1
|
Huang R, Wang M, Chen X, Yu N, Jiang C. Gold nanoparticle based colorimetric assay of telomerase activity using the cyclic strand displacement reaction. NEW J CHEM 2021. [DOI: 10.1039/d1nj00036e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
A facile colorimetric assay is developed for the detection of telomerase activity based on the cyclic strand displacement reaction.
Collapse
Affiliation(s)
- Rui Huang
- Academy for Engineering and Technology
- Fudan University
- Shanghai 200433
- China
- Suzhou Institute of Biomedical Engineering and Technology
| | | | - Xifeng Chen
- Suzhou Institute of Biomedical Engineering and Technology
- Chinese Academy of Sciences
- Suzhou 215163
- China
- Ji Hua Laboratory
| | - Nong Yu
- People's Hospital of Suzhou New District
- Suzhou 215010
- China
| | - Chenyu Jiang
- Suzhou Institute of Biomedical Engineering and Technology
- Chinese Academy of Sciences
- Suzhou 215163
- China
- Jinan Guokeyigong Science and Technology Development Co, Ltd
| |
Collapse
|
2
|
Wei S, Chen G, Jia X, Mao X, Chen T, Mao D, Zhang W, Xiong W. Exponential amplification reaction and triplex DNA mediated aggregation of gold nanoparticles for sensitive colorimetric detection of microRNA. Anal Chim Acta 2020; 1095:179-184. [DOI: 10.1016/j.aca.2019.10.020] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Revised: 10/11/2019] [Accepted: 10/12/2019] [Indexed: 02/07/2023]
|
3
|
Iglesias MS, Grzelczak M. Using gold nanoparticles to detect single-nucleotide polymorphisms: toward liquid biopsy. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2020; 11:263-284. [PMID: 32082965 PMCID: PMC7006498 DOI: 10.3762/bjnano.11.20] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Accepted: 01/21/2020] [Indexed: 05/02/2023]
Abstract
The possibility of detecting genetic mutations rapidly in physiological media through liquid biopsy has attracted the attention within the materials science community. The physical properties of nanoparticles combined with robust transduction methods ensure an improved sensitivity and specificity of a given assay and its implementation into point-of-care devices for common use. Covering the last twenty years, this review gives an overview of the state-of-the-art of the research on the use of gold nanoparticles in the development of colorimetric biosensors for the detection of single-nucleotide polymorphism as cancer biomarker. We discuss the main mechanisms of the assays that either are assisted by DNA-based molecular machines or by enzymatic reactions, summarize their performance and provide an outlook towards future developments.
Collapse
Affiliation(s)
- María Sanromán Iglesias
- Centro de Física de Materiales CSIC-UPV/EHU and Donostia International Physics Center (DIPC), Paseo Manuel de Lardizabal 5, 20018 Donostia-Sebastián, Spain
| | - Marek Grzelczak
- Ikerbasque, Basque Foundation for Science, 48013 Bilbao, Spain
| |
Collapse
|
4
|
Petralia S, Forte G, Zimbone M, Conoci S. The cooperative interaction of triplex forming oligonucleotides on DNA-triplex formation at electrode surface: Molecular dynamics studies and experimental evidences. Colloids Surf B Biointerfaces 2019; 187:110648. [PMID: 31767411 DOI: 10.1016/j.colsurfb.2019.110648] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2019] [Revised: 10/28/2019] [Accepted: 11/13/2019] [Indexed: 12/27/2022]
Abstract
An extensive study on cooperative interaction of Triplex Forming Oligonucleotides (TFOs) with a double strand DNA, to form a triplex-DNA structure at electrode surface, is here reported. The cooperative effect on triplex structure formation was assumed by the higher binding enthalpy value, calculated for the interaction between the duplex DNA structure and the TFO1 and TFO2 probes (-67.3 KJ/mol), respect the sum of the single duplex-TFO1 and duplex-TFO2 interactions (-47.0 kJ/mol). The formation of triplex-DNA structure was proven by kinetic modelling study performed using the Luzar and Chandler model. The results indicate that after 500 ns from interaction, H-bonds between the base pairs in the double strand DNA are weaken while new H-bonds between the TFOs and duplex DNA are formed. Molecular dynamic (MD) simulations indicate that the TFOs sequence distance (138 bps) and the amount of TA*T triplet units are the keystones for the effectiveness of the cooperative effect, reaching for the selected target a minimum of energy value of -19452.6 kJ/mol. The MD data were experimentally corroborated by electrochemical measurements, detecting a HBV-clone genome at TFOs modified electrode surface. The interaction was electrochemical transduced by an intercalative Osmium based compound. The Langmuir isotherm model reports for the forming triplex DNA an association constant value of about 2.9 × 1016M-1, this high value could be attributed to the synergic contribution of the TFOs cooperative effect and to the rigid circular duplex structure. Finally, AFM and SEM investigations suggest the formation of a triplex-DNA structure at electrode surface, consisting in circles of about 1.5 um in diameter with asymmetric stranded thickness. This finding data paving the way to future development of advanced miniaturized DNA computing and biosensors.
