151
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Weigum SE, Castellanos-Gonzalez A, White AC, Richards-Kortum R. Amplification-free detection of Cryptosporidium parvum nucleic acids with the use of DNA/RNA-directed gold nanoparticle assemblies. J Parasitol 2013; 99:923-6. [PMID: 23617738 DOI: 10.1645/12-132.1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
This study describes the development and evaluation of an amplification-free molecular assay for detection of Cryptosporidium parvum oocysts. The assay employed a pair of oligonucleotide-functionalized gold nanoparticle (AuNP) probes that were complementary to adjacent sequences on C. parvum 18s rRNA. Hybridization of the probes to the target RNA resulted in the assembly of AuNPs into target-linked networks, which were detected both visibly and spectroscopically, by a redshift in the wavelength of light scattered by the gold nanoparticles. The limit of detection was between 4 × 10(5) and 4 × 10(6) copies of RNA per microliter reaction mix, when a short synthetic target or full-length in vitro transcribed target was employed. With total nucleic acids purified from C. parvum oocysts spiked into 100-mg stool, as few as 670 oocysts/μl reaction mix were detected. The ability to detect the nucleic acids of C. parvum oocysts in stool, without the need for complex amplification, offers unique advantages for such AuNP aggregation assays to be extended toward use in resource-limited settings where protozoan detection is needed most.
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Affiliation(s)
- S E Weigum
- Department of Biology, Texas State University, San Marcos, Texas 78666
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152
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Obliosca JM, Liu C, Batson RA, Babin MC, Werner JH, Yeh HC. DNA/RNA Detection Using DNA-Templated Few-Atom Silver Nanoclusters. BIOSENSORS-BASEL 2013; 3:185-200. [PMID: 25586126 PMCID: PMC4263537 DOI: 10.3390/bios3020185] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/11/2013] [Revised: 04/10/2013] [Accepted: 04/11/2013] [Indexed: 12/17/2022]
Abstract
DNA-templated few-atom silver nanoclusters (DNA/Ag NCs) are a new class of organic/inorganic composite nanomaterials whose fluorescence emission can be tuned throughout the visible and near-IR range by simply programming the template sequences. Compared to organic dyes, DNA/Ag NCs can be brighter and more photostable. Compared to quantum dots, DNA/Ag NCs are smaller, less prone to blinking on long timescales, and do not have a toxic core. The preparation of DNA/Ag NCs is simple and there is no need to remove excess precursors as these precursors are non-fluorescent. Our recent discovery of the fluorogenic and color switching properties of DNA/Ag NCs have led to the invention of new molecular probes, termed NanoCluster Beacons (NCBs), for DNA detection, with the capability to differentiate single-nucleotide polymorphisms by emission colors. NCBs are inexpensive, easy to prepare, and compatible with commercial DNA synthesizers. Many other groups have also explored and taken advantage of the environment sensitivities of DNA/Ag NCs in creating new tools for DNA/RNA detection and single-nucleotide polymorphism identification. In this review, we summarize the recent trends in the use of DNA/Ag NCs for developing DNA/RNA sensors.
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Affiliation(s)
- Judy M Obliosca
- Department of Biomedical Engineering, Cockrell School of Engineering, University of Texas at Austin, Austin, TX 78712, USA.
| | - Cong Liu
- Department of Biomedical Engineering, Cockrell School of Engineering, University of Texas at Austin, Austin, TX 78712, USA.
| | - Robert Austin Batson
- Department of Biomedical Engineering, Cockrell School of Engineering, University of Texas at Austin, Austin, TX 78712, USA.
| | - Mark C Babin
- College of Natural Sciences, University of Texas at Austin, Austin, TX 78712, USA.
| | - James H Werner
- Center for Integrated Nanotechnologies, Los Alamos National Laboratory, Los Alamos, NM 78745, USA.
| | - Hsin-Chih Yeh
- Department of Biomedical Engineering, Cockrell School of Engineering, University of Texas at Austin, Austin, TX 78712, USA.
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153
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Mancuso M, Jiang L, Cesarman E, Erickson D. Multiplexed colorimetric detection of Kaposi's sarcoma associated herpesvirus and Bartonella DNA using gold and silver nanoparticles. NANOSCALE 2013; 5:1678-86. [PMID: 23340972 PMCID: PMC3581344 DOI: 10.1039/c3nr33492a] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Kaposi's sarcoma (KS) is an infectious cancer occurring most commonly in human immunodeficiency virus (HIV) positive patients and in endemic regions, such as Sub-Saharan Africa, where KS is among the top four most prevalent cancers. The cause of KS is the Kaposi's sarcoma-associated herpesvirus (KSHV, also called HHV-8), an oncogenic herpesvirus that while routinely diagnosed in developed nations, provides challenges to developing world medical providers and point-of-care detection. A major challenge in the diagnosis of KS is the existence of a number of other diseases with similar clinical presentation and histopathological features, requiring the detection of KSHV in a biopsy sample. In this work we develop an answer to this challenge by creating a multiplexed one-pot detection system for KSHV DNA and DNA from a frequently confounding disease, bacillary angiomatosis. Gold and silver nanoparticle aggregation reactions are tuned for each target and a multi-color change system is developed capable of detecting both targets down to levels between 1 nM and 2 nM. The system developed here could later be integrated with microfluidic sample processing to create a final device capable of solving the two major challenges in point-of-care KS detection.
