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Huang PJJ, Liu J. In vitro selection and application of lanthanide-dependent DNAzymes. Methods Enzymol 2021; 651:373-396. [PMID: 33888210 DOI: 10.1016/bs.mie.2021.01.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Highly sensitive and selective detection of lanthanide ions is a major analytical challenge. In recent years, the use of DNA for this purpose has been pursued. For such highly charged cations, it is difficult to select their aptamers due to strong nonspecific binding. On the other hand, the use of catalytic DNA or DNAzymes has an advantage to overcome this problem, especially DNAzymes with RNA-cleaving activity. In this chapter, a few such DNAzymes are introduced and methods for in vitro selection of lanthanide-dependent RNA-cleaving DNAzymes are described in detail, including the selection protocols, the DNA sequences used, the characterization of selected DNAzymes and their conversion into biosensors. All of the experiments use only fluorophore-labeled DNA, and radioisotope labeling is completely avoided. The resulting DNAzymes can distinguish lanthanides from non-lanthanide metals, tell the difference between light and heavy lanthanides, and can be used together to discriminate individual lanthanides.
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Affiliation(s)
- Po-Jung Jimmy Huang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON, Canada
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON, Canada.
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Huang Z, Liu B, Liu J. A high local DNA concentration for nucleating a DNA/Fe coordination shell on gold nanoparticles. Chem Commun (Camb) 2020; 56:4208-4211. [PMID: 32168370 DOI: 10.1039/d0cc01418d] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Preparing DNA/Fe coordination nanoparticles in solution requires a high concentration of DNA. Herein we grew a DNA/Fe shell on DNA-functionalized gold nanoparticles. Taking advantage of the high local DNA density, the required DNA concentration decreased 60-fold, and the size can be controlled. This hybrid material allowed drug loading and colorimetric sensing.
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Affiliation(s)
- Zhicheng Huang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada.
| | - Biwu Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada.
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada.
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Ma Q, Zhang M, Xu X, Meng K, Yao C, Zhao Y, Sun J, Du Y, Yang D. Multiresponsive Supramolecular Luminescent Hydrogels Based on a Nucleoside/Lanthanide Complex. ACS APPLIED MATERIALS & INTERFACES 2019; 11:47404-47412. [PMID: 31763814 DOI: 10.1021/acsami.9b17236] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Supramolecular luminescent hydrogels based on natural molecules have shown high potential for a variety of applications because of unique optical properties and biocompatibility, particularly serving as advanced biomaterials for bioimaging, biosensing, cell engineering, and so forth. A lanthanide complex-based system provides a promising way to prepare supramolecular luminescent hydrogels. Herein, we realize the creation of a luminescent hydrogel assembled from lanthanides and nucleosides. Nucleosides, the essential components of nucleic acids, functioning as the ligands, successfully chelate with lanthanides and form complexes in water. The complexes subsequently serve as building-blocks to form supramolecular hydrogels, which exhibit characteristic luminescent emission of lanthanides. The coordination modes and forming mechanism are studied by electrospray ionization time-of-flight mass spectrometry, matrix-assisted laser desorption/ionization time of flight mass spectrometry, 1H NMR spectroscopy, and Fourier transform infrared spectroscopy; the corresponding molecular simulations are presented, and macro-/micro-morphologies, mechanical properties, and luminescent performances of hydrogels are systemically studied. Remarkably, these luminescent hydrogels show fluorochromic properties in response to external stimuli, including pH, temperature, anions, and cations, which are thus adopted to design smart luminescent switches and detect specific species such as Cu2+. Our work provides a feasible strategy to prepare stimuli-responsive luminescent hydrogels, reveals the diverse potential of nucleoside-based hydrogels, and exhibits a novel pathway for the preparation of smart optical materials.
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Affiliation(s)
- Qianmin Ma
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Meng Zhang
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Xihan Xu
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Ke Meng
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Chi Yao
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Yufei Zhao
- State Key Laboratory of Chemical Resource Engineering , Beijing University of Chemical Technology , Beijing 100029 , P. R. China
| | - Jie Sun
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
| | - Yaping Du
- School of Materials Science and Engineering & National Institute for Advanced Materials, Center for Rare Earth and Inorganic Functional Materials , Nankai University , Tianjin 300350 , P. R. China
| | - Dayong Yang
- Frontier Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology , Tianjin University , Tianjin 300350 , P. R. China
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He Y, Lopez A, Zhang Z, Chen D, Yang R, Liu J. Nucleotide and DNA coordinated lanthanides: From fundamentals to applications. Coord Chem Rev 2019. [DOI: 10.1016/j.ccr.2019.02.020] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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