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Construction of a novel phagemid to produce custom DNA origami scaffolds
DNA origami, a method for constructing nanoscale objects, relies on a long single strand of DNA to act as the ‘scaffold’ to template assembly of numerous short DNA oligonucleotide ‘staples’. The ability to generate custom scaffold sequences can greatly benefit DNA origami design processes. Custom sc...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6461039/ https://www.ncbi.nlm.nih.gov/pubmed/30984875 http://dx.doi.org/10.1093/synbio/ysy015 |
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author | Nafisi, Parsa M Aksel, Tural Douglas, Shawn M |
author_facet | Nafisi, Parsa M Aksel, Tural Douglas, Shawn M |
author_sort | Nafisi, Parsa M |
collection | PubMed |
description | DNA origami, a method for constructing nanoscale objects, relies on a long single strand of DNA to act as the ‘scaffold’ to template assembly of numerous short DNA oligonucleotide ‘staples’. The ability to generate custom scaffold sequences can greatly benefit DNA origami design processes. Custom scaffold sequences can provide better control of the overall size of the final object and better control of low-level structural details, such as locations of specific base pairs within an object. Filamentous bacteriophages and related phagemids can work well as sources of custom scaffold DNA. However, scaffolds derived from phages require inclusion of multi-kilobase DNA sequences in order to grow in host bacteria, and those sequences cannot be altered or removed. These fixed-sequence regions constrain the design possibilities of DNA origami. Here, we report the construction of a novel phagemid, pScaf, to produce scaffolds that have a custom sequence with a much smaller fixed region of 393 bases. We used pScaf to generate new scaffolds ranging in size from 1512 to 10 080 bases and demonstrated their use in various DNA origami shapes and assemblies. We anticipate our pScaf phagemid will enhance development of the DNA origami method and its future applications. |
format | Online Article Text |
id | pubmed-6461039 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-64610392019-04-12 Construction of a novel phagemid to produce custom DNA origami scaffolds Nafisi, Parsa M Aksel, Tural Douglas, Shawn M Synth Biol (Oxf) Research Article DNA origami, a method for constructing nanoscale objects, relies on a long single strand of DNA to act as the ‘scaffold’ to template assembly of numerous short DNA oligonucleotide ‘staples’. The ability to generate custom scaffold sequences can greatly benefit DNA origami design processes. Custom scaffold sequences can provide better control of the overall size of the final object and better control of low-level structural details, such as locations of specific base pairs within an object. Filamentous bacteriophages and related phagemids can work well as sources of custom scaffold DNA. However, scaffolds derived from phages require inclusion of multi-kilobase DNA sequences in order to grow in host bacteria, and those sequences cannot be altered or removed. These fixed-sequence regions constrain the design possibilities of DNA origami. Here, we report the construction of a novel phagemid, pScaf, to produce scaffolds that have a custom sequence with a much smaller fixed region of 393 bases. We used pScaf to generate new scaffolds ranging in size from 1512 to 10 080 bases and demonstrated their use in various DNA origami shapes and assemblies. We anticipate our pScaf phagemid will enhance development of the DNA origami method and its future applications. Oxford University Press 2018-08-09 /pmc/articles/PMC6461039/ /pubmed/30984875 http://dx.doi.org/10.1093/synbio/ysy015 Text en © The Author(s) 2018. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Research Article Nafisi, Parsa M Aksel, Tural Douglas, Shawn M Construction of a novel phagemid to produce custom DNA origami scaffolds |
title | Construction of a novel phagemid to produce custom DNA origami scaffolds |
title_full | Construction of a novel phagemid to produce custom DNA origami scaffolds |
title_fullStr | Construction of a novel phagemid to produce custom DNA origami scaffolds |
title_full_unstemmed | Construction of a novel phagemid to produce custom DNA origami scaffolds |
title_short | Construction of a novel phagemid to produce custom DNA origami scaffolds |
title_sort | construction of a novel phagemid to produce custom dna origami scaffolds |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6461039/ https://www.ncbi.nlm.nih.gov/pubmed/30984875 http://dx.doi.org/10.1093/synbio/ysy015 |
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