Spatial total RNA-sequencing (STRS) combines in situ polyadenylation with existing spatial transcriptomics technologies to enable a broader view of the transcriptome in tissues. We use STRS to spatially map coding, noncoding and nonhost RNAs in models of skeletal muscle regeneration and viral myocarditis.
This is a preview of subscription content, access via your institution
Access options
Access Nature and 54 other Nature Portfolio journals
Get Nature+, our best-value online-access subscription
$29.99 / 30 days
cancel any time
Subscribe to this journal
Receive 12 print issues and online access
$209.00 per year
only $17.42 per issue
Buy this article
- Purchase on Springer Link
- Instant access to full article PDF
Prices may be subject to local taxes which are calculated during checkout
References
Rao, A. et al. Exploring tissue architecture using spatial transcriptomics. Nature 596, 211–220 (2021). This review discusses recent advances in spatial transcriptomics technologies.
Ståhl, P. L. et al. Visualization and analysis of gene expression in tissue sections by spatial transcriptomics. Science 353, 78–82 (2016). This paper reports a foundational spatial transcriptomics technology.
Saikia, M. et al. Simultaneous multiplexed amplicon sequencing and transcriptome profiling in single cells. Nat. Methods 16, 59–62 (2019). This paper reports single-cell detection of viral RNAs using targeted capture probes.
Isakova, A., Neff, N. & Quake, S. R. Single-cell quantification of a broad RNA spectrum reveals unique noncoding patterns associated with cell types and states. Proc. Natl Acad. Sci. USA 118, e2113568118 (2021). This paper reports single-cell quantification of the total transcriptome.
Salmen, F. et al. High-throughput total RNA sequencing in single cells using VASA-seq. Nat. Biotechnol. https://doi.org/10.1038/s41587-022-01361-8 (2022). This paper reports a high-throughput method for sequencing the total transcriptome in single cells.
Additional information
Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
This is a summary of: McKellar, D. W. et al. Spatial mapping of the total transcriptome by in situ polyadenylation. Nat. Biotechnol. https://doi.org/10.1038/s41587-022-01517-6 (2022).
Rights and permissions
About this article
Cite this article
Spatial total RNA-sequencing maps coding, noncoding and viral RNAs in tissues. Nat Biotechnol 41, 476–477 (2023). https://doi.org/10.1038/s41587-022-01562-1
Published:
Issue Date:
DOI: https://doi.org/10.1038/s41587-022-01562-1
