Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch

Paul Dickinson; Colin J. Campbell; Stuart Evans; Amy H. Buck; Christopher P. Mountford; Lorraine M. Keane; Jonathan G. Terry; Tsueu-Ju Su; Andrew R. Mount; John S. Beattie; Anthony J. Walton; Jason Crain; Peter Ghazal

Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch

Paul Dickinson, Colin J. Campbell, Stuart Evans, Amy H. Buck, Christopher P. Mountford, Lorraine M. Keane, Jonathan G. Terry, Tsueu-Ju Su, Andrew R. Mount, John S. Beattie, Anthony J. Walton, Jason Crain, Peter Ghazal

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

The Holliday junction (HJ) structure, consisting of four DNA double helices with a central branch point, is capable of switching between conformational states upon ion binding. The HJ nanoswitch described here comprises a long, dual labeled cloverleaf oligonucleotide and a short, unlabeled oligonucleotide. Fluorescent labeling with donor and acceptor dyes placed on the HJ arms of the cloverleaf strand allows the ion induced conformational switch to be detected optically using fluorescence resonance energy transfer (FRET). The influence of donor and acceptor dye location on the detection of conformational switching has been investigated using two distinct HJ structures. In addition, the effect of increasing HJ arm length in order to increase donor and acceptor dye separation has been evaluated. We report that a preferential HJ nanoswitch structure can be determined, capable of efficient detection of ion induced conformational switching.

Original language	English
Title of host publication	2006 Bio- Micro- and Nanosystems Conference
Place of Publication	NEW YORK
Publisher	Institute of Electrical and Electronics Engineers (IEEE)
Pages	36
Number of pages	4
ISBN (Print)	978-1-4244-0056-0
Publication status	Published - 2006

Keywords

HOLLIDAY JUNCTION
CRYSTAL-STRUCTURE
ENERGY-TRANSFER
4-WAY JUNCTION
NANOTECHNOLOGY
MOLECULES
GEOMETRY

1 Finished

Beacon Project
Ghazal, P., Crain, J., Mount, A., Walton, A. & Terry, J.
UK central government bodies/local authorities, health and hospital authorities
1/04/03 → 31/03/07
Project: Research

Cite this

Dickinson, P., Campbell, C. J., Evans, S., Buck, A. H., Mountford, C. P., Keane, L. M., Terry, J. G., Su, T-J., Mount, A. R., Beattie, J. S., Walton, A. J., Crain, J., & Ghazal, P. (2006). Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch. In 2006 Bio- Micro- and Nanosystems Conference (pp. 36). Institute of Electrical and Electronics Engineers (IEEE).

Dickinson, Paul ; Campbell, Colin J. ; Evans, Stuart ; Buck, Amy H. ; Mountford, Christopher P. ; Keane, Lorraine M. ; Terry, Jonathan G. ; Su, Tsueu-Ju ; Mount, Andrew R. ; Beattie, John S. ; Walton, Anthony J. ; Crain, Jason ; Ghazal, Peter. / Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch. 2006 Bio- Micro- and Nanosystems Conference. NEW YORK : Institute of Electrical and Electronics Engineers (IEEE), 2006. pp. 36

@inproceedings{f57ce640f80341a6b0bf2fc3a2a36ec2,

title = "Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch",

abstract = "The Holliday junction (HJ) structure, consisting of four DNA double helices with a central branch point, is capable of switching between conformational states upon ion binding. The HJ nanoswitch described here comprises a long, dual labeled cloverleaf oligonucleotide and a short, unlabeled oligonucleotide. Fluorescent labeling with donor and acceptor dyes placed on the HJ arms of the cloverleaf strand allows the ion induced conformational switch to be detected optically using fluorescence resonance energy transfer (FRET). The influence of donor and acceptor dye location on the detection of conformational switching has been investigated using two distinct HJ structures. In addition, the effect of increasing HJ arm length in order to increase donor and acceptor dye separation has been evaluated. We report that a preferential HJ nanoswitch structure can be determined, capable of efficient detection of ion induced conformational switching.",

