The Lipid Library

Lipid Analysis Literature - Lipidomics

Lipidomics can perhaps best be defined as the analysis of lipids on the systems-level scale together with their interacting factors. The earliest use of the term that I can find was in 2001. As a general discipline, it could be argued that this is not new. What is novel, however, is mass spectrometry methodology that is facilitating comprehensive analyses of complex biological systems. This literature survey is confined to these newer approaches as applied to analysis of complex mixtures of lipid classes (as opposed to molecular species of a single lipid class), on the arbitrary basis of using 'lipidomics' or 'metabolomics' as key words in the title or abstract.

The following references were collected as part of our regular literature reviews for our own research purposes, and therefore reflect our personal research interests. We cannot claim to cover the subject exhaustively, but we do our best. References are listed alphabetically by the first author. Many more relevant references will be found in our separate surveys of advanced mass spectrometric techniques.

• Adibhatla,R.M., Hatcher,J.F. and Dempsey,R.J. Lipids and lipidomics in brain injury and diseases. AAPS J., 8, E314-E321 (2006).
• Albert,C.J., Anbukumar,D.S., Monda,J.K., Eckelkamp,J.T. and Ford,D.A. Myocardial lipidomics. Developments in myocardial nuclear lipidomics. Frontiers Biosci., 12, 2750-2760 (2007).
• Bartz,R., Li,W.-H., Venables,B., Zehmer,J.K., Roth,M.R., Welti,R., Anderson,R.G.W., Liu,P. and Chapman,K.D. Lipidomics reveals that adiposomes store ether lipids and mediate phospholipid traffic. J. Lipid Res., 48, 837-847 (2007).
• Bayir,H., Tyurin,V.A., Tyurina,YY., Viner,R., Ritov,V., Amoscato,A.A., Zhao,Q., Zhang,X.J., Janesko-Feldman,K.L., Alexander,H., Basova,L.V., Clark,R.S.B., Kochanek,P.M. and Kagan,V.E. Selective early cardiolipin peroxidation after traumatic brain injury: An oxidative lipidomics analysis. Ann. Neurol., 62, 154-169 (2007).
• Bielawski,J., Szulc,Z.M., Hannun,Y.A. and Bielawska,A. Simultaneous quantitative analysis of bioactive sphingolipids by high-performance liquid chromatography-tandem mass spectrometry. Methods, 39, 82-91 (2006).
• Binder,M., Liebisch,G., Langmann,T. and Schmitz,G. Metabolic profiling of glycerophospholipid synthesis in fibroblasts loaded with free cholesterol and modified low density lipoproteins. J. Biol. Chem., 281, 21869-21877 (2006).
• Brugger,B., Glass,B., Haberkant,P., Leibrecht,I., Wieland,F.T. and Krasslich,H.G. The HIV lipidome: a raft with an unusual composition. Proc. Natl. Acad. Sci. USA, 103, 2641-2646 (2006).
• Byrnes,R.W., Fahy,E. and Subramaniam,S. A laboratory information management system for high-throughput experimental lipidomics: minimal information required for the analysis of lipidomics experiments (MIALE). J. Assoc. Lab Automation., 12, 230-238 (2007).
• Cheng,H., Jiang,X. and Han,X. Alterations in lipid homeostasis of mouse dorsal root ganglia induced by apolipoprotein E deficiency: a shotgun lipidomics study. J. Neurochem., 101, 57-76 (2007).
• Cvacka,J., Krafkova,E., Jiros,P. and Valterova,I. Computer-assisted interpretation of atmospheric pressure chemical ionization mass spectra of triacylglycerols. Rapid Commun. Mass Spectrom., 20, 3586-3594 (2006).
• Devaiah,S.P., Roth,M.R., Baughman,E., Li,M.Y., Tamura,P., Jeannotte,R., Welti,R. and Wang,X.M. Quantitative profiling of polar glycerolipid species from organs of wild-type Arabidopsis and a phospholipase D alpha 1 knockout mutant. Phytochemistry, 67, 1907-1924 (2006).
• Ejsing,C.S., Duchoslav,E., Sampaio,J., Simons,K., Bonner,R., Thiele,C., Ekroos,K. and Shevchenko,A. Automated identification and quantification of glycerophospholipid molecular species by multiple precursor ion scanning. Anal. Chem., 78, 6202-6214 (2006).
