DNA Nanotechnology & Application Laboratory , CSIR-Institute of Minerals & Materials Technology , Bhubaneswar 751 013 , India.
Department of Biotechnology , Ravenshaw University , Cuttack 753 003 , India.
J Phys Chem B. 2019 May 2;123(17):3591-3597. doi: 10.1021/acs.jpcb.9b00353. Epub 2019 Apr 18.
The construction of functionalizable branched DNA (bDNA) relies on the designing of oligonucleotides and exploitation of their complementary chemistries. The stability of these structures largely depends on the hybridization specificity of the contributing oligonucleotides. However, most of the bDNA structures are not found suitable for in vivo application due to poor yield owing to uncharacterized hybridization efficiency and instability in biological fluids. In this report, our group has explored a mechanistic way for studying the hybridization pathway of genomic sequence derived oligonucleotides that are self-assembled to fabricate robust bDNA structures. The effect of change in nucleotide sequences on bDNA stability was studied by taking oligonucleotides derived from primers of different genes. Additionally, the stability of the bDNA in solutions with different pH, salts, and DNaseI which mimics physiological environment was reported. It was found that genomic sequence derived oligonucleotides self-assembled in a cooperative manner to yield the designed bDNAs, which are stable in physiological environment.
功能性分支 DNA（bDNA）的构建依赖于寡核苷酸的设计和互补化学性质的利用。这些结构的稳定性在很大程度上取决于贡献寡核苷酸的杂交特异性。然而，由于未表征的杂交效率和在生物流体中的不稳定性，大多数 bDNA 结构都不适合体内应用。在本报告中，我们小组探索了一种研究源自基因组序列的寡核苷酸的杂交途径的机制方法，这些寡核苷酸自组装形成坚固的 bDNA 结构。通过使用来自不同基因的引物衍生的寡核苷酸来研究核苷酸序列变化对 bDNA 稳定性的影响。此外，还报告了在不同 pH 值、盐和模拟生理环境的 DNaseI 的溶液中 bDNA 的稳定性。结果发现，源自基因组序列的寡核苷酸以协同方式自组装，生成设计的 bDNA，在生理环境中稳定。
