Aggregation effects of gold nanoparticles for single-base mismatch detection in influenza A (H1N1) DNA sequences using fluorescence and Raman measurements

Ganbold, Erdene‐Ochir; Kang, Taegyeong; Lee, Kangtaek; Lee, So Yeong; Joo, Sang Woo

doi:10.1016/j.colsurfb.2011.12.026

Cited by 21 publications

(12 citation statements)

References 31 publications

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“…The detection of RNA sequences was performed under the optimal conditions (determined for DNA sequences). Application of the same experimental conditions for DNA and RNA sequences is in accordance with numerous published papers [59,60,61,62,63,64,65,66,67,68,69,70]. The RNA ODN are much more sensitive to external conditions and optimization of detection is usually provided with DNA ODN (DNA analogues), also in the case of RNA pathogens [59,60,61,62,63,64,65,66,67,68,69,70].…”

Section: Resultssupporting

confidence: 74%

Development of a Magnetic Electrochemical Bar Code Array for Point Mutation Detection in the H5N1 Neuraminidase Gene

Krejčová

Hynek

Kopel

et al. 2013

Viruses

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Since its first official detection in the Guangdong province of China in 1996, the highly pathogenic avian influenza virus of H5N1 subtype (HPAI H5N1) has reportedly been the cause of outbreaks in birds in more than 60 countries, 24 of which were European. The main issue is still to develop effective antiviral drugs. In this case, single point mutation in the neuraminidase gene, which causes resistance to antiviral drug and is, therefore, subjected to many studies including ours, was observed. In this study, we developed magnetic electrochemical bar code array for detection of single point mutations (mismatches in up to four nucleotides) in H5N1 neuraminidase gene. Paramagnetic particles Dynabeads® with covalently bound oligo (dT)25 were used as a tool for isolation of complementary H5N1 chains (H5N1 Zhejin, China and Aichi). For detection of H5N1 chains, oligonucleotide chains of lengths of 12 (+5 adenine) or 28 (+5 adenine) bp labeled with quantum dots (CdS, ZnS and/or PbS) were used. Individual probes hybridized to target molecules specifically with efficiency higher than 60%. The obtained signals identified mutations present in the sequence. Suggested experimental procedure allows obtaining further information from the redox signals of nucleic acids. Moreover, the used biosensor exhibits sequence specificity and low limits of detection of subnanogram quantities of target nucleic acids.

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Section: Resultssupporting

confidence: 74%

Development of a Magnetic Electrochemical Bar Code Array for Point Mutation Detection in the H5N1 Neuraminidase Gene

Krejčová

Hynek

Kopel

et al. 2013

Viruses

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“…However, our internally controlled, double redox sensor shows mismatch discrimination comparable to those of fluorescence methods (discrimination factor of 2.18), 30 and somewhat better than those of similar experiments that have been reported in the context of electrochemistry (1.67), 31 colorimetry (1.33), 32 surface plasmon resonance (1.67), 33 quartz crystal microbalance (1.22), 33 or surface-enhanced Raman scattering (1.33) sensing. 34 Based on prior studies, it is anticipated that additional mutation discrimination could likely be obtained by manipulating salt concentrations and other buffer components. 35 Optimization efforts along these latter lines are in progress.…”

Section: Results and Discussionmentioning

confidence: 99%

Reagentless, Ratiometric Electrochemical DNA Sensors with Improved Robustness and Reproducibility

et al. 2014

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To make the electrochemical DNA sensors (E-sensor) more robust and reproducible, we have now for the first time adapted the techniques of ratiometric analyses to the field of E-sensors. We did this via the simple expedient way of simultaneously using two redox probes: Methylene blue as the reporter of the conformational change, and ferrocene as an internal control. During the conformational transduction, only the distance between the signal probe and the electrode surface undergoes an appreciable change, while the distance between the control probe and the electrode remains relatively constant. This special design has allowed very reliable target recognition, as illustrated in this report using a human T-lymphotropic virus type I gene fragment. The standard deviation between measurements obtained using different electrodes was an order of magnitude less than that obtained using a classic E-sensor, which we prepared as a control. A limit of detection of 25.1 pM was obtained with our new system, with a single mismatch discrimination factor of 2.33 likewise being observed. Additionally, this concept had general applicability, and preliminary data of a “Signal-On” ratiometric E-sensor are also provided. Taken in concert, these results serve to validate the utility of what we believe will emerge as an easily generalized approach to oligonucleotide recognition and sensing.

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“…After the hybridization step, a magnetic field is generated to isolate hybridized NPs from non-hybridized ones, and the thiol bonds are broken releasing the fluorophore-labeled oligonucleotides (LOD of 21.5 fM). Ganbold et al describe a similar method, but the synthetic probe is functionalized with a fluorophore whose fluorescence is quenched if the ssDNA is adsorbed to the particle but not if there is complementarity to the target [62]. Standard fluorescence signal is measured but there is also the possibility of using sub-aggregation conditions for Raman spectroscopic analysis.…”

Section: Gold Nanoparticles Modulation Of Fluorescencementioning

confidence: 96%

Gold Nanoparticles for DNA/RNA-Based Diagnostics

Franco¹,

Pedrosa²,

Carlos³

et al. 2015

Handbook of Nanoparticles

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The remarkable physicochemical properties of gold nanoparticles (AuNPs) have prompted development in exploring biomolecular interactions with AuNPs-containing systems, pursuing biomedical applications in diagnostics. Among these applications, AuNPs have been remarkably useful for the development of DNA/RNA detection and characterization systems for diagnostics, including systems suitable for point of need. Here, emphasis will be on available molecular detection schemes of relevant pathogens and their molecular characterization, genomic sequences associated with medical conditions (including cancer), mutation and polymorphism identification, and the quantification of gene expression.

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Aggregation effects of gold nanoparticles for single-base mismatch detection in influenza A (H1N1) DNA sequences using fluorescence and Raman measurements

Cited by 21 publications

References 31 publications

Development of a Magnetic Electrochemical Bar Code Array for Point Mutation Detection in the H5N1 Neuraminidase Gene

Development of a Magnetic Electrochemical Bar Code Array for Point Mutation Detection in the H5N1 Neuraminidase Gene

Reagentless, Ratiometric Electrochemical DNA Sensors with Improved Robustness and Reproducibility

Gold Nanoparticles for DNA/RNA-Based Diagnostics

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