1
|
Song C, Ma Z, Zhang M, Liu C, Tang S, Zhang J, Song J, Yu H, Lee HK, Shen W. Multiplex Detection of Single Nucleotide Polymorphisms by Liquid Chromatography for Nonsmall Cell Lung Cancer Staging. Anal Chem 2024; 96:1054-1063. [PMID: 38190445 DOI: 10.1021/acs.analchem.3c03659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2024]
Abstract
In this work, an integrated strategy with excellent accuracy and high throughput is proposed for the precise indication of single nucleotide polymorphism (SNP) in nonsmall cell lung cancer diseases. Two types of point mutations (L858R and T790M) and the corresponding wild types could be identified together in a single high-performance liquid chromatographic run. Signal amplification was achieved through a series of enzyme ligation, primer extension, and enzyme cleavage strategies, and a large number of DNA probes with different fluorescence signals were finally generated. The factors affecting the spatiotemporal separation efficiency of four DNA probes were systematically investigated. The limits of detection of wild types (WTs) or mutant types (MTs) abbreviated as L858R-MT, L858R-WT, T790M-MT, and T790M-WT were 26, 24, 19, and 22 aM, respectively. In addition, the levels of mutant types and wild types in the serum of 40 nonsmall cell lung cancer patients at different stages were detected using the method, and the correlation between the mutation ratios and cancer stages was preliminarily verified. The proposed highly selective and sensitive method may serve as an alternative approach for early diagnosis and staging of nonsmall cell lung cancer.
Collapse
Affiliation(s)
- Chang Song
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Ziyu Ma
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Mengyu Zhang
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Chang Liu
- School of Grain Science and Technology, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Sheng Tang
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Jinghui Zhang
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Juan Song
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| | - Hui Yu
- Department of Thoracic Surgery, Affiliated Hospital of Jiangsu University, Zhenjiang 212000, Jiangsu, P. R. China
| | - Hian Kee Lee
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Wei Shen
- School of Environmental and Chemical Engineering, Jiangsu University of Science and Technology, Zhenjiang 212003, Jiangsu, P. R. China
| |
Collapse
|
2
|
Xu S, Chen J, Yang F, Yang Z, Xu J, Wang L, Bian L, Liu L, Zhao X, Zhang Y. A FEN 1-driven DNA walker-like reaction coupling with magnetic bead-based separation for specific SNP detection. Front Bioeng Biotechnol 2023; 11:1279473. [PMID: 38026850 PMCID: PMC10656677 DOI: 10.3389/fbioe.2023.1279473] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Accepted: 09/15/2023] [Indexed: 12/01/2023] Open
Abstract
Single-nucleotide polymorphism (SNP) plays a key role in the carcinogenesis of the human genome, and understanding the intrinsic relationship between individual genetic variations and carcinogenesis lies heavily in the establishment of a precise and sensitive SNP detection platform. Given this, a powerful and reliable SNP detection platform is proposed by a flap endonuclease 1 (FEN 1)-driven DNA walker-like reaction coupling with a magnetic bead (MB)-based separation. A carboxyfluorescein (FAM)-labeled downstream probe (DP) was decorated on a streptavidin magnetic bead (SMB). The target DNA, as a walker strand, was captured by hybridization with DP and an upstream probe (UP) to form a three-base overlapping structure and execute the walking function on the surface of SMB. FEN 1 was employed to specifically recognize the three-base overlapping structure and cut the 5'flap at the SNP site to report the walking event and signal amplification. Considering the fact that the fluorescence was labeled on the cleavage and uncleavage sequences of DP and the target DNA-triggered walking event was undistinguishable from the mixtures, magnetic separation came in handy for cleavage probe (CP) isolation and discrimination of the amplified signal from the background signal. In comparison with the conventional DNA walker reaction, this strategy was coupling with SMB-based separation, thus promising a powerful and reliable method for SNP detection and signal amplification.
