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Cruz Da Silva E, Gaki P, Flieg F, Messmer M, Gucciardi F, Markovska Y, Reisch A, Fafi-Kremer S, Pfeffer S, Klymchenko AS. Direct Zeptomole Detection of RNA Biomarkers by Ultrabright Fluorescent Nanoparticles on Magnetic Beads. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024:e2404167. [PMID: 39011971 DOI: 10.1002/smll.202404167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2024] [Revised: 07/05/2024] [Indexed: 07/17/2024]
Abstract
Nucleic acids are important biomarkers in cancer and viral diseases. However, their ultralow concentration in biological/clinical samples makes direct target detection challenging, because it leads to slow hybridization kinetics with the probe and its insufficient signal-to-noise ratio. Therefore, RNA target detection is done by molecular (target) amplification, notably by RT-PCR, which is a tedious multistep method that includes nucleic acid extraction and reverse transcription. Here, a direct method based on ultrabright dye-loaded polymeric nanoparticles in a sandwich-like hybridization assay with magnetic beads is reported. The ultrabright DNA-functionalized nanoparticle, equivalent to ≈10 000 strongly emissive rhodamine dyes, is hybridized with the magnetic bead to the RNA target, providing the signal amplification for the detection. This concept (magneto-fluorescent sandwich) enables high-throughput detection of DNA and RNA sequences of varied lengths from 48 to 1362 nt with the limit of detection down to 0.3 fm using a plate reader (15 zeptomoles), among the best reported for optical sandwich assays. Moreover, it allows semi-quantitative detection of SARS-CoV-2 viral RNA directly in clinical samples without a dedicated RNA extraction step. The developed technology, combining ultrabright nanoparticles with magnetic beads, addresses fundamental challenges in RNA detection; it is expected to accelerate molecular diagnostics of diseases.
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Affiliation(s)
- Elisabete Cruz Da Silva
- Laboratoire de Bioimagerie et Pathologies, Faculté de Pharmacie, Université de Strasbourg, UMR 7021 CNRS, Illkirch, 67401, France
- BrightSens Diagnostics SAS, 11 Rue de l'Académie, Strasbourg, 67000, France
| | - Paraskevi Gaki
- Laboratoire de Bioimagerie et Pathologies, Faculté de Pharmacie, Université de Strasbourg, UMR 7021 CNRS, Illkirch, 67401, France
- BrightSens Diagnostics SAS, 11 Rue de l'Académie, Strasbourg, 67000, France
| | - Fabien Flieg
- BrightSens Diagnostics SAS, 11 Rue de l'Académie, Strasbourg, 67000, France
| | - Melanie Messmer
- Architecture et Réactivité de l'ARN, Institut de biologie moléculaire et cellulaire du CNRS, Université de Strasbourg, UPR 9002, Strasbourg, 67084, France
| | - Floriane Gucciardi
- Architecture et Réactivité de l'ARN, Institut de biologie moléculaire et cellulaire du CNRS, Université de Strasbourg, UPR 9002, Strasbourg, 67084, France
| | | | - Andreas Reisch
- Laboratoire de Bioimagerie et Pathologies, Faculté de Pharmacie, Université de Strasbourg, UMR 7021 CNRS, Illkirch, 67401, France
| | - Samira Fafi-Kremer
- CHU de Strasbourg, Laboratoire de Virologie, Université de Strasbourg, INSERM, Strasbourg, IRM UMR-S 1109, France
| | - Sébastien Pfeffer
- Architecture et Réactivité de l'ARN, Institut de biologie moléculaire et cellulaire du CNRS, Université de Strasbourg, UPR 9002, Strasbourg, 67084, France
| | - Andrey S Klymchenko
- Laboratoire de Bioimagerie et Pathologies, Faculté de Pharmacie, Université de Strasbourg, UMR 7021 CNRS, Illkirch, 67401, France
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Jangpatarapongsa K, Saimuang K, Polpanich D, Thiramanas R, Techakasikornpanich M, Yudech P, Paripurana V, Leepiyasakulchai C, Tangboriboonrat P. Increased sensitivity of enterotoxigenic Escherichia coli detection in stool samples using oligonucleotide immobilized-magnetic nanoparticles. ACTA ACUST UNITED AC 2021; 32:e00677. [PMID: 34631437 PMCID: PMC8487978 DOI: 10.1016/j.btre.2021.e00677] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2021] [Revised: 09/04/2021] [Accepted: 09/12/2021] [Indexed: 12/01/2022]
Abstract
A rapid detection of ETEC DNA with high sensitivity and specificity. The combination between magnetic nanoparticles and molecular technique. 100-folds increase of sensitivity compared with gold standard.
