Nucleic acid sensing by an orthogonal reporter system based on homo-DNA

Stoop, Matthias; Désiron, Camille; Leumann, Christian J. (2013). Nucleic acid sensing by an orthogonal reporter system based on homo-DNA. Artificial DNA: PNA & XNA, 4(1), pp. 28-33. Landes Bioscience 10.4161/adna.24227

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We have developed an assay for single strand DNA or RNA detection which is based on the homo-DNA templated Staudinger reduction of the profluorophore rhodamine-azide. The assay is based on a three component system, consisting of a homo-DNA/DNA hybrid probe, a set of homo-DNA reporter strands and the target DNA or RNA. We present two different formats of the assay (Omega probe and linear probe) in which the linear probe was found to perform best with catalytic turnover of the reporter strands (TON: 8) and a match/mismatch discrimination of up to 19. The advantage of this system is that the reporting (homo-DNA) and sensing (DNA) domain are decoupled from each other since the two pairing systems are bioorthogonal. This allows independent optimization of either domain which may lead to higher selectivity in in vivo imaging.

Item Type:

Journal Article (Original Article)

Division/Institute:

08 Faculty of Science > Departement of Chemistry and Biochemistry

UniBE Contributor:

Stoop, Matthias; Désiron, Camille and Leumann, Christian

Subjects:

500 Science > 570 Life sciences; biology
500 Science > 540 Chemistry

ISSN:

1949-0968

Publisher:

Landes Bioscience

Language:

English

Submitter:

Christian Leumann

Date Deposited:

08 Jan 2014 17:00

Last Modified:

06 Aug 2020 09:35

Publisher DOI:

10.4161/adna.24227

PubMed ID:

23507698

Uncontrolled Keywords:

RNA diagnostics, Staudinger reaction, fluorescence sensing, homo-DNA, oligonucleotides

BORIS DOI:

10.7892/boris.39685

URI:

https://boris.unibe.ch/id/eprint/39685

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