ArticleProceedings of the National Academy of Sciences of the United States of America2023
Spatial transcriptomics reveals light-induced chlorenchyma cells involved in promoting shoot regeneration in tomato callus.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers, 1 of them a synthesis that pooled it.
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Who cites it
50 citing papers in PubMed, 1 synthesis or guideline pooled it.
- A systematic review of single-cell RNA sequencing applications and insights in Oryza sativa response to environmental stresses.Molecular biology reports · 2025Pooled it
- Unlocking the full potential of spatial omics in plants: practical challenges, solutions, and a path forward.The Plant cell · 2026Review
- Extremely low light promotes adventitious shoot regeneration via RpPHYA/RpHYH-antagonized auxin biosynthesis and transport through dual regulation ofHorticulture research · 2026Article
- Advances in single-cell and spatial multi-omics for plant development and stress responses.Plant diversity · 2026Review
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- CmDREBa regulates the perennial growth habit of chrysanthemum in response to prolonged chilling.Nature communications · 2026Article
- The potential of wheat spatial omics.Nature genetics · 2026Review
- Integrated Single-Cell and Spatial Transcriptomics Reveal Cell-Type-Specific Immune Regulatory Networks in Maize Responding to Southern Corn Rust.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Research progress of omics technologies in forage breeding.Fundamental research · 2026Review
- Single-cell and spatial transcriptomics in Phragmites australis reveal the association of B chromosomes with plant invasiveness.Genome biology · 2026Article
- Single-Cell Transcriptomic Atlases of Camels and Cattle Unravel Molecular Evolution of Digestive and Metabolic Systems.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Spatial transcriptome analysis of the tea tender shoot sheds light on transcriptional regulation of characteristic metabolites.Horticulture research · 2026Article
- Cytokinin-supplemented medium drivesFrontiers in plant science · 2026Article
- Seed function in space and time: how spatial transcriptomics completes the picture.Frontiers in plant science · 2026Review
- Single-nucleus and spatial transcriptomics reveal the cell populations of intercalary meristems in bamboo.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Spatial Transcriptomics of Developing Wheat Seed Reveals Concentric Gene Expression Zones and Subgenome Biased Expression of Key Genes.Plant biotechnology journal · 2025Article
- Woody Plant Transformation: Current Status, Challenges, and Future Perspectives.Plants (Basel, Switzerland) · 2025Review
- Single-cell views of fate reprogramming in de novo organogenesis.Journal of plant research · 2025Review
- Advances in CrRLK1L function in plant cell wall signaling during interaction with the environment and development.Stress biology · 2025Review
- Next-generation translational genomics for developing future crops.Functional & integrative genomics · 2025Review
Corrections and comments
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Authors and funding
17 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Callus is a reprogrammed cell mass involved in plant regeneration and gene transformation in crop engineering. Pluripotent callus cells develop into fertile shoots through shoot regeneration. The molecular basis of the shoot regeneration process in crop callus remains largely elusive. This study pioneers the exploration of the spatial transcriptome of tomato callus during shoot regeneration. The findings reveal the presence of highly heterogeneous cell populations within the callus, including epidermis, vascular tissue, shoot primordia, inner callus, and outgrowth shoots. By characterizing the spatially resolved molecular features of shoot primordia and surrounding cells, specific factors essential for shoot primordia formation are identified. Notably, chlorenchyma cells, enriched in photosynthesis-related processes, play a crucial role in promoting shoot primordia formation and subsequent shoot regeneration. Light is shown to promote shoot regeneration by inducing chlorenchyma cell development and coordinating sugar signaling. These findings significantly advance our understanding of the cellular and molecular aspects of shoot regeneration in tomato callus and demonstrate the immense potential of spatial transcriptomics in plant biology.
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