Yeast lipid analysis and quantification by mass spectrometry

Methods in Enzymology

Volumn 470, Issue C, 2010, Pages 369-391

  Guan, Xue Li ^a   Riezman, Isabelle ^c   Wenk, Markus R ^a,b   Riezman, Howard ^c  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^b NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^c UNIVERSITY OF GENEVA   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

GLYCEROPHOSPHOLIPID; LIPIDOME; SPHINGOLIPID; STEROL;

ARTICLE; COLLISIONALLY ACTIVATED DISSOCIATION; DNA EXTRACTION; DRY WEIGHT; ELECTROSPRAY MASS SPECTROMETRY; FUNGAL STRAIN; GAS CHROMATOGRAPHY; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; HYDROLYSIS; ION CYCLOTRON RESONANCE MASS SPECTROMETRY; ISOLATION PROCEDURE; LIPID ANALYSIS; MASS FRAGMENTOGRAPHY; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; METHANOLYSIS; NONHUMAN; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; SACCHAROMYCES CEREVISIAE; SEPARATION TECHNIQUE; SOLID PHASE EXTRACTION; TANDEM MASS SPECTROMETRY; THIN LAYER CHROMATOGRAPHY; WILD TYPE; YEAST; YEAST CELL;

EID: 77956042565     PISSN: 00766879     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S0076-6879(10)70015-X     Document Type: Article

References (41)

