Prince:BYU Lipidomics Team

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Contents

Basic Protocol

  • Get sample from almost any source
  • Extraction (both methods use Folch reagent [2:1 chloroform:methanol])
    • use Kaluzne method
    • trying to implement Bligh & Dyer (gold standard)
    • MTBE Extraction [1]
  • Mass Spectrometry
    • ESI-Agilent TOF
    • Tandem MS-Q-Star (8-10am)
  • Analysis
    • Matlab (particular toolbox?) PCA analysis

Main analytes are phosphatidylcholine and phosphatidylethanolamine. Analytes in (-) mode would be phosphatidylserines and phosphatidylethanolamines (which are expected to have stronger signal in - mode). Typical number of analytes?

FAME-GC associated with Craig Thulin and UVU.

Literature

Background

Lipidomics and lipid profiling in metabolomics. [2]

Lipidomics: coming to grips with lipid diversity, Nature Reviews Molecular Cell Biology, 11, 593–598 (1 August 2010).

Membrane lipid composition. [3]

Mass Spectrometry

Practical essentials of ESI.* [4]

Solid tutorial review on mass spec "-omics."* [5]

General approaches to lipidomics. [6]

Recent advances (2011) in MS lipidomics. [7]

Specific lipid classes and MS. [8]

Basics of ESI and ESI intrasource separation shotgun lipidomics.** [9]

Factors influencing ESI intrasource separation. [10]

  • Sample preparation for intrasource separation.** [11] [12]

Multiple precursor ion and neutral loss scanning with data-dependent acquisition. [13]

Top-down lipidomic strategy.** [14]

Top-down lipidomic analysis of blood plasma.* [15]

Quantitative shotgun yeast lipidomics. [16] [17]

Quantitative shotgun membrane lipidomics, including glycosphingolipids. [18]

LTQ Orbitrap shotgun lipidomics. [19]

Tandem Mass Spectrometry

Membrane lipids and tandem MS. [20]

Phospholipids and tandem MS. [21] [22]

Sphingolipids and tandem MS. [23]

Bioinformatics

Informatics and computational strategies for the study of lipids. [24]

Computational lipidomics. [25]

Chemometrics for Metabonomics. [26] [27]

LipidXplorer: open-source lipid identification and quantification software. [28]

  • LipidXplorer wiki. [29]

PCA package. [30]

K-OPLS package. [31]

S-plot. [32]

Special Journal Issues on Lipidomics

Journal of Chromatography B, Volume 877, Issue 26. [33]

Prostaglandins and Other Lipid Mediators, Volume 77. [34]

European Journal of Lipid Science and Technology, Volume 111, Issue 1. [35]

Frontiers in Bioscience, Volume 12, January 2007.

Methods in Enzymology, Volume 432, 2007.

Signalling Lipids and Lipidomics

Sphingolipid signalling. [36]

Lipid mediators in health and disease. [37]

Lipid mediators for inflammation resolution. [38]

Eicosanoid lipidomics. [39]

Bioactive lipidomics. [40]

Lipid mediator informatics-lipidomics. [41]

Mediator lipidomics. [42]

LC/MS Lipidomics

HPLC/MS of complex lipidomes. [43]

UPLC/MS of complex lipidomes. [44]

Group Members

Current

  • Mary Blackburn
  • Mackay Merrill
  • Dean Flanders
  • Landon Weist
  • Rob Roden
  • Greg Jackson
  • Daniel Edmondson
  • Matthew Linford
  • Craig Thulin
  • Steven Wood
  • John Prince

Former or Associated

  • Jennifer MacDonald
  • Jonathan Lee
  • Vinod Chaudhary
  • Steven Herron

Relevant Publications

Error fetching PMID 19935646:
  1. Error fetching PMID 19935646: [P1]
    This has a great protocol for negative ion mode extraction and analysis on the Orbitrap.

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