PCR detection of enterotoxigenic Escherichia-coli (ETEC) can be used directly on stool sample. However, it still has limitations due to presence of PCR inhibitors and interferences. This study, oligonucleotide primer specific to ETEC was immobilized onto MNPs and applied for separation and enrichment of ETEC-DNA from contaminants in stool after boiling. DNA separation efficiency was evaluated using conventional PCR and magneto-PCR-enzyme linked-gene-assay (MELGA). Due to high specificity of primer and efficiency of nanoparticles to bring down PCR inhibitors, DNA separation using primer-immobilized-MNPs exhibited 100-fold increase of sensitivity compared to that using simple boiling. Moreover, the sensitivities in stool were increased from 108 to 106 CFU/mL and 104 to 102 CFU/mL when PCR products were detected by gel electrophoresis and MELGA, respectively. Results suggested that oligonucleotide-immobilized-MNPs combined with boiling DNA extraction method was successfully used to separate the DNA of ETEC in stool with high sensitivity using MELGA.
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Affiliation(s)
- Kulachart Jangpatarapongsa
- Center for Research and Innovation, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
| | - Kween Saimuang
- Center for Research and Innovation, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
| | - Duangporn Polpanich
- National Nanotechnology Center (NANOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani 12120, Thailand
| | - Raweewan Thiramanas
- National Nanotechnology Center (NANOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani 12120, Thailand
| | - Mongkol Techakasikornpanich
- Center for Research and Innovation, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
| | - Papichaya Yudech
- Center for Research and Innovation, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
| | - Venusrin Paripurana
- Center for Research and Innovation, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
| | - Chaniya Leepiyasakulchai
- Department of Clinical Microbiology and Applied Technology, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand
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Lee Yu HL, Fan TW, Hsing IM. Oligonucleotide hybridization with magnetic separation assay for multiple SNP phasing. Anal Chim Acta X 2020; 5:100050. [PMID: 33117988 PMCID: PMC7587028 DOI: 10.1016/j.acax.2020.100050] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Revised: 04/09/2020] [Accepted: 04/14/2020] [Indexed: 10/29/2022] Open
Abstract
Since humans have two copies of each gene, multiple mutations in different loci may or may not be found on the same strand of DNA (i.e., inherited from one parent). When a person is heterozygous at more than one position, the placement of these mutations, also called the haplotype phase, (i.e., cis for the same strand and trans for different strands) can result in the expression of different amount and type of proteins. In this work, we described an enzyme-free method to phase two single nucleotide polymorphisms (SNPs) using two fluorophore/quencher-labelled probes, where one of which was biotinylated. The fluorescence signal was obtained twice: first, after the addition of the labelled probes and second, after the addition of the magnetic beads. The first signal was shown to be proportional to the total number of SNP A and SNP B present in the target analyte, while the second signal showed a marked decrease of the fluorescence signal from the non-biotinylated probe when the SNPs were in trans, showing that the probe immobilized on the magnetic bead selectively captures targets with SNPs in a cis configuration. We then mimic the nature of the human genome which consists of two haplotype copies of each gene, and showed that 250 nM of the 10 possible pairs of haplotypes could be differentiated using a combination of fluorescence microscopy and fluorescence detection.
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Affiliation(s)
- Henson L. Lee Yu
- Department of Chemical and Biological Engineering, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong
| | - Tsz Wing Fan
- Department of Chemical and Biological Engineering, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong
| | - I-Ming Hsing
- Department of Chemical and Biological Engineering, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong
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4
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Mi L, Sun Y, Shi L, Li T. Hemin-Bridged MOF Interface with Double Amplification of G-Quadruplex Payload and DNAzyme Catalysis: Ultrasensitive Lasting Chemiluminescence MicroRNA Imaging. ACS APPLIED MATERIALS & INTERFACES 2020; 12:7879-7887. [PMID: 31983198 DOI: 10.1021/acsami.9b18053] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Here, we report a double-amplified sensing platform for ultrasensitive chemiluminescence (CL) miRNA detection in real patients' blood in which a hemin-bridged metal-organic framework (MOF) is employed as a functional interface to boost the payload and catalysis of G-quadruplex (G4) DNAzymes. Hemin is here used as the organic ligand for the MOF synthesis, which endows the MOF with an intrinsic peroxidase-like catalytic activity. Most importantly, the MOF surface provides a large amount of binding sites for polymeric G4 DNAzymes that are produced by miRNA-triggered rolling circle amplification reactions, and meanwhile, the interfaced G4 DNAzymes on MOFs (G4/MOFzymes) display an about 100-fold higher catalytic activity than those in solution. By using the G4/MOFzyme catalysts in the luminol/H2O2 CL system, the amplification detection of two acute myocardial infarction (AMI)-related miRNAs (low to 1 fM seen with naked eyes) is achieved in human serum with a smartphone as a portable imaging detector, which provides a facile methodology for point-of-care (POC) diagnosis of AMI. Compared with previous smartphone-based counterparts not requiring sophisticated equipment, this new facile methodology shows both 6 orders of magnitude higher sensitivity and an ∼50-fold longer duration for CL miRNA imaging. These unique features allow our developed G4/MOFzymes to be further employed as a novel luminescent ink for printing commonly used patterns.
