Protocols and publications

Links to protocols related to lipid profiling:

• Extraction of Arabidopsis leaves for lipid profiling

• Extraction of Arabidopsis seeds

• Extraction of lipids from animal tissue

• Extraction of lipids from yeast

• Q-test

See also lipidomics methodology and its uses in our papers:

• Li, Weiqi, Wang, Ruiping, Li, Maoyin, Li, Lixia, Wang, Chuanming, Welti, Ruth, and Wang, Xuemin.  2008. Differential degradation of extraplastidic and plastidic lipids during freezing and post-freezing recovery in Arabidopsis thaliana. J. Biol. Chem. 283, 461-468.

• Welti, Ruth, Mui, Ernie, Sparks, Alexis, Wernimont, Sarah, Isaac, Giorgis, Michael Kirisits, Roth, Mary, Roberts, Craig W., Botté, Cyrille, Maréchal, Eric, and McLeod, Rima.  2007. Lipidomic analysis of T. gondii reveals unusual polar lipids. Biochemistry 46, 13882 – 13890.

• Yang, Wenyu, Devaiah, Shivakumar, Pan, Xiangqing, Isaac, Giorgis, Welti, Ruth, and Wang, Xuemin. 2007. AtPLAI is an LRR-containing acyl hydrolase involved in basal jasmonic acid production and Arabidopsis resistance to Botrytis cinerea.  J. Biol. Chem. 282, 18116-18128.

• Devaiah, Shivakumar P., Pan, Xiangqing, Hong, Yueyun, Roth, Mary R., Welti, Ruth, and Wang, Xuemin. 2007. Enhancing seed quality and viability by suppressing phospholipase D in Arabidopsis. Plant J.50, 950–957.

• Bartz, Rene, Li, Wen-Hong, Venables, Barney, Zehmer, John, Welti, Ruth, Anderson, Richard, Liu, Ping-sheng, and Chapman, Kent D.  2007. Lipidomics reveals adiposomes store ether lipids and mediate phospholipid traffic.  J. Lipid Res. 48, 837-847.

• Hsu, Fong-Fu, Turk, John, Williams, Todd D., and Welti, Ruth. 2007. Electrospray ionization multiple stage quadrupole ion-trap and tandem quadrupole mass spectrometric studies on phosphatidylglycerol from Arabidopsis leaves. J. Am. Soc. Mass Spec. 18, 783-790.

• Fritz, Markus, Lokstein, Heiko, Hackenberg, Dieter, Welti, Ruth, Roth, Mary, Zähringer, Ulrich, Fulda, Martin, Hellmeyer, Wiebke, Ott, Claudia, Wolter, Frank P., and Heinz, Ernst.  2007. Chanelling of eukaryotic diacylglycerol into the biosynthesis of plastidial phosphatidylglycerol.  J. Biol. Chem. 282, 4613-4625.

• Fitzgerald, Michael L., Xavier, Ramnik, Haley, Kathleen J., Welti, Ruth, Goss, Julie L., Brown, Cari E., Zhuang, Debbie, Bell, Susan A., Lu, Naifang, Mckee, Mary, Seed, Brian, and Freeman, Mason W.  2007. ABCA3 inactivation in mice causes respiratory failure, loss of pulmonary surfactant and depletion of lung phosphatidylglycerol.  J. Lipid Res. 48, 621-632.

• Esch, Steven Wynn, Tamura, Pamela, Sparks, Alexis A., Roth, Mary R., Devaiah, S. P., Heinz, E., Wang, X., Williams, Todd D., and Welti, Ruth.  2007. Rapid characterization of fatty acyl composition of complex lipids by collision-induced dissociation time-of-flight mass spectrometry.  J. Lipid. Res. 48, 235-241.

• Isaac, Giorgis, Jeannotte, Richard, Esch, Steven Wynn, and Welti, Ruth. 2007. New mass-spectrometry-based strategies for lipids, Gen. Eng. Rev. Vol. 28. 28, 129-157.

• Welti, Ruth, Roth, Mary R., Deng, Youping, Shah, Jyoti and Wang, Xuemin. 2007. Lipidomics: ESI-MS/MS-based profiling to determine the function of genes involved in metabolism of complex lipids. In “Plant Metabolomics”, Basil Nikolau. ed. Springer, Dordrecht, The Netherlands.  Pp. 87-92.

• Welti, Ruth, Shah, Jyoti, Li, Weiqi, Li, Maoyin, Chen, Junping, Burke, John J., Fauconnier, Marie-Laure, Chapman, Kent, Chye, Mee-Len, and Wang, Xuemin.  2007. Plant lipidomics: Discerning biological function by profiling plant complex lipids using mass spectrometry.  Frontiers in Bioscience. 12, 2494-2506.

• Welti, Ruth, Isaac, Giorgis, Tamura, Pamela, Esch, Steven Wynn, Sparks, Alexis, Jeannotte, Richard, Roth, Mary, Maatta, Sara, Williams, Todd D., Shah, Jyoti, and Wang, Xuemin.  2007. Lipid profiling: Analysis of gene function and physiological responses in Arabidopsis. Proceedings of the 17^th International Symposium on Plant Lipids.  Eds.  Benning, Christoph  and Ohlrogge, John.  pp. 287-291.

• Li, Maoyin, Welti, Ruth, and Wang, Xuemin.  2006. Quantitative profiling of Arabidopsis polar glycerolipids in response to phosphorus starvation:  Roles of PLDζ1 and PLDζ2 in phosphatidylcholine hydrolysis and digalactosyldiacylglycerol accumulation in phosphorus-starved plants.  Plant Physiol. 142, 750-761.

