Abstract
Phosphoinositide (PPI) lipids are a crucial class of low-abundance signaling molecules that regulate many processes within cells. Methods that enable simultaneous detection of all PPI lipid species provide a wholistic snapshot of the PPI profile of cells, which is critical for probing PPI biology. Here we describe a method for the simultaneous measurement of cellular PPI levels by metabolically labeling yeast or mammalian cells with myo-3H-inositol, extracting radiolabeled glycerophosphoinositides, and separating lipid species on an anion exchange column via HPLC.
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Duex JE, Nau JJ, Kauffman EJ, Weisman LS (2006) Phosphoinositide 5-phosphatase Fig4p is required for both acute rise and subsequent fall in stress-induced phosphatidylinositol 3,5-bisphosphate levels. Eukaryot Cell 5(4):723–731. https://doi.org/10.1128/EC.5.4.723-731.2006
Balla T (2013) Phosphoinositides: tiny lipids with giant impact on cell regulation. Physiol Rev 93(3):1019–1137. https://doi.org/10.1152/physrev.00028.2012
Dickson EJ, Hille B (2019) Understanding phosphoinositides: rare, dynamic, and essential membrane phospholipids. Biochem J 476(1):1–23. https://doi.org/10.1042/BCJ20180022
Sasaki T, Takasuga S, Sasaki J, Kofuji S, Eguchi S, Yamazaki M, Suzuki A (2009) Mammalian phosphoinositide kinases and phosphatases. Prog Lipid Res 48(6):307–343. https://doi.org/10.1016/j.plipres.2009.06.001
Shisheva A, Sbrissa D, Ikonomov O (2015) Plentiful PtdIns5P from scanty PtdIns(3,5)P2 or from ample PtdIns? PIKfyve-dependent models: evidence and speculation (response to: DOI 10.1002/bies.201300012). BioEssays 37(3):267–277. https://doi.org/10.1002/bies.201400129
Wallroth A, Haucke V (2018) Phosphoinositide conversion in endocytosis and the endolysosomal system. J Biol Chem 293(5):1526–1535. https://doi.org/10.1074/jbc.R117.000629
Botelho RJ, Efe JA, Teis D, Emr SD (2008) Assembly of a Fab1 phosphoinositide kinase signaling complex requires the Fig4 phosphoinositide phosphatase. Mol Biol Cell 19(10):4273–4286. https://doi.org/10.1091/mbc.E08-04-0405
Malek M, Kielkowska A, Chessa T, Anderson KE, Barneda D, Pir P, Nakanishi H, Eguchi S, Koizumi A, Sasaki J, Juvin V, Kiselev VY, Niewczas I, Gray A, Valayer A, Spensberger D, Imbert M, Felisbino S, Habuchi T, Beinke S, Cosulich S, Le Novere N, Sasaki T, Clark J, Hawkins PT, Stephens LR (2017) PTEN regulates PI(3,4)P2 signaling downstream of class I PI3K. Mol Cell 68(3):566–580 . e510. https://doi.org/10.1016/j.molcel.2017.09.024
Folch J (1949) Brain diphosphoninositide, a new phosphatide having inositol metadiphosphate as a constituent. J Biol Chem 177(2):505–519
Folch J (1949) Complete fractionation of brain cephalin; isolation from it of phosphatidyl serine, phosphatidyl ethanolamine, and diphosphoinositide. J Biol Chem 177(2):497–504
Agranoff BW, Murthy P, Seguin EB (1983) Thrombin-induced phosphodiesteratic cleavage of phosphatidylinositol bisphosphate in human platelets. J Biol Chem 258(4):2076–2078
Whiteford CC, Best C, Kazlauskas A, Ulug ET (1996) D-3 phosphoinositide metabolism in cells treated with platelet-derived growth factor. Biochem J 319(Pt 3):851–860. https://doi.org/10.1042/bj3190851
Bonangelino CJ, Nau JJ, Duex JE, Brinkman M, Wurmser AE, Gary JD, Emr SD, Weisman LS (2002) Osmotic stress-induced increase of phosphatidylinositol 3,5-bisphosphate requires Vac14p, an activator of the lipid kinase Fab1p. J Cell Biol 156(6):1015–1028. https://doi.org/10.1083/jcb.200201002
Clarke NG, Dawson RM (1981) Alkaline O leads to N-transacylation. A new method for the quantitative deacylation of phospholipids. Biochem J 195(1):301–306. https://doi.org/10.1042/bj1950301