1. Angus, W. W., andLester, R. L. (1972). Turnover of inositol and phosphorus containing lipids in Saccharomyces cerevisiae; extracellular accumulation of glycerophosphorylinositol derived from phosphatidylinositol. Arch. Biochem. Biophys. 151, 483-495
2. Bligh, E. G., andDyer, W. J. (1959). A rapid method of total lipid extraction and purification, Can, J. Biochem. Physiol. 37, 911-917.
3. Brockerhoff, H. (1963). Breakdown of phospholipids in mild alkaline hydrolysis. J. Lipid Res. 35, 96-99.
4. Brugger, B., Erben, G., Sandhoff, R., Wieland, F. T., andLehmann, W. D. (1997). Quantitative analysis of biological membrane lipids at the low picomole level by nanoelectrospray ionization tandem mass spectrometry. Proc. Natl. Acad. Sci. USA 94, 2339-2344.
5. Cheng, J., Park, T. S., Fischl, A. S., andYe, X. S. (2001). Cell cycle progression and cell polarity require sphingolipid biosynthesis in Aspergillus nidulans. Mol. Cell. Biol. 21, 6198-6209. (Pubitemid 34263520)
6. Daum, G., Lees, N. D., Bard, M., andDickson, R. (1998). Biochemistry, cell biology and molecular biology of lipids of Saccharomyces cerevisiae. Yeast 14, 1471-1510.
7. De Vos, R. C., Moco, S., Lommen, A., Keurentjes, J. J., Bino, R. J., andHall, R. D. (2007). Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry. Nat. Protoc. 2, 778-791.
8. Dickson, R. C., Sumanasekera, C., andLester, R. L. (2006). Functions and metabolism of sphingolipids in. Saccharomyces cerevisiae. Prog. Lipid Res. 45, 447-465.
9. Ejsing, C. S., Moehring, T., Bahr, U., Duchoslav, E., Karas, M., Simons, K., andShevchenko, A. (2006). Collision-induced dissociation pathways of yeast sphingolipids and their molecular profiling in total lipid extracts: A study by quadrupole TOF and linear ion trap-orbitrap mass spectrometry. J. Mass Spectrom. 41, 372-389.
10. Ejsing, C. S., Sampaio, J. L., Surendranath, V., Duchoslav, E., Ekroos, K., Klemm, R. W., Simons, K., andShevchenko, A. (2009). Global analysis of the yeast lipidome by quantitative shotgun mass spectrometry. Proc. Natl. Acad. Sci. USA 106, 2136-2141.
11. Fahy, E., Cotter, D., Byrnes, R., Sud, M., Maer, A., Li, J., Nadeau, D., Zhau Y., andSubramaniam, S. (2007). Bioinformatics for lipidomics. Methods Enzymol. 432, 247-273.
12. Folch, J., Lees, M., andStanley, G. H. S. (1957). A simple method for the isolation and purification of total lipides from animal tissues. J. Biol. Chem. 226, 497-509.
13. Guan, X., L., and Wenk, M., R. (2006). Mass spectrometry-based profiling of phospholipids and sphingolipids in extracts from Saccharomyces cerevisiae. Yeast 23, 465-477.
14. Guan, X. L., He, X., Ong, W. Y., Yeo, W. K., Shui, G., andWenk, M. R. (2006). Nontargeted profiling of lipids during kainate-induced neuronal injury. FASEB J. 20, 1152-1161.
15. Guan, X. L., Souza, C. M., Pichler, H., Dewhurst, G., Schaad, O., Kajiwara, K., Wakabayashi, H., Ivanova, T., Castillon, G. A., Piccolis, M., Abe, F., Loewith, R., et al (2009). Functional interactions between sphingolipids and sterols in biological membranes regulating cell physiology. Mol. Biol. Cell 20, 2083-2095.
16. Han, X., andGross, R. W. (2005). 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.
17. Han, X., Yang, K., andGross, R. W. (2008). Microfluidics-based electrospray ionization enhances the intrasource separation of lipid classes and extends identification of individual molecular species through multi-dimensional mass spectrometry: Development of an automated high-throughput platform for shotgun lipidomics. Rapid Commun. Mass Spectrom, 22, 2115-2124.
18. Hanson, B. A., andLester, R. L. (1980). The extraction of inositol-containingphospholipids and phosphatidylcholine from Saccharomyces cerevisiae and Neurospora crassa. J. Lipid Res. 21, 309-315.
19. Hechtberger, P., Zinser, E., Saf, R., Hummel, K., Paltauf, F., andDaum, G. (1994). Characterization, quantification and subcellular localization of inositol-containing sphingolipids of the yeast, Saccharomyces cerevisiae. Eur. J. Biochem. 225, 641-649. (Pubitemid 24325582)
20. Jungnickel, H., Jones, E. A., Lockyer, N. P., Oliver, S. G., Stephens, G. M., andVickerman, J. C. (2005). Application of TOF-SIMS with chernometrics to discriminate between, four different yeast strains from the species Candida glabrata and Saccharomyces cerevisiae. Anal. Chem. 77, 1740-1745.
