Binding-driven forward tearing protospacer activated CRISPR-Cas12a system and applications for microRNA detection

反式激活crRNA 清脆的 小RNA 适体 DNA Cas9 计算生物学 纳米技术 生物 分子生物学 遗传学 材料科学 基因
作者
Lina Zhao,Xiangyu Deng,Yuqing Li,Qing Zhao,Lei Xiao,Jianjiang Xue,Anyi Chen,Wei Cheng,Min Zhao
出处
期刊:Journal of Nanobiotechnology [Springer Nature]
卷期号:22 (1)
标识
DOI:10.1186/s12951-024-02915-5
摘要

CRISPR-Cas12a system, characterized by its precise sequence recognition and cleavage activity, has emerged as a powerful and programmable tool for molecular diagnostics. However, current CRISPR-Cas12a-based nucleic acid detection methods, particularly microRNA (miRNA) detection, necessitate additional bio-engineering strategies to exert control over Cas12a activity. Herein, we propose an engineered target-responsive hairpin DNA activator (TRHDA) to mediate forward tearing protospacer activated CRISPR-Cas12a system, which enables direct miRNA detection with high specificity and sensitivity. Target miRNA specifically binding to hairpin DNA can drive forward tearing protospacer in the stem sequence of hairpin structure, facilitating the complementarity between crRNA spacer and protospacer to activate Cas12a. Upon the hairpin DNA as input-responsive activator of Cas12a, a universal biosensing method enables the multiple miRNAs (miR-21, let-7a, miR-30a) detection and also has exceptional capability in identifying single-base mismatches and distinguishing homologous let-7/miR-30 family members. Besides, TRHDA-mediated Cas12a-powered biosensing has realized the evaluation of miR-21 expression levels in diverse cellular contexts by intracellular imaging. Considering the easy programmability of hairpin DNA in responsive region, this strategy could expand for the other target molecules detection (e.g., proteins, micromolecules, peptides, exosomes), which offers significant implications for biomarkers diagnostics utilizing the CRISPR-Cas12a system toolbox.
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