Collapse
Affiliation(s)
- Shijie Xu
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan, China
| | - Jian Chen
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan, China
| | - Fang Yang
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan, China
| | - Zhihao Yang
- Research Center for Intelligent Sensing Systems, Zhejiang Laboratory, Hangzhou, China
| | - Jianrong Xu
- School of Electronic Engineering, Nanjing Normal University, Taizhou College, Taizhou, China
| | - Lanyue Wang
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan, China
| | - Lina Bian
- Research Center for Intelligent Sensing Systems, Zhejiang Laboratory, Hangzhou, China
| | - Lihua Liu
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan, China
| | - Xiaoyu Zhao
- Research Center for Intelligent Sensing Systems, Zhejiang Laboratory, Hangzhou, China
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, China
| | - Yunshan Zhang
- Research Center for Intelligent Sensing Systems, Zhejiang Laboratory, Hangzhou, China
| |
Collapse
|
3
|
Liang Y, Chen D, Wang H, Pian H, Liu W, Wang F, Wang H, Li Z. Single-microbead space-confined digital quantification strategy (SMSDQ) for counting microRNAs at the single-molecule level. Biosens Bioelectron 2023; 238:115578. [PMID: 37573644 DOI: 10.1016/j.bios.2023.115578] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 08/03/2023] [Accepted: 08/05/2023] [Indexed: 08/15/2023]
Abstract
Quantification of microRNAs (miRNAs) at the single-molecule level is of great significance for clinical diagnostics and biomedical research. The challenges lie in the limits to transforming single-molecule measurements into quantitative signals. To address these limits, here, we report a new approach called a Single Microbead-based Space-confined Digital Quantification (SMSDQ) to measure individual miRNA molecules by counting gold nanoparticles (AuNPs) with localized surface plasmon resonance (LSPR) light-scattering imaging. One miRNA target hybridizes with the alkynyl-modified capture DNA probe immobilized on a microbead (60 μm) and the azide-modified report DNA probe anchored on AuNP (50 nm), respectively. Through the click reaction between the alkynyl and azide group, a single microbead can covalently link the AuNPs in the confined space within the view of the microscope. By digitally counting the light-scattering spots of AuNPs, we demonstrated the proposed approach with single-molecule detection sensitivity and high specificity of single-base discrimination. Taking the advantages of ultrahigh sensitivity, specificity, and the digital detection manner, the approach is suitable for evaluating cell heterogeneity and small variations of miRNA expression and has been successfully applied to direct quantification of miRNAs in one-tenth single-cell lysates and serum samples without RNA-isolated and nucleic acid amplification steps.
Collapse
Affiliation(s)
- Yuanwen Liang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Desheng Chen
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Honghong Wang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Hongru Pian
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Weiliang Liu
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Fangfang Wang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Hui Wang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China.
| | - Zhengping Li
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Haidian District, Beijing, 100083, China.
| |
Collapse
|
4
|
Wang LJ, Han Q, Hu JP, Wang HX, Liu M, Zhang CY. Structure-Switchable Hairpin-Powered Exponential Replications for Sensing Attomolar microRNA-Related Single Nucleotide Polymorphisms in Human Cancer Tissues with Zero Background. Anal Chem 2022; 94:15171-15175. [DOI: 10.1021/acs.analchem.2c04281] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Li-juan Wang
- College of Chemistry, Chemical Engineering and Materials Science, Shandong Normal University, Jinan 250014, China
- School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 211189, China
| | - Qian Han
- School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 211189, China
| | - Jin-ping Hu
- School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 211189, China
| | - Hou-xiu Wang
- College of Chemistry, Chemical Engineering and Materials Science, Shandong Normal University, Jinan 250014, China
| | - Meng Liu
- College of Chemistry, Chemical Engineering and Materials Science, Shandong Normal University, Jinan 250014, China
| | - Chun-yang Zhang
- College of Chemistry, Chemical Engineering and Materials Science, Shandong Normal University, Jinan 250014, China
| |
Collapse
|
5
|
Kim DM, Park JS, Jung SW, Yeom J, Yoo SM. Biosensing Applications Using Nanostructure-Based Localized Surface Plasmon Resonance Sensors. SENSORS (BASEL, SWITZERLAND) 2021; 21:3191. [PMID: 34064431 PMCID: PMC8125509 DOI: 10.3390/s21093191] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Revised: 04/30/2021] [Accepted: 05/03/2021] [Indexed: 01/06/2023]
Abstract
Localized surface plasmon resonance (LSPR)-based biosensors have recently garnered increasing attention due to their potential to allow label-free, portable, low-cost, and real-time monitoring of diverse analytes. Recent developments in this technology have focused on biochemical markers in clinical and environmental settings coupled with advances in nanostructure technology. Therefore, this review focuses on the recent advances in LSPR-based biosensor technology for the detection of diverse chemicals and biomolecules. Moreover, we also provide recent examples of sensing strategies based on diverse nanostructure platforms, in addition to their advantages and limitations. Finally, this review discusses potential strategies for the development of biosensors with enhanced sensing performance.