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Affiliation(s)
- Matthew Mancuso
- Department of Biomedical Engineering, Cornell University, Ithaca, NY
| | - Li Jiang
- Sibley School of Mechanical and Aerospace Engineering, Cornell University, Ithaca, NY
| | - Ethel Cesarman
- Department of Pathology and Laboratory Medicine, Weill Cornell Medical College, New York, NY
| | - David Erickson
- Sibley School of Mechanical and Aerospace Engineering, Cornell University, Ithaca, NY
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154
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Song L, Shan D, Zhao M, Pink BA, Minnehan KA, York L, Gardel M, Sullivan S, Phillips AF, Hayman RB, Walt DR, Duffy DC. Direct detection of bacterial genomic DNA at sub-femtomolar concentrations using single molecule arrays. Anal Chem 2013; 85:1932-9. [PMID: 23331316 DOI: 10.1021/ac303426b] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
We report a method for the sensitive measurement of genomic DNA based on the direct detection of single molecules of DNA in arrays of femtoliter wells. The method begins by generating short fragments of DNA from large, double-stranded molecules of genomic DNA using either restriction enzymes or sonication. Single-stranded fragments are then generated by melting the duplex, and these fragments are hybridized to complementary biotinylated detection probes and capture probes on paramagnetic beads. The resulting DNA complexes are then labeled with an enzyme (streptavidin-β-galactosidase), and single enzymes associated with these complexes on beads are detected in single molecule arrays (Simoa). DNA concentration is quantified by determining the average number of enzymes per bead via Poisson statistics (digital) or the average bead intensity (analog). The Simoa DNA assay was used to detect genomic DNA purified from S. aureus with an average limit of detection (LOD) of 0.07 fM, or 2100 DNA molecules per 50 μL sample. We used this assay to detect S. aureus spiked into (a) whole blood, with an average LOD of 1100 bacteria per 25 μL sample (0.074 fM), and (b) water from the Charles River, with an LOD of 1300 bacteria per 50 μL sample (0.042 fM). Bacteria were detected in river water without prior purification of DNA. The Simoa DNA assay, which directly detects target DNA molecules without molecular replication, is an attractive alternative to existing sensitive DNA detection technologies that rely on amplification using polymerases, such as the polymerase chain reaction (PCR).
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Affiliation(s)
- Linan Song
- Quanterix Corporation, 113 Hartwell Avenue, Lexington, Massachusetts 02421, United States
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155
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Zhu X, Zheng H, Wei X, Lin Z, Guo L, Qiu B, Chen G. Metal-organic framework (MOF): a novel sensing platform for biomolecules. Chem Commun (Camb) 2013; 49:1276-8. [PMID: 23295434 DOI: 10.1039/c2cc36661d] [Citation(s) in RCA: 261] [Impact Index Per Article: 21.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
The metal-organic framework (MOF) was first utilized as the sensing platform for assaying biomolecules. It has also been demonstrated that this novel strategy is effective and reliable for detection of HIV DNA and thrombin with high sensitivity and selectivity.
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Affiliation(s)
- Xi Zhu
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian, 350002, China
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156
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Jung YL, Jung C, Park JH, Kim MI, Park HG. Direct detection of unamplified genomic DNA based on photo-induced silver ion reduction by DNA molecules. Chem Commun (Camb) 2013; 49:2350-2. [DOI: 10.1039/c3cc38552c] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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157
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Kalidasan K, Neo JL, Uttamchandani M. Direct visual detection of Salmonella genomic DNA using gold nanoparticles. MOLECULAR BIOSYSTEMS 2013; 9:618-21. [DOI: 10.1039/c3mb25527a] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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158
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Valentini P, Pompa PP. Gold nanoparticles for naked-eye DNA detection: smart designs for sensitive assays. RSC Adv 2013. [DOI: 10.1039/c3ra43729a] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
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159
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Fong KE, Yung LYL. Head-to-tail: hybridization and single-mismatch discrimination in metallic nanoparticle–DNA assembly. RSC Adv 2013. [DOI: 10.1039/c3ra23162c] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
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160
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Xiang Y, Wu P, Tan LH, Lu Y. DNAzyme-functionalized gold nanoparticles for biosensing. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2013; 140:93-120. [PMID: 24026635 DOI: 10.1007/10_2013_242] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Recent progress in using DNAzyme-functionalized gold nanoparticles (AuNPs) for biosensing is summarized in this chapter. A variety of methods, including those for attaching DNA on AuNPs, detecting metal ions and small molecules by DNAzyme-functionalized AuNPs, and intracellular applications of DNAzyme-functionalized AuNPs are discussed. DNAzyme-functionalized AuNPs will increasingly play more important roles in biosensing and many other multidisciplinary applications. This chapter covers the recent advancement in biosensing applications of DNAzyme-functionalized gold nanoparticles, including the detection of metal ions, small molecules, and intracellular imaging.
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Affiliation(s)
- Yu Xiang
- Department of Chemistry and Beckman Institute, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
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161
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James AE, Driskell JD. Monitoring gold nanoparticle conjugation and analysis of biomolecular binding with nanoparticle tracking analysis (NTA) and dynamic light scattering (DLS). Analyst 2013; 138:1212-8. [DOI: 10.1039/c2an36467k] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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162
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Abstract
Surface plasmon resonance imaging (SPRI) is a powerful tool for simple, fast and cheap nucleic acid detection. Great efforts have been made during the last decade with the aim of developing even more sensitive and specific SPRI-based methods to be used for the direct detection of DNA and RNA. Here, after a description of the fundamentals of SPRI, the state of the art of recent platform and assay developments is presented, with special attention given to advances in SPRI signal enhancement procedures.
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Affiliation(s)
- Roberta D'Agata
- Dipartimento di Scienze Chimiche, Università di Catania, Catania, Italy
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163
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Lim HW, Lee SH, Yang KA, Yoo SI, Park TH, Zhang BT. Biomolecular computation with molecular beacons for quantitative analysis of target nucleic acids. Biosystems 2012; 111:11-7. [PMID: 23123676 DOI: 10.1016/j.biosystems.2012.09.004] [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] [Received: 06/24/2011] [Revised: 06/23/2012] [Accepted: 09/11/2012] [Indexed: 01/08/2023]
Abstract
Molecular beacons are efficient and useful tools for quantitative detection of specific target nucleic acids. Thanks to their simple protocol, molecular beacons have great potential as substrates for biomolecular computing. Here we present a molecular beacon-based biomolecular computing method for quantitative detection and analysis of target nucleic acids. Whereas the conventional quantitative assays using fluorescent dyes have been designed for single target detection or multiplexed detection, the proposed method enables us not only to detect multiple targets but also to compute their quantitative information by weighted-sum of the targets. The detection and computation are performed on a molecular level simultaneously, and the outputs are detected as fluorescence signals. Experimental results show the feasibility and effectiveness of our weighted detection and linear combination method using molecular beacons. Our method can serve as a primitive operation of molecular pattern analysis, and we demonstrate successful binary classifications of molecular patterns made of synthetic oligonucleotide DNA molecules.
