Direct Attachment of Oligonucleotides to Quantum Dot Interfaces

Han, Hyunjoo; Zylstra, Joshua; Maye, Mathew M.

doi:10.1021/cm2021593

Cited by 36 publications

(24 citation statements)

References 103 publications

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“…The Maye group developed a grafting process for the attachment of oligonucleotide strands to CdSe/ZnS core-shell quantum dots (Han et al, 2011) using the procedure illustrated in Fig. 3.…”

Section: Fluorophores Quenchers and Modifications In Mbsmentioning

confidence: 99%

Biosensors based on molecular beacons

Stobiecka

Chałupa²

2015

Chemical Papers

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A fundamental molecular beacon (MB) consists of a special short nucleic acid strand with a fluorophore-quencher pair attached to its ends. It provides a unique framework that is susceptible to conformational transitions between a hairpin (closed) conformation and an extended (open) conformation. These two conformations are readily discernible because of their differing fluorescence emission characteristics. The broad applicability of the robust MB sensing platform has attracted widespread interest, resulting in extensive research studies ranging from theoretical and bioanalytical chemistry to molecular biology and biomedical applications. In this paper, the principles of MB design and the modes and mechanisms of MB operation are reviewed, including MB modifications based on the utilisation of a thymidine-thymidine mismatch in hybridised MB stem, aptamers, peptides and locked nucleic acid strands in an MB loop, as well as plasmonic quenchers, quantum dots and interactions with graphene and graphene oxide. Specific applications of MBs in the analysis of enzymes, DNA mutation, phosphorylation, methylation and ligation, followed by the detection of pathogens and applications in cancer and other disease diagnostics and therapeutics are also reviewed. Molecular beacon-based sensing platforms are expanding rapidly and offer a promising bioanalytical tool for inexpensive and reliable analysis for research and field diagnostics.

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“…The Maye group developed a grafting process for the attachment of oligonucleotide strands to CdSe/ZnS core-shell quantum dots (Han et al, 2011) using the procedure illustrated in Fig. 3.…”

Section: Fluorophores Quenchers and Modifications In Mbsmentioning

confidence: 99%

Biosensors based on molecular beacons

Stobiecka

Chałupa²

2015

Chemical Papers

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“…The CdSe QD cores with ZB crystal structure were synthesized by standard methods. [35][36][37][38][39] In a typical synthesis, 0.103 g (0.802 mmol) of CdO in 12 mL oleic acid (OAc) and 5.0 mL ODE was heated to 230 C forming a colourless solution of Cd-oleate. Next, 0.021 mol of dodecylamine (DDA) and 2.002 g trioctylphosphine oxide (TOPO) was introduced and the mixture heated to 270 C until a colourless solution was obtained.…”

Section: Synthesismentioning

confidence: 99%

Investigating the role of polytypism in the growth of multi-shell CdSe/CdZnS quantum dots

2014

Self Cite

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“…The oligonucleotides were then hybridized with Cy3labeled complements to generate FRET. At the opposite extreme, Han et al developed a method for directly functionalizing QD550 with a dense layer of oligonucleotide ligands ($40 per QD) or, alternatively, SA-His 6 for modification with biotinylated oligonucleotides [260]. Minimal changes in FRET efficiency were observed, indicating that the oligonucleotides had a tendency to adsorb to the surface of the QD.…”

Section: Conformational Insights From Qd-fretmentioning

confidence: 99%

“…The effect of the surface of the QD on oligonucleotide conformation was investigated by measuring the FRETefficiency for oligonucleotide probes with two different linker lengths, and by switching the Cy3 label between the proximal and distal terminus of the complement. This result was attributed to a lower density of oligonucleotides, permitting an average conformation that more closely approached the QD [260]. Additional experiments and FRET studies suggested that the adsorptive interactions were driven by hydrogen bonding between the neutral MPA ligands and nucleobases; the extent of adsorption was affected by changes in pH, ionic strength, base sequence, and the presence of chaotropic agents [231,259].…”

Section: Conformational Insights From Qd-fretmentioning

confidence: 99%

Semiconductor Quantum Dots and FRET

Algar

Massey

Krull

2013

FRET – Förster Resonance Energy Transfer

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Quantum dots (QDs) are one of the most interesting new materials that have emerged over the last 20 years. These brightly luminescent nanoparticles have garnered significant attention from researchers working in the fields of biology, chemistry, physics, engineering, and at the interface between these fields. A powerful spectroscopic tool that also spans these disciplines is F€ orster resonance energy transfer (FRET). In this chapter, the compelling partnership between quantum dots and FRET is considered at both the fundamental and applied levels, emphasizing utility in biological applications. The text begins with a short review of FRET in Section 12.2, which reiterates the basic equations that relate physical parameters to experimental observables. Conventional FRET with a well-defined donor-acceptor pair serves as a reference point for comparison with quantum dots. Next, Section 12.3 describes the structure, chemistry, and optical properties of quantum dots. The purpose of this section is threefold: (i) impart the reasons for the widespread interest in quantum dots; (ii) outline the methods for using quantum dots as functional materials in biological applications; and (iii) provide a primer on quantum dot photophysics, which clearly have an important role in energy transfer. Cumulatively, Sections 12.2-12.3 provide sufficient background to fully appreciate the utility, advantages, and disadvantages of FRET with quantum dots, which are discussed in Section 12.4. Adherence and potential departures from the F€ orster formalism are also discussed. Section 12.5 provides a comprehensive review of the use of quantum dots as FRET donors in biological applications. These applications include assays, biosensing and chemosensing, distance measurements/conformational studies, and photodynamic therapy. Ensemble, single-pair, and solid-phase FRET configurations are considered. Section 12.6 reviews similar applications of quantum dot acceptors with chemiluminescent, bioluminescent, or lanthanide donors. Energy transfer between quantum dots and other nanomaterials is reviewed in Section 12.7; these mechanisms are similar to the F€ orster mechanism, but not strictly equivalent. Several examples of biological applications are given.

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Direct Attachment of Oligonucleotides to Quantum Dot Interfaces

Cited by 36 publications

References 103 publications

Biosensors based on molecular beacons

Biosensors based on molecular beacons

Investigating the role of polytypism in the growth of multi-shell CdSe/CdZnS quantum dots

Semiconductor Quantum Dots and FRET

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