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Affiliation(s)
- Lan Mi
- Department of Chemistry , University of Science and Technology of China , Hefei , Anhui 230026 , China
| | - Yudie Sun
- Department of Chemistry , University of Science and Technology of China , Hefei , Anhui 230026 , China
| | - Lin Shi
- Department of Chemistry , University of Science and Technology of China , Hefei , Anhui 230026 , China
| | - Tao Li
- Department of Chemistry , University of Science and Technology of China , Hefei , Anhui 230026 , China
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Shi L, Sun Y, Mi L, Li T. Target-Catalyzed Self-Growing Spherical Nucleic Acid Enzyme (SNAzyme) as a Double Amplifier for Ultrasensitive Chemiluminescence MicroRNA Detection. ACS Sens 2019; 4:3219-3226. [PMID: 31763826 DOI: 10.1021/acssensors.9b01655] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Portable chemiluminescence (CL) imaging with a smartphone has shown a great promise for point-of-care testing of diseases, especially for acute myocardial infarction (AMI), which may occur abruptly. A challenge remains how to improve the imaging sensitivity that usually is several orders of magnitude lower than those of counterpart methodologies using the sophisticated equipment. Toward this goal, here, we report the target-triggered in situ growth of AuNP@hairpin-DNA nanoprobes into spherical nucleic acid enzymes (SNAzymes), which serve as both nanolabels and amplifiers for portable CL imaging of microRNAs (miRNAs) with an ultrahigh sensitivity comparable to that of the instrumental measurement under same conditions. A G-quadruplex (G4) DNA dense layer is dynamically produced on the gold nanocore via a DNAzyme machine-driven hairpin cleaving and captures the cofactor hemin to form the SNAzymes with higher peroxidase activity and stronger nuclease resistance than the commonly used G4 DNAzymes. The matured SNAzymes are then utilized as catalytic labels in a luminol-artesunate CL system for miRNA imaging with a smartphone as the portable detector. In this way, two AMI-related miRNAs, miRNA-499 and miRNA-133a, are successfully detected in real patients' serum with a naked eye-visualized CL change at 10 fM, showing a 5 order of magnitude improvement on the sensitivity of visualizing the same disease markers in clinical circulating blood as compared to the reported strategy. In addition, a good selectivity of our developed CL imaging platform is demonstrated. These unique features make it promising to employ this portable imaging platform for clinical AMI diagnosis.
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Affiliation(s)
- Lin Shi
- Department of Chemistry, University of Science & Technology of China, Hefei, Anhui 230026, China
| | - Yudie Sun
- Department of Chemistry, University of Science & Technology of China, Hefei, Anhui 230026, China
| | - Lan Mi
- Department of Chemistry, University of Science & Technology of China, Hefei, Anhui 230026, China
| | - Tao Li
- Department of Chemistry, University of Science & Technology of China, Hefei, Anhui 230026, China
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Wang Y, Wang M, Han L, Zhao Y, Fan A. Enhancement effect of p-iodophenol on gold nanoparticle-catalyzed chemiluminescence and its applications in detection of thiols and guanidine. Talanta 2018; 182:523-528. [DOI: 10.1016/j.talanta.2018.01.093] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2017] [Revised: 01/25/2018] [Accepted: 01/31/2018] [Indexed: 01/04/2023]
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Printed droplet microfluidics for on demand dispensing of picoliter droplets and cells. Proc Natl Acad Sci U S A 2017; 114:8728-8733. [PMID: 28760972 DOI: 10.1073/pnas.1704020114] [Citation(s) in RCA: 118] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Although the elementary unit of biology is the cell, high-throughput methods for the microscale manipulation of cells and reagents are limited. The existing options either are slow, lack single-cell specificity, or use fluid volumes out of scale with those of cells. Here we present printed droplet microfluidics, a technology to dispense picoliter droplets and cells with deterministic control. The core technology is a fluorescence-activated droplet sorter coupled to a specialized substrate that together act as a picoliter droplet and single-cell printer, enabling high-throughput generation of intricate arrays of droplets, cells, and microparticles. Printed droplet microfluidics provides a programmable and robust technology to construct arrays of defined cell and reagent combinations and to integrate multiple measurement modalities together in a single assay.
