1
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Maity D, Bhaumik SK, Banerjee S. Contrasting luminescence in heparin and DNA-templated co-assemblies of dimeric cyanostilbenes: efficient energy transfer in heparin-based co-assemblies. Phys Chem Chem Phys 2023; 25:12810-12819. [PMID: 37129214 DOI: 10.1039/d3cp00709j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Dimeric cationic cyanostilbenes with peripheral alkyl chains demonstrated aggregation in aqueous media depending on the length of the hydrophobic segment and produced luminescent spherical nano-assemblies in the case of long alkyl chain derivatives. In the presence of heparin, a bio-polyanion that is routinely used as an anticoagulant, the self-assembled structures obtained from the amphiphilic dimers showed the formation of higher-order structures whereas the non-assembling dimers exhibited heparin-induced supramolecular structure formation. In both cases, a significant enhancement in the emission was observed. This led to the detection of heparin in aqueous buffer, serum and plasma with a "turn-on" fluorescence response. Interestingly, these derivatives also exhibited luminescence variation in the presence of ctDNA. However, the response towards DNA was opposite to that observed in the case of heparin i.e., "turn-off'' fluorescence response. Notably, depending on the length of the alkyl segment, divergent DNA binding modes of these derivatives were observed. Due to their enhanced luminescence, the heparin-based co-assemblies were further explored as artificial light-harvesting systems exhibiting an efficient energy transfer process to embedded acceptor dyes with a high antenna effect.
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Affiliation(s)
- Dhananjoy Maity
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur 741246, Nadia, India.
| | - Shubhra Kanti Bhaumik
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur 741246, Nadia, India.
| | - Supratim Banerjee
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur 741246, Nadia, India.
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2
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Hu Y, Jia Y, Yang Y, Liu Y. Controllable DNA nanodevices regulated by logic gates for multi-stimulus recognition. RSC Adv 2023; 13:9003-9009. [PMID: 36950078 PMCID: PMC10025943 DOI: 10.1039/d3ra00295k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 03/13/2023] [Indexed: 03/22/2023] Open
Abstract
DNA biosensors have attracted considerable attention due to their great potential in environmental monitoring and medical diagnosis. Despite the great achievements, the single function and uncontrollability of the sensors restrict their further application. Therefore, it is necessary to construct controllable nanodevices with both sensing and responding capabilities to external stimuli. Herein, we develop a strategy to engineer structure-switching biosensors which can respond to external stimuli while preserving the sensing capability. The engineered nanodevice consists of an actuation module and a sensing module. Initially, the sensing module is disabled by a blocker strand which acts as an allosteric switch. Once the stimuli-responsive actuation module displaces the blocker DNA, the sensing module is activated. Based on the strategy, the engineered nanodevice could recognize both the target and external stimuli. As a demonstration of this strategy, a controllable Hg2+ sensor was designed, in which a 'YES', 'AND', and 'OR' logic gate is employed as the actuation module respectively to facilitate recognition of oligonucleotide inputs. The modular nature of the proposed strategy makes it easily generalizable to other structure-switching sensors. As a demonstration of this, we successfully apply it to the ATP sensor. The proposed strategy has potential in the fields of programmable biosensing, disease diagnosis, DNA computing, and intelligent nanodevices.
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Affiliation(s)
- Yingxin Hu
- School of Information Science and Technology, Shijiazhuang Tiedao University Shijiazhuang 050043 P. R. China
| | - Yufeng Jia
- School of Management, Shijiazhuang Tiedao University Shijiazhuang 050043 P. R. China
| | - Yuefei Yang
- School of Information Science and Technology, Shijiazhuang Tiedao University Shijiazhuang 050043 P. R. China
| | - Yanjun Liu
- School of Information Science and Technology, Shijiazhuang Tiedao University Shijiazhuang 050043 P. R. China
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3
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Sun S, Yang Y, Li D, Zhu J. Large Chiral Nanotubes Self-Assembled by DNA Bricks. J Am Chem Soc 2019; 141:19524-19528. [PMID: 31789023 DOI: 10.1021/jacs.9b08737] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Synthesizing tubes of large diameters is important for materials science and nanotechnology but remains a largely unsolved challenge. We report herein an approach to program the width of DNA helical tubes by controlling the rigidity and curvature of repeating units via single-stranded bricks strategy. The rigidity of repeating units can be controlled by its thickness, and the curvature can be tuned by double-helical twist density. A single-step annealing allows for the fabrication of helical tubes with defined chirality and widths ranging from ∼50 to ∼550 nm.