21. Moore, J. D., Caufield, W. V., andShaw, W. A. (2007). Quantitation and standardization of lipid internal standards for mass spectroscopy. In "Methods in Enzymology Lipidomics and Bioactive Lipids: Mass [Hyphen (True Graphic)]Spectrometry-Based Lipid Analysis," (H. A. Brown, ed.), pp. 351-367. Academic Press, San Diego.
22. Munn, A. L., Heese-Peck, A., Stevenson, B. J., Pichler, H., andRiezman, H. (1999). Specific sterols required for the internalization step of endocytosis in yeast. Mol. Biol. Cell 10,3943-3957. (Pubitemid 29534036)
23. Patton, J. L., andLester, R. L. (1991). The phosphoinositol sphingolipids of Saccharomyces cerevisiae are highly localized in the plasma membrane. J. Bacteriol. 173, 3101-3108.
24. Schneiter, R., Brugger, B., Sandhoff, R., Zellnig, G., Leber, A., Lampl, M., Athenstaedt, K., Hrastnik, C., Eder, S., Daum, G., Paltauf, F., Wieland, F. T., et al. (1999). Electrospray ionization tandem mass spectrometry (ESI-MS/MS) analysis of the lipid molecular species composition of yeast subcellular membranes reveals acyl chain-based sorting/ remodeling of distinct molecular species en route to the plasma membrane. J. Cell Biol. 146, 741-754.
25. Schwudke, D., Oegema, J., Burton, L., Entchev, E., Hannich, J. T., Ejsing, C. S., Kurzchalia, T., andShevchenko, A. (2006). Lipid, profiling by multiple precursor and neutral loss scanning driven, by the data-dependent acquisition, Anal. Chem. 78, 585-595. (Pubitemid 43100393)
26. Schwudke, D., Hannich, J. T., Surendranath, V., Grimard, V., Moehring, T., Burton, L., Kurzchalia, T., andShevchenko, A. (2007). Top-down lipidomic screens by multivariate analysis of high-resolution survey mass spectra. Anal Chem. 79, 4083-4093. (Pubitemid 46903157)
27. Shui, G., Bendt, A. K., Pethe, K., Dick, T., andWenk, M. R. (2007). Sensitive profiling of chemically diverse bioactive lipids. J. Lipid Res. 48, 1976-1984.
28. Song, H., Hsu, F. F., Ladenson, J., andTurk, J. (2007). 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. (Pubitemid 47419353)
29. Song, H., Ladenson, J., and Turk, J. (2009). Algorithms for automatic processing of data from mass spectrometric analyses of lipids. J. Chromatogr. B 877, 2847-2854.
30. Sullards, M. C. (2000). Analysis of sphingomyelin, glucosylceramide, ceramide, sphingosine, and sphingosine 1-phosphate by tandem mass spectrometry. Methods Enzymol. 312, 32-45.
31. Taguchi, R., Houjou, T., Nakanishi, H., Yamazaki, T., Ishida, M., Imagawa, M., andShimizu, T. (2005). Focused lipidomics by tandem mass spectrometry. J. Chromatogr. B Analyt. Technol. Biomed. Life Sci. 823, 26-36. (Pubitemid 41073986)
32. Taguchi, R., Nishijima, M., andShimizu, T. (2007). Basic analytical systems for lipidomics by mass spectrometry in Japan. Methods Enzymol. 432, 185-211.
33. Tuller, G., Nemec, T., Hrastnik, C., andDaum, G. (1999). Lipid composition of subcellular membranes of an FY1679-derived haploid yeast wild-type strain grown on different carbon sources. Yeast 15, 1555-1564. (Pubitemid 29472166)
34. Valachovic, M., Wilcox, L. I., Sturley, S. L., andBard, M. (2004). A mutation in sphingolipid synthesis suppresses defects in yeast ergosterol metabolism, Lipids 39, 747-752. (Pubitemid 39602525)
35. van den Hazel, H. B., Pichler, H., Matta, M. A. D. V., Leitner, E., Goffeau, A., andDaum, G. (1999). PDR16 and PDR17, two homologous genes of Saccharomyces cerevisiae, affect lipid biosynthesis and resistance to multiple drugs. J. Biol. Chem. 274, 1934-1941.
36. Wagner, A., Grillitsch, K., Leitner, E., andDaum, G. (2009). Mobilization of steryl esters from lipid particles of the yeast Saccharomyces cerevisiae. Biochim. Biophys. Acta 1791, 118-124.
37. Wenk, M. R. (2005). The emerging field of lipidomics. Nat. Rev. Drug Discov. 4, 594-610.
38. Wong, J. W. H., Cagney, G., andCartwright, H. M. (2005). SpecAlign - Processing and alignment of mass spectra datasets. Bioinformatics 21, 2088-2090.
39. Xu, S. H., andNes, W. D. (1988). Biosynthesis of cholesterol in the yeast mutant erg6. Biochem. Biophys. Res. Commun. 155, 509-517.
40. Zinser, E., Sperka-Gottlieb, C. D., Fasch, E. V., Kohlwein, S. D., Paltauf, F., andDaum, G. (1991). Phospholipid synthesis and lipid composition of subcellular membranes in the unicellular eukaryote Saccharomyces cerevisiae, J. Bacteriol. 173, 2026-2034.
41. Zinser, E., Paltauf, F., andDaum, G. (1993). Sterol composition of yeast organelle membranes and subcellular distribution ofenzymes involved in sterol metabolism, J. Bacteriol. 175, 2853-2858. (Pubitemid 23148716)