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Assaying Proteasomal Degradation in a Cell-free System in Plants

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Published on: March 26, 2014

Deciphering the protein ubiquitylation system in plants.

¹Department of Environmental and Plant Biology, Ohio University, Athens, OH 45701, USA.

Journal of Experimental Botany

|September 9, 2023

Summary

Plant protein ubiquitylation, a key post-translational modification (PTM), remains understudied. This review proposes focusing functional genomic studies on core ubiquitin E3 ligase genes to advance understanding of this vital regulatory system.

Keywords:

Bioinformatics deleterious duplications evolution functional genomics methods protein ubiquitylation proteomics

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Evaluation of Substrate Ubiquitylation by E3 Ubiquitin-ligase in Mammalian Cell Lysates

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Published on: May 10, 2022

Area of Science:

Plant biology
Molecular and Cellular Biology
Genetics

Background:

Protein ubiquitylation is a crucial post-translational modification (PTM) system in plants, with over 5% of the proteome predicted to be involved.
Functional characterization of this extensive system lags behind bioinformatic predictions, limiting our understanding of its regulatory roles.

Purpose of the Study:

To review the current status, challenges, and novel approaches in studying plant protein ubiquitylation.
To provide new perspectives for future functional genomic studies on the plant ubiquitylation system.

Main Methods:

Bioinformatics for defining ubiquitylation machinery.
Proteomics for identifying ubiquitylation substrates.
Functional genomics for characterizing ubiquitin E3 ligase-substrate pathways.

Main Results:

A deleterious duplication model is proposed to explain the expansion of the F-box gene superfamily in plant genomes.
Analysis suggests focusing future studies on core and active ubiquitin E3 ligase gene groups.

Conclusions:

Expanding functional genomics research on core ubiquitin E3 ligase genes is essential for a comprehensive understanding of plant ubiquitylation.
This approach will help elucidate the regulatory significance of ubiquitylation, comparable to transcription and epigenetics.