Collapse
Affiliation(s)
| | - Giuseppe Forte
- Department of Drug Science, University of Catania, via S. Sofia 64, 95123, Catania, Italy
| | | | - Sabrina Conoci
- Department of Chemical Science, University of Messina, Via Stagno d'Alcontres, 98166, Messina, Italy
| |
Collapse
|
5
|
Das S, Mukhopadhyay S, Chatterjee S, Devi PS, Suresh Kumar G. Fluorescent ZnO-Au Nanocomposite as a Probe for Elucidating Specificity in DNA Interaction. ACS OMEGA 2018; 3:7494-7507. [PMID: 30087915 PMCID: PMC6068853 DOI: 10.1021/acsomega.7b02096] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2017] [Accepted: 05/08/2018] [Indexed: 05/10/2023]
Abstract
In this work, we report the interaction of a fluorescent ZnO-Au nanocomposite with deoxyribonucleic acid (DNA), leading to AT-specific DNA interaction, which is hitherto not known. For this study, three natural double-stranded (ds) DNAs having different AT:GC compositions were chosen and a ZnO-Au nanocomposite has been synthesized by anchoring a glutathione-protected gold nanocluster on the surface of egg-shell-membrane (ESM)-based ZnO nanoparticles. The ESM-based bare ZnO nanoparticles did not show any selective interaction toward DNA, whereas intrinsic fluorescence of the ZnO-Au nanocomposite shows an appreciable blue shift (Δλmax = 18 nm) in the luminescence wavelength of 520 nm in the presence of ds calf thymus (CT) DNA over other studied DNAs. In addition, the interaction of the nanocomposite through fluorescence studies with single-stranded (ss) CT DNA, synthetic polynucleotides, and nucleobases/nucleotides (adenine, thymine, deoxythymidine monophosphate, deoxyadenosine monophosphate) was also undertaken to delineate the specificity in interaction. A minor blue shift (Δλmax = 5 nm) in the emission wavelength at 520 nm was observed for single-stranded CT DNA, suggesting the proficiency of the nanocomposite for discriminating ss and ds CT DNA. More importantly, fluorescence signals from the nano-bio-interaction could be measured directly without any modification of the target, which is the foremost advantage emanated from this study compared with other previous reports. The AT base-pair-induced enhancement was also found to be highest for the melting temperature of CT DNA (ΔTmCT = 6.7 °C). Furthermore, spectropolarimetric experiments followed by calorimetric analysis provided evidence for specificity in AT-rich DNA interaction. This study would lead to establish the fluorescent ZnO-Au nanocomposite as a probe for nanomaterial-based DNA-binding study, featuring its specific interaction toward AT-rich DNA.
Collapse
Affiliation(s)
- Sumita Das
- Sensor
and Actuator Division, CSIR-Central Glass
and Ceramic Research Institute, Kolkata 700032, India
| | - Soumita Mukhopadhyay
- Sensor
and Actuator Division, CSIR-Central Glass
and Ceramic Research Institute, Kolkata 700032, India
| | - Sabyasachi Chatterjee
- Biophysical
Chemistry Laboratory, Organic and Medicinal Chemistry Division, CSIR-Indian Institute of Chemical Biology, Kolkata 700032, India
| | - Parukuttyamma Sujatha Devi
- Sensor
and Actuator Division, CSIR-Central Glass
and Ceramic Research Institute, Kolkata 700032, India
- E-mail: , . Phone: +91-33-2483
8082. Fax: 91-33-2473 0957
| | - Gopinatha Suresh Kumar
- Biophysical
Chemistry Laboratory, Organic and Medicinal Chemistry Division, CSIR-Indian Institute of Chemical Biology, Kolkata 700032, India
| |
Collapse
|
6
|
Colorimetric theophylline aggregation assay using an RNA aptamer and non-crosslinking gold nanoparticles. Mikrochim Acta 2017; 185:33. [PMID: 29594625 DOI: 10.1007/s00604-017-2606-4] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2017] [Accepted: 12/01/2017] [Indexed: 01/27/2023]
Abstract
The authors are presenting a rapid method for the determination of theophylline using unique non-crosslinking gold nanoparticle (AuNP) aggregation. An RNA aptamer against theophylline is firstly split into two RNA fragments which then interact with bare AuNPs. The two RNA probes cause an enhancement of the salt tolerance of AuNPs. However, in the presence of theophylline, the RNA probes form a complex with theophylline so that less RNA probes are available to protect the AuNPs from salt-induced aggregation. Theophylline induced aggregation of AuNPs is accompanied by a color change from red to blue. The color change can be detected visually and via UV-vis absorptiometry by ratioing the absorbances at 650 and 520 nm. The ratio increases linearly in the 0.1 to 20 μM theophylline concentration range, with a 67 nM limit of detection. The method is highly sensitive and selective. Graphical abstract Single-stranded split RNA aptamers (R1 and R2) protect gold nanoparticles (AuNPs) from salt-induced non-crosslinking aggregation. After recognition of theophylline by the RNA probe, the unprotected AuNPs aggregate and undergo a color change from red to blue, and this is used to quantify the theophylline concentration.
