title: Detection of mismatched DNA on partially negatively charged diamond surfaces by optical and potentiometric methods.
abstract: The effects of surface charge density on DNA hybridization have been investigated on a mixture of hydrogen-, oxygen-, and amine-terminated diamond surfaces. A difference in the hybridization efficiencies of complementary and mismatched DNA was clearly observed by fluorescence and potentiometric observations at a particular coverage of oxygen. In the fluorescence observation, singly mismatched DNA was detected with high contrast after appropriate hybridization on the surface with 10-20% oxygen coverage. The amount of oxygen in the form of C-O(-) (deprotonated C-OH) producing the surface negative-charge density was estimated by X-ray photoelectron spectroscopy. Electrolyte solution gate field-effect transistors (SGFETs) were used for potentiometric observations. The signal difference (change in gate potential) on the SGFET, which was as large as approximately 20 mV, was caused by the difference in the hybridization efficiencies of complementary target DNA (cDNA) and singly mismatched (1MM) target DNA with a common probe DNA immobilized on the same SGFET. The reversible change in gate potential caused by the hybridization and denaturation cycles and discriminating between the complementary and 1MM DNA targets was very stable throughout the cyclical detections. Moreover, the ratio of signals caused by hybridization of the cDNA and 1MM DNA targets with the probe DNA immobilized on the SGFET was determined to be 3:1 when hybridization had occurred (after 15 min on SGFET), as determined by real-time measurements. From the viewpoint of hybridization kinetics, the rate constant for hybridization of singly mismatched DNA was a factor of approximately 3 smaller than that of cDNA on this functionalized (oxidized and aminated) diamond surface.
authors.affiliation: Department of Nano-Science and Nano-Engineering, School of Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan.
authors.forename: Shoma
authors.initials: S
authors.lastname: Kuga
authors.forename: Jung-Hoon
authors.initials: JH
authors.lastname: Yang
authors.forename: Hironori
authors.initials: H
authors.lastname: Takahashi
authors.forename: Kazuyuki
authors.initials: K
authors.lastname: Hirama
authors.forename: Takayuki
authors.initials: T
authors.lastname: Iwasaki
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Kawarada
mesh_terms: D001483:Base Sequence; D004247:DNA / Q000737:chemistry*; D015342:DNA Probes / Q000737:chemistry; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D009691:Nucleic Acid Denaturation; D011199:Potentiometry; D013053:Spectrophotometry; D013499:Surface Properties
chemical_list: D015342:DNA Probes; D004247:DNA