• Esch,S.W., Williams,T.D., Biswas,S., Chakrabarty,A. and Levine,S.M. Sphingolipid profile in the CNS of the twitcher (globoid cell leukodystrophy) mouse: A lipidomics approach. Cell. Mol. Biol., 49, 779-787 (2003).
• Feng,L. and Prestwich,G.D. (Editors). Functional Lipidomics. (Taylor and Francis) (2005).
• Forrester,J.S., Milne,S.B., Ivanova,P.T. and Brown,H.A. Computational lipidomics: A multiplexed analysis of dynamic changes in membrane lipid composition during signal transduction. Mol. Pharmacol., 65, 813-821 (2004).
• Fuchs,B., Schiller,J., Suess,R., Schuerenberg,M. and Suckau,D. A direct and simple method of coupling matrix-assisted laser desorption and ionization time-of-flight mass spectrometry (MALDI-TOF MS) to thin-layer chromatography (TLC) for the analysis of phospholipids from egg yolk. Anal. Bioanal. Chem., 389, 827-834 (2007).
• German,J.B., Gillies,L.A., Smilowitz,J.T., Zivkovic,A.M. and Watkins,S.M. Lipidomics and lipid profiling in metabolomics. Current Opinion Lipidology, 18, 66-71 (2007).
• Gross,R.W. and Han,X. Lipidomics in diabetes and the metabolic syndrome. Methods Enzymol., 433, 73-90 (2007).
• Gross,R.W., Jenkins,C.M., Yang,J.Y., Mancuso,D.J. and Han,X.L. Functional lipidomics: the roles of specialized lipids and lipid-protein interactions in modulating neuronal function. Prostaglandins Other Lipid Mediators, 77, 52-64 (2005).
• Guan,X.L. and Wenk,M.R. Mass spectrometry-based profiling of phospholipids and sphingolipids in extracts from Saccharomyces cerivisiae. Yeast, 23, 465-477 (2006).
• Haimi,P., Uphoff,A., Hermansson,M and Somerharju,P. Software tools for analysis of mass spectrometric lipidome data. Anal. Chem., 78, 8324-8331 (2006).
• Han,X. An update on lipidomics: Progress and application in biomarker and drug development. Current Opinion Mol. Therapeutics, 9, 586-591 (2007).
• Han,X. Potential mechanisms contributing to sulfatide depletion at the earliest clinically recognizable stage of Alzheimer's disease: a tale of shotgun lipidomics. J. Neurochem., 103, 171-179 (2007).
• Han,X. Neurolipidomics: challenges and developments. Frontiers Biosci., 12, 2601-2615 (2007).
• Han,X.L. and Cheng,H. Characterization and direct quantitation of cerebroside molecular species from lipid extracts by shotgun lipidomics. J. Lipid Res., 46, 163-175 (2005).
• Han,X. and Gross,R.W. Toward total cellular lipidome analysis by ESI mass spectrometry from a crude lipid extract. In 'Modern Methods for Lipid Analysis by Liquid Chromatography/Mass Spectrometry and Related Techniques' (Ed. W.C. Byrdwell, AOCS Press, Champaign), pp. 488-509 (2005).
• Han,X.L. and Gross,R.W. Shotgun lipidomics: multidimensional MS analysis of cellular lipidomes. Expert Rev. Proteomics, 2, 253-264 (2005).
• Han,X.L. and Gross,R.W. Shotgun lipidomics: Electrospray ionization mass spectrometric analysis and quantitation of cellular lipidomes directly from crude extracts of biological samples. Mass Spectrom. Rev., 24, 367-412 (2005).
• Han,X.L. and Gross,R.W. Global analyses of cellular lipidomes directly from crude extracts of biological samples by ESI mass spectrometry: a bridge to lipidomics. J. Lipid Res., 44, 1071-1079 (2003).
• Han,X.L., Yang,J.Y., Cheng,H., Yang,K., Abendschein,D.R. and Gross,R.W. Shotgun lipidomics identifies cardiolipin depletion in diabetic myocardium linking altered substrate utilization with mitochondrial dysfunction. Biochemistry, 44, 16684-16694 (2005).