Collapse
|
7
|
Minero GAS, Fock J, McCaskill JS, Hansen MF. Optomagnetic detection of DNA triplex nanoswitches. Analyst 2017; 142:582-585. [DOI: 10.1039/c6an02419j] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Triplex DNA formation is studied using rapid low-cost and dose-dependent optomagnetic method with an assay time of max 10 min and limit of detection of 100 pM.
Collapse
Affiliation(s)
- Gabriel Antonio S. Minero
- Department of Micro- and Nanotechnology
- Technical University of Denmark
- DTU Nanotech
- DK-2800 Kongens Lyngby
- Denmark
| | - Jeppe Fock
- Department of Micro- and Nanotechnology
- Technical University of Denmark
- DTU Nanotech
- DK-2800 Kongens Lyngby
- Denmark
| | - John S. McCaskill
- Ruhr-Universitaet Bochum
- Microsystems Chemistry and BioIT (BioMIP)
- NC3
- 44801 Bochum
- Germany
| | - Mikkel F. Hansen
- Department of Micro- and Nanotechnology
- Technical University of Denmark
- DTU Nanotech
- DK-2800 Kongens Lyngby
- Denmark
| |
Collapse
|
8
|
Chen Z, Zhang H, Ma X, Lin Z, Zhang L, Chen G. A novel fluorescent reagent for recognition of triplex DNA with high specificity and selectivity. Analyst 2016; 140:7742-7. [PMID: 26456316 DOI: 10.1039/c5an01852h] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
A fluorescent agent (DMT) was screened for recognizing triplex DNA with a specific and selective characteristic, which was embedded into the triplex DNA structure. The triplex DNA was firstly formed by a complementary target sequence through two distinct and sequential events. The conditions including pH and hybridization time, fluorescent agent concentration and embedding time were optimized in the experiment. Under the optimum conditions, the fluorescence signal was enhanced up to 9-fold in comparison with the DMT embedding into the ssDNA, dsDNA and G-quadruplexes. Under the same fluorescence conditions, the changes of the fluorescence signal were also investigated by several kinds of base mismatched DNAs in the experiment. The results showed that our biosensor provided excellent discrimination efficiency toward the perfectly mismatched target DNA with no formation of triplex DNA. We preliminarily deduced the mechanism of the fluorescent reagent for recognizing triplex DNA with high specificity and selectivity.
Collapse
Affiliation(s)
- Zongbao Chen
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China. and Key Laboratory of Applied Organic Chemistry, College of Jiangxi Province Department of Chemistry, Shangrao Normal University, 334001, Jiangxi, China
| | - Huimi Zhang
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China.
| | - Xiaoming Ma
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China.
| | - Zhenyu Lin
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China.
| | - Lan Zhang
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China.
| | - Guonan Chen
- Ministry of Education Key Laboratory of Analysis and Detection for Food Safety, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fujian 350002, China.
| |
Collapse
|
9
|
Hu Y, Lin F, Wu T, Wang Y, Zhou XS, Shao Y. Fluorescently Sensing of DNA Triplex Assembly Using an Isoquinoline Alkaloid as Selector, Stabilizer, Inducer, and Switch-On Emitter. Chem Asian J 2016; 11:2041-8. [DOI: 10.1002/asia.201600459] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2016] [Indexed: 01/07/2023]
Affiliation(s)
- Yuehua Hu
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| | - Fan Lin
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| | - Tao Wu
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| | - Ying Wang
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| | - Xiao-Shun Zhou
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| | - Yong Shao
- Institute of Physical Chemistry; Zhejiang Normal University; Jinhua 321004 Zhejiang People's Republic of China
| |
Collapse
|
10
|
Das P, Reches M. Single-stranded DNA detection by solvent-induced assemblies of a metallo-peptide-based complex. NANOSCALE 2016; 8:9527-36. [PMID: 26730518 DOI: 10.1039/c5nr07714a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
DNA detection is highly important for the sensitive sensing of different pathogenic bacteria and viruses. The major challenge is to create a sensor that can selectively detect very small concentrations of DNA without the need for amplification or complicated equipment. Different technologies such as optical, electrochemical and microgravimetric approaches can detect DNA fragments. Here we show, for the first time, the use of self-assembled nanostructures generated by a metallo-peptide as an optical sensing platform for DNA detection. The system can selectively detect single stranded DNA fragments by fluorescence measurements as it can discriminate even one base mismatch and can perform in the presence of other interfering proteins. This system may be useful in lab-on-a-chip applications.