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Affiliation(s)
- Hee-Woong Lim
- Center for Biointelligence Technology, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-742, Republic of Korea.
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164
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Saleh M, Soliman H, Sørum H, Fauske AK, El-Matbouli M. A novel gold nanoparticles-based assay for rapid detection of Melissococcus plutonius,
the causative agent of European foulbrood. Vet Rec 2012; 171:400. [DOI: 10.1136/vr.101040] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Affiliation(s)
- M. Saleh
- Clinical Division of Fish Medicine; Department for Farm Animal & Veterinary Public Health; University of Veterinary Medicine; Veterinaerplatz 1 Vienna A-1210 Austria
| | - H. Soliman
- Clinical Division of Fish Medicine; Department for Farm Animal & Veterinary Public Health; University of Veterinary Medicine; Veterinaerplatz 1 Vienna A-1210 Austria
| | - H. Sørum
- Department of Microbiology, Immunology and Parasitology; Institute of Food Safety and Infection Biology; Norwegian School of Veterinary Science; P.O. Box 8146 Dep Oslo N-0033 Norway
| | - A. K. Fauske
- Department of Microbiology, Immunology and Parasitology; Institute of Food Safety and Infection Biology; Norwegian School of Veterinary Science; P.O. Box 8146 Dep Oslo N-0033 Norway
| | - M. El-Matbouli
- Clinical Division of Fish Medicine; Department for Farm Animal & Veterinary Public Health; University of Veterinary Medicine; Veterinaerplatz 1 Vienna A-1210 Austria
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165
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Uetsuki K, Verma P, Nordlander P, Kawata S. Tunable plasmon resonances in a metallic nanotip-film system. NANOSCALE 2012; 4:5931-5935. [PMID: 22899297 DOI: 10.1039/c2nr31542d] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Tip-enhanced Raman spectroscopy (TERS) has emerged as a powerful tool for optical imaging at nanoscale spatial resolution, and for investigating the vibrational properties of molecules adsorbed on a substrate. Plasmonic enhancement of the electromagnetic fields near a metallic nanostructure plays a very important role in TERS, where resonant excitation of plasmons is crucial. When two metallic nanostructures are placed at a gap of nanometric distance, their plasmons can interact with one other and result in hybridized shifted plasmon modes. Here, we apply this idea to TERS and demonstrate a significant tunability of the plasmon resonance enabling large electric field enhancement at a desired excitation wavelength. This finding paves the way for efficient optimization of TERS in imaging and spectroscopy applications.
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Affiliation(s)
- Kazumasa Uetsuki
- Department of Applied Physics, Osaka University, Yamadaoka 2-1, Suita, Osaka 565-0871, Japan
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166
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Cordray MS, Amdahl M, Richards-Kortum RR. Gold nanoparticle aggregation for quantification of oligonucleotides: optimization and increased dynamic range. Anal Biochem 2012; 431:99-105. [PMID: 23000603 DOI: 10.1016/j.ab.2012.09.013] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2012] [Revised: 08/29/2012] [Accepted: 09/12/2012] [Indexed: 10/27/2022]
Abstract
A variety of assays have been proposed to detect small quantities of nucleic acids at the point of care. One approach relies on target-induced aggregation of gold nanoparticles functionalized with oligonucleotide sequences complementary to adjacent regions on the targeted sequence. In the presence of the target sequence, the gold nanoparticles aggregate, producing an easily detectable shift in the optical scattering properties of the solution. The major limitations of this assay are that it requires heating and that long incubation times are needed to produce a result. This study aimed to optimize the assay conditions and optical readout, with the goals of eliminating the need for heating and reducing the time to result without sacrificing sensitivity or dynamic range. By optimizing assay conditions and measuring the spectrum of scattered light at the end point of incubation, we found that the assay is capable of producing quantifiable results at room temperature in 30min with a linear dynamic range spanning 150amol to 15fmol of target. If changes in light scattering are measured dynamically during the incubation process, the linear range can be expanded 2-fold, spanning 50amol to 500fmol, while decreasing the time to result to 10min.
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Affiliation(s)
- Michael S Cordray
- Department of Bioengineering, Rice University, Houston, TX 77005, USA.
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167
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Chen YF, Jiang L, Mancuso M, Jain A, Oncescu V, Erickson D. Optofluidic opportunities in global health, food, water and energy. NANOSCALE 2012; 4:4839-57. [PMID: 22763418 DOI: 10.1039/c2nr30859b] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Optofluidics is a rapidly advancing field that utilizes the integration of optics and microfluidics to provide a number of novel functionalities in microsystems. In this review, we discuss how this approach can potentially be applied to address some of the greatest challenges facing both the developing and developed world, including healthcare, food shortages, malnutrition, water purification, and energy. While medical diagnostics has received most of the attention to date, here we show that some other areas can also potentially benefit from optofluidic technology. Whenever possible we briefly describe how microsystems are currently used to address these problems and then explain why and how optofluidics can provide better solutions. The focus of the article is on the applications of optofluidic techniques in low-resource settings, but we also emphasize that some of these techniques, such as those related to food production, food safety assessment, nutrition monitoring, and energy production, could be very useful in well-developed areas as well.
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Affiliation(s)
- Yih-Fan Chen
- Department of Biomedical Engineering, National Cheng Kung University, Tainan, 701, Taiwan.