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8
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Hasanzadeh M, Shadjou N. (Nano)-materials and methods of signal enhancement for genosensing of p53 tumor suppressor protein: Novel research overview. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2017; 76:1424-1439. [DOI: 10.1016/j.msec.2017.02.038] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2016] [Revised: 02/07/2017] [Accepted: 02/09/2017] [Indexed: 12/22/2022]
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9
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Zhang Y, Liu Q, Wang D, Chen S, Wang X, Wang S. Genotyping and detection of common avian and human origin-influenza viruses using a portable chemiluminescence imaging microarray. SPRINGERPLUS 2016; 5:1871. [PMID: 27822445 PMCID: PMC5080273 DOI: 10.1186/s40064-016-3482-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/09/2015] [Accepted: 10/05/2016] [Indexed: 01/11/2023]
Abstract
Background
Influenza viruses are divided into three types, A, B, and C. Human influenza A and B viruses can cause seasonal epidemics, but influenza C causes only a mild respiratory illness. Influenza A virus can infect various host species. In 2013, human-infectious avian influenza A (H7N9) was first reported in China. By the second week of 2014, there were 210 laboratory-confirmed human cases in the country, and the mortality rate eventually reached 22 %. Rapid and accurate diagnosis of influenza viruses is important for clinical management and epidemiology.
Methods In this assay, a cost-effective chemiluminescence (CL) detection oligonucleotide microarray was developed to genotype and detect avian influenza A (H7N9), avian influenza A (H5N1), 2009 influenza A (H1N1), seasonal influenza A (H1N1), and seasonal influenza A (H3N2). Influenza A viruses and influenza B viruses were also generally detected using this microarray. Results The results of detection of 40 cultivated influenza virus strains showed that the microarray was able to distinguish the subtypes of these influenza viruses very well. The microarray possessed similar or 10 fold higher limit of detection than the real-time RT-PCR method. Sixty-six clinical swab samples were detected using this microarray and verified with real time RT-PCR to evaluate the efficiency of this microarray for clinical testing. Conclusions A reliable CL detection oligonucleotide microarray had been developed to genotype and detected these influenza viruses.
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Affiliation(s)
- Yingjie Zhang
- Department of Pharmacy, 210th Hospital of the Chinese People's Liberation Army, Dalian, 116021 People's Republic of China.,Postdoctoral Research Workstation, 210th Hospital of the Chinese People's Liberation Army, Dalian, 116015 People's Republic of China
| | - Qiqi Liu
- Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases, Institute of Radiation Medicine, Academy of Military Medical Sciences, Beijing, 100850 People's Republic of China.,Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases of Beijing, Beijing, 100850 People's Republic of China
| | - Dou Wang
- Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases, Institute of Radiation Medicine, Academy of Military Medical Sciences, Beijing, 100850 People's Republic of China
| | - Suhong Chen
- Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases, Institute of Radiation Medicine, Academy of Military Medical Sciences, Beijing, 100850 People's Republic of China.,Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases of Beijing, Beijing, 100850 People's Republic of China
| | - Xiaobo Wang
- Department of Pharmacy, 210th Hospital of the Chinese People's Liberation Army, Dalian, 116021 People's Republic of China.,Postdoctoral Research Workstation, 210th Hospital of the Chinese People's Liberation Army, Dalian, 116015 People's Republic of China
| | - Shengqi Wang
- Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases, Institute of Radiation Medicine, Academy of Military Medical Sciences, Beijing, 100850 People's Republic of China.,Key Laboratory of New Molecular Diagnosis Technologies for Infectious Diseases of Beijing, Beijing, 100850 People's Republic of China
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Jansaento W, Jangpatarapongsa K, Polpanich D, Wonglumsom W. Detection of Campylobacter DNA using magnetic nanoparticles coupled with PCR and a colorimetric end-point system. Food Sci Biotechnol 2016; 25:193-198. [PMID: 30263257 DOI: 10.1007/s10068-016-0029-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Revised: 09/29/2015] [Accepted: 09/30/2015] [Indexed: 11/29/2022] Open
Abstract
Campylobacter is an important food-borne pathogen causing acute gastroenteritis worldwide. Magnetic nanoparticle-based PCR coupled with streptavidin-horseradish peroxidase and a substrate was used for colorimetric detection. Forward primers conjugated to magnetic nanoparticles facilitated separation and concentration of Campylobacter DNA in a sample matrix. After PCR, a green color developed and was observed using the unaided eye, or detected using a spectrophotometer. High specificity and sensitivity of the 100 fg DNA/PCR reaction were achieved in pure culture experiments. The technique was applied for detection of Campylobacter on naturally contaminated chicken skin. All positive results were in agreement with results achieved using a conventional culture method. The magnetic nanoparticle-PCR-enzyme linked gene assay was practical and useful for detection of Campylobacter in complex matrices with PCR-interfering substances.