Collapse
Affiliation(s)
- Priyadip Das
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem, 91904, Israel. and The Centre for Nanoscience and Nanotechnology. The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Meital Reches
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem, 91904, Israel. and The Centre for Nanoscience and Nanotechnology. The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| |
Collapse
|
11
|
Zhao HQ, Qiu GH, Liang Z, Li MM, Sun B, Qin L, Yang SP, Chen WH, Chen JX. A zinc(II)-based two-dimensional MOF for sensitive and selective sensing of HIV-1 ds-DNA sequences. Anal Chim Acta 2016; 922:55-63. [DOI: 10.1016/j.aca.2016.03.054] [Citation(s) in RCA: 60] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2016] [Revised: 03/21/2016] [Accepted: 03/26/2016] [Indexed: 12/16/2022]
|
12
|
Goldsmith G, Rathinavelan T, Yathindra N. Selective Preference of Parallel DNA Triplexes Is Due to the Disruption of Hoogsteen Hydrogen Bonds Caused by the Severe Nonisostericity between the G*GC and T*AT Triplets. PLoS One 2016; 11:e0152102. [PMID: 27010368 PMCID: PMC4807104 DOI: 10.1371/journal.pone.0152102] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2016] [Accepted: 03/08/2016] [Indexed: 12/14/2022] Open
Abstract
Implications of DNA, RNA and RNA.DNA hybrid triplexes in diverse biological functions, diseases and therapeutic applications call for a thorough understanding of their structure-function relationships. Despite exhaustive studies mechanistic rationale for the discriminatory preference of parallel DNA triplexes with G*GC & T*AT triplets still remains elusive. Here, we show that the highest nonisostericity between the G*GC & T*AT triplets imposes extensive stereochemical rearrangements contributing to context dependent triplex destabilisation through selective disruption of Hoogsteen scheme of hydrogen bonds. MD simulations of nineteen DNA triplexes with an assortment of sequence milieu reveal for the first time fresh insights into the nature and extent of destabilization from a single (non-overlapping), double (overlapping) and multiple pairs of nonisosteric base triplets (NIBTs). It is found that a solitary pair of NIBTs, feasible either at a G*GC/T*AT or T*AT/G*GC triplex junction, does not impinge significantly on triplex stability. But two overlapping pairs of NIBTs resulting from either a T*AT or a G*GC interruption disrupt Hoogsteen pair to a noncanonical mismatch destabilizing the triplex by ~10 to 14 kcal/mol, implying that their frequent incidence in multiples, especially, in short sequences could even hinder triplex formation. The results provide (i) an unambiguous and generalised mechanistic rationale for the discriminatory trait of parallel triplexes, including those studied experimentally (ii) clarity for the prevalence of antiparallel triplexes and (iii) comprehensive perspectives on the sequence dependent influence of nonisosteric base triplets useful in the rational design of TFO's against potential triplex target sites.
Collapse
Affiliation(s)
- Gunaseelan Goldsmith
- Institute of Bioinformatics and Applied Biotechnology, Biotech Park, Electronics City Phase I, Bangalore, India
- Manipal University, Manipal, India
| | | | - Narayanarao Yathindra
- Institute of Bioinformatics and Applied Biotechnology, Biotech Park, Electronics City Phase I, Bangalore, India
| |
Collapse
|
13
|
Zhao HQ, Yang SP, Ding NN, Qin L, Qiu GH, Chen JX, Zhang WH, Chen WH, Hor TSA. A zwitterionic 1D/2D polymer co-crystal and its polymorphic sub-components: a highly selective sensing platform for HIV ds-DNA sequences. Dalton Trans 2016; 45:5092-100. [DOI: 10.1039/c5dt04410c] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Polymorphic compounds {[Cu(dcbb)2(H2O)2]·10H2O}n (2, 1D chain), [Cu(dcbb)2]n (3, 2D layer) and their co-crystal {[Cu(dcbb)2(H2O)][Cu(dcbb)2]2}n (4) have been prepared from the reaction of [Na(dcbb)(H2O)]n (1) with Cu(NO3)2·3H2O at different temperatures.
Collapse
Affiliation(s)
- Hai-Qing Zhao
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - Shui-Ping Yang
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - Ni-Ni Ding
- College of Chemistry
- Chemical Engineering and Materials Science
- Soochow University
- Suzhou 215123
- China
| | - Liang Qin
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - Gui-Hua Qiu
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - Jin-Xiang Chen
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - Wen-Hua Zhang
- College of Chemistry
- Chemical Engineering and Materials Science
- Soochow University
- Suzhou 215123
- China
| | - Wen-Hua Chen
- Guangdong Provincial Key Laboratory of New Drug Screening
- School of Pharmaceutical Sciences
- Southern Medical University
- Guangzhou 510515
- P. R. China
| | - T. S. Andy Hor
- Institute of Materials Research and Engineering (IMRE)
- A*STAR
- Singapore
- Department of Chemistry
- National University of Singapore
| |
Collapse
|
14
|
Chen C, Lv J, Chen W, Xiang Y, Zhang J. Colorimetric β-lactamase inhibitor assay with double catalyzed signal amplification. NEW J CHEM 2016. [DOI: 10.1039/c5nj02356d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A simple and effective AuNP-based colorimetric method with both β-lactamase and Cu(ii) catalyzed signal amplification.
