Spatial mapping of the total transcriptome by in situ polyadenylation.
Spatial mapping of the total transcriptome by in situ polyadenylation.
复制标题
DOI：
10.1038/s41587-022-01517-6
复制
发表时间：
2023-04
影响因子：
46.9
通讯作者：
De Vlaminck, Iwijn
中科院分区：
文献类型：
--
作者：
McKellar, David W.;Mantri, Madhav;Hinchman, Meleana M.;Parker, John S. L.;Sethupathy, Praveen;Cosgrove, Benjamin D.;De Vlaminck, Iwijn
Spatial transcriptomics reveals the spatial context of gene expression, but current methods are limited to assaying polyadenylated (A-tailed) RNA transcripts. Here we demonstrate that enzymatic in situ polyadenylation of RNA enables detection of the full spectrum of RNAs, expanding the scope of sequencing-based spatial transcriptomics to the total transcriptome. We demonstrate that our spatial total RNA-sequencing (STRS) approach captures coding RNAs, noncoding RNAs and viral RNAs. We apply STRS to study skeletal muscle regeneration and viral-induced myocarditis. Our analyses reveal the spatial patterns of noncoding RNA expression with near-cellular resolution, identify spatially defined expression of noncoding transcripts in skeletal muscle regeneration and highlight host transcriptional responses associated with local viral RNA abundance. STRS requires adding only one step to the widely used Visium spatial total RNA-sequencing protocol from 10x Genomics, and thus could be easily adopted to enable new insights into spatial gene regulation and biology. Spatial RNA sequencing is extended beyond poly-A transcripts to capture the full transcriptome.
登录
查看更多内容
影响因子：
64.8
作者：
Cao, Junyue;Spielmann, Malte;Shendure, Jay
通讯作者：
Shendure, Jay
DOI：
10.1073/pnas.2113568118
发表时间：
2021-12-21
影响因子：
11.1
作者：
Isakova A;Neff N;Quake SR
通讯作者：
Quake SR
影响因子：
22.7
作者：
Chu, Tinyi;Wang, Zhong;Pe'er, Dana;Danko, Charles G.
通讯作者：
Danko, Charles G.
影响因子：
4.6
作者：
Dill, Tiffany L.;Carroll, Alina;Naya, Francisco J.
通讯作者：
Naya, Francisco J.
DOI：
10.1038/s44161-022-00138-1
发表时间：
2022-10-01
期刊：
NATURE CARDIOVASCULAR RESEARCH
影响因子：
--
作者：
Mantri, Madhav;Hinchman, Meleana M.;De Vlaminck, Iwijn
通讯作者：
De Vlaminck, Iwijn