The plant cell wall makes the preparation of high-quality cells for single-cell RNA sequencing challenging. To tackle this issue, we developed FX-Cell, a method that enables the enzymatic digestion of the cell wall at high temperatures to result in high-quality single plant cells for transcriptome analysis.
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References
Seyfferth, C. et al. Advances and opportunities of single-cell transcriptomics for plant research. Annu. Rev. Plant Biol. 72, 847–866 (2021). A review article summarizing opportunities for and challenges of scRNA-seq in plants.
Xue, H.-C. et al. A unified cell atlas of vascular plants reveals cell-type foundational genes and accelerates gene discovery. Cell 188, 6370–6390.e29 (2025). This paper reports the FX-Cell-mediated generation of a unified cell atlas of vascular plants, and a method for reference genome-free scRNA-seq data analysis.
Grones, C. et al. Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics. Plant Cell 36, 812–828 (2024). A review article that presents the current issues, standards, and challenges of plant scRNA-seq in terms of experimental techniques and data analysis.
Plant Cell Atlas Consortium et al. Science forum: vision, challenges and opportunities for a Plant Cell Atlas. eLife 10, e66877 (2021). A perspective article that presents an overview of and outlook for the Plant Cell Atlas.
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This is a summary of: Ming, X. et al. FX-Cell: a method for single-cell RNA sequencing on difficult-to-digest and cryopreserved plant samples. Nat. Methods https://doi.org/10.1038/s41592-025-02900-2 (2025).
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Next-generation method for preparing plant cells for single-cell RNA sequencing. Nat Methods 22, 2506–2507 (2025). https://doi.org/10.1038/s41592-025-02940-8
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DOI: https://doi.org/10.1038/s41592-025-02940-8