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Affiliation(s)
- Wuttichote Jansaento
- 1Department of Clinical Microbiology and Applied Technology, Faculty of Medical Technology, Mahidol University, Bangkok, 10700 Thailand
| | - Kulachart Jangpatarapongsa
- 2Center for Innovation Development and Technology Transfer, Faculty of Medical Technology, Mahidol University, Bangkok, 10700 Thailand
| | - Duangporn Polpanich
- 3NANOTEC, National Science and Technology Development Agency, Pathum Thani, 12120 Thailand
| | - Wijit Wonglumsom
- 1Department of Clinical Microbiology and Applied Technology, Faculty of Medical Technology, Mahidol University, Bangkok, 10700 Thailand
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Yu X, Sheng Y, Zhao Y, Fan A. Employment of bromophenol red and bovine serum albumin as luminol signal co-enhancer in chemiluminescent detection of sequence-specific DNA. Talanta 2016; 148:264-71. [DOI: 10.1016/j.talanta.2015.11.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2015] [Revised: 10/28/2015] [Accepted: 11/01/2015] [Indexed: 12/27/2022]
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Yang H, Liang W, He N, Deng Y, Li Z. Chemiluminescent labels released from long spacer arm-functionalized magnetic particles: a novel strategy for ultrasensitive and highly selective detection of pathogen infections. ACS APPLIED MATERIALS & INTERFACES 2015; 7:774-781. [PMID: 25553360 DOI: 10.1021/am507203s] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Previously, the unique advantages provided by chemiluminescence (CL) and magnetic particles (MPs) have resulted in the development of many useful nucleic acid detection methods. CL is highly sensitive, but when applied to MPs, its intensity is limited by the inner filter-like effect arising from excess dark MPs. Herein, we describe a modified strategy whereby CL labels are released from MPs to eliminate this negative effect. This approach relies on (1) the magnetic capture of target molecules on long spacer arm-functionalized magnetic particles (LSA-MPs), (2) the conjugation of streptavidin-alkaline phosphatase (SA-AP) to biotinylated amplicons of target pathogens, (3) the release of CL labels (specifically, AP tags), and (4) the detection of the released labels. CL labels were released from LSA-MPs through LSA ultrasonication or DNA enzymolysis, which proved to be the superior method. In contrast to conventional MPs, LSA-MPs exhibited significantly improved CL detection, because of the introduction of LSA, which was made of water-soluble carboxymethylated β-1,3-glucan. Detection of hepatitis B virus with this technique revealed a low detection limit of 50 fM, high selectivity, and excellent reproducibility. Thus, this approach may hold great potential for early stage clinical diagnosis of infectious diseases.
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Affiliation(s)
- Haowen Yang
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University , Nanjing 210096, China
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13
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Liu M, Hu P, Zhang G, Zeng Y, Yang H, Fan J, Jin L, Liu H, Deng Y, Li S, Zeng X, Elingarami S, He N. Copy number variation analysis by ligation-dependent PCR based on magnetic nanoparticles and chemiluminescence. Am J Cancer Res 2015; 5:71-85. [PMID: 25553099 PMCID: PMC4265749 DOI: 10.7150/thno.10117] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2014] [Accepted: 09/21/2014] [Indexed: 12/19/2022] Open
Abstract
A novel system for copy number variation (CNV) analysis was developed in the present study using a combination of magnetic separation and chemiluminescence (CL) detection technique. The amino-modified probes were firstly immobilized onto carboxylated magnetic nanoparticles (MNPs) and then hybridized with biotin-dUTP products, followed by amplification with ligation-dependent polymerase chain reaction (PCR). After streptavidin-modified alkaline phosphatase (STV-AP) bonding and magnetic separation, the CL signals were then detected. Results showed that the quantification of PCR products could be reflected by CL signal values. Under optimum conditions, the CL system was characterized for quantitative analysis and the CL intensity exhibited a linear correlation with logarithm of the target concentration. To validate the methodology, copy numbers of six genes from the human genome were detected. To compare the detection accuracy, multiplex ligation-dependent probe amplification (MLPA) and MNPs-CL detection were performed. Overall, there were two discrepancies by MLPA analysis, while only one by MNPs-CL detection. This research demonstrated that the novel MNPs-CL system is a useful analytical tool which shows simple, sensitive, and specific characters which are suitable for CNV analysis. Moreover, this system should be improved further and its application in the genome variation detection of various diseases is currently under further investigation.
