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Isolation and Transcriptome Analysis of Plant Cell Types
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Probing cellular landscapes in plants via single-cell transcriptomics.

Babar Usman1, Naveed Khan1, Yiming Wang2

  • 1Department of Plant Bioscience, Life and Industry Convergence Research Institute, Pusan National University, Miryang, 50463, Republic of Korea.

Plant Science : an International Journal of Experimental Plant Biology
|December 27, 2025
PubMed
Summary
This summary is machine-generated.

Single-cell RNA sequencing (scRNA-seq) reveals plant cellular diversity and stress responses. This technology aids gene discovery and trait improvement by providing high-resolution insights into plant development.

Keywords:
Cell layersGene expressionPlant tissueSingle-cell transcriptome sequencingStress response

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Area of Science:

  • Plant biology
  • Genomics
  • Developmental biology

Background:

  • Single-cell RNA sequencing (scRNA-seq) offers high-resolution insights into plant cellular heterogeneity.
  • Integration of scRNA-seq with functional genomics and spatial technologies in plants is limited, creating knowledge gaps.

Purpose of the Study:

  • To synthesize scRNA-seq applications in diverse plant tissues.
  • To highlight scRNA-seq's role in understanding plant development, stress responses, and gene regulation.
  • To explore spatial transcriptomics and multi-omics approaches in plants.

Main Methods:

  • Comprehensive review of scRNA-seq studies across various plant species and tissues.
  • Analysis of data integrating transcriptomics with chromatin accessibility or protein expression.
  • Evaluation of technical challenges and potential solutions in plant scRNA-seq.

Main Results:

  • scRNA-seq uncovers developmental trajectories, lineage dynamics, and cell-type-specific transcriptional programs.
  • Reveals cell-layer-specific stress responses and aids in tracing specialized metabolite production.
  • Enables precise identification of candidate genes for trait improvement via CRISPR/Cas9 validation.

Conclusions:

  • Single-cell and spatial transcriptomics significantly advance gene discovery and trait improvement in plants.
  • These technologies provide high-resolution insights into plant tissue development and adaptation.
  • Addressing technical challenges will further unlock the potential of these powerful tools in plant science.