Collapse
Affiliation(s)
- Chen Chen
- State Key Laboratory of Dairy Biotechnology
- Technology Center of Bright Dairy & Food Co
- Ltd
- Shanghai 200436
- P. R. China
| | - Jun Lv
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- P. R. China
| | - Wanyi Chen
- State Key Laboratory of Dairy Biotechnology
- Technology Center of Bright Dairy & Food Co
- Ltd
- Shanghai 200436
- P. R. China
| | - Yang Xiang
- School of Life Sciences
- Nanjing University
- Nanjing 210093
- P. R. China
| | - Juan Zhang
- State Key Laboratory of Dairy Biotechnology
- Technology Center of Bright Dairy & Food Co
- Ltd
- Shanghai 200436
- P. R. China
| |
Collapse
|
15
|
Yang SP, Chen SR, Liu SW, Tang XY, Qin L, Qiu GH, Chen JX, Chen WH. Platforms Formed from a Three-Dimensional Cu-Based Zwitterionic Metal-Organic Framework and Probe ss-DNA: Selective Fluorescent Biosensors for Human Immunodeficiency Virus 1 ds-DNA and Sudan Virus RNA Sequences. Anal Chem 2015; 87:12206-14. [PMID: 26619043 DOI: 10.1021/acs.analchem.5b03084] [Citation(s) in RCA: 80] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
We herein report a water-stable three-dimensional Cu-based metal-organic framework (MOF) 1 supported by a tritopic quaternized carboxylate and 4,4'-dipyridyl sulfide as an ancillary ligand. This MOF exhibits unique pore shapes with aromatic rings, positively charged pyridinium and unsaturated Cu(II) cation centers, free carboxylates, tessellating H2O, and coordinating SO4(2-) on the pore surface. Compound 1 can interact with two carboxyfluorescein (FAM)-labeled single-stranded DNA sequences (probe ss-DNA, delineated as P-DNA) through electrostatic, π-stacking, and/or hydrogen-bonding interactions to form two P-DNA@1 systems, and thus quench the fluorescence of FAM via a photoinduced electron-transfer process. These P-DNA@1 systems can be used as effective fluorescent sensors for human immunodeficiency virus 1 double-stranded DNA and Sudan virus RNA sequences, respectively, with detection limits of 196 and 73 pM, respectively.
Collapse
Affiliation(s)
- Shui-Ping Yang
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Shao-Rui Chen
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Shu-Wen Liu
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Xiao-Yan Tang
- Department of Chemistry and Materials Engineering, Jiangsu Key Laboratory of Advanced Functional Materials, Changshu Institute of Technology , Changshu 215500, Jiangsu P. R. China
| | - Liang Qin
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Gui-Hua Qiu
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Jin-Xiang Chen
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| | - Wen-Hua Chen
- Guangdong Provincial Key Laboratory of New Drug Screening, School of Pharmaceutical Sciences, Southern Medical University , Guangzhou 510515, P. R. China
| |
Collapse
|
16
|
Wang Y, Hu Y, Wu T, Zhou X, Shao Y. Triggered Excited-State Intramolecular Proton Transfer Fluorescence for Selective Triplex DNA Recognition. Anal Chem 2015; 87:11620-4. [DOI: 10.1021/acs.analchem.5b02851] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Ying Wang
- Institute of Physical Chemistry, Zhejiang Normal University, Jinhua 321004, Zhejiang, People’s Republic of China
| | - Yuehua Hu
- Institute of Physical Chemistry, Zhejiang Normal University, Jinhua 321004, Zhejiang, People’s Republic of China
| | - Tao Wu
- Institute of Physical Chemistry, Zhejiang Normal University, Jinhua 321004, Zhejiang, People’s Republic of China
| | - Xiaoshun Zhou
- Institute of Physical Chemistry, Zhejiang Normal University, Jinhua 321004, Zhejiang, People’s Republic of China
| | - Yong Shao
- Institute of Physical Chemistry, Zhejiang Normal University, Jinhua 321004, Zhejiang, People’s Republic of China
| |
Collapse
|
17
|
Song C, Wang GY, Kong DM. A facile fluorescence method for versatile biomolecular detection based on pristine α-Fe 2 O 3 nanoparticle-induced fluorescence quenching. Biosens Bioelectron 2015; 68:239-244. [DOI: 10.1016/j.bios.2015.01.006] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2014] [Revised: 12/17/2014] [Accepted: 01/02/2015] [Indexed: 01/02/2023]
|
18
|
Chen H, Zhang J, Wu H, Koh K, Yin Y. Sensitive colorimetric assays for α-glucosidase activity and inhibitor screening based on unmodified gold nanoparticles. Anal Chim Acta 2015; 875:92-8. [PMID: 25937110 DOI: 10.1016/j.aca.2015.02.022] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2014] [Revised: 02/03/2015] [Accepted: 02/10/2015] [Indexed: 12/16/2022]
Abstract
A colorimetric sensor has been developed in this work to sensitively detect α-glucosidase activity and screen α-glucosidase inhibitors (AGIs) utilizing unmodified gold nanoparticles (AuNPs). The sensing strategy is based on triple-catalytic reaction triggered by α-glucosidase. In the presence of α-glucosidase, aggregation of AuNPs is prohibited due to the oxidation of cysteine to cystine in the system. However, with addition of AGIs, cysteine induced aggregation of AuNPs occurs. Thus, a new method for α-glucosidase activity detection and AGIs screening is developed by measuring the UV-vis absorption or visually distinguishing. A well linear relation is presented in a range of 0.0025-0.05 U mL(-1). The detection limit is found to be 0.001 U mL(-1) for α-glucosidase assay, which is one order of magnitude lower than other reports. The IC50 values of four kinds of inhibitors observed with this method are in accordance with other reports. The using of unmodified AuNPs in this work avoids the complicated and time-consuming modification procedure. This simple and efficient colorimetric method can also be extended to other enzymes assays.