Collapse
Affiliation(s)
- Dong Min Kim
- Center for Applied Life Science, Hanbat National University, Daejeon 34158, Korea;
| | - Jong Seong Park
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (J.S.P.); (S.-W.J.); (J.Y.)
| | - Seung-Woon Jung
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (J.S.P.); (S.-W.J.); (J.Y.)
| | - Jinho Yeom
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (J.S.P.); (S.-W.J.); (J.Y.)
| | - Seung Min Yoo
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (J.S.P.); (S.-W.J.); (J.Y.)
| |
Collapse
|
6
|
Wang Z, Jia N, Zhou X, Han J, Bu H. Cu(I)-Catalyzed Click Reaction-Triggered 3D DNA Walker for Constructing an "OFF-ON" Fluorescent Biosensor for Cu 2+ Detection. ACS APPLIED BIO MATERIALS 2021; 4:3571-3578. [PMID: 35014442 DOI: 10.1021/acsabm.1c00073] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Herein, a highly selective and sensitive "OFF-ON" fluorescent biosensor was designed for intracellular Cu2+ detection. Compared to the fluorescent Cu2+ biosensors reported so far, this work tackled the tricky issue of reliability of Cu2+, which mainly depends on the integration of the high selectivity of the Cu(I)-catalyzed click reaction with the ultrahigh sensitivity of a spherical nucleic acid-based 3D DNA walker. Typically, DNA track is carried out by coconjugating N3-S1 and Cy3-HP onto gold nanoparticles (AuNPs). On this state, fluorophore (Cy3) was close to the surface of AuNPs (as a nanoquencher), generating a quenched fluorescence and thus causing the initial "OFF" state. In the presence of Cu2+ and H2C2-swing arm, Cu+ was in situ generated quickly from the reduction of Cu2+ with the assistance of ascorbic acid, which could promptly and selectively trigger the Cu(I)-catalyzed click reaction-based 3D DNA walker between azide on N3-S1 and alkyne on the H2C2-swing arm. Sequentially, the activated H2C2-swing arm was able to hybridize with adjacent Cy3-HP and the 3D DNA walker was automatically driven by N.BstNBI to produce multiple Cy3-labeled DNA fragments away from the AuNP surface for signal amplification, performing a recovered fluorescence response (turning into the "ON" state). Accordingly, the ingenious integration of an efficient click reaction and smart 3D DNA walker endows the constructed fluorescent biosensor with superior selectivity and ultrahigh sensitivity. We further apply this platform for Cu2+ sensing in biological systems; this assay will provide a signal transduction strategy for evaluating intracellular Cu2+ at picomolar levels.
Collapse
Affiliation(s)
- Zhen Wang
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, Shaanxi 710127, P. R. China
| | - Nan Jia
- Shaanxi Provincial Key Laboratory of Biotechnology, Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Northwest University, Xi'an, Shaanxi 710069, PR China
| | - Xumei Zhou
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, Shaanxi 710127, P. R. China
| | - Jing Han
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, Shaanxi 710127, P. R. China
| | - Huaiyu Bu
- Shaanxi Provincial Key Laboratory of Biotechnology, Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Northwest University, Xi'an, Shaanxi 710069, PR China
| |
Collapse
|
7
|
Liu L, Zhang L, Liang Y. Visual sensing of multiple proteins based on three kinds of metal nanoparticles as sensor receptors. Colloids Surf B Biointerfaces 2021; 200:111574. [PMID: 33476955 DOI: 10.1016/j.colsurfb.2021.111574] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2020] [Revised: 12/18/2020] [Accepted: 01/08/2021] [Indexed: 12/28/2022]
Abstract
We propose a colorimetric sensing array consisting of 4-aminothiophenol (p-ATP)-modified gold nanoparticles (Au NPs), silver nanoparticles (Ag NPs), and core-shell Au@Ag nanocubes (Au@Ag NCs) as sensing elements to identify multiple proteins according to the diverse colorimetric response patterns. In the absence of proteins, the sensor element solution itself did not agglomerate. After interacting with six proteins (lysozyme (LZM), hemoglobin (HGB), peroxidase from horseradish (HRP), bovine liver from peroxidase (CAT), trypsin from bovin pancreas (TRY), and pepsin (PEP)), due to the different binding ability between the sensing elements and various proteins, the sensing array exhibits a unique pattern of colorimetric variations, linear discrimination analysis (LDA) was applied to analyze the pattern and produced a clustering map for a clearer differentiation of these proteins.