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Affiliation(s)
- Sha Sun
- Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences , Xi'an Jiaotong University Health Science Center , Xi'an 710061 , China
| | - Yuxuan Yang
- Department of Clinical Medicine , Xi'an Jiaotong University Health Science Center , Xi'an 710061 , China
| | - Dongmin Li
- Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences , Xi'an Jiaotong University Health Science Center , Xi'an 710061 , China
| | - Jin Zhu
- Department of Polymer Science and Engineering, School of Chemistry and Chemical Engineering, State Key Laboratory of Coordination Chemistry , Nanjing University , Nanjing 210023 , China
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4
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Vittala SK, Saraswathi SK, Ramesan AB, Joseph J. Nanosheets and 2D-nanonetworks by mutually assisted self-assembly of fullerene clusters and DNA three-way junctions. NANOSCALE ADVANCES 2019; 1:4158-4165. [PMID: 36132094 PMCID: PMC9418933 DOI: 10.1039/c9na00485h] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2019] [Accepted: 09/08/2019] [Indexed: 05/27/2023]
Abstract
Programmable construction of two dimensional (2D) nanoarchitectures using short DNA strands is of utmost interest in the context of DNA nanotechnology. Previously, we have demonstrated fullerene-cluster assisted self-assembly of short oligonucleotide duplexes into micrometer long, semiconducting nanowires. This report demonstrates the construction of micrometer-sized nanosheets and 2D-nanonetworks from the mutual self-assembly of fullerene nanoclusters with three way junction DNA (3WJ-DNA) and 3WJ-DNA with a 12-mer overhang (3WJ-OH), respectively. The interaction of unique sized fullerene clusters prepared from an aniline appended fullerene derivative, F-An, with two 3WJ-DNAs, namely, 3WJ-20 and 3WJ-30, having 20 and 30 nucleobases, respectively at each strand was characterized using UV-visible absorption, circular dichroism and fluorescence techniques. The morphological characterization of nanosheets embedded with F-An clusters was performed via AFM, TEM and DLS analyses. The programmability and structural tunability of the resultant nanostructures were further demonstrated using 3WJ-OH containing a cytosine rich, single stranded DNA 12-mer overhang, which forms entangled 2D-nanonetwork structures instead of nanosheets due to the differential interaction of F-An nanoclusters with single and duplex strands of 3WJ-OH. Moreover, the selective modification of the cytosine rich sequence present in 3WJ-OH with silver nanoclusters (AgNCs) resulted in significant enhancement in silver nanocluster fluorescence (∼40%) compared to 3WJ-OH/AgNCs owing to the additional stability of AgNCs embedded in 2D nanostructures. This unique strategy of constructing DNA based 2D nanomaterials and their utilization in the integration of functional motifs could find application in the area of DNA nanotechnology and bio-molecular sensing.
