Pyrene-functionalized oligonucleotides and locked nucleic acids (LNAs): Tools for fundamental research, diagnostics, and nanotechnology

Østergaard, Michael E.; Hrdlicka, Patrick J.

doi:10.1039/c1cs15014f

Cited by 246 publications

(184 citation statements)

References 142 publications

(293 reference statements)

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“…Amplified DNA targets can be analyzed for the presence of SNP by different direct and indirect hybridization strategies including intercalator dyes in allele-specific digital PCR (dPCR) [17], sequence-specific fluorogenic probes [18], electrochemical sensors [19][20][21][22][23][24] and diagnostic nano-materials [25]. Electrochemical sensing is a promising approach for SNP detection which takes advantage of synthetic oligonucleotide probes and the large thermodynamic changes in enthalpy and entropy.…”

Section: Enzyme-based Detection Of Snpmentioning

confidence: 99%

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Toward Non-Enzymatic Ultrasensitive Identification of Single Nucleotide Polymorphisms by Optical Methods

Astakhova¹

2014

Chemosensors

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Single nucleotide polymorphisms (SNPs) are single nucleotide variations which comprise the most wide spread source of genetic diversity in the genome. Currently, SNPs serve as markers for genetic predispositions, clinically evident disorders and diverse drug responses. Present SNP diagnostics are primarily based on enzymatic reactions in different formats including sequencing, polymerase-chain reaction (PCR) and microarrays. In these assays, the enzymes are applied to address the required sensitivity and specificity when detecting SNP. On the other hand, the development of enzyme-free, simple and robust SNP sensing methods is in a constant focus in research and industry as such assays allow rapid and reproducible SNP diagnostics without the need for expensive equipment and reagents. An ideal method for detection of SNP would entail mixing a DNA or RNA target with a probe to directly obtain a signal. Current assays are still not fulfilling these requirements, although remarkable progress has been achieved in recent years. In this review, current SNP sensing approaches are described with a main focus on recently introduced direct, enzyme-free and ultrasensitive SNP sensing by optical methods.

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Section: Enzyme-based Detection Of Snpmentioning

confidence: 99%

“…nano-particles and fluorescence spectroscopy [17][18][19][20][21][22][23][24][25]. Next several efficient colorimetric assays for SNP sensing in amplified DNA have been developed based on modified gold nano-particles (Au-nps; Figure 2) [26].…”

Section: Enzyme-based Detection Of Snpmentioning

confidence: 99%

Toward Non-Enzymatic Ultrasensitive Identification of Single Nucleotide Polymorphisms by Optical Methods

Astakhova¹

2014

Chemosensors

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“…PNAs are DNA analogues in which the anionic phosphate backbone is replaced by a neutral charge backbone, so that the less repulsion between PNA and RNA results in increased melting temperature and subsequently enhanced hybridization efficiency [67]. For miRNA detection, LNA (bicyclic RNA analogues)-based probes have shown great advantages to enable specific identification of highly similar sequences, such as miRNA family members and single mutations due to the remarkable affinity and specificity of LNA to miRNA [68,69]. Várallyay et al [70] describe an improved protocol for miRNA northern blot analysis using an LNA-modified oligonucleotide probe with a short detection time.…”

Section: Probe Design Strategy Techniques In Mirna Optical Detectionmentioning

confidence: 99%

miRNA Optical Detection

Zhang

Dong

Tian

2015

SpringerBriefs in Molecular Science

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miRNA is a kind of attractive candidates, as biomarkers, for early cancer diagnosis. Therefore, simple and novel strategies for miRNA detection with high sensitivity and selectivity have great significance not only for the studies of its biological functions but also for clinical cancer diagnosis. Various reliable optical miRNA detection methods have become a class of attractive and paramount for miRNA expression analysis, due to its high sensitivity, wide dynamic range, and multiplexing capabilities. The progress of nanotechnology and nanoscience allows nanomaterial-based signal amplification to develop highly sensitive and selective biosensors for in situ or online detection of miRNA. Molecular biology-based strategies for miRNA detection by amplifying the target or probe with high detection sensitivity are applied in identifying and detecting nucleic acids analysis.Keywords Optical detection · Signal amplification · Noble metal nanoparticles · Transition metal dichalcogenides · Quantum dots · Canbon nanomaterials · Target or probe amplification Nanomaterials-Based miRNA Optical DetectionThe development of nanotechnology and nanoscience renders nanomaterial-based signal amplification great promise in developing highly sensitive and selective biosensors for in situ or online detection of miRNA. Nanomaterials-based biosensors exhibit the significant advantages with high sensitivity, wide dynamic range, and multiplexing capabilities compared to bulk materials-biosensors. Nanoparticles (NPs)-based biosensors show the significant advantages as follows: (i) The NPs allow design of low cost and minimized equipment in point-of-care diagnostics due to the small sizes breaking through the limitation of structure miniaturization. (ii) The direct contact between NPs and the environment lead to accelerated

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“…Pyrene is known to act as a DNA intercalator. [58] Therefore, such a planar system was deliberately selected in this work in order to prepare a hypoxia-selective compound that targeted nuclear DNA. However, the complexes did not present nuclear uptake and their uptake was not enhanced under hypoxia.…”

Section: Multimodal Imagingmentioning

confidence: 99%

Applications of “Hot” and “Cold” Bis(thiosemicarbazonato) Metal Complexes in Multimodal Imaging

Cortezon‐Tamarit

Sarpaki

Calatayud

et al. 2016

The Chemical Record

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The applications of coordination chemistry to molecular imaging has become a matter of intense research over the past 10 years. In particular, the applications of bis(thiosemicarbazonato) metal complexes in molecular imaging have mainly been focused on compounds with aliphatic backbones due to the in vivo imaging success of hypoxic tumors with PET (positron emission tomography) using (64) CuATSM [copper (diacetyl-bis(N4-methylthiosemicarbazone))]. This compound entered clinical trials in the US and the UK during the first decade of the 21(st) century for imaging hypoxia in head and neck tumors. The replacement of the ligand backbone to aromatic groups, coupled with the exocyclic N's functionalization during the synthesis of bis(thiosemicarbazones) opens the possibility to use the corresponding metal complexes as multimodal imaging agents of use, both in vitro for optical detection, and in vivo when radiolabeled with several different metallic species. The greater kinetic stability of acenaphthenequinone bis(thiosemicarbazonato) metal complexes, with respect to that of the corresponding aliphatic ATSM complexes, allows the stabilization of a number of imaging probes, with special interest in "cold" and "hot" Cu(II) and Ga(III) derivatives for PET applications and (111) In(III) derivatives for SPECT (single-photon emission computed tomography) applications, whilst Zn(II) derivatives display optical imaging properties in cells, with enhanced fluorescence emission and lifetime with respect to the free ligands. Preliminary studies have shown that gallium-based acenaphthenequinone bis(thiosemicarbazonato) complexes are also hypoxia selective in vitro, thus increasing the interest in them as new generation imaging agents for in vitro and in vivo applications.

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Pyrene-functionalized oligonucleotides and locked nucleic acids (LNAs): Tools for fundamental research, diagnostics, and nanotechnology

Cited by 246 publications

References 142 publications

Toward Non-Enzymatic Ultrasensitive Identification of Single Nucleotide Polymorphisms by Optical Methods

Toward Non-Enzymatic Ultrasensitive Identification of Single Nucleotide Polymorphisms by Optical Methods

miRNA Optical Detection

Applications of “Hot” and “Cold” Bis(thiosemicarbazonato) Metal Complexes in Multimodal Imaging

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