Angle-controllable RNA tiles for programable array assembly and RNA sensing
Abstract Programmed self-assembly of RNA nanostructures presents a strategic approach to developing biomaterials with tailored properties and functionalities. Despite advancements, the variety, complexity, and programmability of de novo engineered RNA nanostructures remain limited. Here, we introduc...
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| Language: | English |
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Nature Portfolio
2025-04-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-025-58938-5 |
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| author | Qi Yang Xu Chang Jung Yeon Lee Henry Wisniewski You Zhou Ashley D. Bernstein Edward M. Bonder Jason T. Kaelber Teresa Wu Giulia Pedrielli Fei Zhang |
| author_facet | Qi Yang Xu Chang Jung Yeon Lee Henry Wisniewski You Zhou Ashley D. Bernstein Edward M. Bonder Jason T. Kaelber Teresa Wu Giulia Pedrielli Fei Zhang |
| author_sort | Qi Yang |
| collection | DOAJ |
| description | Abstract Programmed self-assembly of RNA nanostructures presents a strategic approach to developing biomaterials with tailored properties and functionalities. Despite advancements, the variety, complexity, and programmability of de novo engineered RNA nanostructures remain limited. Here, we introduce a category of artificially designed RNA tiles by integrating antiparallel crossovers and T-junctions, featuring a controllable angle of either 65o or 90o. A total of 22 distinct tiles are explored, significantly expanding the collection of artificially designed multi-stranded RNA tiles. We investigate the design strategies that affect array assembly including T-loop configuration, sticky end pairing, structural diversification, and variations in annealing methods. Additionally, one single-stranded TC-RNA tile is designed and folded co-transcriptionally, suggesting promising applications in synthetic biology and molecular engineering. Furthermore, we demonstrate the integration of split broccoli RNA aptamers into the multi-stranded monomer tiles, enabling fluorescence activation along linear arrays for programmable RNA sensing. The facile incorporation with RNA functional nanostructures highlights the vast potential of these RNA tiles in constructing more sophisticated nanostructures for diverse biomaterial applications. |
| format | Article |
| id | doaj-art-8ac1b4d84a3d490a869d18890edfdbd6 |
| institution | OA Journals |
| issn | 2041-1723 |
| language | English |
| publishDate | 2025-04-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-8ac1b4d84a3d490a869d18890edfdbd62025-08-20T02:17:52ZengNature PortfolioNature Communications2041-17232025-04-0116111210.1038/s41467-025-58938-5Angle-controllable RNA tiles for programable array assembly and RNA sensingQi Yang0Xu Chang1Jung Yeon Lee2Henry Wisniewski3You Zhou4Ashley D. Bernstein5Edward M. Bonder6Jason T. Kaelber7Teresa Wu8Giulia Pedrielli9Fei Zhang10Department of Chemistry, Rutgers UniversityDepartment of Chemistry, Rutgers UniversityDepartment of Chemistry, Rutgers UniversityDepartment of Chemistry, Rutgers UniversitySchool of Computing and Augmented Intelligence, Arizona State UniversityRutgers CryoEM & Nanoimaging Facility, Rutgers UniversityDepartment of Biological Sciences, Rutgers UniversityRutgers CryoEM & Nanoimaging Facility, Rutgers UniversitySchool of Computing and Augmented Intelligence, Arizona State UniversitySchool of Computing and Augmented Intelligence, Arizona State UniversityDepartment of Chemistry, Rutgers UniversityAbstract Programmed self-assembly of RNA nanostructures presents a strategic approach to developing biomaterials with tailored properties and functionalities. Despite advancements, the variety, complexity, and programmability of de novo engineered RNA nanostructures remain limited. Here, we introduce a category of artificially designed RNA tiles by integrating antiparallel crossovers and T-junctions, featuring a controllable angle of either 65o or 90o. A total of 22 distinct tiles are explored, significantly expanding the collection of artificially designed multi-stranded RNA tiles. We investigate the design strategies that affect array assembly including T-loop configuration, sticky end pairing, structural diversification, and variations in annealing methods. Additionally, one single-stranded TC-RNA tile is designed and folded co-transcriptionally, suggesting promising applications in synthetic biology and molecular engineering. Furthermore, we demonstrate the integration of split broccoli RNA aptamers into the multi-stranded monomer tiles, enabling fluorescence activation along linear arrays for programmable RNA sensing. The facile incorporation with RNA functional nanostructures highlights the vast potential of these RNA tiles in constructing more sophisticated nanostructures for diverse biomaterial applications.https://doi.org/10.1038/s41467-025-58938-5 |
| spellingShingle | Qi Yang Xu Chang Jung Yeon Lee Henry Wisniewski You Zhou Ashley D. Bernstein Edward M. Bonder Jason T. Kaelber Teresa Wu Giulia Pedrielli Fei Zhang Angle-controllable RNA tiles for programable array assembly and RNA sensing Nature Communications |
| title | Angle-controllable RNA tiles for programable array assembly and RNA sensing |
| title_full | Angle-controllable RNA tiles for programable array assembly and RNA sensing |
| title_fullStr | Angle-controllable RNA tiles for programable array assembly and RNA sensing |
| title_full_unstemmed | Angle-controllable RNA tiles for programable array assembly and RNA sensing |
| title_short | Angle-controllable RNA tiles for programable array assembly and RNA sensing |
| title_sort | angle controllable rna tiles for programable array assembly and rna sensing |
| url | https://doi.org/10.1038/s41467-025-58938-5 |
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