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Isolation and Transcriptome Analysis of Plant Cell Types
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Cell Fate Determination of the Potato Shoot Apex and Stolon Tips Revealed by Single-Cell Transcriptome Analysis
Chaocheng Guo1, Zhuoran Huang1, Siyu Luo1
1Shanghai Collaborative Innovation Center of Agri-Seeds, Joint Center for Single Cell Biology, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, China.
Plant, Cell & Environment
|March 17, 2025
Summary
This study reveals distinct gene expression patterns in potato shoot and stolon cells using single-cell RNA sequencing. It identifies key transcription factors crucial for potato stolon development and tuber formation.
Area of Science:
- Plant Molecular Biology
- Genomics
- Crop Science
Background:
- Potato (Solanum tuberosum L.) exhibits distinct meristematic stem types: vertically growing shoots and horizontally growing stolons that form tubers.
- Understanding the transcriptional differences between these stem types is crucial for crop improvement.
Purpose of the Study:
- To elucidate the transcriptional landscape of potato shoot apex and stolon tip cells.
- To identify key genes and transcription factors regulating potato shoot and stolon development.
Main Methods:
- Single-cell RNA sequencing (scRNA-seq) of potato shoot apex and stolon tip.
- Identification and clustering of distinct cell populations.
- Analysis of gene expression patterns, hormone pathways, and transcription factor co-expression networks.
- Comparative transcriptomic analysis with Arabidopsis.
Main Results:
- 23 distinct cell clusters with high heterogeneity were identified, revealing cell-specific gene expression.
- Distinct expression patterns of hormone-related genes (auxin, gibberellin) were observed between shoot and stolon cells.
- Key transcription factors co-expressed with StPOTH15 (a SHOOT MERISTEMLESS homolog) were identified, implicating them in stolon development.
- Developmental trajectories for vascular tissues (xylem, phloem) were constructed.
Conclusions:
- Significant transcriptional divergence exists between potato shoot and stolon cell types.
- Identified key transcription factors provide targets for future research into stolon development and tuberization.
- Comparative genomics highlights species-specific regulatory mechanisms in plant development.