Collapse
Affiliation(s)
- Lei Liu
- School of Environment and Civil Engineering, Dongguan University of Technology, Dongguan, 523808, China
| | - Liguo Zhang
- School of Environment, South China Normal University, Guangdong Provincial Engineering Technology Research Center for Wastewater Management and Treatment, Guangzhou, 510006, China.
| | - Yong Liang
- School of Chemistry and Environment, South China Normal University, Guangzhou, 510631, China.
| |
Collapse
|
8
|
Liu Q, Liu J, Yang H, Wang X, Kong J, Zhang X. Highly sensitive lung cancer DNA detection via GO enhancing eATRP signal amplification. Microchem J 2021. [DOI: 10.1016/j.microc.2020.105766] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
|
9
|
Zhang W, Liu K, Zhang P, Cheng W, Zhang Y, Li L, Yu Z, Chen M, Chen L, Li L, Zhang X. All-in-one approaches for rapid and highly specific quantifcation of single nucleotide polymorphisms based on ligase detection reaction using molecular beacons as turn-on probes. Talanta 2020; 224:121717. [PMID: 33378999 DOI: 10.1016/j.talanta.2020.121717] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2020] [Revised: 09/17/2020] [Accepted: 09/28/2020] [Indexed: 11/27/2022]
Abstract
Rapid, simple, specific and sensitive approaches for single nucleotide polymorphisms (SNPs) detection are essential for clinical diagnosis. In this study, all-in-one approaches, consisting of the whole detection process including ligase detection reaction (LDR) and real time quantitative polymerase chain reaction performed in one PCR tube by a one-step operation on a real-time PCR system using molecular beacon (MB) as turn-on probe, were developed for rapid, simple, specific and sensitive quantifcation of SNPs. High specificity of the all-in-one approach was achieved by using the LDR, which employs a thermostable and single-base discerning Hifi Taq DNA ligase to ligate adjacently hybridized LDR-specific probes. In addition, a highly specific probe, MB, was used to detect the products of all-in-one approach, which doubly enhances the specificity of the all-in-one approach. The linear dynamic range and high sensitivity of mutant DNA (MutDNA) and wild-type DNA (WtDNA) all-in-one approaches for the detection of MutDNA and WtDNA were studied in vitro, with a broad linear dynamic range of 0.1 fM to 1 pM and detection limits of 65.3 aM and 31.2 aM, respectively. In addition, the MutDNA and WtDNA all-in-one approaches were able to accurately detect allele frequency changes as low as 0.1%. In particular, the epidermal growth factor receptor T790M MutDNA frequency in the tissue of five patients with non-small cell lung cancer detected by all-in-one approaches were in agreement with clinical detection results, indicating the excellent practicability of the developed approaches for the quantification of SNPs in real samples. In summary, the developed all-in-one approaches exhibited promising potential for further applications in clinical diagnosis.
Collapse
Affiliation(s)
- Wancun Zhang
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China; Department of Pediatric Oncology Surgery, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Kangbo Liu
- Biological Testing Room, Henan Medical Equipment Inspection Institute, Henan Medical Equipment Inspection and Testing Engineering Technology Research Center, Henan Medical Equipment Biotechnology and Application Engineering Research Center, Zhengzhou, 450000, China
| | - Pin Zhang
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Weyland Cheng
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Yaodong Zhang
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Linfei Li
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Zhidan Yu
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China
| | - Mengmeng Chen
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China.
| | - Lin Chen
- Henan Joint International Research Laboratory of Drug Discovery of Small Molecules, Zhengzhou Key Laboratory of Synthetic Biology of Natural Products, Huanghe Science and Technology College, 450063, Zhengzhou, China.
| | - Lifeng Li
- Henan Key Laboratory of Children's Genetics and Metabolic Diseases, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China; Departments of Neonatology, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, China.
| | - Xianwei Zhang
- Department of Pediatric Oncology Surgery, Children's Hospital Affiliated to Zhengzhou University, Henan Children's Hospital, Zhengzhou Children's Hospital, Zhengzhou, 450018, China.
