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Related Experiment Video

Updated: Jul 11, 2025

Experimental Design for Laser Microdissection RNA-Seq: Lessons from an Analysis of Maize Leaf Development

Experimental Design for Laser Microdissection RNA-Seq: Lessons from an Analysis of Maize Leaf Development

Published on: March 5, 2017

Dynamic transcriptome landscape of maize pericarp development.

Jihong Zhang¹, Yang Yue¹, Mingjian Hu¹

¹State Key Laboratory of Plant Physiology and Biochemistry & National Maize Improvement Center, Department of Plant Genetics and Breeding, China Agricultural University, Beijing, 100193, P. R. China.

The Plant Journal : for Cell and Molecular Biology

|November 16, 2023

Summary

This summary is machine-generated.

This study maps maize pericarp development using RNA-seq, revealing gene expression patterns and identifying key regulators for seed coat development. It uncovers pericarp-specific genes and pathways involved in programmed cell death.

Keywords:

RNA-seq cell wall coexpression gene regulatory network maize (Zea mays)pericarp development pericarp-specific programmed cell death

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Published on: July 23, 2014

Area of Science:

Plant Biology
Genomics
Developmental Biology

Background:

The maize pericarp is a vital maternal tissue supporting seed components like the embryo and endosperm.
Comprehensive understanding of maize pericarp development at the genome-wide transcriptome level is lacking.

Purpose of the Study:

To create a genome-wide transcriptome atlas of maize pericarp development.
To identify key genes, transcription factors, and regulatory networks governing pericarp development.
To elucidate the molecular mechanisms underlying programmed cell death in the maize pericarp.

Main Methods:

RNA-sequencing (RNA-seq) was performed on 21 maize pericarp samples from 5 days before fertilization (DBP5) to 32 days after fertilization (DAP32).
Gene expression data was analyzed using global clustering and coexpression analysis.
Comparative transcriptome analysis with non-seed, embryo, endosperm, and nucellus data was conducted.

Main Results:

A transcriptome atlas of 25,346 detected genes, including 1887 transcription factors (TFs), was established for maize pericarp development.
Four developmental stages (undeveloped, thickening, expansion, strengthening) were identified based on gene expression patterns and morphological changes.
598 pericarp-specific genes, including 75 TFs, were identified, along with crucial cell wall-related genes and potential regulators of programmed cell death (PCD) involving VPE, JA, and ethylene pathways.

Conclusions:

The developed transcriptome atlas provides a valuable resource for studying maize pericarp development.
Key regulators and pericarp-specific genes involved in development and PCD have been identified.
This study offers insights into the genetic control and molecular mechanisms of maize pericarp development.