Multipedal DNA Walker Biosensors Based on Catalyzed Hairpin Assembly and Isothermal Strand-Displacement Polymerase Reaction for the Chemiluminescent Detection of Proteins

• Published in: ACS sensors Vol. 3; no. 7; pp. 1283 - 1290
• Main Authors: Li, Ningxing, Du, Mingyuan, Liu, Yucheng, Ji, Xinghu, He, Zhike
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 27.07.2018
• Subjects: Biosensing Techniques - methods; Biotin - chemistry; Folate Receptors, GPI-Anchored - analysis; Humans; Immobilized Nucleic Acids - chemistry; Limit of Detection; Magnets - chemistry; Nucleic Acid Conformation; Nucleic Acid Hybridization - methods; Streptavidin - analysis; Streptavidin - blood; Thrombin - analysis; magnet particles; catalyzed hairpin assembly; DNA walker; chemiluminescence; isothermal strand-displacement polymerase reaction; streptavidin detection
• ISSN: 2379-3694; 2379-3694
• DOI: 10.1021/acssensors.8b00129

In this study, two kinds of sensitive biosensors based on a multipedal DNA walker along a three-dimensional DNA functional magnet particles track for the chemiluminescent detection of streptavidin (SA) are constructed and compared. In the presence of SA, a multipedal DNA walker was constructed by a biotin-modified catalyst as a result of the terminal protection to avoid being digested by exonuclease I. Then, through a toehold-mediated strand exchange, a “leg” of a multipedal DNA walker interacted with a toehold of a catalyzed hairpin assembly (CHA)-H1 coupled with magnetic microparticles (MMPs) and opened its hairpin structure. The newly open stem in CHA-H1 was hybridized with a toehold of biotin-labeled H2. Via the strand displacement process, H2 displaced one “leg” of a multipedal DNA walker, and the other “leg” continued to interact with the neighboring H1 to initiate the next cycle. In order to solve the high background caused by the hybridization between CHA-H1 and H2 without a CHA-catalyst, the other model was designed. The principle of the other model (isothermal strand-displacement polymerase reaction (ISDPR)-DNA walker) was similar to that of the above one. After the terminal protection of SA, a “leg” of a multipedal DNA walker was triggered to open the hairpin of the ISDPR-H1 conjugated with MMPs. Then, the biotin-modified primer hybridized with the newly exposed DNA segment, triggering the polymerization reaction with the assistance of dNTPs/polymerase. As for the extension of the primer, the “leg” of a multipedal DNA walker was displaced so that the other “leg” could trigger the proximal H1 to go onto the next cycle. Due to its lower background and stronger signal, a multipedal DNA walker based on an ISDPR had a lower limit of detection for SA. The limit of detection for SA was 6.5 pM, and for expanding the application of the method, the detections of the folate receptor and thrombin were explored. In addition, these DNA walker methods were applied in complex samples successfully.