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Affiliation(s)
- Sandeepa Kulala Vittala
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology (NIIST), Academy of Scientific and Innovative Research (AcSIR) CSIR-NIIST Campus Thiruvananthapuram 695 019 India
| | - Sajena Kanangat Saraswathi
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology (NIIST), Academy of Scientific and Innovative Research (AcSIR) CSIR-NIIST Campus Thiruvananthapuram 695 019 India
| | - Anjali Bindu Ramesan
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology (NIIST), Academy of Scientific and Innovative Research (AcSIR) CSIR-NIIST Campus Thiruvananthapuram 695 019 India
| | - Joshy Joseph
- Photosciences and Photonics Section, CSIR-National Institute for Interdisciplinary Science and Technology (NIIST), Academy of Scientific and Innovative Research (AcSIR) CSIR-NIIST Campus Thiruvananthapuram 695 019 India
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5
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Xiao M, Lai W, Man T, Chang B, Li L, Chandrasekaran AR, Pei H. Rationally Engineered Nucleic Acid Architectures for Biosensing Applications. Chem Rev 2019; 119:11631-11717. [DOI: 10.1021/acs.chemrev.9b00121] [Citation(s) in RCA: 147] [Impact Index Per Article: 29.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Mingshu Xiao
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
| | - Wei Lai
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
| | - Tiantian Man
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
| | - Binbin Chang
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
| | - Li Li
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
| | - Arun Richard Chandrasekaran
- The RNA Institute, University at Albany, State University of New York, Albany, New York 12222, United States
| | - Hao Pei
- Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai 200241, P. R. China
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6
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Wang Y, Yu Z, Zhang Z, Ren R, Zhang S. Orderly nucleic acid aggregates by electrostatic self-assembly in single cells for miRNA detection and visualizing. Analyst 2018; 141:2861-4. [PMID: 27063644 DOI: 10.1039/c6an00160b] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Orderly nucleic acid aggregates (ONAAs) self-assembled on mesoporous silica nanoparticles (MSNs) with positively charged aminopropyl groups (PC) were firstly developed. Interestingly, a novel electrostatic DNA self-assembly could realize hybridization chain reaction (HCR) on the surface of PCMSNs in single cells. Significantly, a non-destructive amplification strategy based on ONAAs-PCMSNs was successfully developed for miRNA detection and in situ imaging by the prominent and agminated fluorescence-bright spots in living cells.
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Affiliation(s)
- Yuanyuan Wang
- Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Shandong Normal University, Jinan 250014, China
| | - Zhaopeng Yu
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China.
| | - Zhen Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China.
| | - Rui Ren
- Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Shandong Normal University, Jinan 250014, China and Shandong Province Key Laboratory of Detection Technology for Tumor Makers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China.
| | - Shusheng Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China.
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7
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Liu Y, Chen Q, Liu J, Yang X, Guo Q, Li L, Liu W, Wang K. Design of a Modular DNA Triangular-Prism Sensor Enabling Ratiometric and Multiplexed Biomolecule Detection on a Single Microbead. Anal Chem 2017; 89:3590-3596. [DOI: 10.1021/acs.analchem.6b04918] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Yu Liu
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Qiaoshu Chen
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Jianbo Liu
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Xiaohai Yang
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Qiuping Guo
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Li Li
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Wei Liu
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
| | - Kemin Wang
- State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering
of Hunan Province, Hunan University, Changsha 410082, People’s Republic of China
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8
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Shikha S, Salafi T, Cheng J, Zhang Y. Versatile design and synthesis of nano-barcodes. Chem Soc Rev 2017; 46:7054-7093. [DOI: 10.1039/c7cs00271h] [Citation(s) in RCA: 120] [Impact Index Per Article: 17.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/30/2023]
Abstract
This review provides a critical discussion on the versatile designing and usage of nano-barcodes for various existing and emerging applications.
