Near-infrared fluorogenic RNA for in vivo imaging and sensing
Abstract Fluorogenic RNA aptamers have various applications, including use as fluorescent tags for imaging RNA trafficking and as indicators of RNA-based sensors that exhibit fluorescence upon binding small-molecule fluorophores in living cells. Current fluorogenic RNA:fluorophore complexes typicall...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2025-01-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-55093-1 |
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| author | Zhenyin Chen Wei Chen Cun Xu Haozhi Song Xin Ji Haodong Jiang Hongtao Duan Zehao Li Wankai Gao Tuoxin Yao Zhongxuan Zhang Liuqin He Yulong Yin Nanyang Yang Wenjing Tian Jiahui Wu Xing Li |
| author_facet | Zhenyin Chen Wei Chen Cun Xu Haozhi Song Xin Ji Haodong Jiang Hongtao Duan Zehao Li Wankai Gao Tuoxin Yao Zhongxuan Zhang Liuqin He Yulong Yin Nanyang Yang Wenjing Tian Jiahui Wu Xing Li |
| author_sort | Zhenyin Chen |
| collection | DOAJ |
| description | Abstract Fluorogenic RNA aptamers have various applications, including use as fluorescent tags for imaging RNA trafficking and as indicators of RNA-based sensors that exhibit fluorescence upon binding small-molecule fluorophores in living cells. Current fluorogenic RNA:fluorophore complexes typically emit visible fluorescence. However, it is challenging to develop fluorogenic RNA with near-infrared (NIR) fluorescence for in vivo imaging and sensing studies. To address this issue, we identify and modulate red fluorescent protein-like fluorophores to bind Squash, a highly folded fluorogenic RNA. One of these fluorophores, DFQL-1T, exhibits photostable NIR fluorescence when bound to Squash, enabling RNA visualization in living mammalian cells and mice. With Squash:DFQL-1T complexes, we generate RNA-based sensors for detecting non-coding RNAs and small molecule targets in living mammalian cells and in mice. These studies reveal a fluorogenic RNA:fluorophore complex that can be readily developed into NIR fluorescent RNA tags for in vivo imaging and sensing. |
| format | Article |
| id | doaj-art-be33898b9db8493d9d332383e8398af9 |
| institution | Kabale University |
| issn | 2041-1723 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-be33898b9db8493d9d332383e8398af92025-01-12T12:29:56ZengNature PortfolioNature Communications2041-17232025-01-0116111510.1038/s41467-024-55093-1Near-infrared fluorogenic RNA for in vivo imaging and sensingZhenyin Chen0Wei Chen1Cun Xu2Haozhi Song3Xin Ji4Haodong Jiang5Hongtao Duan6Zehao Li7Wankai Gao8Tuoxin Yao9Zhongxuan Zhang10Liuqin He11Yulong Yin12Nanyang Yang13Wenjing Tian14Jiahui Wu15Xing Li16Interdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesCentre for Medical Genetics, School of Life Sciences, Central South UniversityInstitute of Chemistry, Chinese Academy of SciencesInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesCollege of Life Sciences, Hebei UniversityCollege of Life Sciences, Hebei UniversityInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesCollege of Life Sciences, Hunan Normal UniversityInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesCollege of Life Sciences, Hunan Normal UniversityYuelushan LaboratoryCentre for Medical Genetics, School of Life Sciences, Central South UniversityState Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin UniversityDepartment of Chemistry, University of MassachusettsInterdisciplinary Science Center, State Key Laboratory of Integrated Management of Pest Insects and Rodents,Institute of Zoology, Chinese Academy of SciencesAbstract Fluorogenic RNA aptamers have various applications, including use as fluorescent tags for imaging RNA trafficking and as indicators of RNA-based sensors that exhibit fluorescence upon binding small-molecule fluorophores in living cells. Current fluorogenic RNA:fluorophore complexes typically emit visible fluorescence. However, it is challenging to develop fluorogenic RNA with near-infrared (NIR) fluorescence for in vivo imaging and sensing studies. To address this issue, we identify and modulate red fluorescent protein-like fluorophores to bind Squash, a highly folded fluorogenic RNA. One of these fluorophores, DFQL-1T, exhibits photostable NIR fluorescence when bound to Squash, enabling RNA visualization in living mammalian cells and mice. With Squash:DFQL-1T complexes, we generate RNA-based sensors for detecting non-coding RNAs and small molecule targets in living mammalian cells and in mice. These studies reveal a fluorogenic RNA:fluorophore complex that can be readily developed into NIR fluorescent RNA tags for in vivo imaging and sensing.https://doi.org/10.1038/s41467-024-55093-1 |
| spellingShingle | Zhenyin Chen Wei Chen Cun Xu Haozhi Song Xin Ji Haodong Jiang Hongtao Duan Zehao Li Wankai Gao Tuoxin Yao Zhongxuan Zhang Liuqin He Yulong Yin Nanyang Yang Wenjing Tian Jiahui Wu Xing Li Near-infrared fluorogenic RNA for in vivo imaging and sensing Nature Communications |
| title | Near-infrared fluorogenic RNA for in vivo imaging and sensing |
| title_full | Near-infrared fluorogenic RNA for in vivo imaging and sensing |
| title_fullStr | Near-infrared fluorogenic RNA for in vivo imaging and sensing |
| title_full_unstemmed | Near-infrared fluorogenic RNA for in vivo imaging and sensing |
| title_short | Near-infrared fluorogenic RNA for in vivo imaging and sensing |
| title_sort | near infrared fluorogenic rna for in vivo imaging and sensing |
| url | https://doi.org/10.1038/s41467-024-55093-1 |
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