Plant Metabolomics, 1st ed. 2018 Methods and Protocols Methods in Molecular Biology Series, Vol. 1778

Part I: Review Chapters

1. The Importance of Experimental Design, Quality Assurance, and Control in Plant Metabolomics Experiments

            Marina C.M. Martins, Camila Caldana, Lucia Daniela Wolf, and Luis Guilherme Furlan de Abreu

2. Standard Key Steps in Mass Spectrometry-Based Plant Metabolomics Experiments: Instrument Performance and Analytical Method Validation

            Ana Margarida Rodrigues and Carla António

3. Guidelines for Sample Normalization to Minimize Batch Variation for Large-Scale Metabolic Profiling of Plant Natural Genetic Variance

            Saleh Alseekh, Si Wu, Yariv Brotman, and Alisdair R. Fernie

4. Gas Chromatography-Mass Spectrometry-Based ¹³C-Labeling Studies in Plant Metabolomics

            Valéria F. Lima, Leonardo P. Souza, Thomas C.R. Williams, Alisdair R. Fernie, and Danilo M. Daloso

5. Carbon Atomic Survey for Identification of Selected Metabolic Fluxes

            Leonardo Perez de Souza, Alisdair R. Fernie, and Takayuki Tohge

Part II: Mass Spectrometry-Based Methodology Chapters

6. Quantification of Low-Abundant Phosphorylated Carbohydrates Using HILIC-QqQ-MS/MS

            Tiago F. Jorge and Carla António

7. Quantification of Soluble Sugars and Sugar Alcohols by LC-MS/MS

            Regina Feil and John Edward Lunn

8. Untargeted Analysis of Semi-Polar Compounds by LC-MS and Targeted Analysis of Fatty Acids by GC-MS/GC-FID: From Plant Cultivation to Extract Preparation

            Camille Bénard, Sébastien Acket, Yannick Rossez, Olivier Fernandez, Thierry Berton, Yves Gibon, and Cécile Cabasson

9. Extraction of Plant Lipids for LC-MS-Based Untargeted Plant Lipidomics

            Thusitha W.T. Rupasinghe and Ute Roessner

10. Semi-Targeted Lipidomics of Plant Acyl Lipids Using UPLC-HR-MS in Combination with a Data-Independent Acquisition Mode

            Mohamed A. Salem and Patrick Giavalisco

11. Plant Lipidomics Using UPLC-QTOF-MS

            Yozo Okazaki and Kazuki Saito

12. Targeted LC-MS Analysis for Plant Secondary Metabolites

13. An UHPLC–MS/MS Method for Target Profiling of Stress-Related Phytohormones

            Ondřej Novák and Kristýna Floková

14. A Complete Pipeline for Generating a High-Resolution LC-MS-Based Reference Mass Spectra Library

            Nir Shahaf, Asaph Aharoni, and Ilana Rogachev

15. Quantification of Sugars and Organic Acids in Biological Matrices Using GC-QqQ-MS

            Nirupama Samanmalie Jayasinghe, Himasha Mendis, Ute Roessner, and Daniel Anthony Dias

16. Acquisition of Volatile Compounds by Gas Chromatography-Mass Spectrometry (GC-MS)

            José G. Vallarino, Alexander Erban, Ines Fehrle, Alisdair R. Fernie, Joachim Kopka, and Sonia Osorio

17. Mass Spectrometry Imaging (MSI) for Plant Metabolomics

18. Laser Ablation Electrospray Ionization-Mass Spectrometry Imaging (LAESI-MS) for Spatially Resolved Plant Metabolomics

            Desalegn Etalo, Carmen Díez-Simón, Ric C.H. de Vos, and Robert D. Hall

19. Live Single-Cell Mass Spectrometry (LSC-MS) for Plant Metabolomics

            Keiko Masuda, Yasmine Abouleila, Ahmed Ali, Toshio Yanagida, and Tsutomu Masujima

Part III: Data Analysis & Statistics Chapters

20. Statistical and Multivariate Analysis of MS-Based Plant Metabolomics Data

            Carsten Jaeger and Jan Lisec

21. Integration of Plant Metabolomics Data into Metabolic Networks: Progresses and Challenges

            Nadine Töpfer, Samuel M.D. Seaver, and Asaph Aharoni

22. Understanding the Functionality of a Biological System as a Whole: Comparative Data Analysis

            Isabel Orf

23. Regression-Based Modeling of Complex Plant Traits Based on Metabolomics Data

            Francisco de Abreu e Lima, Lydia Leifels, and Zoran Nikoloski

24. Mathematical Modeling Approaches in Plant Metabolomics

            Lisa Fürtauer, Jakob Weiszmann, Wolfram Weckwerth, and Thomas Nägele

Includes cutting-edge methods and protocols for the study of plant metabolomics

Provides step-by-step detail essential for reproducible results

Contains key notes and implementation advice from the experts