Structural and optical properties of DNA layers covalently attached to diamond surfaces.
Label-free detection of DNA molecules on chemically vapor-deposited diamond surfaces is achieved with spectroscopic ellipsometry in the infrared and vacuum ultraviolet range. This nondestructive method has the potential to yield information on the average orientation of single as well as double-stranded DNA molecules, without restricting the strand length to the persistence length. The orientational analysis based on electronic excitations in combination with information from layer thicknesses provides a deeper understanding of biological layers on diamond. The pi-pi* transition dipole moments, corresponding to a transition at 4.74 eV, originate from the individual bases. They are in a plane perpendicular to the DNA backbone with an associated n-pi* transition at 4.47 eV. For 8-36 bases of single- and double-stranded DNA covalently attached to ultra-nanocrystalline diamond, the ratio between in- and out-of-plane components in the best fit simulations to the ellipsometric spectra yields an average tilt angle of the DNA backbone with respect to the surface plane ranging from 45 degrees to 52 degrees . We comment on the physical meaning of the calculated tilt angles. Additional information is gathered from atomic force microscopy, fluorescence imaging, and wetting experiments. The results reported here are of value in understanding and optimizing the performance of the electronic readout of a diamond-based label-free DNA hybridization sensor.
Wenmackers
Sylvia
S
Hasselt University, Institute for Materials Research, Material Physics, and Inorganic and Physical Chemistry, Wetenschapspark 1, B-3590 Diepenbeek, Belgium.
Pop
Simona D
SD
Roodenko
Katy
K
Vermeeren
Veronique
V
Williams
Oliver A
OA
Daenen
Michael
M
Douhéret
Olivier
O
D'Haen
Jan
J
Hardy
An
A
Van Bael
Marlies K
MK
Hinrichs
Karsten
K
Cobet
Christoph
C
vandeVen
Martin
M
Ameloot
Marcel
M
Haenen
Ken
K
Michiels
Luc
L
Esser
Norbert
N
Wagner
Patrick
P
D003460:Crystallization; D004247:DNA / Q000737:chemistry* / Q000648:ultrastructure; D003890:Desiccation; D018130:Diamond / Q000737:chemistry*; D018625:Microscopy, Atomic Force; D009690:Nucleic Acid Conformation; D055095:Optics and Photonics; D013053:Spectrophotometry; D013499:Surface Properties
D018130:Diamond; D004247:DNA