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Oligo Modifications List | Oligo Modifications Reference Category
Modification : Qdot 545
Reference Catalog Number 26-6932
Category Fluorescent Dyes
Modification Code Qdot 545
5 Prime Y
3 Prime Y
Internal Y
Technical Info (pdf) PS26-6932.pdf
Emission MAX 545
Catalog NoScalePrice
Related Modifications
Qdot 565
Qdot 705
Qdot 655
Qdot 525
Qdot 545
Qdot 585
Qdot 605
Qdot 625
Qdot 800

Effective October 20, 2020 Qdot conjugation to custom oligos has been discontinued due to licensing requirements. Gene Link will assist you to conjugate Qdot's to custom oligos by synthesizing your custom oligos with appropriate amino linkers to enable you to perform the conjugation to Qdots in your lab. Please contact Gene Link at support@genelink.com for more information.

Qdot modification is a post synthesis conjugation to a primary amino group. The amino group can be placed at the 5' and 3' and for internal positions an amino modified base is used, e.g Amino dT C6.

As there are a large number of active carboxy groups on the Qdot surface there may be 10 - 80 oligos conjugated to a single Qdot.

Qdot ITK Carboxyl Quantum Dots (Qdot ITK Carboxyls) are a set of nanometer-scale semiconductor crystalline fluorophores that emit light in the visible and near-IR electromagnetics spectrum (525-800 nm). Qdots are composed of a crystalline CdSe semiconductor core and an outer ZnS semiconductor shell for improved chemical and optical properties. Qdots have several important advantages over traditional organic fluorophore dyes. For organic dyes, the optimal absorption and emission wavelengths are close together. By contrast, for Qdots, the absorption efficiency is shifted far away from and towards the blue (shorter wavelength) side of the emission peak. Because Qdots can be excited at wavelengths far from their emission peak, can inherently absorb more energy in the blue-violet than organic dyes, and can be excited with a single, short-wavelength source irrespective of emission peak, Qdots are much brighter and more photostable, and thus more sensitive, than organic fluorescent dyes. Furthermore, because their emission peaks are significantly narrower than those of organic dyes, Qdots are better suited to applications requiring multiplex detection of several colors simultaneously (1-2).

Qdot ITK Carboxyls are coated with a polymer shell derivitized with a large number of carboxylic acid groups, within a range of 50-100 per Qdot. In order to attach oligonucleotides to such Qdots, the former first must be synthesized with an Amino Linker modification (either at the ends or internally). The appropriate Qdot ITK Carboxyl is then manually attached to the oligo through the amino group in a separate reaction post-synthesis. However, given the large number of active carboxy groups on the Qdot surface there may be 10 - 80 oligos conjugated to a single Qdot. Thus, Qdots are unsuitable for any application requiring a 1:1 mole ratio of Qdot:oligo. Qdots are best suited to applications requiring probles in which many oligos are attached to the Qdot surface.

The list of currently available Qdots include Qdot-525, -565, -585, -605, -625, -655, -705, -800, with the number indicating the appropriate maximum emission wavelength for the particular Qdot. Qdots are suitable for a variety of in vitro and in vivo applications (3-5). However, for in vivo experiments, users should note that Qdots are excited in the higher-energy, blue-violet part of the visible spectrum. Researchers who wish to use Qdot-labeled probes should confirm that the higher energy required for excitation does not damage the relevant cells or tissues being used in the in vivo experiments.

For more information visit ThermoFisher website Qdot Technology Overview.

1. Willard, D.M., Carillo, L.L., Jung, J., Van Orden, A. CdSe-ZnS Quantum Dots as Resonance Energy Transfer Donors in a Model Protein-Protein Binding Assay. Nano Lett. (2001), 1: 469-474.
2. Clapp, A.R., Medintz, I.L., Mauro, J.M., Fisher, B.R., Bawendi, M.G., Mattoussi, H. Fluorescence Resonance Energy Transfer Between Quantum Dot Donors and Dye-Labeled Protein Acceptors. J. Am. Chem. Soc. (2004), 126: 301-310.
3. Medintz, I.L., Uyeda, H.T., Goldman, E.R., Mattoussi, H. Quantum dot bioconjugates for imaging, labelling and sensing. Nat. Mater. (2005), 4: 435-446.
4. Robelek, R., Niu, L., Schmid, E.L., Knoll, W. Multiplexed hybridization detection of quantum dot-conjugated DNA sequences using surface plasmon enhanced fluorescence microscopy and spectrometry. Anal Chem. (2004), 76: 6160-6165.
5. Cody, N.C., Strickland, A.D., Batt, C.A. Optimized linkage and quenching strategies for quantum dot molecular beacons. Mol. Cell. Probes. (2007), 21: 116-124.


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