Fluorescent Properties of Cyanine Dyes As a Matter of the Environment

• Published in: Journal of fluorescence Vol. 34; no. 2; pp. 925 - 933
• Main Authors: Fan, Fan, Povedailo, Vladimir A., Lysenko, Ivan L., Seviarynchyk, Tatsiana P., Sharko, Olga L., Mazunin, Ilya O., Shmanai, Vadim V.
• Format: Journal Article
• Language: English
• Published: New York Springer US 01.03.2024; Springer Nature B.V
• Subjects: Analytical Chemistry; Aqueous solutions; Aromatic compounds; Biochemistry; Biological and Medical Physics; Biomedical and Life Sciences; Biomedicine; Biophysics; Biotechnology; Cyanine dyes; Fluorescence; Fluorescent dyes; Isomerization; Oligonucleotides; Cyanine dyes; Fluorescence intensity; Fluorescence quantum yields; Fluorescence lifetime; Click chemistry
• ISSN: 1053-0509; 1573-4994
• DOI: 10.1007/s10895-023-03321-0

In non-viscous aqueous solutions, the cyanine fluorescent dyes Cy3 and Cy5 have rather low fluorescence efficiency (the fluorescence quantum yields of Cy3 and Cy5 are 0.04 and 0.3, respectively [ 1 , 2 ]) and short excited state lifetimes due to their structural features. In this work, we investigated the effect of solubility and rotational degrees of freedom on the fluorescence efficiency of Cy3 and Cy5 in several ways. We compared the fluorescence efficiencies of two cyanine dyes sCy3 and sCy5 with the introduction of a sulfonyl substituent in the aromatic ring as well as covalently bound to T10 oligonucleotides. The results show that because of the different lengths of the polymethine chains between the aromatic rings of the dyes, cis–trans -isomerization has a much greater effect on the Cy3 molecule than on the Cy5 molecule, while the effect of aggregation is also significant.