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Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides
This study investigated the influence of the nature of oligonucleotides on the abilities to form antiparallel and parallel duplexes. Base pairing of homopurine DNA, 2’-O-MeRNA and RNA oligonucleotides with respective homopyrimidine DNA, 2’-O-MeRNA and RNA as well as chimeric oligonucleotides contain...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4666348/ https://www.ncbi.nlm.nih.gov/pubmed/26579720 http://dx.doi.org/10.1371/journal.pone.0143354 |
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author | Szabat, Marta Pedzinski, Tomasz Czapik, Tomasz Kierzek, Elzbieta Kierzek, Ryszard |
author_facet | Szabat, Marta Pedzinski, Tomasz Czapik, Tomasz Kierzek, Elzbieta Kierzek, Ryszard |
author_sort | Szabat, Marta |
collection | PubMed |
description | This study investigated the influence of the nature of oligonucleotides on the abilities to form antiparallel and parallel duplexes. Base pairing of homopurine DNA, 2’-O-MeRNA and RNA oligonucleotides with respective homopyrimidine DNA, 2’-O-MeRNA and RNA as well as chimeric oligonucleotides containing LNA resulted in the formation of 18 various duplexes. UV melting, circular dichroism and fluorescence studies revealed the influence of nucleotide composition on duplex structure and thermal stability depending on the buffer pH value. Most duplexes simultaneously adopted both orientations. However, at pH 5.0, parallel duplexes were more favorable. Moreover, the presence of LNA nucleotides within a homopyrimidine strand favored the formation of parallel duplexes. |
format | Online Article Text |
id | pubmed-4666348 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-46663482015-12-10 Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides Szabat, Marta Pedzinski, Tomasz Czapik, Tomasz Kierzek, Elzbieta Kierzek, Ryszard PLoS One Research Article This study investigated the influence of the nature of oligonucleotides on the abilities to form antiparallel and parallel duplexes. Base pairing of homopurine DNA, 2’-O-MeRNA and RNA oligonucleotides with respective homopyrimidine DNA, 2’-O-MeRNA and RNA as well as chimeric oligonucleotides containing LNA resulted in the formation of 18 various duplexes. UV melting, circular dichroism and fluorescence studies revealed the influence of nucleotide composition on duplex structure and thermal stability depending on the buffer pH value. Most duplexes simultaneously adopted both orientations. However, at pH 5.0, parallel duplexes were more favorable. Moreover, the presence of LNA nucleotides within a homopyrimidine strand favored the formation of parallel duplexes. Public Library of Science 2015-11-18 /pmc/articles/PMC4666348/ /pubmed/26579720 http://dx.doi.org/10.1371/journal.pone.0143354 Text en © 2015 Szabat et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Szabat, Marta Pedzinski, Tomasz Czapik, Tomasz Kierzek, Elzbieta Kierzek, Ryszard Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title | Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title_full | Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title_fullStr | Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title_full_unstemmed | Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title_short | Structural Aspects of the Antiparallel and Parallel Duplexes Formed by DNA, 2’-O-Methyl RNA and RNA Oligonucleotides |
title_sort | structural aspects of the antiparallel and parallel duplexes formed by dna, 2’-o-methyl rna and rna oligonucleotides |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4666348/ https://www.ncbi.nlm.nih.gov/pubmed/26579720 http://dx.doi.org/10.1371/journal.pone.0143354 |
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