A New Organic Dye-Based Staining for The Detection of Plant DNA in Agarose Gels

Sönmezoğlu, Özlem Ateş; Özkay, Kerime

doi:10.1080/15257770.2015.1017581

Cited by 11 publications

(3 citation statements)

References 17 publications

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“…Recently, Imani et al has reported a study based on the novel mesoporous TiO 2 @DNA nanohybrid electrodes for capacitive energy storage devices and the obtained results showed a higher electron transfer rate from the DNA conjugated electrode due to the quantum‐mechanical tunneling effect indicating superior binding affinity, proper electronic coupling of donor–acceptor energy states, and ionic conductivity support of DNA molecules . In addition to these, Sönmezoğlu and Özkay reported that DNA can easily bond with the N‐719 dye without sophisticated experimental techniques and/or chemical modifications . By considering all these advantages, DNA molecules will be a promising pathway in the field of photovoltaic devices .…”

Section: Introductionmentioning

confidence: 96%

An Effective Approach for High‐Efficiency Photoelectrochemical Solar Cells by Using Bifunctional DNA Molecules Modified Photoanode

Sönmezoğlu

Akın

Terzi

et al. 2016

Adv Funct Materials

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wileyonlinelibrary.comadsorption and relatively high recombination rate via vacant sites that significantly restrict the photoconversion efficiency (PCE). Therefore, researchers are faced with the challenge of developing efficient suppression routes by designing this component with an efficient charge transport pathway. Although some approaches were reported to suppress the charge recombinations occurring at the TiO 2 /dye interface including the use of inorganic [3,4] as well as polymer-assisted materials, [5][6][7] there are still some practical limitations due to the poor light absorption, low surface area, and slow electron injection. To overcome these limitations, extensive research efforts are directed toward DSSC applications of functionalized photoanode electrodes with novel interface modifiers and toward the design of solar cells. An appropriate interface modifier can play the role of assisting charge separation and also effectively shield the unfavorable reactions which occur from the injected electrons in photoanode's conduction band (CB) to the I 3 − ions in electrolyte and/or to the holes in highest occupied molecular orbital (HOMO) level of the dye. [8] Among modifier layers, thin tunneling barrier (TTB) at TiO 2 /dye interface is one of the most efficient and feasible ways, because TTB material is preferred in such a way that its CB is more positive than that of TiO 2 to form an energy barrier which allows electron injection but hinders the recombination reactions as well as passivate the surface states known as the vacant sites.Since then, many groups have attempted to modify photoanode in this system using alternative materials. [5,9,10] However, it has still not been reached to the desired PCE due to lower electron transport efficiency and sensitizing ability, much faster recombination, and difficult bind with TiO 2 or dyes. Alternative to these molecules, deoxyribonucleic acid (DNA) molecules have attracted research interest as modifier and/or linker because of cost effectiveness/easy fabrication, absorption ability in UV region causing high intersystem quantum yield, and favorable energy levels (HOMO: −5.2 eV; LUMO: −1.1 eV) [11][12][13] to inject charge, its 3D double helix structure confines the entered photons, and these photons snatch electrons after each collision with DNA molecules. This double helix structure is also beneficial for sunlight utilization from all directions. [14] This paper firstly reports the effect of deoxyribonucleic acid (DNA) molecules extracted from chickpea and wheat plants on the injection/recombination of photogenerated electrons and sensitizing ability of dye-sensitized solar cells (DSSCs). These high-yield DNA molecules are applied as both linker bridging unit as well as thin tunneling barrier (TTB) at titanium dioxide (TiO 2 )/dye interface, to build up high-efficient DSSCs. With its favorable energy levels, effective linker bridging role, and double helix structure, bifunctional DNA modifier shows an efficient electron injection, suppressed charge recombinati...

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Section: Introductionmentioning

confidence: 96%

An Effective Approach for High‐Efficiency Photoelectrochemical Solar Cells by Using Bifunctional DNA Molecules Modified Photoanode

Sönmezoğlu

Akın

Terzi

et al. 2016

Adv Funct Materials

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“…In the context of nucleic acids, fluorescent compounds have found numerous uses as DNA and RNA binding agents, − as gel staining agents, in fluorescent labeling of nucleobases, , in displacement assays for ligand affinity ranking, , and for designing nucleic acid-based sensing platforms. , These molecules cover a large range of visible spectrum with fluorescence emission in the blue, green, yellow, orange, red, and near-infrared regions. Despite their usefulness in biomolecular interaction studies, several of them suffer from certain drawbacks that include interferences from intrinsic cellular autofluorescence and from the cell lysates, leading to the inability to penetrate deep tissues limiting their diagnostic and therapeutic use.…”

Section: Introductionmentioning

confidence: 99%

“…In the context of nucleic acids, fluorescent compounds have found numerous uses as DNA and RNA binding agents, 14−16 as gel staining agents, 17 in fluorescent labeling of nucleobases, 18,19 in displacement assays for ligand affinity ranking, 20,21 and for designing nucleic acid-based sensing platforms. 22,23 These molecules cover a large range of visible spectrum with fluorescence emission in the blue, green, yellow, orange, red, and near-infrared regions.…”

Section: ■ Introductionmentioning

confidence: 99%

Nile Blue: A Red-Emissive Fluorescent Dye That Displays Differential Self-Assembly and Binding to G-Quadruplexes

Patidar,

Tiwari

et al. 2023

J. Phys. Chem. B

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Nile Blue (NB) is a red-emissive dye that is well-known for imaging and staining applications. In this work, we describe the interaction of NB with various types of G-quadruplexes belonging to different topologies, molecularities, and conformations. Using spectroscopic techniques, we have determined the preferential binding of NB to c-Myc G-quadruplex and the other aspects of its binding. Concentration- and temperature-dependent studies showed that NB exists in a dynamic equilibrium between monomeric and H-aggregated states, which could be modulated by the addition of external agents such as anionic surfactants. NB displayed differential self-assembly with different types of G-quadruplex and duplex DNAs modulating its dynamic equilibrium between the monomeric and H-aggregated states. Fluorescence-based displacement studies revealed a 1:1 binding stoichiometry upon interaction with c-Myc G-quadruplex and an association constant of K app = 6.7 × 106 M–1. Circular dichroism studies indicated that NB does not cause changes in the overall conformation of either G-quadruplexes or duplexes; however, it does indicate nucleic acid-dependent self-assembly at higher concentrations. Heat capacity measurement showed a more negative change when compared to that in DNA duplex, indicating more burial of the polar surface area by NB to the G-quadruplex host.

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Spectroscopic Studies on the Interaction of Naphthyridines with DNA and Fluorescent Detection of DNA in Agarose Gel

et al. 2021

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A New Organic Dye-Based Staining for The Detection of Plant DNA in Agarose Gels

Cited by 11 publications

References 17 publications

An Effective Approach for High‐Efficiency Photoelectrochemical Solar Cells by Using Bifunctional DNA Molecules Modified Photoanode

An Effective Approach for High‐Efficiency Photoelectrochemical Solar Cells by Using Bifunctional DNA Molecules Modified Photoanode

Nile Blue: A Red-Emissive Fluorescent Dye That Displays Differential Self-Assembly and Binding to G-Quadruplexes

Spectroscopic Studies on the Interaction of Naphthyridines with DNA and Fluorescent Detection of DNA in Agarose Gel

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