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[C(7)GC(4)](4) Association into supra molecular i-motif structures

The self-associative properties of cytidine-rich oligonucleotides into symmetrical i-motif tetramers give to these oligonucleotides the capacity of forming supramolecular structures (sms) that have potential applications in the nanotechnology domain. In order to facilitate sms formation, oligonucleo...

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Autores principales: Laisné, Aude, Pompon, Denis, Leroy, Jean-Louis
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887966/
https://www.ncbi.nlm.nih.gov/pubmed/20185569
http://dx.doi.org/10.1093/nar/gkq102
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author Laisné, Aude
Pompon, Denis
Leroy, Jean-Louis
author_facet Laisné, Aude
Pompon, Denis
Leroy, Jean-Louis
author_sort Laisné, Aude
collection PubMed
description The self-associative properties of cytidine-rich oligonucleotides into symmetrical i-motif tetramers give to these oligonucleotides the capacity of forming supramolecular structures (sms) that have potential applications in the nanotechnology domain. In order to facilitate sms formation, oligonucleotides containing two cytidine stretches of unequal length (C(n)XC(m)) separated by a non-cytidine spacer were synthesized. They were designed to associate into a tetramer including an i-motif core built by intercalation of the C·C(+) pairs of the longer C stretch with the two dangling non-intercalated strands of the shorter C stretch at each end. Gel filtration chromatography shows that the non-intercalated C-rich ends give to this structure the capacity of forming extremely stable sms. Using C(7)GC(4) as a model, we find that the sms formation rate varies as the oligonucleotide concentration and increases at high temperature. Competitively with the tetramer involved in sms elongation, C(n)XC(m) oligonucleotides form i-motif dimers that compete with sms elongation. The dimer stability is strongly reduced when the pH is moved away from the cytidine pK. This results in an equilibrium shift towards the tetramer and in the acceleration of the sms formation rate. The chromatograms of the sms formed by C(7)GC(4) indicate a broad distribution. In a 1.5 mM solution incubated at 37°C, the equilibrium distribution is centered on a molecular weight corresponding to the assembly of nine tetramers and the upper limit corresponds to 80 tetramers. The lifetime of this structure is about 4 days at 40°C, pH 4.6.
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spelling pubmed-28879662010-06-22 [C(7)GC(4)](4) Association into supra molecular i-motif structures Laisné, Aude Pompon, Denis Leroy, Jean-Louis Nucleic Acids Res Structural Biology The self-associative properties of cytidine-rich oligonucleotides into symmetrical i-motif tetramers give to these oligonucleotides the capacity of forming supramolecular structures (sms) that have potential applications in the nanotechnology domain. In order to facilitate sms formation, oligonucleotides containing two cytidine stretches of unequal length (C(n)XC(m)) separated by a non-cytidine spacer were synthesized. They were designed to associate into a tetramer including an i-motif core built by intercalation of the C·C(+) pairs of the longer C stretch with the two dangling non-intercalated strands of the shorter C stretch at each end. Gel filtration chromatography shows that the non-intercalated C-rich ends give to this structure the capacity of forming extremely stable sms. Using C(7)GC(4) as a model, we find that the sms formation rate varies as the oligonucleotide concentration and increases at high temperature. Competitively with the tetramer involved in sms elongation, C(n)XC(m) oligonucleotides form i-motif dimers that compete with sms elongation. The dimer stability is strongly reduced when the pH is moved away from the cytidine pK. This results in an equilibrium shift towards the tetramer and in the acceleration of the sms formation rate. The chromatograms of the sms formed by C(7)GC(4) indicate a broad distribution. In a 1.5 mM solution incubated at 37°C, the equilibrium distribution is centered on a molecular weight corresponding to the assembly of nine tetramers and the upper limit corresponds to 80 tetramers. The lifetime of this structure is about 4 days at 40°C, pH 4.6. Oxford University Press 2010-06 2010-02-25 /pmc/articles/PMC2887966/ /pubmed/20185569 http://dx.doi.org/10.1093/nar/gkq102 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Structural Biology
Laisné, Aude
Pompon, Denis
Leroy, Jean-Louis
[C(7)GC(4)](4) Association into supra molecular i-motif structures
title [C(7)GC(4)](4) Association into supra molecular i-motif structures
title_full [C(7)GC(4)](4) Association into supra molecular i-motif structures
title_fullStr [C(7)GC(4)](4) Association into supra molecular i-motif structures
title_full_unstemmed [C(7)GC(4)](4) Association into supra molecular i-motif structures
title_short [C(7)GC(4)](4) Association into supra molecular i-motif structures
title_sort [c(7)gc(4)](4) association into supra molecular i-motif structures
topic Structural Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887966/
https://www.ncbi.nlm.nih.gov/pubmed/20185569
http://dx.doi.org/10.1093/nar/gkq102
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