Collapse
Affiliation(s)
- Hongxia Chen
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University, Shanghai 200444, PR China
| | - Jiangjiang Zhang
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University, Shanghai 200444, PR China
| | - Heng Wu
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University, Shanghai 200444, PR China
| | - Kwangnak Koh
- Institute of General Education, Pusan National University, Pusan 609-735, Republic of Korea
| | - Yongmei Yin
- Department of Oncology, The First Affiliated Hospital of Nanjing Medical University, Nanjing 210029, PR China.
| |
Collapse
|
19
|
Zhang J, Lv J, Wang X, Li D, Wang Z, Li G. A simple and visible colorimetric method through Zr4+–phosphate coordination for the assay of protein tyrosine phosphatase 1B and screening of its inhibitors. Analyst 2015; 140:5716-23. [DOI: 10.1039/c5an00970g] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Inhibitors of protein tyrosine phosphatase 1B (PTP1B) are promising agents for the treatment of type 2 diabetes and obesity, so a colorimetric method has been developed in this work for PTP1B assay and screening of its inhibitors.
Collapse
Affiliation(s)
- Juan Zhang
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- PR China
| | - Jun Lv
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- PR China
| | - Xiaonan Wang
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- PR China
| | - Defeng Li
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- PR China
| | - Zhaoxia Wang
- Department of Oncology
- The Second Affiliated Hospital of Nanjing Medical University
- Nanjing 210011
- PR China
| | - Genxi Li
- Laboratory of Biosensing Technology
- School of Life Sciences
- Shanghai University
- Shanghai 200444
- PR China
| |
Collapse
|
20
|
Xiang X, Shi J, Guo M, Jin H, Huang F. Colorimetric sensing of sinapine based on competitive interaction of papain-coated gold nanoparticles and sinapine toward Pb2+. RSC Adv 2014. [DOI: 10.1039/c4ra06556e] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
|
21
|
Zhu X, Zhang H, Feng C, Ye Z, Li G. A dual-colorimetric signal strategy for DNA detection based on graphene and DNAzyme. RSC Adv 2014. [DOI: 10.1039/c3ra44033h] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
|
22
|
Fong KE, Yung LYL. Localized surface plasmon resonance: a unique property of plasmonic nanoparticles for nucleic acid detection. NANOSCALE 2013; 5:12043-71. [PMID: 24166199 DOI: 10.1039/c3nr02257a] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Localized surface plasmon resonance (LSPR) of noble metal nanoparticles (a.k.a. plasmonic nanoparticles) opens up a new horizon for advanced biomolecule sensing. However, an effective and practical sensing system still requires meticulous design to achieve good sensitivity and distinctive selectivity for routine use and high-throughput detection. In particular, the detection of DNA and RNA is crucial in biomedical research and clinical diagnostics. This review describes the fundamental aspects of LSPR and provides an overall account of how it is exploited to assist in nucleic acid sensing. The detection efficiency of each LSPR-based approach is assessed with respect to the assay design, the selection of plasmonic nanoparticles, and the choice of nucleic acid probes which influence the duplex hybridization. Judicious comparison is made among various LSPR-based approaches in terms of the assaying time, the sensitivity or lowest sensing concentration (i.e. limit of detection or LOD), and the single-base mismatch (SBM) selectivity.