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168
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Lim S, Koo OK, You YS, Lee YE, Kim MS, Chang PS, Kang DH, Yu JH, Choi YJ, Gunasekaran S. Enhancing nanoparticle-based visible detection by controlling the extent of aggregation. Sci Rep 2012; 2:456. [PMID: 22701160 PMCID: PMC3374159 DOI: 10.1038/srep00456] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2012] [Accepted: 05/23/2012] [Indexed: 02/06/2023] Open
Abstract
Visible indication based on the aggregation of colloidal nanoparticles (NPs) is highly advantageous for rapid on-site detection of biological entities, which even untrained persons can perform without specialized instrumentation. However, since the extent of aggregation should exceed a certain minimum threshold to produce visible change, further applications of this conventional method have been hampered by insufficient sensitivity or certain limiting characteristics of the target. Here we report a signal amplification strategy to enhance visible detection by introducing switchable linkers (SLs), which are designed to lose their function to bridge NPs in the presence of target and control the extent of aggregation. By precisely designing the system, considering the quantitative relationship between the functionalized NPs and SLs, highly sensitive and quantitative visible detection is possible. We confirmed the ultrahigh sensitivity of this method by detecting the presence of 20 fM of streptavidin and fewer than 100 CFU/mL of Escherichia coli.
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Affiliation(s)
- Seokwon Lim
- Center for Agricultural Biomaterials, Seoul National University, Seoul, 151-742, Republic of Korea
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169
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Saha K, Agasti SS, Kim C, Li X, Rotello VM. Gold nanoparticles in chemical and biological sensing. Chem Rev 2012; 112:2739-79. [PMID: 22295941 PMCID: PMC4102386 DOI: 10.1021/cr2001178] [Citation(s) in RCA: 2842] [Impact Index Per Article: 218.6] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Krishnendu Saha
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Sarit S. Agasti
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Chaekyu Kim
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Xiaoning Li
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Vincent M. Rotello
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
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170
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Impedimetric detection of single-stranded PCR products derived from methicillin resistant Staphylococcus aureus (MRSA) isolates. Biosens Bioelectron 2012; 34:178-84. [DOI: 10.1016/j.bios.2012.01.040] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2011] [Revised: 01/25/2012] [Accepted: 01/29/2012] [Indexed: 11/21/2022]
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171
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Zhang L, Guo S, Dong S, Wang E. Pd nanowires as new biosensing materials for magnified fluorescent detection of nucleic acid. Anal Chem 2012; 84:3568-73. [PMID: 22420689 DOI: 10.1021/ac2032194] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
The designed synthesis of new nanomaterials with controlled shape, composition, and structure is critical for tuning their physical and chemical properties, and further developing interesting analytical sensing devices. Herein, we presented that Pd nanowires (NWs) can be used as a new biosensing platform for high-sensitivity nucleic acid detection. The general sensing concept is based on the fact that Pd NWs can adsorb the fluorescently labeled single-stranded DNA probe and lead to substantial fluorescence quenching of dye, followed by specific hybridization with the complementary region of the target DNA sequence. This results in desorption of double-stranded DNA from Pd NWs surface and subsequent recovery of fluorescence. Furthermore, an amplification strategy based on Pd NWs for nucleic acid detection by using exonuclease III (Exo III) was demonstrated. The present dual-magnification sensing system combined Pd NWs with Exo III has a detection range of 1.0 nM to 2.0 μM with the detection limit of 0.3 nM (S/N = 3), which is about 20-fold higher than that of traditional unamplified homogeneous assays.
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Affiliation(s)
- Libing Zhang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, PR China
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172
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Leslie DC, Li J, Strachan BC, Begley MR, Finkler D, Bazydlo LAL, Barker NS, Haverstick DM, Utz M, Landers JP. New detection modality for label-free quantification of DNA in biological samples via superparamagnetic bead aggregation. J Am Chem Soc 2012; 134:5689-96. [PMID: 22423674 DOI: 10.1021/ja300839n] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Combining DNA and superparamagnetic beads in a rotating magnetic field produces multiparticle aggregates that are visually striking, enabling label-free optical detection and quantification of DNA at levels in the picogram per microliter range. DNA in biological samples can be quantified directly by simple analysis of optical images of microfluidic wells placed on a magnetic stirrer without prior DNA purification. Aggregation results from DNA/bead interactions driven either by the presence of a chaotrope (a nonspecific trigger for aggregation) or by hybridization with oligonucleotides on functionalized beads (sequence-specific). This paper demonstrates quantification of DNA with sensitivity comparable to that of the best currently available fluorometric assays. The robustness and sensitivity of the method enable a wide range of applications, illustrated here by counting eukaryotic cells. Using widely available and inexpensive benchtop hardware, the approach provides a highly accessible low-tech microscale alternative to more expensive DNA detection and cell counting techniques.
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Affiliation(s)
- Daniel C Leslie
- Department of Chemistry, University of Virginia, Charlottesville, Virginia 22904, United States
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173
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Detection of target ssDNA using a microfabricated Hall magnetometer with correlated optical readout. J Biomed Biotechnol 2012; 2012:492730. [PMID: 22496610 PMCID: PMC3303874 DOI: 10.1155/2012/492730] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2011] [Accepted: 08/20/2011] [Indexed: 01/12/2023] Open
Abstract
Sensing biological agents at the genomic level, while enhancing the response time for biodetection over commonly used, optics-based techniques such as nucleic acid microarrays or enzyme-linked immunosorbent assays (ELISAs), is an important criterion for new biosensors. Here, we describe the successful detection of a 35-base, single-strand nucleic acid target by Hall-based magnetic transduction as a mimic for pathogenic DNA target detection. The detection platform has low background, large signal amplification following target binding and can discriminate a single, 350 nm superparamagnetic bead labeled with DNA. Detection of the target sequence was demonstrated at 364 pM (<2 target DNA strands per bead) target DNA in the presence of 36 μM nontarget (noncomplementary) DNA (<10 ppm target DNA) using optical microscopy detection on a GaAs Hall mimic. The use of Hall magnetometers as magnetic transduction biosensors holds promise for multiplexing applications that can greatly improve point-of-care (POC) diagnostics and subsequent medical care.
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174
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Saha S, Chakraborty K, Krishnan Y. Tunable, colorimetric DNA-based pH sensors mediated by A-motif formation. Chem Commun (Camb) 2012; 48:2513-5. [PMID: 22278189 DOI: 10.1039/c2cc16347k] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
A colorimetric pH sensor has been developed based on GNP aggregation mediated by A-motif formation under acidic conditions. The pH response of the sensor can be tuned in the range of pH 2-5.5 by changing the length and the sequence of the A-motif forming poly dA tracts.
