Composite 5-methylations of cytosines modulate i-motif stability in a sequence-specific manner: Implications for DNA nanotechnology and epigenetic regulation of plant telomeric DNA.
| Autor: | Školáková P; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic., Badri Z; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic., Foldynová-Trantírková S; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic. Electronic address: silvie.trantirkova@ceitec.muni.cz., Ryneš J; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic., Šponer J; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic., Fojtová M; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic., Fajkus J; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic., Marek R; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic; Department of Chemistry, Faculty of Science, Masaryk University, Brno 625 00, Czech Republic., Vorlíčková M; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic., Mergny JL; Institute of Biophysics of the Czech Academy of Sciences, Kralovopolska 135, 612 65 Brno, Czech Republic., Trantírek L; Central European Institute of Technology, Masaryk University, Brno 625 00, Czech Republic. Electronic address: lukas.trantirek@ceitec.muni.cz. |
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| Jazyk: | angličtina |
| Zdroj: | Biochimica et biophysica acta. General subjects [Biochim Biophys Acta Gen Subj] 2020 Sep; Vol. 1864 (9), pp. 129651. Date of Electronic Publication: 2020 May 31. |
| DOI: | 10.1016/j.bbagen.2020.129651 |
| Abstrakt: | Background: The i-motif is a tetrameric DNA structure based on the formation of hemiprotonated cytosine-cytosine (C + .C) base pairs. i-motifs are widely used in nanotechnology. In biological systems, i-motifs are involved in gene regulation and in control of genome integrity. In vivo, the i-motif forming sequences are subjects of epigenetic modifications, particularly 5-cytosine methylation. In plants, natively occurring methylation patterns lead to a complex network of C + .C, 5m C + .C and 5m C + . 5m C base-pairs in the i-motif stem. The impact of complex methylation patterns (CMPs) on i-motif formation propensity is currently unknown. Methods: We employed CD and UV-absorption spectroscopies, native PAGE, thermal denaturation and quantum-chemical calculations to analyse the effects of native, native-like, and non-native CMPs in the i-motif stem on the i-motif stability and pK Results: CMPs have strong influence on i-motif stability and pK Conclusions: CMPs can be effectively used to fine-tune i-motif properties. Our data support the notion of epigenetic modifications as a plausible control mechanism of i-motif formation in vivo. General Significance: Our results have implications in epigenetic regulation of telomeric DNA in plants and highlight the potential and limitations of engineered patterning of cytosine methylations on the i-motif scaffold in nanotechnological applications. Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. (Copyright © 2020. Published by Elsevier B.V.) |
| Databáze: | MEDLINE |
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