Investigation of Hybridization Efficiency of A Sequence-Orientated Coaxial DNA Probe Microarryed on Biochips Using Atomic Force Microscope

摘要

Two sequence-inversed probes were microarrayed on glass slides to study the hybridization efficiency with their DNA targets. The sequences of two targets were designed to be fully complementary to their shared DNA probe in a coaxial stacking configuration. The enhancement of the hybridization efficiency was investigated through the comparison between the stacking and individual hybridization configurations. AFM was used to measure the depths of two probes at different steps of hybridization. The results indicated that the depths increased as the hybridization proceeded. Probe#1, pre-hybridizing close to the chip surface, obtained a thicker depth than the other probe pre-hybridizing away from the chip surface, Probe#2. A hypothesis was proposed to explain how the depth variation was associated with the observed hybridization efficiency.