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Related Experiment Video

Updated: Jan 24, 2026

Isolation and Transcriptome Analysis of Plant Cell Types

Isolation and Transcriptome Analysis of Plant Cell Types

Published on: April 7, 2023

High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types.

Christine N Shulse¹, Benjamin J Cole¹, Doina Ciobanu¹

¹Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA.

|May 16, 2019

Summary

This summary is machine-generated.

This study profiles over 12,000 Arabidopsis root cells using single-cell RNA sequencing. It reveals distinct cell types and gene markers, and shows how sucrose impacts root cell populations and development.

Keywords:

Arabidopsis development endodermis plant root single-cell RNA-seq sucrose transcriptomics

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Isolation and Transcriptome Analysis of Plant Cell Types

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Published on: April 7, 2023

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Transcriptome Analysis of Single Cells

Transcriptome Analysis of Single Cells

Published on: April 25, 2011

Area of Science:

Plant biology
Genomics
Developmental biology

Background:

Single-cell transcriptome profiling offers high-resolution insights into complex biological systems.
Previous applications in plants were limited, hindering detailed analysis of plant development and environmental responses.

Purpose of the Study:

To apply high-throughput single-cell RNA sequencing (scRNA-seq) to Arabidopsis roots.
To identify distinct cell types and marker genes within root tissues.
To investigate the impact of environmental stimuli, like sucrose, on plant cell development.

Main Methods:

Utilized the Drop-seq approach for high-throughput single-cell transcriptome profiling.
Analyzed over 12,000 individual cells from Arabidopsis roots.
Compared transcriptomes of root cells grown with and without sucrose supplementation.

Main Results:

Identified numerous distinct cell types across major root tissues and developmental stages.
Discovered specific marker genes for various cell populations.
Observed changes in cell type frequencies in response to sucrose supplementation.
Characterized dynamic gene expression during endodermis development, identifying nearly 800 genes.

Conclusions:

Single-cell RNA sequencing is a powerful tool for profiling plant developmental processes.
Environmental factors, such as sucrose, can significantly alter plant cell type composition and gene expression.
This approach provides a foundation for understanding plant responses to stimuli at a single-cell level.