| |
Collapse
|
10
|
Zhou QY, Wang LJ, Liu Y, Zhong XY, Dong JH, Zhou YL, Zhang XX. Ultrasensitive Multiplex Detection of Single Nucleotide Polymorphisms Based on Short-Chain Hybridization Combined with Online Preconcentration of Capillary Electrophoresis. Anal Chem 2020; 92:10620-10626. [PMID: 32643365 DOI: 10.1021/acs.analchem.0c01675] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Reliable multiple single nucleotide polymorphisms (SNPs) detection at low abundance is of great significance for disease diagnosis and biomedical research. Herein, we have developed a novel and simple method for multiple SNPs detection combining solid-phase capture by specific hybridization with online preconcentration of capillary gel electrophoresis-laser-induced fluorescence (CGE-LIF). The method presents an excellent performance due to its favorable traits: the solid-phase short-chain hybridization ensures the high specificity of SNP detection; the effective separation ability of CGE can easily achieve multiplex detection; the simple online preconcentration significantly improves the detection sensitivity of fluorescent probe by nearly 100-fold. For a single SNP target, the assay achieves a limit of detection as low as 0.01-0.02% for three different NRAS mutations in the same codon. For multiple SNP targets, as low as 0.05% abundance can be easily realized. Our method is simple, efficient, ultrasensitive, and universal for multiple SNPs detection without complex enzymatic or chemical ligation reaction, which shows great potential in early clinical diagnosis.
Collapse
Affiliation(s)
- Qian-Yu Zhou
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Li-Juan Wang
- Key Laboratory of Medical Chemistry and Molecular Diagnosis, Ministry of Education, Hebei University, Baoding, Hebei 071002, China
| | - Ying Liu
- Key Laboratory of Medical Chemistry and Molecular Diagnosis, Ministry of Education, Hebei University, Baoding, Hebei 071002, China
| | - Xin-Ying Zhong
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Jia-Hui Dong
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Ying-Lin Zhou
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Xin-Xiang Zhang
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| |
Collapse
|
11
|
Wang P, Xue T, Sheng A, Cheng L, Zhang J. Application of Chemoselective Ligation in Biosensing. Crit Rev Anal Chem 2020; 52:170-193. [DOI: 10.1080/10408347.2020.1791044] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Pei Wang
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai, P. R. China
- Shanghai Key Laboratory of Bio-Energy Crops, Shanghai University, Shanghai, P. R. China
| | - Tianxiang Xue
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai, P. R. China
| | - Anzhi Sheng
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai, P. R. China
| | - Liangfen Cheng
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai, P. R. China
| | - Juan Zhang
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai, P. R. China
| |
Collapse
|
12
|
Zhou QY, Zhong XY, Zhao LL, Wang LJ, Zhou YL, Zhang XX. High-throughput ultra-sensitive discrimination of single nucleotide polymorphism via click chemical ligation. Analyst 2020; 145:172-176. [PMID: 31724655 DOI: 10.1039/c9an01672d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Single nucleotide polymorphisms (SNPs) have been proven to be important biomarkers for disease diagnosis, prognosis and disease pathogenesis. Here, taking the advantages of a self-assembled oligonucleotide sandwich structure and robust chemical reactions, we have developed a simple, high-throughput and effective colorimetric analytical technique termed CuAAC-based ligation-assisted assays (CuAAC-LA) for SNP detection using a DNA-BIND 96-well plate. With the 5'-azide and 3'-alkyne groups labelled on two oligonucleotide probes, the target DNA can direct a Cu(i)-catalyzed alkyne-azide cycloaddition (CuAAC) click reaction. Since the small difference in duplex stability caused by a single-nucleotide mismatch was amplified by the steric effects of these reactive groups for the ligation reaction of an unstable duplex, CuAAC-LA exhibited an ultra-sensitive discrimination ability for a mutant type target in the presence of large amounts of wild type targets. As low as 0.05% SNP could be clearly detected, which was better than most previously reported methods by various DNA ligases, indicating that a simple and rapid synthetic method i.e., the DNA template-directed click reaction held the potential to replace the ligase for SNP detection.
