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Craig JS, Melidis L, Williams HD, Dettmer SJ, Heidecker AA, Altmann PJ, Guan S, Campbell C, Browning DF, Sigel RKO, Johannsen S, Egan RT, Aikman B, Casini A, Pöthig A, Hannon MJ. Organometallic Pillarplexes That Bind DNA 4-Way Holliday Junctions and Forks. J Am Chem Soc 2023. [PMID: 37318835 DOI: 10.1021/jacs.3c00118] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Holliday 4-way junctions are key to important biological DNA processes (insertion, recombination, and repair) and are dynamic structures that adopt either open or closed conformations, the open conformation being the biologically active form. Tetracationic metallo-supramolecular pillarplexes display aryl faces about a cylindrical core, an ideal structure to interact with open DNA junction cavities. Combining experimental studies and MD simulations, we show that an Au pillarplex can bind DNA 4-way (Holliday) junctions in their open form, a binding mode not accessed by synthetic agents before. Pillarplexes can bind 3-way junctions too, but their large size leads them to open up and expand that junction, disrupting the base pairing, which manifests in an increased hydrodynamic size and lower junction thermal stability. At high loading, they rearrange both 4-way and 3-way junctions into Y-shaped forks to increase the available junction-like binding sites. Isostructural Ag pillarplexes show similar DNA junction binding behavior but lower solution stability. This pillarplex binding contrasts with (but complements) that of metallo-supramolecular cylinders, which prefer 3-way junctions and can rearrange 4-way junctions into 3-way junction structures. The pillarplexes' ability to bind open 4-way junctions creates exciting possibilities to modulate and switch such structures in biology, as well as in synthetic nucleic acid nanostructures. In human cells, the pillarplexes do reach the nucleus, with antiproliferative activity at levels similar to those of cisplatin. The findings provide a new roadmap for targeting higher-order junction structures using a metallo-supramolecular approach, as well as expanding the toolbox available to design bioactive junction binders into organometallic chemistry.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - Roland K O Sigel
- Department of Chemistry, University of Zürich, Winterthurerstr. 190, 8057 Zürich, Switzerland
| | - Silke Johannsen
- Department of Chemistry, University of Zürich, Winterthurerstr. 190, 8057 Zürich, Switzerland
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Zhou P, Pan Y, Pan W, Lu S, Yin J, Li N, Tang B. Dual-AND Logic Gate-Based Strip Assay for Amplified Detection of Four miRNAs and Diagnosis of Lung Cancer. Anal Chem 2023; 95:1280-1286. [PMID: 36574347 DOI: 10.1021/acs.analchem.2c04121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The detection of circulating tumor microRNAs (miRNAs) holds great promise for the noninvasive and early-stage diagnosis of cancer. However, the low abundance of lung cancer-related miRNAs and the false-positive results of single miRNA detection limited the development of strip-based point-of-care testing methods in clinic. We developed a duplex-specific nuclease (DSN)-mediated and dual-AND logic gate-based triple-line lateral flow strip detection system for the rapid and simultaneous detection of four miRNAs of lung cancer in a single strip test. This system combines DSN-mediated signal amplification with AND logic gate-based simple signal output. Meanwhile, the limit of detection of this platform was calculated to be 26.51 fM. Furthermore, this assay was used to detect lung cancer-related miRNAs from serum in a homogeneous and separation-free format, which could discriminate lung cancer patients from healthy individuals with an accuracy of 100%. Our approach provides a simple and easy-to-handle method for the diagnosis of lung cancer in clinic.
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Affiliation(s)
- Ping Zhou
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
| | - Yingbo Pan
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
| | - Wei Pan
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
| | - Sumei Lu
- Department of Clinical Laboratory Medicine, The First Affiliated Hospital of Shandong First Medical University & Shandong Provincial Qianfoshan Hospital, Shandong Medicine and Health Key Laboratory of Laboratory Medicine, Jinan 250014, Shandong, P. R. China
| | - Jiaqi Yin
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
| | - Na Li
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
| | - Bo Tang
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Institute of Molecular and Nano Science, Shandong Normal University, Jinan 250014, P. R. China
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Wu Y, Ji D, Dai C, Kong D, Chen Y, Wang L, Guo M, Liu Y, Wei D. Triple-Probe DNA Framework-Based Transistor for SARS-CoV-2 10-in-1 Pooled Testing. NANO LETTERS 2022; 22:3307-3316. [PMID: 35426688 PMCID: PMC9017248 DOI: 10.1021/acs.nanolett.2c00415] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Revised: 04/10/2022] [Indexed: 05/03/2023]
Abstract
Accurate and population-scale screening technology is crucial in the control and prevention of COVID-19, such as pooled testing with high overall testing efficiency. Nevertheless, pooled testing faces challenges in sensitivity and specificity due to diluted targets and increased contaminations. Here, we develop a graphene field-effect transistor sensor modified with triple-probe tetrahedral DNA framework (TDF) dimers for 10-in-1 pooled testing of SARS-CoV-2 RNA. The synergy effect of triple probes as well as the special nanostructure achieve a higher binding affinity, faster response, and better specificity. The detectable concentration reaches 0.025-0.05 copy μL-1 in unamplified samples, lower than that of the reverse transcript-polymerase chain reaction. Without a requirement of nucleic-acid amplification, the sensors identify all of the 14 positive cases in 30 nasopharyngeal swabs within an average diagnosis time of 74 s. Unamplified 10-in-1 pooled testing enabled by the triple-probe TDF dimer sensor has great potential in the screening of COVID-19 and other epidemic diseases.
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Affiliation(s)
- Yungen Wu
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Daizong Ji
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Changhao Dai
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Derong Kong
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Yiheng Chen
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Liqian Wang
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
| | - Mingquan Guo
- Department of Laboratory Medicine, Shanghai Public
Health Clinical Center, Fudan University, Shanghai 201508,
China
| | - Yunqi Liu
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
| | - Dacheng Wei
- Laboratory of Molecular Materials and Devices,
Department of Materials Science, Fudan University, Shanghai
200433, China
- State Key Laboratory of Molecular Engineering of
Polymers, Department of Macromolecular Science, Fudan
University, Shanghai 200433, China
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