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...
| Authors: | ; ; ; ; ; ; |
|---|---|
| Format: | Article |
| Status: | Accepted version |
| Publication date: | 2017 |
| Country: | España |
| Institution: | Universidad de Barcelona |
| Repository: | Dipòsit Digital de la UB |
| OAI Identifier: | oai:diposit.ub.edu:2445/112556 |
| Online Access: | https://hdl.handle.net/2445/112556 |
| Access Level: | Open access |
| Keyword: | Lligands Oligonucleòtids ADN Ressonància magnètica nuclear Cromatografia Anàlisi multivariable Ligands Oligonucleotides DNA Nuclear magnetic resonance Chromatography Multivariate analysis |
| _version_ | 1878729424530046976 |
|---|---|
| author | Benabou Zdaou, Sanae |
| 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 |
| author_browse | Aviñó Andrés, Anna Benabou Zdaou, Sanae Eritja i Casadellà, Ramon Gargallo Gómez, Raimundo González, Carlos Juan Capdevila, Anna de Lyonnais, Sébastien |
| 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 |
| collection | Dipòsit Digital de la UB |
| 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. |
| eu_rights_str_mv | openAccess |
| format | article |
| id | ES_07abeb8f92ff16fad2fb7a33dcc4e5fd |
| institution | Universidad de Barcelona |
| instname_str | Universidad de Barcelona |
| network_acronym_str | ES |
| network_name_str | España |
| oai_identifier_str | oai:diposit.ub.edu:2445/112556 |
| publishDate | 2017 |
| publishDateSort | 2017 |
| publisher | Elsevier Masson SAS |
| publisherStr | Elsevier Masson SAS |
| reponame_str | Dipòsit Digital de la UB |
| spelling | i-motif structures in long cytosine-rich sequences found upstream of the promoter region of the SMARCA4 gen Benabou Zdaou, Sanae Aviñó Andrés, Anna Lyonnais, Sébastien González, Carlos Eritja i Casadellà, Ramon Juan Capdevila, Anna de Gargallo Gómez, Raimundo Lligands Oligonucleòtids ADN Ressonància magnètica nuclear Cromatografia Anàlisi multivariable Ligands Oligonucleotides DNA Nuclear magnetic resonance Chromatography Multivariate analysis 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. Elsevier Masson SAS https://hdl.handle.net/2445/112556 |
| 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 |
| status_str | acceptedVersion |
| title | 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_short | 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 |
| topic | Lligands Oligonucleòtids ADN Ressonància magnètica nuclear Cromatografia Anàlisi multivariable Ligands Oligonucleotides DNA Nuclear magnetic resonance Chromatography Multivariate analysis |
| topic_facet | Lligands Oligonucleòtids ADN Ressonància magnètica nuclear Cromatografia Anàlisi multivariable Ligands Oligonucleotides DNA Nuclear magnetic resonance Chromatography Multivariate analysis |
| url | https://hdl.handle.net/2445/112556 |