• Han,X.L., Yang,J.Y., Cheng,H., Ye,H.P. and Gross,R.W. Toward fingerprinting cellular lipidomes directly from biological samples by two-dimensional electrospray ionization mass spectrometry. Anal. Biochem., 330, 317-331 (2004).
• Han,X., Yang,J., Yang,K., Zhao,Z., Abendschein,D.R. and Gross,R.W. Alterations in myocardial cardiolipin content and composition occur at the very earliest stages of diabetes: A shotgun lipidomics study. Biochemistry, 46, 6417-6428 (2007).
• Han,X., Yang,K., Yang,J., Cheng,H. and Gross,R.W. Shotgun lipidomics of cardiolipin molecular species in lipid extracts of biological samples. J. Lipid Res., 47, 864-879 (2006).
• Han,X.L., Yang,K., Cheng,H., Fikes,K.N. and Gross,R.W. Shotgun lipidomics of phosphoethanolamine-containing lipids in biological samples after one-step in situ derivatization. J. Lipid Res., 46, 1548-1560 (2005).
• Han,X.L., Yang,K., Yang,J.Y., Fikes,K.N., Cheng,H. and Gross,R.W. Factors influencing the electrospray intrasource separation and selective ionization of glycerophospholipids. J. Am. Soc. Mass Spectrom., 17, 264-274 (2006).
• He,H., Conrad,C.A., Nilsson,C.L., Ji,Y., Schaub,T.M., Marshall,A.G. and Emmett,M.R. Method for lipidomic analysis: p53 expression modulation of sulfatide, ganglioside, and phospholipid composition of U87 MG glioblastoma cells. Anal. Chem., 79, 8423-8430 (2007).
• Hermansson,M., Uphoff,A., Kakela,R. and Somerharju,P. Automated quantitative analysis of complex lipidomes by liquid chromatography/mass spectrometry. Anal. Chem., 77, 2166-2175 (2005).
• Houjou,T., Yamatani,K., Imagawa,M., Shimizu,T. and Taguchi,R. A shotgun tandem mass spectrometric analysis of phospholipids with normal-phase and/or reverse-phase liquid chromatography/electrospray ionization mass spectrometry. Rapid Commun. Mass Spectrom., 19, 654-666 (2005).
• Hunt,A.N. Dynamic lipidomics of the nucleus. J. Cell. Biochem., 97, 244-251 (2006).
• Hunt,A.N. and Postle,A.D. Mass spectrometry determination of endonuclear phospholipid composition and dynamics. Methods, 39, 104-111 (2006).
• Hunt,A.N. and Postle,A.D. Dynamic lipidomic insights into phosphatidylcholine synthesis from organelle to organism. Spectroscopy, 19, 127-135 (2005).
• Ivanova,P.T., Milne,S.B., Forrester,J.S. and Brown,H.A. LIPID Arrays: new tools in the understanding of membrane dynamics and lipid signalling. Mol. Interv., 4, 86-96 (2004).
• Jackson,S.N., Ugarov,M., Egan,T., Post,J.D., Langlais,D., Schultz,J.A. and Woods,A.S. MALDI-ion mobility-TOFMS imaging of lipids in rat brain tissue. J. Mass Spectrom., 42, 1093-1098 (2007).
• Jackson,S.N., Wang,H.-Y.J. and Woods,A.S. In situ structural characterization of glycerophospholipids and sulfatides in brain tissue using MALDI-MS/MS. J. Am. Soc. Mass Spectrom., 18, 17-26 (2007).
• Jain,S., Jayasimhulu,K. and Clark,J.F. Metabolomic analysis of molecular species of phospholipids from normotensive and preeclamptic human placenta electrospray ionization mass spectrometry. Frontiers Biosci., 9, 3167-3175 Suppl. S (2004).
• Jiang,X., Cheng,H., Yang,K., Gross,R.W. and Han,X. Alkaline methanolysis of lipid extracts extends shotgun lipidomics analyses to the low-abundance regime of cellular sphingolipids. Anal. Biochem., 371, 135-145 (2007).
