Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection
Abstract While circular RNAs (circRNAs) exhibit lower abundance compared to corresponding linear RNAs, they demonstrate potent biological functions. Nevertheless, challenges arise from the low concentration and distinctive structural features of circRNAs, rendering existing methods operationally int...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2024-12-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-55364-x |
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| _version_ | 1841559268004724736 |
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| author | Zhixin Zhou Bing Han Yu Wang Nina Lin Zhongqiu Zhou Yuan Zhang Ying Bai Ling Shen Yanfei Shen Yuanjian Zhang Honghong Yao |
| author_facet | Zhixin Zhou Bing Han Yu Wang Nina Lin Zhongqiu Zhou Yuan Zhang Ying Bai Ling Shen Yanfei Shen Yuanjian Zhang Honghong Yao |
| author_sort | Zhixin Zhou |
| collection | DOAJ |
| description | Abstract While circular RNAs (circRNAs) exhibit lower abundance compared to corresponding linear RNAs, they demonstrate potent biological functions. Nevertheless, challenges arise from the low concentration and distinctive structural features of circRNAs, rendering existing methods operationally intricate and less sensitive. Here, we engineer an intelligent tetrahedral DNA framework (TDF) possessing precise spatial pattern-recognition properties with exceptional sensing speed and sensitivity for circRNAs. The signal output of TDF sensor occurs only when multivalent spatial pattern-recognition of a circRNA in unamplified samples. Using this sensor, we visualize the real-time response of endogenous circRNA expression in vitro neuronal cells and in vivo brain between pre-stroke and post-stroke male mice, identify the patients with acute ischemic stroke in clinical samples, as well as track the delivery of circRNA in photochromic stroked animal model. Thus, the TDF sensor provides a fast and sensitive tool for the detection of circRNA abundance in both physiological and pathophysiological conditions. |
| format | Article |
| id | doaj-art-211b566712b348e0bdcd4fd1e827a61f |
| institution | Kabale University |
| issn | 2041-1723 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-211b566712b348e0bdcd4fd1e827a61f2025-01-05T12:36:26ZengNature PortfolioNature Communications2041-17232024-12-0115111510.1038/s41467-024-55364-xFast and sensitive multivalent spatial pattern-recognition for circular RNA detectionZhixin Zhou0Bing Han1Yu Wang2Nina Lin3Zhongqiu Zhou4Yuan Zhang5Ying Bai6Ling Shen7Yanfei Shen8Yuanjian Zhang9Honghong Yao10School of Chemistry and Chemical Engineering, Jiangsu Provincial Key Laboratory of Critical Care Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversitySchool of Chemistry and Chemical Engineering, Jiangsu Provincial Key Laboratory of Critical Care Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversitySchool of Medicine, Southeast UniversitySchool of Chemistry and Chemical Engineering, Jiangsu Provincial Key Laboratory of Critical Care Medicine, Southeast UniversityDepartment of Pharmacology, Jiangsu Provincial Key Laboratory of Critical Care Medicine, School of Medicine, Southeast UniversityAbstract While circular RNAs (circRNAs) exhibit lower abundance compared to corresponding linear RNAs, they demonstrate potent biological functions. Nevertheless, challenges arise from the low concentration and distinctive structural features of circRNAs, rendering existing methods operationally intricate and less sensitive. Here, we engineer an intelligent tetrahedral DNA framework (TDF) possessing precise spatial pattern-recognition properties with exceptional sensing speed and sensitivity for circRNAs. The signal output of TDF sensor occurs only when multivalent spatial pattern-recognition of a circRNA in unamplified samples. Using this sensor, we visualize the real-time response of endogenous circRNA expression in vitro neuronal cells and in vivo brain between pre-stroke and post-stroke male mice, identify the patients with acute ischemic stroke in clinical samples, as well as track the delivery of circRNA in photochromic stroked animal model. Thus, the TDF sensor provides a fast and sensitive tool for the detection of circRNA abundance in both physiological and pathophysiological conditions.https://doi.org/10.1038/s41467-024-55364-x |
| spellingShingle | Zhixin Zhou Bing Han Yu Wang Nina Lin Zhongqiu Zhou Yuan Zhang Ying Bai Ling Shen Yanfei Shen Yuanjian Zhang Honghong Yao Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection Nature Communications |
| title | Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection |
| title_full | Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection |
| title_fullStr | Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection |
| title_full_unstemmed | Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection |
| title_short | Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection |
| title_sort | fast and sensitive multivalent spatial pattern recognition for circular rna detection |
| url | https://doi.org/10.1038/s41467-024-55364-x |
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