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Affiliation(s)
- Sonali Saha
- National Centre for Biological Sciences, TIFR, GKVK, Bellary Road, Bangalore 560065, India
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175
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Xu L, Kuang H, Xu C, Ma W, Wang L, Kotov NA. Regiospecific plasmonic assemblies for in situ Raman spectroscopy in live cells. J Am Chem Soc 2012; 134:1699-709. [PMID: 22192084 PMCID: PMC3277787 DOI: 10.1021/ja2088713] [Citation(s) in RCA: 203] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Multiple properties of plasmonic assemblies are determined by their geometrical organization. While high degree of complexity was achieved for plasmonic superstructures based on nanoparticles (NPs), little is known about the stable and structurally reproducible plasmonic assemblies made up from geometrically diverse plasmonic building blocks. Among other possibilities, they open the door for the preparation of regiospecific isomers of nanoscale assemblies significant both from a fundamental point of view and optical applications. Here, we present a synthetic method for complex assemblies from NPs and nanorods (NRs) based on selective modification of NRs with DNA oligomers. Three types of assemblies denoted as End, Side, and Satellite isomers that display distinct elements of regiospecificity were prepared with the yield exceeding 85%. Multiple experimental methods independently verify various structural features, uniformity, and stability of the prepared assemblies. The presence of interparticle gaps with finely controlled geometrical parameters and inherently small size comparable with those of cellular organelles fomented their study as intracellular probes. Against initial expectations, SERS intensity for End, Side, and Satellite isomers was found to be dependent primarily on the number of the NPs in the superstructures rationalized with the help of electrical field simulations. Incubation of the label-free NP-NR assemblies with HeLa cells indicated sufficient field enhancement to detect structural lipids of mitochondria and potentially small metabolites. This provided the first proof-of-concept data for the possibility of real-time probing of the local organelle environment in live cells. Further studies should include structural optimization of the assemblies for multitarget monitoring of metabolic activity and further increase in complexity for applications in transformative optics.
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Affiliation(s)
- Liguang Xu
- School of Food Science and Technology, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, JiangSu, 214122, PRC
| | - Hua Kuang
- School of Food Science and Technology, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, JiangSu, 214122, PRC
| | - Chuanlai Xu
- School of Food Science and Technology, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, JiangSu, 214122, PRC
| | - Wei Ma
- School of Food Science and Technology, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, JiangSu, 214122, PRC
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan, 48109
| | - Libing Wang
- School of Food Science and Technology, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, JiangSu, 214122, PRC
| | - Nicholas A. Kotov
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan, 48109
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176
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Deng H, Xu Y, Liu Y, Che Z, Guo H, Shan S, Sun Y, Liu X, Huang K, Ma X, Wu Y, Liang XJ. Gold nanoparticles with asymmetric polymerase chain reaction for colorimetric detection of DNA sequence. Anal Chem 2012; 84:1253-8. [PMID: 22243128 DOI: 10.1021/ac201713t] [Citation(s) in RCA: 74] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We developed a novel strategy for rapid colorimetric analysis of a specific DNA sequence by combining gold nanoparticles (AuNPs) with an asymmetric polymerase chain reaction (As-PCR). In the presence of the correct DNA template, the bound oligonucleotides on the surface of AuNPs selectively hybridized to form complementary sequences of single-stranded DNA (ssDNA) target generated from As-PCR. DNA hybridization resulted in self-assembly and aggregation of AuNPs, and a concomitant color change from ruby red to blue-purple occurred. This approach is simpler than previous methods, as it requires a simple mixture of the asymmetric PCR product with gold colloid conjugates. Thus, it is a convenient colorimetric method for specific nucleic acid sequence analysis with high specificity and sensitivity. Most importantly, the marked color change occurs at a picogram detection level after standing for several minutes at room temperature. Linear amplification minimizes the potential risk of PCR product cross-contamination. The efficiency to detect Bacillus anthracis in clinical samples clearly indicates the practical applicability of this approach.
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Affiliation(s)
- Hua Deng
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China, Beijing 100190, China
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177
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Huang X, Lan T, Zhang B, Ren J. Gold nanoparticle–enzyme conjugates based FRET for highly sensitive determination of hydrogen peroxide, glucose and uric acid using tyramide reaction. Analyst 2012; 137:3659-66. [DOI: 10.1039/c2an35503e] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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178
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Conde J, Doria G, de la Fuente JM, Baptista PV. RNA quantification using noble metal nanoprobes: simultaneous identification of several different mRNA targets using color multiplexing and application to cancer diagnostics. Methods Mol Biol 2012; 906:71-87. [PMID: 22791425 DOI: 10.1007/978-1-61779-953-2_6] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Nanotechnology provides new tools for gene expression analysis that allow for sensitive and specific characterization of prognostic signatures related to cancer. Cancer is a multigenic complex disease where multiple gene loci contribute to the phenotype. The ability to simultaneously monitor differential expression originating from each locus allows for a more accurate indication of degree of cancerous activity than either locus alone. Metal nanoparticles have been widely used as labels for in vitro identification and quantification of target sequences. Here we describe the synthesis of nanoparticles with different noble metal compositions in an alloy format that are then functionalized with thiol-modified ssDNA (nanoprobes). We also show how to use such nanoprobes in a non-cross-linking colorimetric method for the direct detection and quantification of specific mRNA targets, without the need for enzymatic amplification or reverse transcription steps. The different metals in the alloy provide for distinct absorption spectra due to their characteristic plasmon resonance peaks. The color multiplexing allows for simultaneous identification of several different mRNA targets involved in cancer development. Comparison of the absorption spectra of the nanoprobes mixtures taken before and after induced aggregation of metal nanoparticles allows to both identify and quantify each mRNA target. We describe the use of gold and gold:silver-alloy nanoprobes for the development of the non-cross-linking method to detect a specific BCR-ABL fusion gene (e.g., e1a2 and e14a2) mRNA target associated with chronic myeloid leukemia (CML) using 10 ng μL(-1) of unamplified total human RNA. This simple methodology takes less than 50 min to complete after total RNA extraction with comparable specificity and sensitivity to the more commonly used methods.
