1
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Huang Y, Xu W, Liu G, Tian L. A pure DNA hydrogel with stable catalytic ability produced by one-step rolling circle amplification. Chem Commun (Camb) 2018; 53:3038-3041. [PMID: 28239729 DOI: 10.1039/c7cc00636e] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
A rolling-circle-amplification method was developed to produce DNA hydrogels with horseradish-peroxidase-like catalytic capability. The catalytic hydrogel exhibits highly improved stability at elevated temperatures or during a long-term storage. Integrated with glucose oxidase, the complex hydrogel can be applied to the sensitive and reliable detection of glucose.
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Affiliation(s)
- Yishun Huang
- Department of Materials Science and Engineering, Southern University of Science and Technology, 1088 Xueyuan Blvd., Xili, Nanshan District, Shenzhen, Guangdong 518055, China.
| | - Wanlin Xu
- Department of Materials Science and Engineering, Southern University of Science and Technology, 1088 Xueyuan Blvd., Xili, Nanshan District, Shenzhen, Guangdong 518055, China.
| | - Guoyuan Liu
- Department of Materials Science and Engineering, Southern University of Science and Technology, 1088 Xueyuan Blvd., Xili, Nanshan District, Shenzhen, Guangdong 518055, China.
| | - Leilei Tian
- Department of Materials Science and Engineering, Southern University of Science and Technology, 1088 Xueyuan Blvd., Xili, Nanshan District, Shenzhen, Guangdong 518055, China.
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2
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Peng H, Newbigging AM, Wang Z, Tao J, Deng W, Le XC, Zhang H. DNAzyme-Mediated Assays for Amplified Detection of Nucleic Acids and Proteins. Anal Chem 2017; 90:190-207. [DOI: 10.1021/acs.analchem.7b04926] [Citation(s) in RCA: 145] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Hanyong Peng
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Ashley M. Newbigging
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Zhixin Wang
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Jeffrey Tao
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Wenchan Deng
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - X. Chris Le
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
| | - Hongquan Zhang
- Division of Analytical and Environmental
Toxicology, Department of Laboratory Medicine and Pathology, Faculty
of Medicine and Dentistry, University of Alberta, 10-102 Clinical
Sciences Building, Edmonton, Alberta T6G 2G3, Canada
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3
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Tsuji G, Sintim HO. Cyclic dinucleotide detection with riboswitch-G-quadruplex hybrid. MOLECULAR BIOSYSTEMS 2016; 12:773-7. [PMID: 26739090 DOI: 10.1039/c5mb00751h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A cyclic dinucleotide riboswitch has been fused with a G-quadruplex motif to produce a conditional riboswitch-peroxidase-mimicking sensor that oxidizes both colorimetric and fluorogenic substrates in the presence of c-di-GMP. We find that signal-to-noise ratio could be improved by using a two-, not three-, floor split G-quadruplex for this conditional peroxidase-mimicking riboswitch.
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Affiliation(s)
- Genichiro Tsuji
- Department of Chemistry and Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - Herman O Sintim
- Department of Chemistry and Biochemistry, University of Maryland, College Park, MD 20742, USA and Center for Drug Discovery, Purdue University, West Lafayette, IN 47907, USA.
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4
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Bonnat L, Dejeu J, Bonnet H, Génnaro B, Jarjayes O, Thomas F, Lavergne T, Defrancq E. Templated Formation of Discrete RNA and DNA:RNA Hybrid G-Quadruplexes and Their Interactions with Targeting Ligands. Chemistry 2016; 22:3139-47. [PMID: 26808196 DOI: 10.1002/chem.201504351] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2015] [Indexed: 11/10/2022]
Abstract
G-rich RNA and DNA oligonucleotides derived from the human telomeric sequence were assembled onto addressable cyclopeptide platforms through oxime ligations and copper-catalyzed azide-alkyne cycloaddition (CuAAc) reactions. The resulting conjugates were able to fold into highly stable RNA and DNA:RNA hybrid G-quadruplex (G4) architectures as demonstrated by UV, circular dichroism (CD), and NMR spectroscopic analysis. Whereas rationally designed parallel RNA and DNA:RNA hybrid G4 topologies could be obtained, we could not force the formation of an antiparallel RNA G4 structure, thus supporting the idea that this topology is strongly disfavored. The binding affinities of four representative G4 ligands toward the discrete RNA and DNA:RNA hybrid G4 topologies were compared to the one obtained with the corresponding DNA G4 structure. Surface plasmon resonance (SPR) binding analysis suggests that the accessibility to G4 recognition elements is different among the three structures and supports the idea that G4 ligands might be shaped to achieve structure selectivity in a biological context.
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Affiliation(s)
- Laureen Bonnat
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Jérôme Dejeu
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Hugues Bonnet
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Béatrice Génnaro
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Olivier Jarjayes
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Fabrice Thomas
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France.,CNRS, 38000, Grenoble, France
| | - Thomas Lavergne
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France. .,CNRS, 38000, Grenoble, France.
| | - Eric Defrancq
- Université Grenoble Alpes, Département de Chimie Moléculaire, UMR-5250, 38000, Grenoble, France. .,CNRS, 38000, Grenoble, France.
