High-Throughput Metabolomics: Methods and Protocols

ISBN-13: 9781493992355 / Angielski / Twarda / 2019 / 459 str.

Angelo D'Alessandro

Spis treści

Part I: Methods

 

1. Sample Preparation and Reporting Standards for Metabolomics of Adherent Mammalian Cells

            Sarah Hayton, Robert D. Trengove, and Garth L. Maker

 

2. High-Throughput Metabolomics: Isocratic and Gradient Mass Spectrometry-Based Methods

            Travis Nemkov, Julie A. Reisz, Sarah Gehrke, Kirk C. Hansen, and Angelo D’Alessandro

 

3. High-Throughput Metabolomics Based on Direct Mass Spectrometry Analysis in Biomedical Research

            Raúl González-Domínguez, Álvaro González-Domínguez, Carmen Segundo, Mónica Schwarz, Ana Sayago, Rosa María Mateos, Enrique Durán-Guerrero, Alfonso María Lechuga-Sancho, and Ángeles Fernández-Recamales

 

4. Traveling Wave Ion Mobility Mass Spectrometry: Metabolomics Applications

            Giuseppe Paglia and Giuseppe Astarita

 

5. CE-MS for Metabolomics: A Comparison with Other Techniques

            Joanna Godzien, Antonia Garcia, Angeles López-Gonzalvez, and Coral Barbas

 

Part II: Lipidomics

 

6. Overview of Lipid Mass Spectrometry and Lipidomics

            Simona Zarini, Robert M. Barkley, Miguel A. Gijón, and Robert C. Murphy

 

7. LC-MS/MS-MRM-Based Targeted Metabolomics for Quantitative Analysis of Polyunsaturated Fatty Acids and Oxylipins

            Xiaoyun Fu, Mikayla Anderson, Yi Wang, and James C. Zimring

 

8. Untargeted and Semi-Targeted Lipid Analysis of Biological Samples Using Mass Spectrometry-Based Metabolomics

            Julie A. Reisz, Connie Zheng, Angelo D’Alessandro, and Travis Nemkov

 

9. HPLC-MS/MS Methods for Diacylglycerol and Sphingolipid Molecular Species in Skeletal Muscle

            Kathleen A. Harrison and Bryan C. Bergman

 

Part III: Metabolomics of Animal and Plant Models

 

10. Quantification of D- and L-2-Hydroxyglutarate in Drosophila melanogaster Tissue Samples Using Gas Chromatography-Mass Spectrometry

            Hongde Li and Jason M. Tennessen

 

11. Comprehensive LC-MS-Based Metabolite Fingerprinting Approach for Plant and Fungal-Derived Samples

            Kirstin Feussner and Ivo Feussner

 

12. Untargeted Metabolomics of Plant Leaf Tissues

            Federica Gevi, Giuseppina Fanelli, Lello Zolla, and Sara Rinalducci

 

Part IV: Tracing Experiments and Metabolic Flux Analysis

 

13. Analysis of Arginine Metabolism Using LC-MS and Isotopic Labeling

            Gretchen L. Seim, Emily C. Britt, and Jing Fan

 

14. Quantifying Intermediary Metabolism and Lipogenesis in Cultured Mammalian Cells Using Stable Isotope Tracing and Mass Spectrometry

            Thekla Cordes and Christian M. Metallo

 

15. Insights into Dynamic Network States Using Metabolomic Data

            Reihaneh Mostolizadeh, Andreas Dräger, and Neema Jamshidi

 

16. Analysis of Endothelial Fatty Acid Metabolism Using Tracer Metabolomics

            Joanna Kalucka, Bart Ghesquière, Sarah-Maria Fendt, and Peter Carmeliet

 

17. Using Stable Isotope Tracers for Metabolic Pathway Analysis

            Sara Violante, Tiffany H. Thomas, and Justin R. Cross

 

Part V: Data Processing in Metabolomics

 

18. Data Processing for GC-MS and LC-MS-Based Untargeted Metabolomics

            Linxing Yao, Amy M. Sheflin, Corey D. Broeckling, and Jessica E. Prenni

 

19. El-MAVEN: A Fast, Robust, and User-Friendly Mass Spectrometry Data Processing Engine for Metabolomics

            Shubhra Agrawal, Sahil Kumar, Raghav Sehgal, Sabu George, Rishabh Gupta, Surbhi Poddar, Abhishek Jha, and Swetabh Pathak

 

20. Pre-Analytic Considerations for Mass Spectrometry-Based Untargeted Metabolomics Data

            Dominik Reinhold, Harrison Pielke-Lombardo, Sean Jacobson, Debashis Ghosh, and Katerina Kechris

 

Part VI: Metabolic Measurements with Techniques Orthogonal to Mass Spectrometry

 

21. Temporal Metabolite, Ion, and Enzyme Activity Profiling Using Fluorescence Microscopy and Genetically-Encoded Biosensors

            Douglas A. Chapnick, Eric Bunker, Xuedong Liu, and William M. Old

 

22. Microplate Assays for Spectrophotometric Measurement of Mitochondrial Enzyme Activity

            Rachel C. Janssen and Kristen E. Boyle

 

23. Quantitative NMR-Based Metabolomics on Tissue Biomarkers and Its Translation into In Vivo Magnetic Resonance Spectroscopy

            Natalie J. Serkova, Denise M. Davis, Jenna Steiner, and Rajesh Agarwal

 

Part VII: Towards Personalized Metabolomics

 

24. Metabolomic Applications in Radiation Biodosimetry

            Evagelia C. Laiakis

 

25. Metabolomics Analyses to Investigate the Role of Diet and Physical Training

            Pol Herrero, Miguel Ángel Rodriguez, Mª Rosa Ras, Antoni del Pino, Lluís Arola, and Núria Canela

 

26. Blood Biomarkers in Sports Medicine and Performance and the Future of Metabolomics

            Iñigo San Millán

 

27. Personalized Metabolomics

            David P. Marciano and Michael P. Snyder

Blurb

This detailed volume focuses on recent technological, computational, and biostatistical advances in the field of high-throughput metabolomics. Chapters encompass methods, platforms, and analytical strategies for steady state measurements and metabolic flux analysis with stable isotope-labeled tracers, in biological matrices of clinical relevance and model organisms. Mass spectrometry-based or orthogonal methods are discussed, along with computational and statistical methods to address data sparsity in high-throughput metabolomics approaches. As a part of the highly successful Methods in Molecular Biology series, 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 practical, High-Throughput Metabolomics: Methods and Protocols provides tools that can bring about the next generation of clinical biochemistry in a cost-effective, rigorous fashion, exponentially advancing our capacity to investigate nature while hastening the advent of personalized medicine.