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Affiliation(s)
- Swati Shikha
- Department of Biomedical Engineering
- Faculty of Engineering
- National University of Singapore (NUS)
- 117583 Singapore
| | - Thoriq Salafi
- Department of Biomedical Engineering
- Faculty of Engineering
- National University of Singapore (NUS)
- 117583 Singapore
- NUS Graduate School for Integrative Sciences and Engineering
| | - Jinting Cheng
- Institute of Materials Research and Engineering (IMRE)
- Agency for Science
- Technology and Research (A*STAR)
- Singapore
| | - Yong Zhang
- Department of Biomedical Engineering
- Faculty of Engineering
- National University of Singapore (NUS)
- 117583 Singapore
- NUS Graduate School for Integrative Sciences and Engineering
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9
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Li D, Cheng W, Li Y, Xu Y, Li X, Yin Y, Ju H, Ding S. Catalytic Hairpin Assembly Actuated DNA Nanotweezer for Logic Gate Building and Sensitive Enzyme-Free Biosensing of MicroRNAs. Anal Chem 2016; 88:7500-6. [PMID: 27367785 DOI: 10.1021/acs.analchem.5b04844] [Citation(s) in RCA: 72] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
A target-switched DNA nanotweezer is designed for AND logic gate operation and enzyme-free detection of microRNAs (miRNAs) by catalytic hairpin assembly (CHA) and proximity-dependent DNAzyme formation. The double crossover motif-based nanotweezer consists of an arched structure as the set strand for target inputs and two split G-rich DNAs at the termini of two arms for signal output. Upon a CHA, a small amount of binary target inputs can switch numerous open nanotweezers to a closed state, which leads to the formation of proximity-dependent DNAzyme in the presence of hemin to produce a highly sensitive biosensing system. The binary target inputs can be used for successful building of AND logic gate, which is validated by polyacrylamide gel electrophoresis, surface plasmon resonance and the biosensing signal. The developed biosensing system shows a linear response of the output chemiluminescence signal to input binary miRNAs with a detection limit of 30 fM. It can be used for miRNAs analysis in complex sample matrix. This system provides a simple and reusable platform for logic gate operation and enzyme-free, highly sensitive, and specific multianalysis of miRNAs.
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Affiliation(s)
- Dandan Li
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - Wei Cheng
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China.,The Center for Clinical Molecular Medical detection, The First Affiliated Hospital of Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - Yujian Li
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - YongJie Xu
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - Xinmin Li
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - Yibing Yin
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
| | - Huangxian Ju
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China.,State Key Laboratory of Analytical Chemistry for Life Science, Department of Chemistry, Nanjing University , Nanjing 210023, People's Republic of China
| | - Shijia Ding
- Key Laboratory of Clinical Laboratory Diagnostics (Ministry of Education), College of Laboratory Medicine, Chongqing Medical University , Chongqing 400016, People's Republic of China
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10
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Zhang Z, Wang Y, Zhang N, Zhang S. Self-assembly of nucleic acid molecular aggregates catalyzed by a triple-helix probe for miRNA detection and single cell imaging. Chem Sci 2016; 7:4184-4189. [PMID: 30155063 PMCID: PMC6013927 DOI: 10.1039/c6sc00694a] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2016] [Accepted: 03/02/2016] [Indexed: 12/28/2022] Open
Abstract
We herein report a novel finding that nucleic acid molecular aggregates (NAMAs) self-assembled on graphene oxide nanoplates (GONPs) as a result of DNA rolling circle amplification (RCA) and a functionalized triple-helix probe (THP) in single cells. The functionalized THP containing the aptamer region for target recognition and the trigger DNA region for RCA was firstly used to activate RCA for miRNA imaging in single cells. Interestingly, NAMAs with the fluorescent labels were hybridized by both the RCA products and FAM-DNA, and could partly self-assemble on GONPs; meanwhile, NAMAs could extend from the GONPs, which led to the quenched fluorescence being renewed. Significantly, the NAMAs were successfully applied for low-abundance miRNA detection and imaging in single cells. The self-assembled NAMAs could generate prominent and agminated fluorescence-bright spots in single cancer cells, which will effectively drive cell imaging into a new era.
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Affiliation(s)
- Zhen Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers , College of Chemistry and Chemical Engineering , Linyi University , Linyi 276000 , P. R. China .
| | - Yuanyuan Wang
- Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong , Shandong Normal University , Jinan 250014 , P. R. China
| | - Ningbo Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers , College of Chemistry and Chemical Engineering , Linyi University , Linyi 276000 , P. R. China .
| | - Shusheng Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers , College of Chemistry and Chemical Engineering , Linyi University , Linyi 276000 , P. R. China .
