3D RNA-scaffolded wireframe origami
<jats:title>Abstract</jats:title><jats:p>Hybrid RNA:DNA origami, in which a long RNA scaffold strand folds into a target nanostructure via thermal annealing with complementary DNA oligos, has only been explored to a limited extent despite its unique potential for biomedical deliver...
| Main Authors: | , , , , , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | English |
| Published: |
Springer Science and Business Media LLC
2023
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| Online Access: | https://hdl.handle.net/1721.1/147748 |
| _version_ | 1826212934564446208 |
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| author | Parsons, Molly F Allan, Matthew F Li, Shanshan Shepherd, Tyson R Ratanalert, Sakul Zhang, Kaiming Pullen, Krista M Chiu, Wah Rouskin, Silvi Bathe, Mark |
| author2 | Massachusetts Institute of Technology. Department of Biological Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Biological Engineering Parsons, Molly F Allan, Matthew F Li, Shanshan Shepherd, Tyson R Ratanalert, Sakul Zhang, Kaiming Pullen, Krista M Chiu, Wah Rouskin, Silvi Bathe, Mark |
| author_sort | Parsons, Molly F |
| collection | MIT |
| description | <jats:title>Abstract</jats:title><jats:p>Hybrid RNA:DNA origami, in which a long RNA scaffold strand folds into a target nanostructure via thermal annealing with complementary DNA oligos, has only been explored to a limited extent despite its unique potential for biomedical delivery of mRNA, tertiary structure characterization of long RNAs, and fabrication of artificial ribozymes. Here, we investigate design principles of three-dimensional wireframe RNA-scaffolded origami rendered as polyhedra composed of dual-duplex edges. We computationally design, fabricate, and characterize tetrahedra folded from an EGFP-encoding messenger RNA and de Bruijn sequences, an octahedron folded with M13 transcript RNA, and an octahedron and pentagonal bipyramids folded with 23S ribosomal RNA, demonstrating the ability to make diverse polyhedral shapes with distinct structural and functional RNA scaffolds. We characterize secondary and tertiary structures using dimethyl sulfate mutational profiling and cryo-electron microscopy, revealing insight into both global and local, base-level structures of origami. Our top-down sequence design strategy enables the use of long RNAs as functional scaffolds for complex wireframe origami.</jats:p> |
| first_indexed | 2024-09-23T15:40:48Z |
| format | Article |
| id | mit-1721.1/147748 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T15:40:48Z |
| publishDate | 2023 |
| publisher | Springer Science and Business Media LLC |
| record_format | dspace |
| spelling | mit-1721.1/1477482023-01-27T03:06:15Z 3D RNA-scaffolded wireframe origami Parsons, Molly F Allan, Matthew F Li, Shanshan Shepherd, Tyson R Ratanalert, Sakul Zhang, Kaiming Pullen, Krista M Chiu, Wah Rouskin, Silvi Bathe, Mark Massachusetts Institute of Technology. Department of Biological Engineering <jats:title>Abstract</jats:title><jats:p>Hybrid RNA:DNA origami, in which a long RNA scaffold strand folds into a target nanostructure via thermal annealing with complementary DNA oligos, has only been explored to a limited extent despite its unique potential for biomedical delivery of mRNA, tertiary structure characterization of long RNAs, and fabrication of artificial ribozymes. Here, we investigate design principles of three-dimensional wireframe RNA-scaffolded origami rendered as polyhedra composed of dual-duplex edges. We computationally design, fabricate, and characterize tetrahedra folded from an EGFP-encoding messenger RNA and de Bruijn sequences, an octahedron folded with M13 transcript RNA, and an octahedron and pentagonal bipyramids folded with 23S ribosomal RNA, demonstrating the ability to make diverse polyhedral shapes with distinct structural and functional RNA scaffolds. We characterize secondary and tertiary structures using dimethyl sulfate mutational profiling and cryo-electron microscopy, revealing insight into both global and local, base-level structures of origami. Our top-down sequence design strategy enables the use of long RNAs as functional scaffolds for complex wireframe origami.</jats:p> 2023-01-26T18:37:34Z 2023-01-26T18:37:34Z 2023-01-24 2023-01-26T18:34:28Z Article http://purl.org/eprint/type/JournalArticle https://hdl.handle.net/1721.1/147748 Parsons, Molly F, Allan, Matthew F, Li, Shanshan, Shepherd, Tyson R, Ratanalert, Sakul et al. 2023. "3D RNA-scaffolded wireframe origami." Nature Communications, 14 (1). en 10.1038/s41467-023-36156-1 Nature Communications Creative Commons Attribution 4.0 International license https://creativecommons.org/licenses/by/4.0/ application/pdf Springer Science and Business Media LLC Nature |
| spellingShingle | Parsons, Molly F Allan, Matthew F Li, Shanshan Shepherd, Tyson R Ratanalert, Sakul Zhang, Kaiming Pullen, Krista M Chiu, Wah Rouskin, Silvi Bathe, Mark 3D RNA-scaffolded wireframe origami |
| title | 3D RNA-scaffolded wireframe origami |
| title_full | 3D RNA-scaffolded wireframe origami |
| title_fullStr | 3D RNA-scaffolded wireframe origami |
| title_full_unstemmed | 3D RNA-scaffolded wireframe origami |
| title_short | 3D RNA-scaffolded wireframe origami |
| title_sort | 3d rna scaffolded wireframe origami |
| url | https://hdl.handle.net/1721.1/147748 |
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