keywords = "HOLLIDAY JUNCTION, CRYSTAL-STRUCTURE, ENERGY-TRANSFER, 4-WAY JUNCTION, NANOTECHNOLOGY, MOLECULES, GEOMETRY",

author = "Paul Dickinson and Campbell, {Colin J.} and Stuart Evans and Buck, {Amy H.} and Mountford, {Christopher P.} and Keane, {Lorraine M.} and Terry, {Jonathan G.} and Tsueu-Ju Su and Mount, {Andrew R.} and Beattie, {John S.} and Walton, {Anthony J.} and Jason Crain and Peter Ghazal",

year = "2006",

language = "English",

isbn = "978-1-4244-0056-0",

pages = "36",

booktitle = "2006 Bio- Micro- and Nanosystems Conference",

publisher = "Institute of Electrical and Electronics Engineers (IEEE)",

address = "United States",

}

Dickinson, P , Campbell, CJ, Evans, S, Buck, AH, Mountford, CP, Keane, LM, Terry, JG, Su, T-J, Mount, AR, Beattie, JS, Walton, AJ, Crain, J & Ghazal, P 2006, Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch. in 2006 Bio- Micro- and Nanosystems Conference. Institute of Electrical and Electronics Engineers (IEEE), NEW YORK, pp. 36.

Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch. / Dickinson, Paul ; Campbell, Colin J.; Evans, Stuart; Buck, Amy H.; Mountford, Christopher P.; Keane, Lorraine M.; Terry, Jonathan G.; Su, Tsueu-Ju; Mount, Andrew R.; Beattie, John S.; Walton, Anthony J.; Crain, Jason; Ghazal, Peter.

2006 Bio- Micro- and Nanosystems Conference. NEW YORK : Institute of Electrical and Electronics Engineers (IEEE), 2006. p. 36.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

TY - GEN

T1 - Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch

AU - Dickinson, Paul

AU - Campbell, Colin J.

AU - Evans, Stuart

AU - Buck, Amy H.

AU - Mountford, Christopher P.

AU - Keane, Lorraine M.

AU - Terry, Jonathan G.

AU - Su, Tsueu-Ju

AU - Mount, Andrew R.

AU - Beattie, John S.

AU - Walton, Anthony J.

AU - Crain, Jason

AU - Ghazal, Peter

PY - 2006

Y1 - 2006

N2 - The Holliday junction (HJ) structure, consisting of four DNA double helices with a central branch point, is capable of switching between conformational states upon ion binding. The HJ nanoswitch described here comprises a long, dual labeled cloverleaf oligonucleotide and a short, unlabeled oligonucleotide. Fluorescent labeling with donor and acceptor dyes placed on the HJ arms of the cloverleaf strand allows the ion induced conformational switch to be detected optically using fluorescence resonance energy transfer (FRET). The influence of donor and acceptor dye location on the detection of conformational switching has been investigated using two distinct HJ structures. In addition, the effect of increasing HJ arm length in order to increase donor and acceptor dye separation has been evaluated. We report that a preferential HJ nanoswitch structure can be determined, capable of efficient detection of ion induced conformational switching.

AB - The Holliday junction (HJ) structure, consisting of four DNA double helices with a central branch point, is capable of switching between conformational states upon ion binding. The HJ nanoswitch described here comprises a long, dual labeled cloverleaf oligonucleotide and a short, unlabeled oligonucleotide. Fluorescent labeling with donor and acceptor dyes placed on the HJ arms of the cloverleaf strand allows the ion induced conformational switch to be detected optically using fluorescence resonance energy transfer (FRET). The influence of donor and acceptor dye location on the detection of conformational switching has been investigated using two distinct HJ structures. In addition, the effect of increasing HJ arm length in order to increase donor and acceptor dye separation has been evaluated. We report that a preferential HJ nanoswitch structure can be determined, capable of efficient detection of ion induced conformational switching.

KW - HOLLIDAY JUNCTION

KW - CRYSTAL-STRUCTURE

KW - ENERGY-TRANSFER

KW - 4-WAY JUNCTION

KW - NANOTECHNOLOGY

KW - MOLECULES

KW - GEOMETRY

M3 - Conference contribution

SN - 978-1-4244-0056-0

SP - 36

BT - 2006 Bio- Micro- and Nanosystems Conference

PB - Institute of Electrical and Electronics Engineers (IEEE)

CY - NEW YORK

ER -

Positional characteristics of fluorophores influencing signal output of a DNA nanoswitch

Abstract

Keywords

Beacon Project

Cite this