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5
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Flack T, Constantin T, Penasse S, Dejeu J, Gennaro B, Jourdan M, Laguerre A, Pirrotta M, Monchaud D, Spinelli N, Defrancq E. Prefolded Synthetic G-Quartets Display Enhanced Bioinspired Properties. Chemistry 2015; 22:1760-7. [DOI: 10.1002/chem.201504572] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2015] [Indexed: 01/19/2023]
Affiliation(s)
- Theodore Flack
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Thibaut Constantin
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Sylvain Penasse
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Jérôme Dejeu
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Béatrice Gennaro
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Muriel Jourdan
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Aurélien Laguerre
- Institut de Chimie Moléculaire; Université de Bourgogne (ICMUB); CNRS UMR 6302; 21078 Dijon France
| | - Marc Pirrotta
- Institut de Chimie Moléculaire; Université de Bourgogne (ICMUB); CNRS UMR 6302; 21078 Dijon France
| | - David Monchaud
- Institut de Chimie Moléculaire; Université de Bourgogne (ICMUB); CNRS UMR 6302; 21078 Dijon France
| | - Nicolas Spinelli
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
| | - Eric Defrancq
- Université Grenoble Alpes; Département de Chimie Moléculaire; CNRS UMR 5250; 38041 Grenoble France
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6
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Zhu J, Zhang L, Dong S, Wang E. How to split a G-quadruplex for DNA detection: new insight into the formation of DNA split G-quadruplex. Chem Sci 2015; 6:4822-4827. [PMID: 29142717 PMCID: PMC5667574 DOI: 10.1039/c5sc01287b] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2015] [Accepted: 05/31/2015] [Indexed: 01/30/2023] Open
Abstract
Here, we get a new insight into the formation of a split G-quadruplex from the viewpoints of the split mode and guanine base number. An unusual result is that the split mode 4 : 8 performed best in six split modes, including the frequently used mode 1 : 3 and 2 : 2 in the split G-quadruplex enhanced fluorescence assay. Circular dichroism spectra verified the conclusion. The application of the split G-quadruplex based assay in DNA detection was performed on the point mutations of the JAK2 V617F and HBB genes. A multi-target analysis method based on a pool of G-segments split from T30695 (GGGTGGGTGGGTGGGT) by the magic "law of 4 : 8" was established.
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Affiliation(s)
- Jinbo Zhu
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China .
- University of Chinese Academy of Sciences , Beijing , 100049 , P. R. China
| | - Libing Zhang
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China .
| | - Shaojun Dong
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China .
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China .
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7
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Bonnet R, Lavergne T, Gennaro B, Spinelli N, Defrancq E. Construction of anti-parallel G-quadruplexes through sequential templated click. Chem Commun (Camb) 2015; 51:4850-3. [DOI: 10.1039/c4cc09744k] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Biologically relevant anti-parallel DNA G-quadruplexes were constrained and stabilised onto addressable cyclopeptide scaffolds through sequential oxime and CuAAc reactions.
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Affiliation(s)
- Romaric Bonnet
- Université Grenoble Alpes
- Département de Chimie Moléculaire
- F-38000 Grenoble
- France
| | - Thomas Lavergne
- Université Grenoble Alpes
- Département de Chimie Moléculaire
- F-38000 Grenoble
- France
| | - Béatrice Gennaro
- Université Grenoble Alpes
- Département de Chimie Moléculaire
- F-38000 Grenoble
- France
| | - Nicolas Spinelli
- Université Grenoble Alpes
- Département de Chimie Moléculaire
- F-38000 Grenoble
- France
| | - Eric Defrancq
- Université Grenoble Alpes
- Département de Chimie Moléculaire
- F-38000 Grenoble
- France
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8
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Li S, Wang L, Hao Y, Zhang L, Zhou B, Deng L, Liu YN. An ultrasensitive colorimetric aptasensor for ATP based on peptide/Au nanocomposites and hemin–G-quadruplex DNAzyme. RSC Adv 2014. [DOI: 10.1039/c4ra02823f] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
Abstract
A self-assembled peptide nanosphere was firstly applied to construct biosensors. A new signal amplification strategy was proposed for colorimetric aptasensor based on PNS/AuNPs composite. The colorimetric aptasensor displayed an ultra-high sensitivity for ATP detection with a LOD of 1.35 pM.
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Affiliation(s)
- Shipeng Li
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
| | - Liqiang Wang
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
| | - Yuanqiang Hao
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
| | - Lili Zhang
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
| | - Binbin Zhou
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
- Hunan Institute of Food Quality Supervision Inspection and Research
- Changsha, PR China
| | - Liu Deng
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
| | - You-Nian Liu
- College of Chemistry and Chemical Engineering
- Central South University
- Changsha, PR China
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