Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification
Abstract Gliomas are histologically and genetically heterogeneous tumors. However, classical histopathological typing often ignores the high heterogeneity of tumors and thus cannot meet the requirements of precise pathological diagnosis. Here, proximity‐anchored in situ spectral coding amplification...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2023-10-01
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| Series: | Exploration |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/EXP.20220175 |
| _version_ | 1797657803399102464 |
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| author | Xiaolei Chen Ruijie Deng Dongdong Su Xiaochen Ma Xu Han Shizheng Wang Yuqing Xia Zifu Yang Ningqiang Gong Yanwei Jia Xueyun Gao Xiaojun Ren |
| author_facet | Xiaolei Chen Ruijie Deng Dongdong Su Xiaochen Ma Xu Han Shizheng Wang Yuqing Xia Zifu Yang Ningqiang Gong Yanwei Jia Xueyun Gao Xiaojun Ren |
| author_sort | Xiaolei Chen |
| collection | DOAJ |
| description | Abstract Gliomas are histologically and genetically heterogeneous tumors. However, classical histopathological typing often ignores the high heterogeneity of tumors and thus cannot meet the requirements of precise pathological diagnosis. Here, proximity‐anchored in situ spectral coding amplification (ProxISCA) is proposed for multiplexed imaging of RNA mutations, enabling visual typing of brain gliomas with different pathological grades at the single‐cell and tissue levels. The ligation‐based padlock probe can discriminate one‐nucleotide variations, and the design of proximity primers enables the anchoring of amplicons on target RNA, thus improving localization accuracy. The DNA module‐based spectral coding strategy can dramatically improve the multiplexing capacity for imaging RNA mutations through one‐time labelling, with low cost and simple operation. One‐target‐one‐amplicon amplification confers ProxISCA the ability to quantify RNA mutation copy number with single‐molecule resolution. Based on this approach, it is found that gliomas with higher malignant grades express more genes with high correlation at the cellular and tissue levels and show greater cellular heterogeneity. ProxISCA provides a tool for glioma research and precise diagnosis, which can reveal the relationship between cellular heterogeneity and glioma occurrence or development and assist in pathological prognosis. |
| first_indexed | 2024-03-11T17:49:59Z |
| format | Article |
| id | doaj.art-5c15e10989c74c2fb1ae92743d2b7d86 |
| institution | Directory Open Access Journal |
| issn | 2766-8509 2766-2098 |
| language | English |
| last_indexed | 2024-03-11T17:49:59Z |
| publishDate | 2023-10-01 |
| publisher | Wiley |
| record_format | Article |
| series | Exploration |
| spelling | doaj.art-5c15e10989c74c2fb1ae92743d2b7d862023-10-18T06:54:41ZengWileyExploration2766-85092766-20982023-10-0135n/an/a10.1002/EXP.20220175Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplificationXiaolei Chen0Ruijie Deng1Dongdong Su2Xiaochen Ma3Xu Han4Shizheng Wang5Yuqing Xia6Zifu Yang7Ningqiang Gong8Yanwei Jia9Xueyun Gao10Xiaojun Ren11Department of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaCollege of Biomass Science and Engineering Healthy Food Evaluation Research Center Sichuan University ChengduChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaInstitute of High Energy Physics Chinese Academy of Sciences BeijingChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaDepartment of Bioengineering University of Pennsylvania PhiladelphiaUSAState‐Key Laboratory of Analog and Mixed‐Signal VLSI Institute of Microelectronics University of Macau MacauChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaDepartment of Chemistry and Biology Faculty of Environment and Life Science Beijing University of Technology BeijingChinaAbstract Gliomas are histologically and genetically heterogeneous tumors. However, classical histopathological typing often ignores the high heterogeneity of tumors and thus cannot meet the requirements of precise pathological diagnosis. Here, proximity‐anchored in situ spectral coding amplification (ProxISCA) is proposed for multiplexed imaging of RNA mutations, enabling visual typing of brain gliomas with different pathological grades at the single‐cell and tissue levels. The ligation‐based padlock probe can discriminate one‐nucleotide variations, and the design of proximity primers enables the anchoring of amplicons on target RNA, thus improving localization accuracy. The DNA module‐based spectral coding strategy can dramatically improve the multiplexing capacity for imaging RNA mutations through one‐time labelling, with low cost and simple operation. One‐target‐one‐amplicon amplification confers ProxISCA the ability to quantify RNA mutation copy number with single‐molecule resolution. Based on this approach, it is found that gliomas with higher malignant grades express more genes with high correlation at the cellular and tissue levels and show greater cellular heterogeneity. ProxISCA provides a tool for glioma research and precise diagnosis, which can reveal the relationship between cellular heterogeneity and glioma occurrence or development and assist in pathological prognosis.https://doi.org/10.1002/EXP.20220175genetic typinggliomain situ imagingmultiplexed detectionRNA mutation |
| spellingShingle | Xiaolei Chen Ruijie Deng Dongdong Su Xiaochen Ma Xu Han Shizheng Wang Yuqing Xia Zifu Yang Ningqiang Gong Yanwei Jia Xueyun Gao Xiaojun Ren Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification Exploration genetic typing glioma in situ imaging multiplexed detection RNA mutation |
| title | Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification |
| title_full | Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification |
| title_fullStr | Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification |
| title_full_unstemmed | Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification |
| title_short | Visual genetic typing of glioma using proximity‐anchored in situ spectral coding amplification |
| title_sort | visual genetic typing of glioma using proximity anchored in situ spectral coding amplification |
| topic | genetic typing glioma in situ imaging multiplexed detection RNA mutation |
| url | https://doi.org/10.1002/EXP.20220175 |
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