• Kagan,V.E., Tyurina,Y.Y., Bayir,H., Chu,C.T., Kapralov,A.A., Vlasova,I.I., Belikova,N.A., Tyurin,V.A., Amoscato,A., Epperly,M., Greenberger,J., Dekosky,S., Shvedova,A.A. and Jiang,J. The "pro-apoptotic genies" get out of mitochondria: oxidative lipidomics and redox activity of cytochrome c/cardiolipin complexes. Chem. Biol. Interact., 163, 15-28 (2006).
• Kishimoto,K., Urade,R., Ogawa,T. and Moriyama T. Nondestructive quantification of neutral lipids by thin-layer chromatography and laser-fluorescent scanning: Suitable methods for 'lipidome' analysis. Biochem. Biophys. Res. Commun., 281, 657-662 (2001).
• Kuksis,A. and Itabashi,Y. Regio- and stereospecific analysis of glycerolipids. Methods, 36, 172-185 (2005).
• Lee,S.H., Williams,M.V. and Blair,I.A. Targeted chiral lipidomics analysis. Prostaglandins Other Lipid Mediators, 77, 141-157 (2005).
• Lee,S.H., Williams,M.V., DuBois,R.N. and Blair,I.A. Targeted lipidomics using electron capture atmospheric pressure chemical ionization mass spectrometry. Rapid Commun. Mass Spectrom., 17, 2168-2176 (2003).
• Levery,S.B. Glycosphingolipid structural analysis and glycosphingolipidomics. Methods Enzymol., 405, 300-369 (2005).
• Li,J., Cui,Z., Zhao,S. and Sidman,R.L. Unique glycerophospholipid signature in retinal stem cells correlates with enzymatic functions of diverse long-chain Acyl-CoA synthetases. Stem Cells, 25, 2864-2873 (2007).
• Li,Y.L., Su,X., Stahl,P.D. and Gross,M.L. Quantification of diacylglycerol molecular species in biological samples by electrospray ionization mass spectrometry after one-step derivatization. Anal. Chem., 79, 1569-1574 (2007).
• Li,Y.S., Zhou,D.P., Xia,C.F., Wang,P.G. and Levery,S.B. Sensitive quantitation of isoglobotriaosylceramide in the presence of isobaric components using electrospray ionization-ion trap mass spectrometry. Glycobiology, 18, 166-176 (2008).
• Lu,Y., Hong,S., Gotlinger,K. and Serhan,C.N. Lipid mediator informatics and proteomics in inflammation resolution. TheScientificWorldJOURNAL, 6, 589-614 (2006).
• Mahrous,E.A., Lee,R.B. and Lee,R.E. A rapid approach to lipid profiling of mycobacteria using 2D HSQC NMR maps. J Lipid Res., 49, 455-463 (2008).
• Masoodi,M. and Nicolaou,A. Lipidomic analysis of twenty-seven prostanoids and isoprostanes by liquid chromatography/electrospray tandem mass spectrometry. Rapid Commun. Mass Spectrom., 20, 3023-3029 (2006).
• McMahon,A., Butovich,I.A., Mata,N.L., Klein,M., Ritter,R., Richardson,J., Birch,D.G., Edwards,A.O. and Kedzierski,W. Retinal pathology and skin barrier defect in mice carrying a Stargardt disease-3 mutation in elongase of very long chain fatty acids-4. Mol. Vision, 13, 258-272 (2007).
• Merrill,A.H., Sullards,M.C., Allegood,J.C., Kelly,S. and Wang,E. Sphingolipidomics: High-throughput, structure-specific, and quantitative analysis of sphingolipids by liquid chromatography tandem mass spectrometry. Methods, 36, 207-224 (2005).
• Milne,S., Ivanova,P., Forrester,J. and Brown,H.A. Lipidomics: An analysis of cellular lipids by ESI-MS. Methods, 39, 92-103 (2006).
• Mitchell,T.W., Buffenstein,R. and Hulbert,A.J. Membrane phospholipid composition may contribute to exceptional longevity of the naked mole-rat (Heterocephalus glaber): A comparative study using shotgun lipidomics. Exp. Geront., 42, 1053-1062 (2007).
• Mossoba,M.M. Kramer,J.K.G., Brenna,J.T. and McDonald,R.E. (Editors) Lipid analysis and lipidomics: new techniques and applications. (AOCS Press, Champaign) (2006).
