ReviewFrontiers in plant science2023
Opportunities and challenges in the application of single-cell and spatial transcriptomics in plants.
Review in Frontiers in plant science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Single-Cell RNA-Sequencing in Nodulated Roots of Medicago truncatula.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Cell-Specific Expression and Cellular Compartmental Regulation in Camptothecin Biosynthesis.Plant biotechnology journal · 2026Article
- Integrating single-cell omic techniques to resolve the spatio-temporal complexity of arbuscular mycorrhizal symbiosis.Journal of experimental botany · 2026Review
- How WRKY transcription factors fine-tune specificity in plant stress responses: from W-box to regulatory code.Molecular biology reports · 2026Review
- Going against the grain: Investigating C4 photosynthesis in the wheat grain with spatial transcriptomics.BMC plant biology · 2026Article
- Exploring specialized metabolic pathways in medicinal plants with single-cell and spatial omics.Acta pharmaceutica Sinica. B · 2026Review
- Epigenetic regulation under light and temperature fluctuations: chromatin remodeling and transcriptional memory in plants.Plant cell reports · 2026Review
- Isolation and Transfection of Protoplasts From Maize Mesophyll Cells.Bio-protocol · 2026Article
- A Multidimensional Approach to Cereal Caryopsis Development: Insights into Adlay (Plants (Basel, Switzerland) · 2026Article
- Identification of Phloem Cell Transcriptome via Single-Cell RNA-Sequencing.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Conserved spatial patterning of gene expression in independent lineages of CThe New phytologist · 2026Article
- Why "Where" Matters as Much as "How Much": Single-Cell and Spatial Transcriptomics in Plants.International journal of molecular sciences · 2025Review
- Stage-resolved gene regulatory network analysis reveals developmental reprogramming and genes with robust stem-preferred expression in sorghum.BMC plant biology · 2025Article
- Integrating 3D imaging, GWAS, and single-cell transcriptome approaches to elucidate root system architecture in Populus.Plant physiology · 2025Article
- Accelerating crop improvement via integration of transcriptome-based network biology and genome editing.Planta · 2025Review
- Opportunities and challenges in the application of spatiotemporal transcriptomics in plant research.Frontiers in plant science · 2025Review
- Direct RNA sequencing in plants: Practical applications and future perspectives.Plant communications · 2024Review
- What Is a Plant Cell Type in the Age of Single-Cell Biology? It's Complicated.Annual review of cell and developmental biology · 2024Review
- Advances in Single-Cell Transcriptome Sequencing and Spatial Transcriptome Sequencing in Plants.Plants (Basel, Switzerland) · 2024Review
- Current views of drought research: experimental methods, adaptation mechanisms and regulatory strategies.Frontiers in plant science · 2024Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-cell and spatial transcriptomics have diverted researchers' attention from the multicellular level to the single-cell level and spatial information. Single-cell transcriptomes provide insights into the transcriptome at the single-cell level, whereas spatial transcriptomes help preserve spatial information. Although these two omics technologies are helpful and mature, further research is needed to ensure their widespread applicability in plant studies. Reviewing recent research on plant single-cell or spatial transcriptomics, we compared the different experimental methods used in various plants. The limitations and challenges are clear for both single-cell and spatial transcriptomic analyses, such as the lack of applicability, spatial information, or high resolution. Subsequently, we put forth further applications, such as cross-species analysis of roots at the single-cell level and the idea that single-cell transcriptome analysis needs to be combined with other omics analyses to achieve superiority over individual omics analyses. Overall, the results of this review suggest that combining single-cell transcriptomics, spatial transcriptomics, and spatial element distribution can provide a promising research direction, particularly for plant research.
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