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Plant Proteomics

Methods and Protocols

  • Book
  • © 2020

Overview

Editors:
  1. Jesus V. Jorrin-Novo

    1. Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, Cordoba, Spain

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  2. Luis Valledor

    1. Department of Organisms and Systems Biology, Institute of Biotechnology of Asturias, University of Oviedo, Oviedo, Spain

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  3. Mari Angeles Castillejo

    1. Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba UCO-CeiA3, Cordoba, Cordoba, Spain

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  4. Maria-Dolores Rey

    1. Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, Cordoba, Spain

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  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2139)

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Table of contents (29 protocols)

  1. Front Matter

    Pages i-xv
    Download chapter PDF

  2. What Is New in (Plant) Proteomics Methods and Protocols: The 2015–2019 Quinquennium

    • Jesus V. Jorrin-Novo
    Pages 1-10

  3. Multiple Biomolecule Isolation Protocol Compatible with Mass Spectrometry and Other High-Throughput Analyses in Microalgae

    • Francisco Colina, María Carbó, Ana Álvarez, Mónica Meijón, María Jesús Cañal, Luis Valledor
    Pages 11-20

  4. Protein Interaction Networks: Functional and Statistical Approaches

    • Mónica Escandón, Laura Lamelas, Víctor Roces, Víctor M. Guerrero-Sanchez, Mónica Meijón, Luis Valledor
    Pages 21-56

  5. Specific Protein Database Creation from Transcriptomics Data in Nonmodel Species: Holm Oak (Quercus ilex L.)

    • Víctor M. Guerrero-Sanchez, Ana M. Maldonado-Alconada, Rosa Sánchez-Lucas, Maria-Dolores Rey
    Pages 57-68

  6. Subcellular Proteomics in Conifers: Purification of Nuclei and Chloroplast Proteomes

    • Laura Lamelas, Lara García, María Jesús Cañal, Mónica Meijón
    Pages 69-78

  7. Apoplastic Fluid Preparation from Arabidopsis thaliana Leaves Upon Interaction with a Nonadapted Powdery Mildew Pathogen

    • Ryohei Thomas Nakano, Nobuaki Ishihama, Yiming Wang, Junpei Takagi, Tomohiro Uemura, Paul Schulze-Lefert et al.
    Pages 79-88

  8. Shotgun Proteomics of Plant Plasma Membrane and Microdomain Proteins Using Nano-LC-MS/MS

    • Daisuke Takahashi, Bin Li, Takato Nakayama, Yukio Kawamura, Matsuo Uemura
    Pages 89-106

  9. A Protocol for the Plasma Membrane Proteome Analysis of Rice Leaves

    • Ravi Gupta, Yu-Jin Kim, Sun Tae Kim
    Pages 107-115

  10. Isolation, Purity Assessment, and Proteomic Analysis of Endoplasmic Reticulum

    • Xin Wang, Setsuko Komatsu
    Pages 117-131

  11. Dimethyl Labeling-Based Quantitative Proteomics of Recalcitrant Cocoa Pod Tissue

    • Yoel Esteve-Sánchez, Jaime A. Morante-Carriel, Ascensión Martínez-Márquez, Susana Sellés-Marchart, Roque Bru-Martinez
    Pages 133-146

  12. Quantitative Profiling of Protein Abundance and Phosphorylation State in Plant Tissues Using Tandem Mass Tags

    • Gaoyuan Song, Christian Montes, Justin W. Walley
    Pages 147-156

  13. Optimizing Shotgun Proteomics Analysis for a Confident Protein Identification and Quantitation in Orphan Plant Species: The Case of Holm Oak (Quercus ilex)

    • Isabel Gómez-Gálvez, Rosa Sánchez-Lucas, Bonoso San-Eufrasio, Luis Enrique Rodríguez de Francisco, Ana M. Maldonado-Alconada, Carlos Fuentes-Almagro et al.
    Pages 157-168

  14. Combining Targeted and Untargeted Data Acquisition to Enhance Quantitative Plant Proteomics Experiments

    • Gene Hart-Smith
    Pages 169-178

  15. A Phosphoproteomic Analysis Pipeline for Peels of Tropical Fruits

    • Janet Juarez-Escobar, José M. Elizalde-Contreras, Víctor M. Loyola-Vargas, Eliel Ruiz-May
    Pages 179-196

  16. Label-Free Quantitative Phosphoproteomics for Algae

    • Megan M. Ford, Sheldon R. Lawrence II, Emily G. Werth, Evan W. McConnell, Leslie M. Hicks
    Pages 197-211

  17. Targeted Quantification of Phosphopeptides by Parallel Reaction Monitoring (PRM)

    • Sara Christina Stolze, Hirofumi Nakagami
    Pages 213-224

  18. Enrichment of N-Linked Glycopeptides and Their Identification by Complementary Fragmentation Techniques

    • Eduardo Antonio Ramirez-Rodriguez, Joshua L. Heazlewood
    Pages 225-240

  19. High-Resolution Lysine Acetylome Profiling by Offline Fractionation and Immunoprecipitation

    • Jonas Giese, Ines Lassowskat, Iris Finkemeier
    Pages 241-256

  20. A Versatile Workflow for the Identification of Protein–Protein Interactions Using GFP-Trap Beads and Mass Spectrometry-Based Label-Free Quantification

    • Guillaume Née, Priyadarshini Tilak, Iris Finkemeier
    Pages 257-271
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Keywords

About this book

This third edition details recent advances made in the field of proteomics and the application to plant biology and translational research. In recent years, improvements have been made to protocols on high-throughput proteomics at all workflow stages, from wet to dry labs. Chapters are divided into nine parts, covering methods and protocols such as applications of gel-free, label- or label-free, imaging and targeted approaches to experimental model systems, crops and orphan species, study and analysis of PTMs, protein interactions, specific families of proteins, and finally proteomics in translational research. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

 

Authoritative and cutting-edge,Plant Proteomics: Methods and Protocols, Third Edition aims to ensure successful results in the further study of this vital field.


Editors and Affiliations

  • Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, Cordoba, Spain

    Jesus V. Jorrin-Novo, Maria-Dolores Rey

  • Department of Organisms and Systems Biology, Institute of Biotechnology of Asturias, University of Oviedo, Oviedo, Spain

    Luis Valledor

  • Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba UCO-CeiA3, Cordoba, Cordoba, Spain

    Mari Angeles Castillejo

About the editors

  

Bibliographic Information

  • Book Title: Plant Proteomics

  • Book Subtitle: Methods and Protocols

  • Editors: Jesus V. Jorrin-Novo, Luis Valledor, Mari Angeles Castillejo, Maria-Dolores Rey

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-0528-8

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2020

  • Hardcover ISBN: 978-1-0716-0527-1Published: 28 May 2020

  • Softcover ISBN: 978-1-0716-0530-1Published: 29 May 2021

  • eBook ISBN: 978-1-0716-0528-8Published: 27 May 2020

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 3

  • Number of Pages: XV, 417

  • Number of Illustrations: 16 b/w illustrations, 65 illustrations in colour

  • Topics: Plant Sciences, Proteomics

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