled into a plethora of structures by design, based on its reliable base pairing properties. As a result, many applications of DNA nanotechnology are emerging. Here, we review recent advances in the use of self-assembled DNA nanostructures as sensors. In particular, we focus on how defined nanostructures, such as rigid DNA tetrahedra, provide an advantage over traditional nanosensors consisting of arrays of single-stranded DNA. We also explore advances in DNA origami that have resulted in consistent detection of single molecules.
VL  - 3
IS  - 1-1
ER  -

Copy | Download

Author Information

Karina M. M. Carneiro

School of Dentistry, Department of Preventive and Restorative Dental Science, UCSF, San Francisco, USA
Andrea A. Greschner

Institut National de la Recherche Scientifique, Centre d’énergie, Matériaux et Télécommunications, Varennes, Canada

Download PDF

Sections

Plain Text BibTeX RIS

APA Style

Karina M. M. Carneiro, Andrea A. Greschner. (2014). Recent Advances in Self-Assembled DNA Nanosensors. American Journal of Nano Research and Applications, 3(1-1), 1-7. https://doi.org/10.11648/j.nano.s.2015030101.11

Copy | Download

ACS Style

Karina M. M. Carneiro; Andrea A. Greschner. Recent Advances in Self-Assembled DNA Nanosensors. Am. J. Nano Res. Appl. 2014, 3(1-1), 1-7. doi: 10.11648/j.nano.s.2015030101.11

Copy | Download

AMA Style

Karina M. M. Carneiro, Andrea A. Greschner. Recent Advances in Self-Assembled DNA Nanosensors. Am J Nano Res Appl. 2014;3(1-1):1-7. doi: 10.11648/j.nano.s.2015030101.11

Copy | Download

@article{10.11648/j.nano.s.2015030101.11,
  author = {Karina M. M. Carneiro and Andrea A. Greschner},
  title = {Recent Advances in Self-Assembled DNA Nanosensors},
  journal = {American Journal of Nano Research and Applications},
  volume = {3},
  number = {1-1},
  pages = {1-7},
  doi = {10.11648/j.nano.s.2015030101.11},
  url = {https://doi.org/10.11648/j.nano.s.2015030101.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.nano.s.2015030101.11},
  abstract = {Over the past 30 years DNA has been assembled into a plethora of structures by design, based on its reliable base pairing properties. As a result, many applications of DNA nanotechnology are emerging. Here, we review recent advances in the use of self-assembled DNA nanostructures as sensors. In particular, we focus on how defined nanostructures, such as rigid DNA tetrahedra, provide an advantage over traditional nanosensors consisting of arrays of single-stranded DNA. We also explore advances in DNA origami that have resulted in consistent detection of single molecules.},
 year = {2014}
}

Copy | Download

TY  - JOUR
T1  - Recent Advances in Self-Assembled DNA Nanosensors
AU  - Karina M. M. Carneiro
AU  - Andrea A. Greschner
Y1  - 2014/12/27
PY  - 2014
N1  - https://doi.org/10.11648/j.nano.s.2015030101.11
DO  - 10.11648/j.nano.s.2015030101.11
T2  - American Journal of Nano Research and Applications
JF  - American Journal of Nano Research and Applications
JO  - American Journal of Nano Research and Applications
SP  - 1
EP  - 7
PB  - Science Publishing Group
SN  - 2575-3738
UR  - https://doi.org/10.11648/j.nano.s.2015030101.11
AB  - Over the past 30 years DNA has been assembled into a plethora of structures by design, based on its reliable base pairing properties. As a result, many applications of DNA nanotechnology are emerging. Here, we review recent advances in the use of self-assembled DNA nanostructures as sensors. In particular, we focus on how defined nanostructures, such as rigid DNA tetrahedra, provide an advantage over traditional nanosensors consisting of arrays of single-stranded DNA. We also explore advances in DNA origami that have resulted in consistent detection of single molecules.
VL  - 3
IS  - 1-1
ER  -

Copy | Download