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Affiliation(s)
- João Conde
- CIGMH, Departamento de Ciências da Vida, Universidade Nova de Lisboa, Caparica, Portugal
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179
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Jans H, Huo Q. Gold nanoparticle-enabled biological and chemical detection and analysis. Chem Soc Rev 2012; 41:2849-66. [DOI: 10.1039/c1cs15280g] [Citation(s) in RCA: 562] [Impact Index Per Article: 43.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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180
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Dykman L, Khlebtsov N. Gold nanoparticles in biomedical applications: recent advances and perspectives. Chem Soc Rev 2011; 41:2256-82. [PMID: 22130549 DOI: 10.1039/c1cs15166e] [Citation(s) in RCA: 1182] [Impact Index Per Article: 84.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Gold nanoparticles (GNPs) with controlled geometrical, optical, and surface chemical properties are the subject of intensive studies and applications in biology and medicine. To date, the ever increasing diversity of published examples has included genomics and biosensorics, immunoassays and clinical chemistry, photothermolysis of cancer cells and tumors, targeted delivery of drugs and antigens, and optical bioimaging of cells and tissues with state-of-the-art nanophotonic detection systems. This critical review is focused on the application of GNP conjugates to biomedical diagnostics and analytics, photothermal and photodynamic therapies, and delivery of target molecules. Distinct from other published reviews, we present a summary of the immunological properties of GNPs. For each of the above topics, the basic principles, recent advances, and current challenges are discussed (508 references).
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Affiliation(s)
- Lev Dykman
- Institute of Biochemistry and Physiology of Plants and Microorganisms, RAS, 13 Pr. Entuziastov, Saratov 410049, Russian Federation
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181
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182
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Baccaro A, Steck AL, Marx A. Barcoded nucleotides. Angew Chem Int Ed Engl 2011; 51:254-7. [PMID: 22083884 DOI: 10.1002/anie.201105717] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2011] [Revised: 09/15/2011] [Indexed: 12/20/2022]
Affiliation(s)
- Anna Baccaro
- Department of Chemistry and Konstanz Research School Chemical Biology, University of Konstanz, Universitätsstrasse 10, 78457 Konstanz, Germany
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183
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Zhang C, Yang J, Xu J. Molecular logic computing model based on self-assembly of DNA nanoparticles. ACTA ACUST UNITED AC 2011. [DOI: 10.1007/s11434-011-4725-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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184
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Yang L, Zhang X, Ye M, Jiang J, Yang R, Fu T, Chen Y, Wang K, Liu C, Tan W. Aptamer-conjugated nanomaterials and their applications. Adv Drug Deliv Rev 2011; 63:1361-70. [PMID: 22016112 PMCID: PMC3245877 DOI: 10.1016/j.addr.2011.10.002] [Citation(s) in RCA: 154] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2011] [Revised: 10/11/2011] [Accepted: 10/11/2011] [Indexed: 11/26/2022]
Abstract
The combination of aptamers with novel nanomaterials, including nanomaterial-based aptamer bioconjugates has attracted considerable interest and has led to a wide variety of applications. In this review, we discuss how a variety of nanomaterials, including gold, silica and magnetic nanoparticles, as well as carbon nanotubes, hydrogels, liposomes and micelles, have been used to functionalize aptamers for a variety of applications. These aptamer functionalized materials have led to advances in amplified biosensing, cancer cell-specific recognition, high-efficiency separation, and targeted drug delivery.
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Affiliation(s)
- Liu Yang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, PR China
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185
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D'Agata R, Breveglieri G, Zanoli LM, Borgatti M, Spoto G, Gambari R. Direct detection of point mutations in nonamplified human genomic DNA. Anal Chem 2011; 83:8711-7. [PMID: 21978174 DOI: 10.1021/ac2021932] [Citation(s) in RCA: 65] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Ultrasensitive detection protocols not requiring polymerase chain reaction (PCR)-mediated target DNA amplification are expected to significantly improve our possibilities in several research and diagnostic applications for which minute cell quantities are available. For this reason we have tested a nanoparticle-enhanced surface plasmon resonance imaging (SPRI) sensing strategy to detect point mutations in nonamplified genomic DNA. We have used genomic DNAs, not subject to costly, time-consuming, and prone to contamination PCR-based amplification procedures, obtained from both healthy individuals and homozygous or heterozygous patients affected by β-thalassemia, in order to demonstrate the specificity and the sensitivity of the described sensing strategy. The assay we describe is ultrasensitive and convenient. Attomolar concentrations of target genomic DNA are detected, DNAs from healthy individuals and homozygous or heterozygous patients affected by β-thalassemia are discriminated, and only simple manipulations of the genetic samples are required before the analysis. The proposed ultrasensitive detection of DNA point mutations involved in genomic disorders possibly represents an important advantage in several biomedical applications.
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Affiliation(s)
- Roberta D'Agata
- Dipartimento di Scienze Chimiche, Università di Catania, Catania, Italy
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186
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Construction of branched DNA for SNP determination on glass-chip using photochemical ligation. BIOCHIP JOURNAL 2011. [DOI: 10.1007/s13206-011-5303-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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187
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Van de Broek B, Grandjean D, Trekker J, Ye J, Verstreken K, Maes G, Borghs G, Nikitenko S, Lagae L, Bartic C, Temst K, Van Bael MJ. Temperature determination of resonantly excited plasmonic branched gold nanoparticles by X-ray absorption spectroscopy. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2011; 7:2498-2506. [PMID: 21744495 DOI: 10.1002/smll.201100089] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2011] [Revised: 02/18/2011] [Indexed: 05/31/2023]
Abstract
The fields of bioscience and nanomedicine demand precise thermometry for nanoparticle heat characterization down to the nanoscale regime. Since current methods often use indirect and less accurate techniques to determine the nanoparticle temperature, there is a pressing need for a direct and reliable element-specific method. In-situ extended X-ray absorption fine structure (EXAFS) spectroscopy is used to determine the thermo-optical properties of plasmonic branched gold nanoparticles upon resonant laser illumination. With EXAFS, the direct determination of the nanoparticle temperature increase upon laser illumination is possible via the thermal influence on the gold lattice parameters. More specifically, using the change of the Debye-Waller term representing the lattice disorder, the temperature increase is selectively measured within the plasmonic branched nanoparticles upon resonant laser illumination. In addition, the signal intensity shows that the nanoparticle concentration in the beam more than doubles during laser illumination, thereby demonstrating that photothermal heating is a dynamic process. A comparable temperature increase is measured in the nanoparticle suspension using a thermocouple. This good correspondence between the temperature at the level of the nanoparticle and at the level of the suspension points to an efficient heat transfer between the nanoparticle and the surrounding medium, thus confirming the potential of branched gold nanoparticles for hyperthermia applications. This work demonstrates that X-ray absorption spectroscopy-based nanothermometry could be a valuable tool in the fast-growing number of applications of plasmonic nanoparticles, particularly in life sciences and medicine.
