Department of Chemistry, Shands Cancer Center and Center for Research at the Interface of Bio/Nano, UF Genetics Institute and McKnight Brain Institute, University of Florida, Gainesville, Florida 32611-7200, USA.
J Am Chem Soc. 2013 May 29;135(21):7967-73. doi: 10.1021/ja4018495. Epub 2013 May 16.
Strand displacement cascades are commonly used to make dynamically assembled structures. Particularly, the concept of "toehold-mediated DNA branch migration reactions" has attracted considerable attention in relation to dynamic DNA nanostructures. However, it is a challenge to obtain and control the formation of pure 1:1 ratio DNA duplexes with toehold structures. Here, for the first time, we report a photocontrolled toehold formation method, which is based on the photocleavage of 2-nitrobenzyl linker-embedded DNA hairpin precursor structures. UV light irradiation (λ ≈ 365 nm) of solutions containing these DNA hairpin structures causes the complete cleavage of the nitrobenzyl linker, and pure 1:1 DNA duplexes with toehold structures are easily formed. Our experimental results indicate that the amount of toehold can be controlled by simply changing the dose of UV irradiation and that the resulting toehold structures can be used for subsequent toehold-mediated DNA branch migration reactions, e.g., DNA hybridization chain reactions. This newly established method will find broad application in the construction of light-powered, controllable, and dynamic DNA nanostructures or large-scale DNA circuits.
链位移级联反应通常用于构建动态组装结构。特别是,“引发介导的 DNA 分支迁移反应”的概念在动态 DNA 纳米结构方面引起了相当大的关注。然而,获得和控制具有引发结构的纯 1:1 比例 DNA 双链体仍然是一个挑战。在这里,我们首次报道了一种光控引发形成方法,该方法基于嵌入 2-硝基苄基连接子的 DNA 发夹前体结构的光裂解。含有这些 DNA 发夹结构的溶液的 UV 光照射(λ≈365nm)会导致硝基苄基连接子的完全裂解,并且很容易形成具有引发结构的纯 1:1 DNA 双链体。我们的实验结果表明,通过简单地改变 UV 照射的剂量可以控制引发的数量,并且所得的引发结构可以用于随后的引发介导的 DNA 分支迁移反应,例如 DNA 杂交链式反应。这种新建立的方法将在构建光控、可控和动态 DNA 纳米结构或大规模 DNA 电路方面得到广泛应用。