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Getting DNA and RNA...
Getting DNA and RNA out of the dark with 2CNqA: a bright adenine analogue and interbase FRET donor
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- Wypijewska Del Nogal, Anna Wiktoria, 1982 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- Füchtbauer, Anders (author)
- Gothenburg University,Göteborgs universitet,Institutionen för kemi och molekylärbiologi,Department of Chemistry and Molecular Biology,Chalmers tekniska högskola,Chalmers University of Technology,University of Gothenburg
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- Bood, Mattias (author)
- Gothenburg University,Göteborgs universitet,Institutionen för kemi och molekylärbiologi,Department of Chemistry and Molecular Biology,University of Gothenburg,AstraZeneca AB
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- Nilsson, Jesper, 1984 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- Sandberg Wranne, Moa, 1986 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- Sarangamath, Sangamesh, 1992 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- Pfeiffer, Pauline, 1994 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- Sundar Rajan, Vinoth, 1987 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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- El-Sagheer, A. H. (author)
- Suez University
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- Dahlen, A. (author)
- AstraZeneca AB
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- Brown, T. (author)
- University Of Oxford
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- Grötli, Morten (author)
- Gothenburg University,Göteborgs universitet,Institutionen för kemi och molekylärbiologi,Department of Chemistry and Molecular Biology,University of Gothenburg
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- Wilhelmsson, Marcus, 1974 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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(creator_code:org_t)
- 2020-06-19
- 2020
- English.
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In: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 48:14, s. 7640-7652
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Abstract
Subject headings
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- With the central role of nucleic acids there is a need for development of fluorophores that facilitate the visualization of processes involving nucleic acids without perturbing their natural properties and behaviour. Here, we incorporate a new analogue of adenine, 2CNqA, into both DNA and RNA, and evaluate its nucleobase-mimicking and internal fluorophore capacities. We find that 2CNqA displays excellent photophysical properties in both nucleic acids, is highly specific for thymine/uracil, and maintains and slightly stabilises the canonical conformations of DNA and RNA duplexes. Moreover, the 2CNqA fluorophore has a quantum yield in single-stranded and duplex DNA ranging from 10% to 44% and 22% to 32%, respectively, and a slightly lower one (average 12%) inside duplex RNA. In combination with a comparatively strong molar absorptivity for this class of compounds, the resulting brightness of 2CNqA inside double-stranded DNA is the highest reported for a fluorescent base analogue. The high, relatively sequence-independent quantum yield in duplexes makes 2CNqA promising as a nucleic acid label and as an interbase Forster resonance energy transfer (FRET) donor. Finally, we report its excellent spectral overlap with the interbase FRET acceptors qA(nitro) and tC(nitro), and demonstrate that these FRET pairs enable conformation studies of DNA and RNA.
Subject headings
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
- NATURVETENSKAP -- Kemi -- Fysikalisk kemi (hsv//swe)
- NATURAL SCIENCES -- Chemical Sciences -- Physical Chemistry (hsv//eng)
- NATURVETENSKAP -- Kemi -- Organisk kemi (hsv//swe)
- NATURAL SCIENCES -- Chemical Sciences -- Organic Chemistry (hsv//eng)
Keyword
- quadracyclic adenine
- ribosomal-subunit
- nucleic-acid
- fluorescence
- tools
- Biochemistry & Molecular Biology
Publication and Content Type
- ref (subject category)
- art (subject category)
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Wypijewska Del N ...
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Füchtbauer, Ande ...
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Bood, Mattias
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Nilsson, Jesper, ...
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Sandberg Wranne, ...
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Sarangamath, San ...
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show more...
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Pfeiffer, Paulin ...
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Sundar Rajan, Vi ...
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El-Sagheer, A. H ...
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Dahlen, A.
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Brown, T.
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Grötli, Morten
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Wilhelmsson, Mar ...
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biochemistry and ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Chemical Science ...
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and Physical Chemist ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Chemical Science ...
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and Organic Chemistr ...
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Nucleic Acids Re ...
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University of Gothenburg
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Chalmers University of Technology