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Krizkova S, Nguyen HV, Stanisavljevic M, Kopel P, Vaculovicova M, Adam V, Kizek R. Microchip capillary electrophoresis: quantum dots and paramagnetic particles for bacteria immunoseparation: rapid superparamagnetic-beads-based automated immunoseparation of Zn-Proteins from Staphylococcus aureus with nanogram yield. Methods Mol Biol 2015; 1274:67-79. [PMID: 25673483 DOI: 10.1007/978-1-4939-2353-3_6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The emergence of drug-resistant bacteria and new or changing infectious pathogens is an important public health problem as well as a serious socioeconomic concern. Immunomagnetic separation-based methods create new possibilities for rapidly recognizing many of these pathogens. Nanomaterial-based techniques including fluorescent labeling by quantum dots as well as immunoextraction by magnetic particles are excellent tools for such purposes. Moreover, the combination with capillary electrophoresis in miniaturized microchip arrangement brings numerous benefits such as fast and rapid analysis, low sample consumption, very sensitive electrochemical and fluorescent detection, portable miniaturized instrumentation, and rapid and inexpensive device fabrication. Here the use of superparamagnetic particle-based fully automated instrumentation to isolate pathogen Staphylococcus aureus and its Zn(II)-containing proteins (Zn-proteins) is reported using a robotic pipetting system speeding up the sample preparation and enabling to analyze 48 real samples within 6 h. Cell lysis and Zn-protein extractions were obtained from a minimum of 100 cells with the sufficient yield for SDS-PAGE (several tens ng of proteins).
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Affiliation(s)
- Sona Krizkova
- Department of Chemistry and Biochemistry, Faculty of Agronomy, Mendel University, Zemedelska 1, 613 00, Brno, Czech Republic, European Union
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15
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Highly sensitive DNA detection using cascade amplification strategy based on hybridization chain reaction and enzyme-induced metallization. Biosens Bioelectron 2014; 66:520-6. [PMID: 25500528 DOI: 10.1016/j.bios.2014.11.035] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Revised: 11/06/2014] [Accepted: 11/19/2014] [Indexed: 12/16/2022]
Abstract
A novel highly sensitive colorimetric assay for DNA detection using cascade amplification strategy based on hybridization chain reaction and enzyme-induced metallization was established. The DNA modified superparamagnetic beads were demonstrated to capture and enrich the target DNA in the hybridization buffer or human plasma. The hybridization chain reaction and enzyme-induced silver metallization on the gold nanoparticles were used as cascade signal amplification for the detection of target DNA. The metalization of silver on the gold nanoparticles induced a significant color change from red to yellow until black depending on the concentration of the target DNA, which could be recognized by naked eyes. This method showed a good specificity for the target DNA detection, with the capabilty to discriminate single-base-pair mismatched DNA mutation (single nucleotide polymorphism). Meanwhile, this approach exhibited an excellent anti-interference capability with the convenience of the magentic seperation and washing, which enabled its usage in complex biological systems such as human blood plasma. As an added benefit, the utilization of hybridization chain reaction and enzyme-induced metallization improved detection sensitivity down to 10pM, which is about 100-fold lower than that of traditional unamplified homogeneous assays.
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Luo M, Li N, Liu Y, Chen C, Xiang X, Ji X, He Z. Highly sensitive and multiple DNA biosensor based on isothermal strand-displacement polymerase reaction and functionalized magnetic microparticles. Biosens Bioelectron 2014; 55:318-23. [DOI: 10.1016/j.bios.2013.11.066] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2013] [Revised: 11/23/2013] [Accepted: 11/25/2013] [Indexed: 10/25/2022]
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Iranifam M. Analytical applications of chemiluminescence-detection systems assisted by magnetic microparticles and nanoparticles. Trends Analyt Chem 2013. [DOI: 10.1016/j.trac.2013.05.014] [Citation(s) in RCA: 85] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Hommatsu M, Okahashi H, Ohta K, Tamai Y, Tsukagoshi K, Hashimoto M. Development of a PCR/LDR/flow-through hybridization assay using a capillary tube, probe DNA-immobilized magnetic beads and chemiluminescence detection. ANAL SCI 2013; 29:689-95. [PMID: 23842410 DOI: 10.2116/analsci.29.689] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A polymerase chain reaction (PCR)/ligase detection reaction (LDR)/flow-through hybridization assay using chemiluminescence (CL) detection was developed for analyzing point mutations in gene fragments with high diagnostic value for colorectal cancers. A flow-through hybridization format using a capillary tube, in which probe DNA-immobilized magnetic beads were packed, provided accelerated hybridization kinetics of target DNA (i.e. LDR product) to the probe DNA. Simple fluid manipulations enabled both allele-specific hybridization and the removal of non-specifically bound DNA in the wash step. Furthermore, the use of CL detection greatly simplified the detection scheme, since CL does not require a light source for excitation of the fluorescent dye tags on the LDR products. Preliminary results demonstrated that this analytical system could detect both homozygous and heterozygous mutations, without the expensive instrumentation and cumbersome procedures required by conventional DNA microarray-based methods.
