Metabolomics: Methods and Protocols

ISBN-13: 9781493994878 / Angielski / Twarda / 2019 / 335 str.

Sanjoy K. Bhattacharya

Spis treści

Preface…

Table of Contents…

Contributing Authors…

1. Collection of Untargeted Metabolomic Data for Mammalian Urine Applying HILIC and Reversed Phase Ultra Performance Liquid Chromatography Methods Coupled to a Q Exactive Mass Spectrometer

Lukáš Najdekr, Giovanny Rodriguez Blanco, and Warwick B. Dunn

2. Isotopic Ratio Outlier Analysis (IROA) for Quantitative Analysis

Chris Beecher and Felice de Jong

3. Nuclear Magnetic Resonance Measurement of Metabolic Flux Using 13C and 1H Signals

Mukundan Ragavan and Matthew E. Merritt

4. Quantitative Metabolomics using Isotope Residue Outlier Analysis (IROA®) with Internal Standards

Roberto Mendez, Maria del Carmen Piqueras, Alexander Raskind, Felice de Jong, Chris Beecher, Sanjoy Bhattacharya, and Santanu Banerjee 

5. Analyses of Cholesterol Metabolites of Optic Nerve using GC-MS Methods

Gurkaran S. Sarohia, Erik D. Garza, and Sanjoy K. Bhattacharya

6. Analyses of Cholesterol and Derivatives in Ocular Tissues using LC-MS/MS Methods

Maria Piqueras, Despoina Theotoka, Gurkaran Sarohia, and Sanjoy K. Bhattacharya

7. Measurement of Pyridine Nucleotides in Biological Samples using LC-MS/MS

Chris Petucci, Jeffrey A. Culver, Nidhi Kapoor, Hampton Sessions, Daniela Divlianska, and Stephen J. Gardell

8. Handling and Analysis of 5-Formyl-, 5,10-Methenyl-, 10-Formyl-, 5-Formimno-, and 5,10-Methylenetetrahydrofolates

Anita H. Lewin and Peter Silinski

9. Protein-Lipid Complex Separation Utilizing a Capillary Electrophoresis System 

Anddre Osmar Valdivia, Ciara Myer, Maria Fernanda Suarez, and Sanjoy K. Bhattacharya

10. Immature and Mature Collagen Crosslinks Quantification using High Performance Liquid Chromatography and High Resolution Mass Spectrometry in OrbitrapTM

Diana R. Hernandez, Maria del Carmen Piqueras, Alejandro E. Macias, Laisel Martinez, Roberto Vazquez-Padron, and Sanjoy K. Bhattacharya

11. Relative Quantitation of Neurotoxic Metabolites of the Kynurenine Pathway by Laser Desorption Ionization Mass Spectrometry (LDI-MS)

Pallavi Lahiri, Deepika Dhaware, Ajeet Singh, Venkat Panchagnula, and Dipankar Ghosh

12. Analysis of Microbial Siderophores by Mass Spectrometry 

Tomas Pluhacek, Anton Skriba, Jiri Novak, Dominika Luptakova, and Vladimir Havlicek

13. HSD18B7 Enzyme Assay Technique using a Triple Quadrupole Mass Spectrometer

Carina Wu, Nhuong-Sao Ton, Maria Fernanda Suarez, Maria Piqueras Soria, and Sanjoy K. Bhattacharya

14. Assays for Intracellular Cyclic Adenosine Monophosphate (cAMP) and Lysosomal Acidification

Chiranjit Maity, Dipankar Ghosh, and Sonia Guha

15. Isotopic Ratio Outlier Analysis (IROA) of Aqueous Humor for Metabolites

Maria Piqueras, Ciara Myer, Anna Junk, and Sanjoy K. Bhattacharya

16. Assessment of Transport of Lipid Metabolites within Trabecular Meshwork Cells

Daphne Toglia, Stephanie Dancausse, Karthik Kalahasty, Bryan Alfonso, and Sanjoy K. Bhattacharya

17. Detection and Quantification of Lipid Droplets in Differentiated Human Podocytes

Shamroop Kumar Mallela, Devang Maheshkumar Patel, Gloria Michelle Ducasa, Sandra Merscher, Alessia Fornoni, Hassan Al-Ali

18. Labeling Cancer Stem Cells with 13C6 Glucose and 13C5 Glutamine for Metabolic Flux Analysis

Kousik Kesh and Sulagna Banerjee

19. Protocols for Metabolomic Analyses from Tissues in Parkinson’s Disease

Jade Woods, Shulei Lei, Jordan Rose,  Darrell D. Marshall, Fatema Bhinderwala, Eli Riekeberg, Aline De Lima Leite, Martha Morton, Eric D. Dodds, Rodrigo Franco, and Robert Powers

20. Application of Stable Isotope Labels for Metabolomics in Studies in Fatty Liver Disease

Patrycja Puchalska and Peter A. Crawford

21. Proteometabolomics of Melphalan Resistance in Multiple Myeloma

David C. Koomen, Joy D. Guingab-Cagmat, Paula S. Oliveira, Bin Fang, Min Liu, Eric A. Welsh, Mark B. Meads, Tuan Nguyen, Laurel Meke, Steven A. Eschrich, Kenneth H. Shain, Timothy J. Garrett, and John M. Koomen

22. Metabolomic Analyses of Muscle Atrophy Induced by Hindlimb Unloading

Stephen J. Gardell, Xiaolei Zhang, Nidhi Kapoor, Christopher Petucci, and Paul M. Coen

23. Protocols for NMR Analysis in Livestock Metabolomics

Aidin Foroutan, Seyed Ali Goldansaz, Matthias Lipfert, and David S. Wishart

24. Metabolomics Applicable to Retinal Vascular Diseases

Satish Patnaik, Subhadra Jalali, Manjunath B. Joshi, Kapaettu Satyamoorthy, Inderjeet Kaur

Blurb

The volume brings together some of the best experts in the field of modern metabolomics to discuss various techniques used today to study specific metabolite classes, and metabolomics in bacterial systems and mammalian systems. The chapters in this book cover topics such as Isotopic Ratio Outlier Analysis (IROA) for quantitative analysis; cholesterol and derivatives in ocular tissues using LC-MS/MS methods; microbial siderophores analysis by mass spectrometry; the metabolomic study of tissues in Parkinson’s Disease; and NMR analysis in livestock metabolomics. Written in the highly successful Methods in Molecular Biology series format, the chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step readily reproducible laboratory protocols, tips on troubleshooting and avoiding pitfalls.

Cutting-edge and thorough, Metabolomics: Methods and Protocols is an essential resource for any researcher interested in this exciting and evolving field.