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Affiliation(s)
- Bieke Van de Broek
- IMEC, Bio-Nano Electronics, Functional Nanosystems, Kapeldreef 75, 3001 Leuven, Belgium; Department of Chemistry, Quantum Chemistry and Physical Chemistry, K.U. Leuven, Celestijnenlaan 200F, 3001 Leuven, Belgium.
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188
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Browne KA, Deheyn DD, El-Hiti GA, Smith K, Weeks I. Simultaneous Quantification of Multiple Nucleic Acid Targets Using Chemiluminescent Probes. J Am Chem Soc 2011; 133:14637-48. [DOI: 10.1021/ja202221h] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Kenneth A. Browne
- Gen-Probe Incorporated, 10210 Genetic Center Drive, San Diego, California 92121, United States
| | - Dimitri D. Deheyn
- Marine Biology Research Division, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, California 92093, United States
| | - Gamal A. El-Hiti
- School of Chemistry, Cardiff University, Main Building, Park Place, Cardiff, Wales CF10 3AT, U.K
| | - Keith Smith
- School of Chemistry, Cardiff University, Main Building, Park Place, Cardiff, Wales CF10 3AT, U.K
| | - Ian Weeks
- Molecular Light Technology Research Limited (now Gen-Probe Cardiff Ltd.), 5 Chiltern Close, Cardiff Industrial Park, Cardiff, Wales CF14 5DL, U.K
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189
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Zanoli LM, D’Agata R, Spoto G. Functionalized gold nanoparticles for ultrasensitive DNA detection. Anal Bioanal Chem 2011; 402:1759-71. [DOI: 10.1007/s00216-011-5318-3] [Citation(s) in RCA: 96] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2011] [Revised: 07/13/2011] [Accepted: 08/04/2011] [Indexed: 12/18/2022]
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190
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Jin J, Ouyang X, Li J, Jiang J, Wang H, Wang Y, Yang R. DNA template-synthesized silver nanoparticles: A new platform for high-performance fluorescent biosensing of biothiols. Sci China Chem 2011. [DOI: 10.1007/s11426-011-4320-0] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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191
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Barrett L, Dougan JA, Faulds K, Graham D. Stable dye-labelled oligonucleotide-nanoparticle conjugates for nucleic acid detection. NANOSCALE 2011; 3:3221-3227. [PMID: 21647500 DOI: 10.1039/c1nr10310e] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
Metallic nanoparticles functionalized with oligonucleotides are used for a number of nucleic acid detection strategies. However, oligonucleotide-nanoparticle conjugates suffer from a lack of stability when exposed to certain conditions associated with DNA detection assays. In this study, we report the synthesis of thiol and thioctic acid-modified oligonucleotide gold nanoparticle (OGNs) conjugates functionalized with a dye label and varying spacer groups. The thioctic acid-modified conjugates exhibit increased stability when treated with dithiothreitol (DTT) compared to the more commonly used thiol modification. When the dye labelled oligonucleotide nanoparticle conjugates are exposed to the same conditions there is a pronounced increase in the stability for both thioctic acid and thiol modified sequences. These results open up the possibility of simply using a dye label to enhance the stability of oligonucleotide-nanoparticle conjugates in DNA detection assays where the enhanced stability of the conjugate system can be advantageous in more complex biological environments.
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Affiliation(s)
- Lee Barrett
- Centre for Molecular Nanometrology, WestCHEM, Department of Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral St., Glasgow, G1 1XL
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192
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Qiu F, Gu K, Yang B, Ding Y, Jiang D, Wu Y, Huang LL. DNA assay based on monolayer-barcoded nanoparticles for mass spectrometry in combination with magnetic microprobes. Talanta 2011; 85:1698-702. [PMID: 21807242 DOI: 10.1016/j.talanta.2011.06.045] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2011] [Revised: 06/14/2011] [Accepted: 06/15/2011] [Indexed: 01/05/2023]
Abstract
Mass spectrometry (MS) based methodology offers simple, fast and sensitive diagnosis. While it has become the predominate approach in biomolecular analysis, it has not been suitable for analyzing nucleic acid due to its low ionization efficiency. We report herein on a DNA assay based on monolayer-barcoded nanoparticles that were encoded with reporter mass molecules, which act as surrogate molecules for the matrix-assisted laser desorption/ionization time-of-flight MS (MALDI-TOF MS) identification of target DNA through mass spectrometry in combination with magnetic microprobes. This assay demonstrated high MS sensitivity, with the ability to detect target DNA at femtomolar (10(-15) M) levels. This inaugural effort using combined techniques is significant because it showed an extraordinary analytical capability for differentiating the single nucleotide polymorphism (SNP), which comprises the most abundant source of genetic variation in the human genome. We also report herein the feasibility of MS detection of two target DNAs that have the same mass but different nucleotide base composition, which classic MS methodology is inherently unable to differentiate.