Collapse
Affiliation(s)
- Kah Ee Fong
- Department of Chemical and Biomolecular Engineering, Faculty of Engineering, National University of Singapore, Singapore 119260.
| | | |
Collapse
|
23
|
Lin YZ, Chang PL. Colorimetric determination of DNA methylation based on the strength of the hydrophobic interactions between DNA and gold nanoparticles. ACS APPLIED MATERIALS & INTERFACES 2013; 5:12045-12051. [PMID: 24199674 DOI: 10.1021/am403863w] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
A simple, novel colorimetric nanosensor for DNA methylation based on the strength of hydrophobic interaction between DNA and gold nanoparticles was proposed. The nanosensing of oligonucleotides with four nitrogen bases was first demonstrated by dividing the bases into two groups (A/T and C/G) using the representative colors that correspond to Watson-Crick base pairing. By treatment of the genomic DNA with sodium bisulfite followed by PCR amplification, the methylation level of nasopharyngeal carcinoma cells treated with 5-aza-2'-deoxycytidine for up to 5 days could be discriminated by naked eye observation. Furthermore, 12 cancer cell lines that demonstrate heterogeneity with respect to DNA methylation could also be distinguished using the nanosensor, even for amplicons as long as 342 bp. These results demonstrate that the proposed colorimetric nanosensor could potentially be useful in epigenetic studies.
Collapse
Affiliation(s)
- Yi-Zhen Lin
- Department of Chemistry, Tunghai University , Taichung 40704, Taiwan
| | | |
Collapse
|
24
|
Rasale DB, Maity I, Das AK. Colorimetric Enzyme Sensing Assays via In Situ Synthesis of Gold Nanoparticles. J CLUST SCI 2013. [DOI: 10.1007/s10876-013-0606-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
|
25
|
Chen L, Zheng H, Zhu X, Lin Z, Guo L, Qiu B, Chen G, Chen ZN. Metal-organic frameworks-based biosensor for sequence-specific recognition of double-stranded DNA. Analyst 2013; 138:3490-3. [PMID: 23665537 DOI: 10.1039/c3an00426k] [Citation(s) in RCA: 90] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A simple, cost-efficient, sensitive and selective fluorescence sensor is developed for sequence-specific recognition of duplex DNA (ds-DNA) in vitro using metal-organic framework (MOF) as the sensing platform. N,N-Bis(2-hydroxy-ethyl)dithiooxamidatocopper(II) (H(2)dtoaCu) was chosen as the example MOF, because it strongly chemisorbs the dye-labeled probe TFO (triplex-forming oligonucleotide), and quenches fluorescence from the dye. In the presence of target ds-DNA (the PPT of HIV RNA, a 16-bp ds-DNA sequence), the TFO could interact with the major groove in ds-DNA (via Hoogsteen hydrogen bonding) to form a rigid triplex structure, resulting in fluorescence recovery. The enhanced fluorescence signal has a relationship with the ds-DNA concentration, the detection limit is as low as 1.3 nmol L(-1) (S/N = 3) with good selectivity, which is lower than that based on a graphene oxide platform and electrochemical-DNA sensor.
Collapse
Affiliation(s)
- Lifen Chen
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, Fujian 350002, China
| | | | | | | | | | | | | | | |
Collapse
|
26
|
Chen Z, Liu R, Wang S, Qu C, Chen L, Wang Z. Colorimetric sensing of copper(ii) based on catalytic etching of gold nanorods. RSC Adv 2013. [DOI: 10.1039/c3ra40559a] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
|
27
|
Li G, Miao P. Theoretical Background of Electrochemical Analysis. SPRINGERBRIEFS IN MOLECULAR SCIENCE 2013. [DOI: 10.1007/978-3-642-34252-3_2] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
|
28
|
ZHAO JING, BO BING, YIN YONGMEI, LI GENXI. GOLD NANOPARTICLES-BASED BIOSENSORS FOR BIOMEDICAL APPLICATION. ACTA ACUST UNITED AC 2012. [DOI: 10.1142/s1793984412300087] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Gold nanoparticles are the most extensively studied nanomaterials for biomedical application due to their unique properties, such as rapid and simple synthesis, large surface area, strong adsorption ability and facile conjugation to various biomolecules. The remarkable photophysical properties of gold nanoparticles have provided plenty of opportunities for the preparation of gold nanoparticles-based optical biosensors, while the excellent biocompatibility, conductivity, catalytic properties and large surface-to-volume ratio have facilitated the application of gold nanoparticles in the construction of electrochemical biosensors. In this review, we mainly detail the gold nanoparticles-based optical and electrochemical biosensors for biomedical application in the recent two years, which have exhibited greatly enhanced analytical performances in the detection of DNA, proteins and some important small molecules.