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11
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Sun S, Wang M, Zhang F, Zhu J. DNA polygonal cavities with tunable shapes and sizes. Chem Commun (Camb) 2016; 51:16247-50. [PMID: 26399176 DOI: 10.1039/c5cc06092c] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We developed a new and simple angle control strategy to construct shape- and size-tunable DNA polygonal cavities. A monomer with a controlled slope on one end was used for hierarchical assembly into diverse polygons in a single step. Additionally, by simply moving the position of sticky ends on the monomer, the cavity size can be precisely programmed.
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Affiliation(s)
- Sha Sun
- Department of Polymer Science and Engineering, School of Chemistry and Chemical Engineering, State Key Laboratory of Coordination Chemistry, Nanjing National Laboratory of Microstructures, Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, Nanjing 210093, China.
| | - Mingyang Wang
- Department of Polymer Science and Engineering, School of Chemistry and Chemical Engineering, State Key Laboratory of Coordination Chemistry, Nanjing National Laboratory of Microstructures, Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, Nanjing 210093, China.
| | - Feifei Zhang
- Department of Polymer Science and Engineering, School of Chemistry and Chemical Engineering, State Key Laboratory of Coordination Chemistry, Nanjing National Laboratory of Microstructures, Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, Nanjing 210093, China.
| | - Jin Zhu
- Department of Polymer Science and Engineering, School of Chemistry and Chemical Engineering, State Key Laboratory of Coordination Chemistry, Nanjing National Laboratory of Microstructures, Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, Nanjing 210093, China.
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12
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Wang L, Deng R, Li J. Target-fueled DNA walker for highly selective miRNA detection. Chem Sci 2015; 6:6777-6782. [PMID: 28757969 PMCID: PMC5508657 DOI: 10.1039/c5sc02784e] [Citation(s) in RCA: 112] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2015] [Accepted: 09/10/2015] [Indexed: 12/16/2022] Open
Abstract
We report a DNA walking biosensor that can realize the detection of let-7a with a detection limit of 58 fM and high selectivity for resolving one nucleotide variation.
Artificial DNA motifs as architectural scaffolds have been widely used to assemble a variety of nanoscale devices. Synthetic DNA nanostructures have accomplished mechanical switching in response to external stimuli, suggesting the promise of constructing a walking device that is being used in the field of biosensors. Here, we design a novel miRNA-responsive DNA walker biosensor based on strand displacement cascades and an enzymatic recycling cleavage strategy. By using miRNA as a driving force, the DNA walkers can be activated to move along the track and generate specific signals for let-7a with a high signal-to-noise ratio. This biosensor exhibits excellent analytical performance toward the sensing of let-7a with great specificity for resolving one nucleotide variation and a detection limit of 58 fM. Such an ultraselective sensor shows that DNA nanostructures have great potential in providing platforms for applications in the fields of biosensing, clinical diagnostics and environmental sample analysis.
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Affiliation(s)
- Lida Wang
- Department of Chemistry , Beijing Key Laboratory for Microanalytical Methods and Instrumentation , Tsinghua University , Beijing 100084 , China .
| | - Ruijie Deng
- Department of Chemistry , Beijing Key Laboratory for Microanalytical Methods and Instrumentation , Tsinghua University , Beijing 100084 , China .
| | - Jinghong Li
- Department of Chemistry , Beijing Key Laboratory for Microanalytical Methods and Instrumentation , Tsinghua University , Beijing 100084 , China .
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13
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Wang L, Arrabito G. Hybrid, multiplexed, functional DNA nanotechnology for bioanalysis. Analyst 2015; 140:5821-48. [DOI: 10.1039/c5an00861a] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
DNA nanotechnology allows for the realization of novel multiplexed assays in bioanalytical sciences.
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Affiliation(s)
- L. Wang
- Department of Chemical Science and Technologies & NAST Center
- University of Rome Tor Vergata
- 00133 Rome
- Italy
| | - G. Arrabito
- Department of Electronic Engineering
- University of Rome Tor Vergata
- Rome
- Italy
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