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Shotgun proteomics as a powerful tool for the study of the proteomes of plants, their pathogens, and plant-pathogen interactions


Balotf, S and Wilson, RR and Tegg, RS and Nichols, DS and Wilson, CR, Shotgun proteomics as a powerful tool for the study of the proteomes of plants, their pathogens, and plant-pathogen interactions, Proteomes, 10, (1) Article 5. ISSN 2227-7382 (2022) [Refereed Article]

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Copyright: © 2022 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons 4.0 International (CC BY 4.0) license (

DOI: doi:10.3390/proteomes10010005


The interaction between plants and pathogenic microorganisms is a multifaceted process mediated by both plant- and pathogen-derived molecules, including proteins, metabolites, and lipids. Large-scale proteome analysis can quantify the dynamics of proteins, biological pathways, and posttranslational modifications (PTMs) involved in the plant–pathogen interaction. Mass spectrometry (MS)-based proteomics has become the preferred method for characterizing proteins at the proteome and sub-proteome (e.g., the phosphoproteome) levels. MS-based proteomics can reveal changes in the quantitative state of a proteome and provide a foundation for understanding the mechanisms involved in plant–pathogen interactions. This review is intended as a primer for biologists that may be unfamiliar with the diverse range of methodology for MS-based shotgun proteomics, with a focus on techniques that have been used to investigate plant–pathogen interactions. We provide a summary of the essential steps required for shotgun proteomic studies of plants, pathogens and plant–pathogen interactions, including methods for protein digestion, identification, separation, and quantification. Finally, we discuss how protein PTMs may directly participate in the interaction between a pathogen and its host plant.

Item Details

Item Type:Refereed Article
Keywords:mass spectrometry, shotgun proteomics, plant-pathogen interaction, post-translational modification
Research Division:Agricultural, Veterinary and Food Sciences
Research Group:Crop and pasture production
Research Field:Crop and pasture protection (incl. pests, diseases and weeds)
Objective Division:Plant Production and Plant Primary Products
Objective Group:Horticultural crops
Objective Field:Field grown vegetable crops
UTAS Author:Balotf, S (Mr Sadegh Balotf)
UTAS Author:Wilson, RR (Dr Richard Wilson)
UTAS Author:Tegg, RS (Dr Robert Tegg)
UTAS Author:Nichols, DS (Dr David Nichols)
UTAS Author:Wilson, CR (Professor Calum Wilson)
ID Code:148673
Year Published:2022
Funding Support:Australian Research Council (DP180103337)
Web of Science® Times Cited:5
Deposited By:TIA - Research Institute
Deposited On:2022-02-01
Last Modified:2022-03-01
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