• Mouritsen,O.G. Life - as a matter of fat. The emerging science of lipidomics. (Springer, Berlin) (2005).
• Pike,L.J., Han,X. and Gross,R.W. Epidermal growth factor receptors are localized to lipid rafts that contain a balance of inner and outer leaflet lipids : A shotgun lipidomics study. J. Biol. Chem., 280, 26796-26804 (2005).
• Piomelli,D. The challenge of brain lipidomics. Prostaglandins Other Lipid Mediators, 77, 23-34 (2005).
• Postle,A.D., Wilton,D.C., Hunt ,A.N. and Attard,G.S. Probing phospholipid dynamics by electrospray ionisation mass spectrometry. Prog. Lipid Res., 46, 200-224 (2007).
• Rainville,P.D., Stumpf,C.L., Shockcor,J.P., Plumb,R.S. and Nicholson,J.K. Novel application of reversed-phase UPLC-oaTOF-MS for lipid analysis in complex biological mixtures: A new tool for lipidomics. J. Proteome Res., 6, 552-558 (2007).
• Schiller,J., Mueller,M., Fuchs,B., Arnold,K. and Huster,D. P-31 NMR Spectroscopy of phospholipids: from micelles to membranes. Curr. Anal. Chem., 3, 283-301 (2007).
• Schiller,J., Suss,R., Fuchs,B., Muller,M., Zschornig,O. and Arnold,K. MALDI-TOF MS in lipidomics. Frontiers Biosci., 12, 2568-2579 (2007).
• Schiller,J., Suess,R., Fuchs,B., Mueller,M., Petkovic,M., Zschoernig,O. and Waschipky,H. The suitability of different DHB isomers as matrices for the MALDI-TOF MS analysis of phospholipids: which isomer for what purpose? Eur. Biophys. J. Biophys. Letts, 36, 517-527 (2007).
• Schwudke,D., Hannich,J.T., Surendranath,V., Grimard,V., Moehring,T., Burton,L., Kurzchalia,T. and Shevchenko,A. Top-down lipidomic screens by multivariate analysis of high-resolution survey mass spectra. Anal. Chem., 79, 4083-4093 (2007).
• Serhan,C.N. Mediator lipidomics. Prostaglandins Other Lipid Mediators, 77, 4-14 (2005).
• Serhan,C.N., Hong,S. and Lu,Y. Lipid mediator informatics-lipidomics: Novel pathways in mapping resolution. AAPS J., 8, E284-E297 (2006).
• Serhan,C.N., Lu,Y., Hong,S. and Yang,R. Mediator lipidomics: search algorithms for eicosanoids, resolvins, and protectins. Methods Enzymol., 432, 275-317 (2007).
• Stuebiger,G. and Belgacem,O. Analysis of lipids using 2,4,6-trihydroxyacetophenone as a matrix for MALDI mass spectrometry. Anal. Chem., 79, 3206-3213 (2007).
• Su,X., Han,X.L., Mancuso,D.J., Abendschein,D.R. and Gross,R.W. Accumulation of long-chain acylcarnitine and 3-hydroxy acylcarnitine molecular species in diabetic myocardium: Identification of alterations in mitochondrial fatty acid processing in diabetic myocardium by shotgun lipidomics. Biochemistry, 44, 5234-5245 (2005).
• Song,H., Hsu,F.-F., Ladenson,J. and Turk,J. Algorithm for processing raw mass spectrometric data to identify and quantitate complex lipid molecular species in mixtures by data-dependent scanning and fragment ion database searching. J. Am. Soc. Mass Spectrom., 18, 1848-1858 (2007).
• Sullards,M.C., Allegood,J.C., Kelly,S., Wang,E., Haynes,C.A., Park,H., Chen,Y. and Merrill,A.H. Structure-specific, quantitative methods for analysis of sphingolipids by liquid chromatography-tandem mass spectrometry: 'inside-out' sphingolipidomics. Methods Enzymol., 432, 83-115 (2007).
• Sullards,M.C., Wang,E., Peng,Q. and Merrill,A.H. Metabolomic profiling of sphingolipids in human glioma cell lines by liquid chromatography tandem mass spectrometry. Cell. Mol. Biol., 49, 789-797 (2003).
