Journal ArticleDOI
Fabrication of bifunctional G-quadruplex-hemin DNAzymes for colorimetric detection of apurinic/apyrimidinic endonuclease 1 and microRNA-21.
TLDR
In this paper, the authors extend the loop sequences of G-quadruplex structures and find that G-DNAzymes with long loops (even 30 nucleotides) maintain high peroxidase activity.Abstract:
G-quadruplex-based complexes have been widely used in various analytical methods due to their outstanding capabilities of generating colorimetric, fluorescent or electrochemical signals. However, since loop sequences in traditional G-quadruplex structures are quite short, it is difficult to establish biosensors solely using G-quadruplex-based complexes. Herein, we attempted to lengthen the loop sequences of G-quadruplex structures and found that G-quadruplex-hemin DNAzymes (G-DNAzymes) with long loops (even 30 nucleotides) maintain high peroxidase activity. In addition, the peroxidase activity is not affected by the hybridization of the long loop with its complementary counterpart. Consequently, G-DNAzyme can be endowed with an additional function by taking the long loop as a recognition element, which may facilitate the construction of diverse colorimetric biosensors. Furthermore, by designing an apurinic/apyrimidinic site or a complementary sequence of microRNA-21 (miRNA-21) in long loops, bifunctional G-DNAzymes can be split in the presence of apurinic/apyrimidinic endonuclease 1 (APE1) or miRNA-21, decreasing their peroxidase activities. Accordingly, APE1 and miRNA-21 are quantified using 3,3',5,5'-tetramethylbenzidine as a chromophore. Using the G-DNAzyme, APE1 can be detected in a linear range from 2.5 to 22.5 U mL-1 with a LOD of 1.8 U mL-1. It is to be noted that benefitting from duplex-specific nuclease-induced signal amplification, the linear range of the miRNA-21 biosensor is broadened to 5 orders of magnitude, while the limit of detection is as low as 73 fM. This work demonstrates that G-DNAzymes with long loops can both generate signals and recognize targets, providing an alternative strategy to design G-quadruplex-based analytical methods.read more
Citations
More filters
Journal ArticleDOI
Smart Programmable Scalable Dual-Mode Diagnostic Logic Nanoflare Strategy for Dual-Tumor Marker Detection.
Zhiheng Cai,Ali Wang,Yu Wang,Zhili Qiu,Yuting Li,Hanrong Yan,Mengying Fu,Miaoyan Liu,Yanyan Yu,Fenglei Gao +9 more
TL;DR: Wang et al. as mentioned in this paper detected miRNA-21 and APE1 in two modes, AND and OR, respectively, based on gold nanoflares and simple logic components.
Journal ArticleDOI
A Washing-Free and Easy-to-Operate Fluorescent Biosensor for Highly Efficient Detection of Breast Cancer-Derived Exosomes
TL;DR: A washing-free and efficient fluorescent biosensor has been proposed to realize simple and straightforward analysis of breast cancer cell-derived exosomes based on high affinity aptamers and G quadruplex- hemin (G4-hemin).
Journal ArticleDOI
Label- and enzyme-free plasmon-enhanced single molecule fluorescence detection of HIV DNA fragments based on a catalytic hairpin assembly.
Ke Shi,Na Na,Jin Ouyang +2 more
TL;DR: Wang et al. as discussed by the authors developed a label and enzyme-free single molecule fluorescence counting strategy for HIV DNA fragments detection, which consists of a 5' terminal connected with a triangular gold nanoplate, 3' terminal rich in guanine hairpin probe (HP1) and a hairpin probing HP2 complementary to the partial sequence of HP1.
Journal ArticleDOI
A simple and smart AND-gate DNA nanoprobe for correlated enzymes tracking and cell-selective imaging.
Zijie Zeng,Bianqin Guo,Xingrong Li,Xuhuai Fu,Yirong Chen,Haiping Wu,Lu Zhang,Junman Chen,Shijia Ding +8 more
TL;DR: In this article , an AND-gate DNA nanoprobe has been designed to avoid mutual interference and background noise, guaranteeing an enhanced fluorescent signal output upon catalyzation of dual enzymes.
Journal ArticleDOI
AND-Gated Nanosensor for Imaging of Glutathione and Apyrimidinic Endonuclease 1 in Cells, Animals, and Organoids.
Zening Huang,Kaixiang Xu,Lijuan Zhao,Nana Xu,Xingjiang Hu,Qiao Zhang,Jian Liu,Qingwei Zhao,Yaokun Xia +8 more
TL;DR: In this article , a DNA-based AND-gated nanosensor was proposed for fluorescence imaging of the GSH as well as APE1 in living cells, animals, and organoids.
References
More filters
Journal ArticleDOI
High-throughput sequencing of DNA G-quadruplex structures in the human genome
Vicki S Chambers,Giovanni Marsico,Jonathan Mark Boutell,Marco Di Antonio,Geoffrey Paul Smith,Shankar Balasubramanian +5 more
TL;DR: A high-resolution sequencing–based method is presented to detect G4s in the human genome and observed a high G4 density in functional regions, as well as in genes previously not predicted to contain these structures (such as BRCA2).
Journal ArticleDOI
How long is too long? Effects of loop size on G-quadruplex stability
TL;DR: This study will extend the sequence repertoire of quadruplex-prone sequences, arguing for a modification of the widely used consensus (maximal loop size of 7 bases), and find a strong inverse correlation between total loop length and Tm in K+.
Journal ArticleDOI
A Sensitive Aptasensor Based on a Hemin/G-Quadruplex-Assisted Signal Amplification Strategy for Electrochemical Detection of Gastric Cancer Exosomes.
Rongrong Huang,Lei He,Yanyan Xia,Hongpan Xu,Chang Liu,Hui Xie,Su Wang,Lijun Peng,Yufeng Liu,Yuan Liu,Nongyue He,Nongyue He,Zhiyang Li +12 more
TL;DR: This label-free electrochemical aptasensor exhibits high selectivity and sensitivity toward gastric cancer exosomes with a detection limit of 9.54 × 102 mL-1 and a linear response range from 4.8 × 106 exosome per milliliter is expected to become a useful tool for the early diagnosis of Gastric cancer.
Journal ArticleDOI
Single-molecule visualization of DNA G-quadruplex formation in live cells
Marco Di Antonio,Marco Di Antonio,Aleks Ponjavic,Aleks Ponjavic,Antanas Radzevičius,Rohan T. Ranasinghe,Marco Catalano,Xiaoyun Zhang,Jiazhen Shen,Lisa-Maria Needham,Steven F. Lee,David Klenerman,Shankar Balasubramanian +12 more
TL;DR: A G4-specific fluorescent probe (SiR-PyPDS) has been developed that enables single-molecule and real-time detection of individual G4 structures in living cells without perturbing G4 formation and dynamics.
Journal ArticleDOI
Altered gene expression in the Werner and Bloom syndromes is associated with sequences having G-quadruplex forming potential
TL;DR: Findings indicate that, like Sgs1, WRN and BLM can regulate transcription globally by targeting G4-DNA, a family of non-canonical nucleic acid structures formed by certain G-rich sequences.