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Metabolomics in Fundamental Plant Research

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Metabolomics

Abstract

This chapter overviews the latest developments in plant metabolomics, explicitly focusing on novel gene identifications, plant species identification, plant root metabolome, plant biomarkers, and plant single-cell metabolomics. This chapter explores the importance of identifying novel genes in plants and their role in enhancing crop yield and tolerance to environmental stresses. It also discusses the challenges of identifying plant species and the various techniques used to overcome them, including metabolite quantitative trait loci and genome-wide association studies. Furthermore, this chapter examines the plant root metabolome and its significance in plant growth and development. It highlights the role of metabolomics in plant biology research, particularly in identifying potential biomarkers for monitoring plant health and productivity. This chapter also covers the emerging field of plant single-cell metabolomics and its potential for advancing our understanding of plant metabolism at the cellular level. In addition, this chapter discusses the application of mass spectrometry imaging (MSI) techniques in plant biology research, particularly in visualizing and mapping the distribution of metabolites in plant tissues. It provides an overview of the different MSI techniques and their advantages and limitations in plant biology research. The information presented in this chapter is valuable to researchers and practitioners in plant biology. It can aid in developing new strategies for improving plant health and productivity.

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Abbreviations

[M + H]+:

Protonated ion

1H NMR:

Proton nuclear magnetic resonance

2D-NMR:

Bidimensional nuclear magnetic resonance

CE-MS:

Capillary electrophoresis-mass spectrometry

cmQTL:

Canalization metabolite quantitative trait loci

Da:

Dalton

DART-MS:

Direct analysis in real time-mass spectrometry

DEGs:

Differentially expressed genes

DESI:

Desorption electrospray ionization

FACS:

Fluorescence-activated cell sorting

FT-ICR-MS:

Fourier transform ion cyclotron resonance-mass spectrometry

GC:

Gas chromatography

GC-MS:

Gas chromatography-mass spectrometry

GC-QqQ-MS:

Gas chromatography-triple quadrupole-mass spectrometry

GC-TOF-MS:

Gas chromatography-time-of-flight mass spectrometry

GLC:

Gas-liquid chromatography

HPLC:

High-performance liquid chromatography

LC:

Liquid chromatography

LC-ESI-MS:

Liquid chromatography-electrospray-mass spectrometry

LC-HRMS:

Liquid chromatography-high-resolution mass spectrometry

LCM:

Laser-capture microdissection

LC-MS:

Liquid chromatography-mass spectrometry

LMD:

Laser microdissection

LMPC:

Laser microdissection and pressure catapulting

m/z:

Mass-to-charge ratio

MALDI:

Matrix-assisted laser desorption/ionization

mGWAS:

Metabolite genome-wide association studies

mQTL:

Metabolite quantitative trait loci

MS:

Mass spectrometry

MS/MS:

Tandem mass spectrometry, fragmentation

MSI:

Mass spectrometry imaging

NMR:

Nuclear magnetic resonance

PCA:

Principal component analysis

PCR:

Polymerase chain reaction

PLS-DA:

Partial least squares discriminant analysis

SIMS:

Secondary ion mass spectrometry

SNPs:

Single-nucleotide polymorphisms

UHPLC-MS:

Ultrahigh-pressure liquid chromatography-mass spectrometry

UPLC:

Ultra-performance liquid chromatography

VOC:

Volatile organic compounds

WGCNA:

Correlation and weighted gene coexpression network analysis

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Authors and Affiliations

  1. Metabolomics and Mass Spectrometry Laboratory, Unidad de Genómica Avanzada, Irapuato, Gto, Mexico

    José Juan Ordaz-Ortiz, Anita Arroyo-Silva & Moisés Guerrero-Esperanza

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  1. José Juan Ordaz-Ortiz
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  2. Anita Arroyo-Silva
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  3. Moisés Guerrero-Esperanza
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Correspondence to José Juan Ordaz-Ortiz .

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  1. Division of Infectious Diseases, Weill Department of Medicine, Weill Cornell Medicine, New York, NY, USA

    Vijay Soni

  2. Division of Infectious Diseases, Weill Department of Medicine, Weill Cornell Medicine, New York, NY, USA

    Travis E. Hartman

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Ordaz-Ortiz, J.J., Arroyo-Silva, A., Guerrero-Esperanza, M. (2023). Metabolomics in Fundamental Plant Research. In: Soni, V., Hartman, T.E. (eds) Metabolomics. Springer, Cham. https://doi.org/10.1007/978-3-031-39094-4_12

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