Systematic investigation of sequence requirements for DNA i-motif formation

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Authors	SKOLAKOVA P. RENCIUK D. PALACKY J. KRAFČÍK Daniel DVORAKOVA Z. KEJNOVSKA I. BEDNAROVA K. VORLICKOVA M.
Year of publication	2019
Type	Article in Periodical
Magazine / Source	Nucleic acids research
MU Faculty or unit	Central European Institute of Technology
Citation
web	https://academic.oup.com/nar/article/47/5/2177/5305265
Doi	http://dx.doi.org/10.1093/nar/gkz046
Keywords	GENE-EXPRESSION; RATIONAL DESIGN; G-QUADRUPLEX; LOOP LENGTH; STABILITY; THERMODYNAMICS; KINETICS
Description	The formation of intercalated motifs (iMs) secondary DNA structures based on hemiprotonated C.C+ pairs in suitable cytosine-rich DNA sequences, is reflected by typical changes in CD and UV absorption spectra. By means of spectroscopic methods, electrophoresis, chemical modifications and other procedures, we characterized iM formation and stability in sequences with different cytosine block lengths interrupted by various numbers and types of nucleotides. Particular attention was paid to the formation of iMs at pH conditions close to neutral. We identified the optimal conditions and minimal requirements for iM formation in DNA sequences, and addressed gaps and inaccurate data interpretations in existing studies to specify principles of iM formation and modes of their folding.
Related projects:	Polymorfní G-quadruplexy v promotorových oblastech genů