Collapse
Affiliation(s)
- Qian-Yu Zhou
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
| | | | | | | | | | | |
Collapse
|
13
|
Chang W, Liu W, Shen H, Chen S, Liao P, Liu Y. Molecular AND logic gate for multiple single-nucleotide mutations detection based on CRISPR/Cas9n system-trigged signal amplification. Anal Chim Acta 2020; 1112:46-53. [DOI: 10.1016/j.aca.2020.03.058] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Revised: 03/27/2020] [Accepted: 03/28/2020] [Indexed: 12/26/2022]
|
14
|
Qin Y, Li M, Yang Y, Gao Z, Zhang H, Zhao J. A unimolecular DNA fluorescent probe for determination of copper ions based on click chemistry. RSC Adv 2020; 10:6017-6021. [PMID: 35497443 PMCID: PMC9049493 DOI: 10.1039/c9ra10174h] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2019] [Accepted: 01/30/2020] [Indexed: 12/21/2022] Open
Abstract
A homogenous fluorescence method was constructed for Cu2+ detection by employing DNA-templated click chemistry and exonuclease reaction. In this strategy, a dumbbell shaped DNA probe, which contained an alkyne group and an azide group at its ends, was designed as the template for the click chemistry reaction, and also the signal probe. In the absence of Cu2+, the DNA probe was digested into small oligonucleotide fragments by exonuclease, resulting in a low fluorescence background. However, this DNA probe can be sealed at its two ends by Cu2+-induced click chemistry ligation in the presence of Cu2+. This closed structure of DNA would remain stable after addition of exonuclease, and could then be stained by SYBR Green I. A strong fluorescence signal was observed, which was related to the concentration of Cu2+. This assay showed high selectivity and reached the detection limit of 39 nM. Moreover, the proposed strategy exhibited satisfactory detection results in real complex sample analysis, and has promising application in environmental monitoring and food safety. A homogenous fluorescence method was constructed for Cu2+ detection by employing DNA-templated click chemistry and exonuclease reaction.![]()
Collapse
Affiliation(s)
- Yingfeng Qin
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University)
- Ministry of Education
- Guilin 541004
- PR China
| | - Ming Li
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University)
- Ministry of Education
- Guilin 541004
- PR China
| | - Yingying Yang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University)
- Ministry of Education
- Guilin 541004
- PR China
| | - Zhiying Gao
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University)
- Ministry of Education
- Guilin 541004
- PR China
| | - Huaisheng Zhang
- Department of Chemistry and Biochemistry
- Jackson State University
- Jackson
- USA
| | - Jingjin Zhao
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University)
- Ministry of Education
- Guilin 541004
- PR China
- Department of Chemistry and Biochemistry
| |
Collapse
|
15
|
Zhang W, Liu L, Zhang Q, Zhang D, Hu Q, Wang Y, Wang X, Pu Q, Guo G. Visual and real-time imaging focusing for highly sensitive laser-induced fluorescence detection at yoctomole levels in nanocapillaries. Chem Commun (Camb) 2020; 56:2423-2426. [DOI: 10.1039/c9cc09594b] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
We developed a highly sensitive laser-induced fluorescence detection system, involving visual and real-time imaging focusing instead of the use of fluorescent reagents, for the detection of analytes in nanocapillaries.
Collapse
Affiliation(s)
- Wenmei Zhang
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Lei Liu
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Qi Zhang
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Dongtang Zhang
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Qin Hu
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Yanan Wang
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Xiayan Wang
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| | - Qiaosheng Pu
- Department of Chemistry
- Lanzhou University
- Lanzhou
- China
| | - Guangsheng Guo
- Center Excellence for Environmental Safety and Biological Effects
- Beijing Key Laboratory for Green Catalysis and Separation
- Department of Chemistry and Chemical Engineering
- Beijing University of Technology
- Beijing 100124
| |
Collapse
|
16
|
Fang Z, Liu L, Wang Y, Xi D, Zhang S. Unambiguous Discrimination of Multiple Protein Biomarkers by Nanopore Sensing with Double-Stranded DNA-Based Probes. Anal Chem 2019; 92:1730-1737. [DOI: 10.1021/acs.analchem.9b02965] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Zhen Fang
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Normal University, Jinan 250014, P.R. China
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, Collaborative Innovation Center of Tumor Marker Detection Technology, Equipment and Diagnosis-Therapy Integration in Universities of Shandong, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, P.R. China
| | - Liping Liu
- College of Chemistry, Chemical Engineering and Materials Science, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Normal University, Jinan 250014, P.R. China
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, Collaborative Innovation Center of Tumor Marker Detection Technology, Equipment and Diagnosis-Therapy Integration in Universities of Shandong, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, P.R. China
| | - Ying Wang
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, Collaborative Innovation Center of Tumor Marker Detection Technology, Equipment and Diagnosis-Therapy Integration in Universities of Shandong, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, P.R. China
| | - Dongmei Xi
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, Collaborative Innovation Center of Tumor Marker Detection Technology, Equipment and Diagnosis-Therapy Integration in Universities of Shandong, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, P.R. China
| | - Shusheng Zhang
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, Collaborative Innovation Center of Tumor Marker Detection Technology, Equipment and Diagnosis-Therapy Integration in Universities of Shandong, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, P.R. China
| |
Collapse
|
17
|
Cui M, Zhou X, Chen X, Zheng W, Bian L, Li Z, Zheng B. Rapid and room temperature detection of single nucleotide variation with enhanced discrimination by crowding assisted allele specific extension. Chem Commun (Camb) 2019; 55:12052-12055. [PMID: 31535680 DOI: 10.1039/c9cc06229g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
In this paper we report the kinetics based detection of single nucleotide variation (SNV) at room temperature by allele specific extension with different concentrations and types of crowding agents. In general, the crowding conditions enhanced the specificity in the detection of SNV.