• Buseman, Christen M., Tamura, Pamela, Sparks, Alexis A., Baughman, Ethan J., Maatta, Sara, Zhao, Jian, Roth, Mary R., Esch, Steven Wynn, Shah, Jyoti, Williams, Todd D., and Welti, Ruth  2006. Wounding stimulates the accumulation of glycerolipids containing oxophytodienoic acid and dinor-oxophytodienoic acid in Arabidopsis leaves.  Plant Physiol. 142, 28-39.

• Devaiah, Shivakumar P., Roth, Mary R., Baughman, Ethan, Li, Maoyin, Tamura, Pamela, Jeannotte, Richard, Welti, Ruth, and Wang, Xuemin. 2006. Quantitative profiling of polar glycerolipid species and the role of phospholipase Dα1 in defining the lipid species in Arabidopsis tissues.  Phytochemistry 67, 1907-1924. (Contains information on settings used on API 4000 ESI/MS-MS).

• Wang, Xuemin, Devaiah, Shivakumar Pattada, Zhang, Wenhua, and Welti, Ruth.  2006. Signaling functions of phosphatidic acid. Prog. Lipid Res. 45, 250-278.

• Li, Maoyin, Qin, Chunbo, Welti, Ruth, and Wang, Xuemin. 2006. Double knockouts of phospholipase Dζ1 and ζ2 in Arabidopsis affect root elongation under phosphate limitation, but do not affect root hair patterning. Plant Physiol. 140, 761-770.

• Wang, Xuemin, Li, Weiqi, Li, Maoyin, and Welti, Ruth. 2006. Profiling lipid changes in plant response to low temperatures.  Phys. Plantarum 126, 90-96.

• Welti, Ruth, Shah, Jyoti, LeVine, Steven, Esch, S. Wynn, Williams, Todd D., and Wang, Xuemin. 2005.  High throughput lipid profiling to identify and characterize genes involved in lipid metabolism, signaling, and stress response.  In “Functional Lipidomics” (Chapter 14), L. Feng and G.D. Prestwich, eds.  Marcel Dekker, New York, pp. 307-322.

• Wanjie,  S.W., R. Welti, R.A. Moreau, and K.D. Chapman. 2005. Identification and quantification of glycerolipids in cotton fibers: Reconciliation with metabolic pathway predictions from DNA databases. Lipids 40, 773-785. (Contains information on settings used on API 4000 ESI/MS-MS).

• Welti, R., and X. Wang. 2004. Lipid species profiling: A high throughput approach to identify lipid compositional changes and determine the function of genes involved in lipid metabolism and signaling.  Curr. Opin. Plant Biol.  7: 337-344.

• Nandi, A., R. Welti and J. Shah. 2004. The Arabidopsis thaliana dihydroxyacetone phosphate reductase gene supressor of fatty acid desaturase deficiency1 is required for glycerolipid metabolism and for the activation of systemic acquired resistance. Plant Cell 16: 465-477.

• Abbadi A, F. Domergue, J. Bauer, J.A. Napier, R. Welti, U. Zahringer, P. Cirpus, and E. Heinz. 2004. Biosynthesis of very-long-chain polyunsaturated fatty acids in transgenic oilseeds: Constraints on their accumulation.  Plant Cell 16: 2734-2748.

• Li, W., M. Li, W. Zhang, R. Welti, X. Wang. 2004. The plasma membrane-bound phospholipase D  enhances freezing tolerance in Arabidopsis. Nature Biotech 22: 427-433.

• Fauconnier, M.-L., R. Welti, E. Blée, and M. Marlier.  2003.  Lipid and oxylipin profiles during aging and sprout development in potato tubers (Solanum tuberosum L.).  Biochim. Biophys. Acta 1633: 118-126.

• Fauconnier, M.-L., T.D. Williams, M. Marlier, and R. Welti.  2003.  Potato tuber phospholipids contain colneleic acid in the 2-position. FEBS Letters 538: 155-158.

• Nandi, A., K. Krothapalli, C.M. Buseman, M. Li, R. Welti, A. Enyedi, and J. Shah.  2003.  The Arabidopsis thaliana sfd mutants affect plastidic lipid composition and suppress dwarfing, cell death and the enhanced disease resistance phenotypes resulting from the deficiency of a fatty acid desaturase. Plant Cell 15: 2383-2398.

• Welti, R., X. Wang, and T.D. Williams.  2003.  Electrospray ionization tandem mass spectrometry scan modes for plant chloroplast lipids. Anal. Biochem. 314: 149-152.

• Welti, R., W. Li, M. Li, Y. Sang, H. Biesiada, H. Zhou, C.B. Rajashekar, T.D. Williams, and X. Wang.  2002.  Profiling membrane lipids in plant stress responses: Role of phospholipase D{alpha} in freezing-induced lipid changes in Arabidopsis. J. Biol. Chem. 277: 31994-32002. (Contains information on settings used on Micromass Ultima ESI/MS-MS).
  

If you cannot access these links, please email us at lipid@ksu.edu (please include a subject line) for a pdf version of the papers.

Kansas Lipidomics Research Center is supported and/or has been supported by National Science Foundation (EPS 0236913, MCB 0455318, DBI 0521587), Kansas Technology Enterprise Corporation, K-IDeA Networks of Biomedical Research Excellence (INBRE) of National Institute of Health (P20RR16475), Kansas State University, and the Functional Genomics Consortium initiative of Kansas State University’s Targeted Excellence program.  Any opinions, findings, and conclusions or recommendations expressed in this web material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation or other granting agencies.

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