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

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 cyto...

Descripción completa

Detalles Bibliográficos
Autores: Benabou Zdaou, Sanae, Aviñó Andrés, Anna, Lyonnais, Sébastien, González, Carlos, Eritja i Casadellà, Ramon, Juan Capdevila, Anna de, Gargallo Gómez, Raimundo
Tipo de recurso: artículo
Estado:Versión aceptada para publicación
Fecha de publicación:2017
País:España
Institución:Universidad de Barcelona
Repositorio:Dipòsit Digital de la UB
OAI Identifier:oai:diposit.ub.edu:2445/112556
Acceso en línea:https://hdl.handle.net/2445/112556
Access Level:acceso abierto
Palabra clave:Lligands
Oligonucleòtids
ADN
Ressonància magnètica nuclear
Cromatografia
Anàlisi multivariable
Ligands
Oligonucleotides
DNA
Nuclear magnetic resonance
Chromatography
Multivariate analysis
id ES_07abeb8f92ff16fad2fb7a33dcc4e5fd
oai_identifier_str oai:diposit.ub.edu:2445/112556
network_acronym_str ES
network_name_str España
repository_id_str
spelling i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 genBenabou Zdaou, SanaeAviñó Andrés, AnnaLyonnais, SébastienGonzález, CarlosEritja i Casadellà, RamonJuan Capdevila, Anna deGargallo Gómez, RaimundoLligandsOligonucleòtidsADNRessonància magnètica nuclearCromatografiaAnàlisi multivariableLigandsOligonucleotidesDNANuclear magnetic resonanceChromatographyMultivariate analysisCytosine-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 an 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.Elsevier Masson SAS2017info:eu-repo/semantics/articleinfo:eu-repo/semantics/acceptedVersionapplication/pdfhttps://hdl.handle.net/2445/112556Articles publicats en revistes (Enginyeria Química i Química Analítica)reponame:Dipòsit Digital de la UBinstname:Universidad de BarcelonaInglésVersió postprint del document publicat a: https://doi.org/10.1016/j.biochi.2017.06.005Biochimie, 2017, vol. 140, p. 20-33https://doi.org/10.1016/j.biochi.2017.06.005cc by-nc-nd (c) Elsevier Masson SAS, 2017http://creativecommons.org/licenses/by-nc-nd/3.0/es/info:eu-repo/semantics/openAccessoai:diposit.ub.edu:2445/1125562026-05-27T06:46:51Z
dc.title.none.fl_str_mv i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
title i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
spellingShingle i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
Benabou Zdaou, Sanae
Lligands
Oligonucleòtids
ADN
Ressonància magnètica nuclear
Cromatografia
Anàlisi multivariable
Ligands
Oligonucleotides
DNA
Nuclear magnetic resonance
Chromatography
Multivariate analysis
title_short i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
title_full i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
title_fullStr i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
title_full_unstemmed i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
title_sort i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen
dc.creator.none.fl_str_mv Benabou Zdaou, Sanae
Aviñó Andrés, Anna
Lyonnais, Sébastien
González, Carlos
Eritja i Casadellà, Ramon
Juan Capdevila, Anna de
Gargallo Gómez, Raimundo
author Benabou Zdaou, Sanae
author_facet Benabou Zdaou, Sanae
Aviñó Andrés, Anna
Lyonnais, Sébastien
González, Carlos
Eritja i Casadellà, Ramon
Juan Capdevila, Anna de
Gargallo Gómez, Raimundo
author_role author
author2 Aviñó Andrés, Anna
Lyonnais, Sébastien
González, Carlos
Eritja i Casadellà, Ramon
Juan Capdevila, Anna de
Gargallo Gómez, Raimundo
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv Lligands
Oligonucleòtids
ADN
Ressonància magnètica nuclear
Cromatografia
Anàlisi multivariable
Ligands
Oligonucleotides
DNA
Nuclear magnetic resonance
Chromatography
Multivariate analysis
topic Lligands
Oligonucleòtids
ADN
Ressonància magnètica nuclear
Cromatografia
Anàlisi multivariable
Ligands
Oligonucleotides
DNA
Nuclear magnetic resonance
Chromatography
Multivariate analysis
description 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 an 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.
publishDate 2017
dc.date.none.fl_str_mv 2017
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/acceptedVersion
format article
status_str acceptedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/112556
url https://hdl.handle.net/2445/112556
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Versió postprint del document publicat a: https://doi.org/10.1016/j.biochi.2017.06.005
Biochimie, 2017, vol. 140, p. 20-33
https://doi.org/10.1016/j.biochi.2017.06.005
dc.rights.none.fl_str_mv cc by-nc-nd (c) Elsevier Masson SAS, 2017
http://creativecommons.org/licenses/by-nc-nd/3.0/es/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc by-nc-nd (c) Elsevier Masson SAS, 2017
http://creativecommons.org/licenses/by-nc-nd/3.0/es/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Elsevier Masson SAS
publisher.none.fl_str_mv Elsevier Masson SAS
dc.source.none.fl_str_mv Articles publicats en revistes (Enginyeria Química i Química Analítica)
reponame:Dipòsit Digital de la UB
instname:Universidad de Barcelona
instname_str Universidad de Barcelona
reponame_str Dipòsit Digital de la UB
collection Dipòsit Digital de la UB
repository.name.fl_str_mv
repository.mail.fl_str_mv
_version_ 1869402996456030208
score 15,300719

Similares en LA Referencia