• van Meer,G. Cellular lipidomics. EMBO J., 24, 3159-3165 (2005).
• Surviladze,Z., Harrison,K.A., Murphy,R.C. and Wilson,B.S. Fc epsilon RI and Thy-1 domains have unique protein and lipid compositions. J. Lipid Res., 48, 1325-1335 (2007).
• Tyurina,Y.Y., Tyurin,V.A., Epperly,M.W., Greenberger,J.S. and Kagan,V.E . Oxidative lipidomics of gamma-irradiation-induced intestinal injury. Free Rad. Biol. Med., 44, 299-314 (2008).
• Vukelic,E., Zamfir,A.D., Bindila,L., Froesch,M., Peter-Katalinic,J., Usuki,S. and Yu,R.K. Screening and sequencing of complex sialylated and sulfated glycosphingolipid mixtures by negative ion electrospray Fourier transform ion cyclotron resonance mass spectrometry. J. Am. Soc. Mass Spectrom., 16, 571-580 (2005).
• Wang,X.M., Li,W.Q., Li,M.Y. and Welti,R. Profiling lipid changes in plant response to low temperatures. Physiologia Plantarum, 126, 90-96 (2006).
• Watson,A.D. Lipidomics: a global approach to lipid analysis in biological systems. J. Lipid Res., 47, 2101-2111 (2006).
• Welti,R., Mui,E., Sparks,A., Wernimont,S., Isaac,G., Kirisits,M., Roth,M., Roberts,C.W., Botte,C., Marechal,E. and McLeod,R. Lipidomic analysis of Toxoplasma gondii reveals unusual polar lipids. Biochemistry, 46, 13882-13890 (2007).
• Welti,R., Shah,J., Li,W., Li,M., Chen,J., Burke,J.J., Fauconnier,M.-L., Chapman,K., Chye,M.-L. and Wang,X. Plant lipidomics: Discerning biological function by profiling plant complex lipids using mass spectrometry. Frontiers Biosci., 12, 2494-2506 (2007).
• Wenk,M.R. The emerging field of lipidomics. Nature Reviews Drug Discovery, 4, 594-610 (2005).
• Wenk,M.R. Lipidomics of host-pathogen interactions. FEBS Lett., 580, 5541-5551 (2006).
• Wiest,M.M. and Watkins,S.M. Biomarker discovery using high-dimensional lipid analysis. Current Opinion Lipidology, 18, 181-186 (2007).
• Wolf,C. and Quinn,P.J. Lipidomics: practical aspects and applications. Prog. Lipid Res., 47, 15-36 (2008).
• Woods,A.S. and Jackson,S.N. Brain tissue lipidomics: Direct probing using matrix-assisted laser desorption/ionization mass spectrometry. AAPS J., 8, E391-E395 (2006).
• Woods,A.S., Wang,H.-Y.J. and Jackson,S.N. A snapshot of tissue glycerolipids. Curr. Pharm. Design, 13, 3344-3356 (2007).
• Wu,H., Southam,A.D., Hines,A. and Viant,M.R. High-throughput tissue extraction protocol for NMR and MS-based metabolomics. Anal. Biochem., 372, 204-212 (2008).
• Yang,S., Qiao,B., Lu,S.-H. and Yuan,Y.-J. Comparative lipidomics analysis of cellular development and apoptosis in two Taxus cell lines. Biochim. Biophys. Acta, 1771, 600-612 (2007).
• Zheng, W., Kollmeyer, J., Symolon, H., Momin, A., Munter, E., Wang, E., Kelly, S., Allegood, J.C., Liu, Y., Peng, Q., Ramaraju, H., Sullards, M.C., Cabot, M. and Merrill, A.H. Ceramides and other bioactive sphingolipid backbones in health and disease: lipidomic analysis, metabolism and roles in membrane structure, dynamics, signaling and autophagy. Biochim. Biophys. Acta, 1758, 1864-1884 (2006).

Updated: 1/3/2008 Credits/disclaimer	Scottish Crop Research Institute (and MRS Lipid Analysis Unit), Invergowrie, Dundee (DD2 5DA), Scotland