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Affiliation(s)
- Fei Qiu
- Institute of Molecular Medicine, Huaqiao University, Quanzhou, PR China
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193
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McMahon SJ, Hyland WB, Muir MF, Coulter JA, Jain S, Butterworth KT, Schettino G, Dickson GR, Hounsell AR, O'Sullivan JM, Prise KM, Hirst DG, Currell FJ. Biological consequences of nanoscale energy deposition near irradiated heavy atom nanoparticles. Sci Rep 2011; 1:18. [PMID: 22355537 PMCID: PMC3216506 DOI: 10.1038/srep00018] [Citation(s) in RCA: 262] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2011] [Accepted: 06/03/2011] [Indexed: 11/09/2022] Open
Abstract
Gold nanoparticles (GNPs) are being proposed as contrast agents to enhance X-ray imaging and radiotherapy, seeking to take advantage of the increased X-ray absorption of gold compared to soft tissue. However, there is a great discrepancy between physically predicted increases in X-ray energy deposition and experimentally observed increases in cell killing. In this work, we present the first calculations which take into account the structure of energy deposition in the nanoscale vicinity of GNPs and relate this to biological outcomes, and show for the first time good agreement with experimentally observed cell killing by the combination of X-rays and GNPs. These results are not only relevant to radiotherapy, but also have implications for applications of heavy atom nanoparticles in biological settings or where human exposure is possible because the localised energy deposition high-lighted by these results may cause complex DNA damage, leading to mutation and carcinogenesis.
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Affiliation(s)
- Stephen J McMahon
- Centre for Plasma Physics, School of Mathematics and Physics, Queen’s University Belfast, Belfast, BT7 1NN, Northern Ireland, UK.
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194
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Ginocchio CC. Strengths and weaknesses of FDA-approved/cleared diagnostic devices for the molecular detection of respiratory pathogens. Clin Infect Dis 2011; 52 Suppl 4:S312-25. [PMID: 21460290 PMCID: PMC7107808 DOI: 10.1093/cid/cir046] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Abstract
The rapid, sensitive, and specific identification of the microbial etiological characteristics of respiratory tract infections enhances the appropriate use of both antibiotics and antiviral agents and reduces the risk of nosocomial transmission. This article reviews the current nucleic acid amplification tests approved by the U.S. Food and Drug Administration (FDA) for the detection of respiratory pathogens. In addition, Emergency Use Authorization tests for the detection of 2009 influenza A H1N1 are discussed. The advantages and limitations of the current FDA-approved/cleared tests are reviewed.
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Affiliation(s)
- Christine C Ginocchio
- Division of Infectious Disease Diagnostics, Department of Pathology and Laboratory Medicine, North Shore-LIJ Health System Laboratories, Hofstra North Shore-LIJ School of Medicine, Lake Success, New York 11041, USA.
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195
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Kim DY, Yu T, Cho EC, Ma Y, Park OO, Xia Y. Synthesis of Gold Nano-hexapods with Controllable Arm Lengths and Their Tunable Optical Properties. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201100983] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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196
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Park KS, Kim MI, Cho DY, Park HG. Label-free colorimetric detection of nucleic acids based on target-induced shielding against the peroxidase-mimicking activity of magnetic nanoparticles. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2011; 7:1521-1525. [PMID: 21456097 DOI: 10.1002/smll.201001886] [Citation(s) in RCA: 112] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2010] [Revised: 02/09/2011] [Indexed: 05/30/2023]
Affiliation(s)
- Ki Soo Park
- Department of Chemical and Biomolecular Engineering, KAIST, Daejeon, Korea
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197
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Kim DY, Yu T, Cho EC, Ma Y, Park OO, Xia Y. Synthesis of Gold Nano-hexapods with Controllable Arm Lengths and Their Tunable Optical Properties. Angew Chem Int Ed Engl 2011; 50:6328-31. [DOI: 10.1002/anie.201100983] [Citation(s) in RCA: 80] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2011] [Indexed: 11/07/2022]
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198
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Luppa PB, Müller C, Schlichtiger A. Point-of-care testing (POCT): Current techniques and future perspectives. Trends Analyt Chem 2011; 30:887-898. [PMID: 32287536 PMCID: PMC7125710 DOI: 10.1016/j.trac.2011.01.019] [Citation(s) in RCA: 341] [Impact Index Per Article: 24.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
Point-of-care testing (POCT) is a laboratory-medicine discipline that is evolving rapidly in analytical scope and clinical application. In this review, we first describe the state of the art of medical-laboratory tests that can be performed near the patient. At present, POCT ranges from basic blood-glucose measurement to complex viscoelastic coagulation assays. POCT shortens the time to clinical decision-making about additional testing or therapy, as delays are no longer caused by transport and preparation of clinical samples, and biochemical-test results are rapidly available at the point of care. Improved medical outcome and lower costs may ensue. Recent, evolving technological advances enable the development of novel POCT instruments. We review the underlying analytical techniques. If new instruments are not yet in practical use, it is often hard to decide whether the underlying analytical principle has real advantage over former methods. However, future utilization of POCT also depends on health-care trends and new areas of application. But, even today, it can be assumed that, for certain applications, near-patient testing is a useful complement to conventional laboratory analyses.
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Affiliation(s)
- Peter B. Luppa
- Corresponding author. Tel.: +49 89 4140 4759; Fax: +49 89 4140 4875.
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199
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Liu FK. Extremely highly efficient on-line concentration and separation of gold nanoparticles using the reversed electrode polarity stacking mode and surfactant-modified capillary electrophoresis. Anal Chim Acta 2011; 694:167-73. [DOI: 10.1016/j.aca.2011.03.056] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2010] [Revised: 03/24/2011] [Accepted: 03/28/2011] [Indexed: 11/24/2022]
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200
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Kuo CT, Liu YM, Wu SH, Lin CH, Lin CM, Chen CH. Visual Semiquantification via the Formation of Phase Segregation. Anal Chem 2011; 83:3765-9. [DOI: 10.1021/ac200242j] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Chun-Ting Kuo
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
| | - Yao-Min Liu
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
| | - Sung-Hsun Wu
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
| | - Cheng-Han Lin
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
| | - Chia-Mei Lin
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
| | - Chun-hsien Chen
- Department of Chemistry, National Taiwan University, Taipei 10617, Taiwan
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