Series or parallel toehold-mediated strand displacement and its application in circular RNA detection and logic gates

作者全名："Bai, Shulian; Xu, Bangtian; Wu, Jiangling; Xie, Guoming"

作者地址："[Bai, Shulian; Xu, Bangtian; Wu, Jiangling] Chongqing Med Univ, Univ Town Hosp, Med Sci Res Ctr, Dept Clin Lab, Chongqing 401331, Peoples R China; [Xie, Guoming] Chongqing Med Univ, Coll Lab Med, Chongqing Med Lab Microfluid, Key Lab Clin Lab Diagnost,Chinese Minist Educ, Chongqing 400016, Peoples R China; [Xie, Guoming] Chongqing Med Univ, SPRi Engn Res Ctr, Chongqing 400016, Peoples R China"

通信作者："Xie, GM (通讯作者)，Chongqing Med Univ, Coll Lab Med, Chongqing Med Lab Microfluid, Key Lab Clin Lab Diagnost,Chinese Minist Educ, Chongqing 400016, Peoples R China.; Xie, GM (通讯作者)，Chongqing Med Univ, SPRi Engn Res Ctr, Chongqing 400016, Peoples R China."

来源：BIOSENSORS & BIOELECTRONICS

ESI学科分类：CHEMISTRY

WOS号：WOS:001080069600001

JCR分区：Q1

影响因子：10.7

年份：2023

卷号：241

期号：　

开始页：　

结束页：　

文献类型：Article

关键词：DNA strand displacement; DNA secondary structure; Kinetic mechanism; Circular RNA; Logic gate

摘要："Toehold-mediated strand displacement (TMSD) is widely employed in constructing a wide range of chemical reaction networks. In TMSD, single-stranded DNA or RNA can fold back upon itself to form a local short doublestrand structure often hindering bimolecular hybridization. Here, based on series and parallel circuits, we introduce two mechanisms: series toehold-mediated strand displacement (STMSD) and parallel toehold-mediated strand displacement (PTMSD). These mechanisms can be highly effective when the target area is blocked by a secondary structure. In addition, these systems allow regulating the reaction rates spanning three to five orders of magnitude by adjusting the length of the two toeholds with the added advantage of multifunctional regulation and selectivity. To demonstrate the impressive function of this approach, a logic operation system based on STMSD was constructed to simulate the signal processing of a half-adder. We believe that the introduction of series and parallel toeholds will provide design flexibility contributing to the development of molecular computers, molecular robotics, and DNA-based biosensors."

基金机构：National Natural Science Foundation of China [82202641]; Postdoctoral Science Foundation of China [2021M693759]; Natural Science Foundation of Chongqing [cstc2021jcyj-bshX0171]; National Key R & D Program of China [2022YFC2603800]

基金资助正文："This research was supported by the financial support from the National Key R & D Program of China (2022YFC2603800) , National Natural Science Foundation of China (82202641) , Postdoctoral Science Foundation of China (2021M693759) , and Natural Science Foundation of Chongqing (cstc2021jcyj-bshX0171) ."