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i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gene

Authors: Sanae Benabou; Anna Aviñó; S. Lyonnais; C. González; Ramon Eritja; Anna De Juan; Raimundo Gargallo;

i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gene

Abstract

Cytosine-rich oligonucleotides are capable of forming complex structures known as i-motif with increasingly studied biological properties. The study of sequences prone to form i-motifs located near the promoter region of genes may be difficult because these sequences not only contain repeats of cytosine tracts of disparate length but also these may be separated by loops of varied nature and length. In this work, the formation of intramolecular i-motif structures by a long sequence located upstream of the promoter region of the SMARCA4 gene has been demonstrated. Nuclear Magnetic Resonance, Circular Dichroism, Gel Electrophoresis, Size-Exclusion Chromatography, and multivariate analysis have been used. Not only the wild sequence (5'-TC3T2GCTATC3TGTC2TGC2TCGC3T2G2TCATGA2C4-3') has been studied but also several other truncated and mutated sequences. Despite the apparent complex sequence, the results showed that the wild sequence may form a relatively stable and homogeneous unimolecular i-motif structure, both in terms of pH or temperature. The model ligand TMPyP4 destabilizes the structure, whereas the presence of 20% (w/v) PEG200 stabilized it slightly. This finding opens the door to the study of the interaction of these kind of i-motif structures with stabilizing ligands or proteins.

Country
Spain
Keywords

ADN, Oligonucleotides, Ligand, Ligands, Ressonància magnètica nuclear, Nuclear magnetic resonance, SMARCA4, Anàlisi multivariable, Humans, Cromatografia, Nucleotide Motifs, i-motif, Promoter Regions, Genetic, Chromatography, DNA Helicases, Oligonucleòtids, Nuclear Proteins, DNA, NMR, Crowding, Lligands, Multivariate analysis, Hairpin, Transcription Factors

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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