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Affiliation(s)
- Manami Hommatsu
- Department of Chemical Engineering and Materials Science, Faculty of Science and Engineering, Doshisha University, Kyotanabe, Kyoto, Japan
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Thiramanas R, Jangpatarapongsa K, Tangboriboonrat P, Polpanich D. Detection of Vibrio cholerae using the intrinsic catalytic activity of a magnetic polymeric nanoparticle. Anal Chem 2013; 85:5996-6002. [PMID: 23697890 DOI: 10.1021/ac400820d] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
A novel and sensitive magnetic polymeric nanoparticle (MPNP)-polymerase chain reaction-colorimetry (magneto-PCR-colorimetry) technique was developed for detection of Vibrio cholerae ( V. cholerae ). The technique involved an amplification of V. cholerae DNA on the surface of an MPNP and then employed the intrinsic catalytic activity of the MPNP to detect the target gene by colorimetry. An amino-modified forward primer was covalently labeled onto the MPNP surface which would bind to PCR product during PCR cycling. By employing the catalytic activity of the MPNP, the analysis of PCR product bound MPNP yielded a sensitivity of 10(3) CFU/mL of V. cholerae in buffer system within 4 h. The specificity and efficiency of the technique were investigated by using various bacterial DNAs in drinking and tap water.
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Affiliation(s)
- Raweewan Thiramanas
- National Nanotechnology Center, National Science and Technology Development Agency, Thailand Science Park, Pathum Thani 12120, Thailand
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Chen X, He C, Zhang Z, Wang J. Sensitive chemiluminescence detection of wild-type p53 protein captured by surface-confined consensus DNA duplexes. Biosens Bioelectron 2013; 47:335-9. [PMID: 23603130 DOI: 10.1016/j.bios.2013.03.059] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2012] [Revised: 03/08/2013] [Accepted: 03/20/2013] [Indexed: 01/10/2023]
Abstract
A novel chemiluminescence (CL) biosensor for sensitive detection of wild-type p53 protein has been proposed. The wild-type p53 protein in solution was captured by highly specific consensus double-stranded (ds) oligonucleotides (ODNs) preimmobilized onto a gold plate. The cysteine residues on the exterior of the wild-type p53 molecules were then derivatized with N-biotinoyl-N'-(6-maleimidohexanoyl) hydrazide (biotin-Mi) for the attachment of streptavidin-horseradish peroxidase (SA-HRP) complex. The attached HRP molecules could catalyze the CL reaction between luminol and H2O2, producing an enhanced CL signal. The CL intensity was dependent on the surface coverage of the HRP molecules, which was related to the concentration of wild-type p53 protein. Under the optimal experimental conditions, the CL intensity increased linearly with the concentration of wild-type p53 protein from 0.01 to 0.5nM. The detection limit was estimated to be 3.8pM. The proposed method has been successfully utilized for the assay of wild-type p53 protein in normal and cancer cell lysates. The sensing protocol is sensitive, cost-effective, and holds great promise for clinical diagnosis.
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Affiliation(s)
- Xiaolan Chen
- College of Chemistry and Chemical Engineering, Central South University, Changsha 410083, Hunan, People's Republic of China
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Yu X, Xia HS, Sun ZD, Lin Y, Wang K, Yu J, Tang H, Pang DW, Zhang ZL. On-chip dual detection of cancer biomarkers directly in serum based on self-assembled magnetic bead patterns and quantum dots. Biosens Bioelectron 2013; 41:129-36. [DOI: 10.1016/j.bios.2012.08.007] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2012] [Revised: 07/25/2012] [Accepted: 08/01/2012] [Indexed: 12/25/2022]
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Schwarz M, Pahlow S, Bocklitz T, Steinbrücker C, Cialla D, Weber K, Popp J. Convenient detection of E. coli in Ringer's solution. Analyst 2013; 138:5866-70. [DOI: 10.1039/c3an01240a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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23
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Pabbaraju K, Wong S, Drews SJ. Rethinking approaches to improve the utilization of nucleic acid amplification tests for detection and characterization of influenza A in diagnostic and reference laboratories. Future Microbiol 2011; 6:1443-60. [PMID: 22122441 DOI: 10.2217/fmb.11.126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Influenza A virus (IFVA) is a significant cause of respiratory infections worldwide and was also responsible for a recent pandemic in 2009. Laboratory identification of IFVA can guide antiviral therapy, assist in cohorting of patients and prevent antibiotic use. Characterization of the virus can track the emergence of novel strains, identify resistance and determine how circulating strains match with vaccine components. The gold standard for detection and characterization of IFVA is nucleic acid amplification technology (e.g., reverse transcriptase PCR [RT-PCR]), which must contend with a constantly evolving viral genome. Although molecular technology has been available for over two decades, there is still an operational gap between assay design and utilization of these tests for the diagnosis and characterization of IFVA. This review will discuss issues surrounding the implementation and use of RT-PCR for the identification and characterization of IFVA, and speculate on why RT-PCR has not been used more widely in clinical laboratories or moved closer to the patient. Newer, less widely used technologies that may change our laboratory practices will be identified and the authors will close with an attempt to identify some future applications of RT-PCR-based technologies for the detection and characterization of IFVA.