Bligh EG, Dyer WJ (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37(8):911–917. https://doi.org/10.1139/o59-099
Hale AT, Clarke BP, York JD (2020) Metabolic labeling of inositol phosphates and Phosphatidylinositols in yeast and mammalian cells. Methods Mol Biol 2091:83–92. https://doi.org/10.1007/978-1-0716-0167-9_7
Whitman M, Downes CP, Keeler M, Keller T, Cantley L (1988) Type I phosphatidylinositol kinase makes a novel inositol phospholipid, phosphatidylinositol-3-phosphate. Nature 332(6165):644–646. https://doi.org/10.1038/332644a0
Stack JH, DeWald DB, Takegawa K, Emr SD (1995) Vesicle-mediated protein transport: regulatory interactions between the Vps15 protein kinase and the Vps34 PtdIns 3-kinase essential for protein sorting to the vacuole in yeast. J Cell Biol 129(2):321–334
Schu PV, Takegawa K, Fry MJ, Stack JH, Waterfield MD, Emr SD (1993) Phosphatidylinositol 3-kinase encoded by yeast VPS34 gene essential for protein sorting. Science 260(5104):88–91
Zhang Y, Zolov SN, Chow CY, Slutsky SG, Richardson SC, Piper RC, Yang B, Nau JJ, Westrick RJ, Morrison SJ, Meisler MH, Weisman LS (2007) Loss of Vac14, a regulator of the signaling lipid phosphatidylinositol 3,5-bisphosphate, results in neurodegeneration in mice. Proc Natl Acad Sci U S A 104(44):17518–17523. https://doi.org/10.1073/pnas.0702275104
Sarkes D, Rameh LE (2010) A novel HPLC-based approach makes possible the spatial characterization of cellular PtdIns5P and other phosphoinositides. Biochem J 428(3):375–384. https://doi.org/10.1042/BJ20100129
Wakelam MJ (2014) The uses and limitations of the analysis of cellular phosphoinositides by lipidomic and imaging methodologies. Biochim Biophys Acta 1841(8):1102–1107. https://doi.org/10.1016/j.bbalip.2014.04.005
Jones DR, Ramirez IB, Lowe M, Divecha N (2013) Measurement of phosphoinositides in the zebrafish Danio rerio. Nat Protoc 8(6):1058–1072. https://doi.org/10.1038/nprot.2013.040
Kanehara K, Yu CY, Cho Y, Cheong WF, Torta F, Shui G, Wenk MR, Nakamura Y (2015) Arabidopsis AtPLC2 is a primary phosphoinositide-specific phospholipase C in phosphoinositide metabolism and the endoplasmic reticulum stress response. PLoS Genet 11(9):e1005511. https://doi.org/10.1371/journal.pgen.1005511
McCartney AJ, Zolov SN, Kauffman EJ, Zhang Y, Strunk BS, Weisman LS, Sutton MA (2014) Activity-dependent PI(3,5)P2 synthesis controls AMPA receptor trafficking during synaptic depression. Proc Natl Acad Sci U S A 111(45):E4896–E4905. https://doi.org/10.1073/pnas.1411117111
Samie M, Wang X, Zhang X, Goschka A, Li X, Cheng X, Gregg E, Azar M, Zhuo Y, Garrity AG, Gao Q, Slaugenhaupt S, Pickel J, Zolov SN, Weisman LS, Lenk GM, Titus S, Bryant-Genevier M, Southall N, Juan M, Ferrer M, Xu H (2013) A TRP channel in the lysosome regulates large particle phagocytosis via focal exocytosis. Dev Cell 26(5):511–524. https://doi.org/10.1016/j.devcel.2013.08.003
Acknowledgments
This work was supported by NIH grants R01-NS099340-03 and R01-NS064015-09 to LSW, and LSI Cubed to NS and SSPG. NS was supported in part by NIH T-32-GM007315.
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Steinfeld, N., Giridharan, S.S.P., Kauffman, E.J., Weisman, L.S. (2021). Simultaneous Detection of Phosphoinositide Lipids by Radioactive Metabolic Labeling. In: Botelho, R.J. (eds) Phosphoinositides. Methods in Molecular Biology, vol 2251. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1142-5_1
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DOI: https://doi.org/10.1007/978-1-0716-1142-5_1
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