Collapse
Affiliation(s)
- Miao Cui
- Department of Chemistry, The Chinese University of Hong Kong, Shatin, Hong Kong, China. and Department of Biomedical Sciences, City University of Hong Kong, Hong Kong, China
| | - Xiaoyu Zhou
- Department of Chemistry, The Chinese University of Hong Kong, Shatin, Hong Kong, China.
| | - Xiaoyu Chen
- Department of Biomedical Engineering, The Chinese University of Hong Kong, Shatin, Hong Kong, China
| | - Weihao Zheng
- School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, China
| | - Liming Bian
- Department of Biomedical Engineering, The Chinese University of Hong Kong, Shatin, Hong Kong, China
| | - Zigang Li
- School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, China
| | - Bo Zheng
- Department of Chemistry, The Chinese University of Hong Kong, Shatin, Hong Kong, China.
| |
Collapse
|
18
|
Nie R, Xu X, Chen Y, Yang L. Optical Fiber-Mediated Immunosensor with a Tunable Detection Range for Multiplexed Analysis of Veterinary Drug Residues. ACS Sens 2019; 4:1864-1872. [PMID: 31184113 DOI: 10.1021/acssensors.9b00653] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
We describe herein a newly developed chemiluminescent optical fiber immunosensor (OFIS) with a tunable detection range for multiplexed analysis of veterinary drug residues with vastly different concentrations in milk samples. The optical fiber probe is used as a carrier of biorecognition element as well as a transducer, enabling a low-cost compact design, which makes this system suitable for cost-effective on-site detection of the target analytes. Importantly, the synergy between modulation of the length of the optical fiber sensing region and the number of fibers allows performing multiplexed immunoassays in an easily controllable manner over a tunable detection range from pg/mL to μg/mL analyte concentrations. By combining the optical fiber sensor with a nanocomplex signal amplification system, a highly sensitive chemiluminescent OFIS system is demonstrated for the multiplexed assaying of veterinary drug residues in milk samples with linear ranges of 10-(2 × 104) pg/mL for chloramphenicol, 0.5-500 ng/mL for sulfadiazine, and 0.1-300 μg/mL for neomycin. This controllable strategy, based on modulation of the fiber probe, provides a versatile platform for multiplexed quantitative detection of both low-abundance and high-abundance targets, which shows great potential for on-site testing in food safety.
Collapse
Affiliation(s)
- Rongbin Nie
- Key Laboratory of Nanobiosensing and Nanobioanalysis at Universities of Jilin Province, Department of Chemistry, Northeast Normal University, 5268 Renmin Street, Changchun, Jilin Province 130024, PR China
| | - Xuexue Xu
- Key Laboratory of Nanobiosensing and Nanobioanalysis at Universities of Jilin Province, Department of Chemistry, Northeast Normal University, 5268 Renmin Street, Changchun, Jilin Province 130024, PR China
| | - Yiping Chen
- College of Food Science and Technology, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Li Yang
- Key Laboratory of Nanobiosensing and Nanobioanalysis at Universities of Jilin Province, Department of Chemistry, Northeast Normal University, 5268 Renmin Street, Changchun, Jilin Province 130024, PR China
| |
Collapse
|
19
|
Abstract
Advances in nucleic acid sequencing and genotyping technologies have facilitated the discovery of an increasing number of single-nucleotide variations (SNVs) associated with disease onset, progression, and response to therapy. The reliable detection of such disease-specific SNVs can ensure timely and effective therapeutic action, enabling precision medicine. This has driven extensive efforts in recent years to develop novel methods for the fast and cost-effective analysis of targeted SNVs. In this Review, we highlight the most recent and significant advances made toward the development of such methodologies.
