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Updated: Apr 16, 2026

Isolation and Transcriptome Analysis of Plant Cell Types

Isolation and Transcriptome Analysis of Plant Cell Types

Published on: April 7, 2023

Epigenome profiling of specific plant cell types using a streamlined INTACT protocol and ChIP-seq.

Dongxue Wang¹, Roger B Deal

¹Department of Biology, O. Wayne Rollins Research Center, Emory University, 1510 Clifton Road NE, Atlanta, GA, 30322, USA.

Methods in Molecular Biology (Clifton, N.J.)

|March 12, 2015

Summary

This study presents a simplified INTACT method for isolating specific plant cell nuclei. This enables high-quality, cell type-specific epigenome mapping using low-input ChIP-seq, advancing plant biology research.

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Area of Science:

Plant molecular biology
Epigenetics
Cell biology

Background:

Plants possess diverse cell types, each with unique molecular profiles (epigenome, transcriptome, proteome).
Understanding cell-specific properties is crucial for deciphering cell fate and environmental responses.
Existing methods for cell type-specific epigenome analysis can be complex and time-consuming.

Purpose of the Study:

To describe a streamlined approach for mapping chromatin features in specific plant cell types.
To enable high-quality, cell type-specific epigenome profiling in Arabidopsis thaliana.
To provide a cost-effective and adaptable protocol for plant epigenomic studies.

Main Methods:

Utilized the Isolation of Nuclei Tagged in Specific cell types (INTACT) method for nuclei purification.

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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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TChIP-Seq: Cell-Type-Specific Epigenome Profiling

TChIP-Seq: Cell-Type-Specific Epigenome Profiling

Published on: January 23, 2019

Employed transgenes expressing a nuclear tagging fusion protein (NTF) and biotin ligase (BirA) for selective biotinylation of nuclei.

Purified tagged nuclei using streptavidin-coated magnetic beads, followed by low-input ChIP-seq library preparation and Illumina sequencing.

Main Results:

Successfully purified specific cell type nuclei from Arabidopsis thaliana using a simplified INTACT protocol.
Generated high-quality, cell type-specific epigenome profiles via low-input ChIP-seq.
Demonstrated a cost-effective and efficient method for plant epigenomic characterization.

Conclusions:

The simplified INTACT method coupled with low-input ChIP-seq provides a powerful tool for plant cell type-specific epigenome analysis.
This approach facilitates a deeper understanding of cell fate and environmental responses in plants.
The protocol is optimized for Arabidopsis but adaptable to other plant species.