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Affiliation(s)
- Kanti Pabbaraju
- Provincial Laboratory for Public Health, Microbiology, 3030 Hospital Drive NW, Calgary, Alberta T2N 4W4, Canada
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Weng X, Jiang H, Chon CH, Chen S, Cao H, Li D. An RNA–DNA hybridization assay chip with electrokinetically controlled oil droplet valves for sequential microfluidic operations. J Biotechnol 2011; 155:330-7. [DOI: 10.1016/j.jbiotec.2011.07.025] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2011] [Revised: 06/29/2011] [Accepted: 07/18/2011] [Indexed: 01/10/2023]
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Zhou G, Wang P, Yuan J, Qiu T, He Z. Immunomagnetic assay combined with CdSe/ZnS amplification of chemiluminescence for the detection of abscisic acid. Sci China Chem 2011. [DOI: 10.1007/s11426-011-4326-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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26
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Xiang DS, Zeng GP, He ZK. Magnetic microparticle-based multiplexed DNA detection with biobarcoded quantum dot probes. Biosens Bioelectron 2011; 26:4405-10. [DOI: 10.1016/j.bios.2011.04.051] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2011] [Revised: 04/26/2011] [Accepted: 04/27/2011] [Indexed: 10/18/2022]
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Kinetic-spectrometric three-dimensional chemiluminescence as an effective analytical tool. Application to the determination of benzo(a)pyrene. Anal Chim Acta 2011; 691:76-82. [PMID: 21458634 DOI: 10.1016/j.aca.2011.02.049] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2010] [Revised: 02/17/2011] [Accepted: 02/17/2011] [Indexed: 11/22/2022]
Abstract
Kinetic and spectroscopic methods were used in combination in this work to develop a new analytical tool for use in chemiluminescence detection processes. Specifically, time-resolved chemiluminescence was used jointly with a stopped-flow assembly in order to monitor the chemiluminescence produced in the oxidation of bis(2,4-dinitrophenyl)oxalate (DNPO) by hydrogen peroxide in the presence of a polycyclic aromatic hydrocarbon. Recording of successive two-dimensional spectra during the emission process and treating the acquired spectral data with dedicated software allows the obtainment of three-dimensional chemiluminescence spectra, a result of the joint use of two analytical techniques. Thus, using a flow cell specifically designed for direct coupling to the charge-coupled device (CCD) detector increases the emission intensity without the need for fibre optics. Also, using dedicated software to process the acquired two-dimensional spectra affords a comprehensive kinetic and spectroscopic characterization of the chemiluminescence signal via the three-dimensional spectrum previously obtained. The analytical potential of this new tool was assessed by application to the chemiluminescent reaction between a peroxyoxalate and an oxidant (hydrogen peroxide); the reaction is induced by benzo(a)pyrene, which was used to determine this polycyclic aromatic hydrocarbon in an organic solvent. A linear calibration graph was obtained between 0.5 and 20 mg L(-1). The limit of detection found to be 3.97 μg L(-1) and a relative standard error of 0.64% and a relative standard deviation of 1.87% were obtained. The results reached testify to the usefulness of the proposed analytical tool for simple determinations and its potential for the resolution of complex mixtures or determinations in complex matrices.
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Charlermroj R, Gajanandana O, Barnett C, Kirtikara K, Karoonuthaisiri N. A Chemiluminescent Antibody Array System for Detection of Foodborne Pathogens in Milk. ANAL LETT 2011. [DOI: 10.1080/00032719.2010.511736] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Jangpatarapongsa K, Polpanich D, Yamkamon V, Dittharot Y, Peng-On J, Thiramanas R, Hongeng S, Jootar S, Charoenmak L, Tangboriboonrat P. DNAdetection of chronic myelogenous leukemia by magnetic nanoparticles. Analyst 2011; 136:354-8. [DOI: 10.1039/c0an00374c] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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30
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Du XL, Duan DM, Cao R, Jin G, Li J. Enhancing DNA Detection Sensitivity Through a Two-Step Enrichment Method with Magnetic Beads and Droplet Evaporation. ANAL LETT 2010. [DOI: 10.1080/00032710903502140] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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31
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Cai S, Xin L, Lau C, Lu J. Highly sensitive non-stripping gold nanoparticles-based chemiluminescent detection of DNA hybridization coupled to magnetic beads. Analyst 2010; 135:615-20. [DOI: 10.1039/b927359j] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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