Collapse
Affiliation(s)
- Alireza Abi
- Department of Chemistry, Faculty of Sciences, Shiraz University, Shiraz 7194684795, Iran
| | - Afsaneh Safavi
- Department of Chemistry, Faculty of Sciences, Shiraz University, Shiraz 7194684795, Iran
| |
Collapse
|
20
|
Zhang W, Hu F, Zhang X, Meng W, Zhang Y, Song Y, Wang H, Wang P, Gu Y. Ligase chain reaction-based electrochemical biosensor for the ultrasensitive and specific detection of single nucleotide polymorphisms. NEW J CHEM 2019. [DOI: 10.1039/c9nj03994e] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this study, a sensitive electrochemical biosensor for universally, robustly, specifically, and sensitively detecting SNPs was developed by using LCR as a signal amplification strategy.
Collapse
Affiliation(s)
- Wancun Zhang
- Children's Hospital Affiliated of Zhengzhou University
- 450000 Zhenzhou
- China
| | - Fang Hu
- State Key Laboratory of Natural Medicines
- Department of Biomedical Engineering
- School of Engineering
- China Pharmaceutical University
- 210009 Nanjing
| | - Xianwei Zhang
- Children's Hospital Affiliated of Zhengzhou University
- 450000 Zhenzhou
- China
| | - Wei Meng
- Key Laboratory of Biomedical Functional Materials
- School of Science
- China Pharmaceutical University
- Nanjing 211198
- China
| | - Yaodong Zhang
- Children's Hospital Affiliated of Zhengzhou University
- 450000 Zhenzhou
- China
| | - Yinsen Song
- Children's Hospital Affiliated of Zhengzhou University
- 450000 Zhenzhou
- China
| | | | - Peng Wang
- State Key Laboratory of Natural Medicines
- Department of Biomedical Engineering
- School of Engineering
- China Pharmaceutical University
- 210009 Nanjing
| | - Yueqing Gu
- State Key Laboratory of Natural Medicines
- Department of Biomedical Engineering
- School of Engineering
- China Pharmaceutical University
- 210009 Nanjing
| |
Collapse
|
21
|
Abstract
This manuscript reviews recent developments in click chemistry in microscale systems.
Collapse
Affiliation(s)
- Tingting Hong
- Xiangya School of Pharmaceutical Sciences
- Central South University
- Changsha
- China
| | - Wenfang Liu
- Xiangya School of Pharmaceutical Sciences
- Central South University
- Changsha
- China
| | - Ming Li
- School of Environmental Science and Engineering
- Yangzhou University
- Yangzhou
- China
| | - Chuanpin Chen
- Xiangya School of Pharmaceutical Sciences
- Central South University
- Changsha
- China
| |
Collapse
|
22
|
Osman EA, Gadzikwa T, Gibbs JM. Quick Click: The DNA-Templated Ligation of 3'-O-Propargyl- and 5'-Azide-Modified Strands Is as Rapid as and More Selective than Ligase. Chembiochem 2018; 19:2081-2087. [PMID: 30059599 DOI: 10.1002/cbic.201800305] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Indexed: 12/24/2022]
Abstract
The copper(I)-mediated azide-alkyne cycloaddition (CuAAC) of 3'-propargyl ether and 5'-azide oligonucleotides is a particularly promising ligation system because it results in triazole linkages that effectively mimic the phosphate-sugar backbone of DNA, leading to unprecedented tolerance of the ligated strands by polymerases. However, for a chemical ligation strategy to be a viable alternative to enzymatic systems, it must be equally as rapid, as discriminating, and as easy to use. We found that the DNA-templated reaction with these modifications was rapid under aerobic conditions, with nearly quantitative conversion in 5 min, resulting in a kobs value of 1.1 min-1 , comparable with that measured in an enzymatic ligation system by using the highest commercially available concentration of T4 DNA ligase. Moreover, the CuAAC reaction also exhibited greater selectivity in discriminating C:A or C:T mismatches from the C:G match than that of T4 DNA ligase at 29 °C; a temperature slightly below the perfect nicked duplex dissociation temperature, but above that of the mismatched duplexes. These results suggest that the CuAAC reaction of 3'-propargyl ether and 5'-azide-terminated oligonucleotides represents a complementary alternative to T4 DNA ligase, with similar reaction rates, ease of setup and even enhanced selectivity for certain mismatches.
Collapse
Affiliation(s)
- Eiman A Osman
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2, Canada
| | - Tendai Gadzikwa
- Department of Chemistry, Kansas State University, Manhattan, KS, 66506, USA
| | - Julianne M Gibbs
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2, Canada
| |
Collapse
|