Collapse
Affiliation(s)
- JING ZHAO
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University, Shanghai 200444, P. R. China
| | - BING BO
- Department of Oncology, The First Affiliated, Hospital of Nanjing Medical University, Nanjing 210029, P. R. China
| | - YONG-MEI YIN
- Department of Oncology, The First Affiliated, Hospital of Nanjing Medical University, Nanjing 210029, P. R. China
| | - GEN-XI LI
- Laboratory of Biosensing Technology, School of Life Sciences, Shanghai University, Shanghai 200444, P. R. China
- Department of Biochemistry and State Key Laboratory of Pharmaceutical Biotechnology, Nanjing University, Nanjing 210093, P. R. China
| |
Collapse
|
29
|
Applications in Cancer Diagnosis and Therapy. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2012. [DOI: 10.3724/sp.j.1096.2011.01451] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
30
|
Highly sensitive and selective colorimetric genotyping of single-nucleotide polymorphisms based on enzyme-amplified ligation on magnetic beads. Biosens Bioelectron 2012; 36:89-94. [DOI: 10.1016/j.bios.2012.03.045] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2012] [Revised: 03/26/2012] [Accepted: 03/29/2012] [Indexed: 11/22/2022]
|
31
|
Shen M, Yang M, Li H, Liang Z, Li G. A novel electrochemical approach for nuclear factor kappa B detection based on triplex DNA and gold nanoparticles. Electrochim Acta 2012. [DOI: 10.1016/j.electacta.2011.11.047] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
|
32
|
Jiang H, Wang X. Time-dependent nanogel aggregation for naked-eye assays of α-amylase activity. Analyst 2012; 137:2582-7. [DOI: 10.1039/c2an00038e] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
33
|
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: 7.4] [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]
|
34
|
Zhang H, Wang L, Jiang W. Label free DNA detection based on gold nanoparticles quenching fluorescence of Rhodamine B. Talanta 2011; 85:725-9. [PMID: 21645765 DOI: 10.1016/j.talanta.2011.04.057] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2010] [Revised: 04/13/2011] [Accepted: 04/21/2011] [Indexed: 11/18/2022]
Abstract
A novel and sensitive label free DNA detection method using gold nanoparticles (GNPs) and Rhodamine B (RB) has been developed. The assay is based on the following two properties. One is the different adsorption properties of single-stranded and double-stranded DNA on GNPs in colloidal solution. The other is the different quenching ability of aggregated GNPs and dispersed GNPs on RB. Un-aggregated GNPs could effectively quench the fluorescence of RB. However, the quenching ability greatly decreases after GNPs aggregated. The hybridization of probe DNA and target DNA is monitored by the fluorescence detection after the RB is added to the solution. Under the optimal experimental conditions, the detection limit of this assay is 2.9×10(-13) mol L(-1).
Collapse
Affiliation(s)
- Hong Zhang
- School of Chemistry and Chemical Engineering, Shandong University, 250100 Jinan, PR China
| | | | | |
Collapse
|
35
|
Pérez-López B, Merkoçi A. Nanoparticles for the development of improved (bio)sensing systems. Anal Bioanal Chem 2010; 399:1577-90. [DOI: 10.1007/s00216-010-4566-y] [Citation(s) in RCA: 73] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2010] [Revised: 11/25/2010] [Accepted: 11/29/2010] [Indexed: 12/01/2022]
|
36
|
Peng HI, Miller BL. Recent advancements in optical DNA biosensors: exploiting the plasmonic effects of metal nanoparticles. Analyst 2010; 136:436-47. [PMID: 21049107 DOI: 10.1039/c0an00636j] [Citation(s) in RCA: 96] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The emerging field of plasmonics, the study of electromagnetic responses of metal nanostructures, has revealed many novel signal enhancing phenomena. As applied to the development of label-free optical DNA biosensors, it is now well established that plasmon-based surface enhanced spectroscopies on nanostructured metal surfaces or metal nanoparticles can markedly improve the sensitivity of optical biosensors, with some showing great promise for single molecule detection. In this review, we first summarize the basic concepts of plasmonics in metal nanostructures, as well as the characteristic optical phenomena to which plasmons give rise. We will then describe recent advances in optical DNA biosensing systems enabled by metal nanoparticle-derived plasmonic effects, including the use of surface enhanced Raman scattering (SERS), colorimetric methods, "scanometric" processes, and metal-enhanced fluorescence (MEF).
Collapse
Affiliation(s)
- Hsin-I Peng
- Department of Biomedical Engineering, University of Rochester, Robert B. Goergen Hall, RC Box 270168, Rochester, NY 14627, USA
| | | |
Collapse
|
37
|
Seela F, Jiang D, Budow S. Triplexes with 8-Aza-2'-deoxyisoguanosine replacing protonated dC: probing third strand stability with a fluorescent nucleobase targeting duplex DNA. Chembiochem 2010; 11:1443-50. [PMID: 20544775 DOI: 10.1002/cbic.201000162] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
The fluorescent 8-aza-2'-deoxyisoguanosine (4) as well as the parent 2'-deoxyisoguanosine (1) were used as protonated dCH(+) surrogates in the third strand of oligonucleotide triplexes. Stable triplexes were formed by Hoogsteen base pairing. In contrast to dC, triplexes containing nucleoside 1 or 4 in place of dCH(+) are already formed under neutral conditions or even at alkaline pH values. Triplex melting can be monitored separately from duplex dissociation in cases in which the third strand contains the fluorescent nucleoside 4. Third-strand binding of oligonucleotides with 4, opposite to dG, was selective as demonstrated by hybridisation experiments studying mismatch discrimination. Third-strand binding is more efficient when the stability of the DNA duplex is reduced by mismatches, giving third-strand binding more flexibility.
Collapse
Affiliation(s)
- Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 48149 Münster Germany
| | | | | |
Collapse
|