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Stable Isotope Labeling by Amino Acids in Cell Culture, SILAC, as a Simple and Accurate Approach to Expression Proteomics
Open accessAbstract
Quantitative proteomics has traditionally been performed by two-dimensional gel electrophoresis, but recently, mass spectrometric methods based on stable isotope quantitation have shown great promise for the simultaneous and automated identification and quantitation of complex protein mixtures. Here we describe a method, termed SILAC, for stable isotope labeling by amino acids in cell culture, for the in vivo incorporation of specific amino acids into all mammalian proteins. Mammalian cell lines are grown in media lacking a standard essential amino acid but supplemented with a non-radioactive, isotopically labeled form of that amino acid, in this case deuterated leucine (Leu-d3). We find that growth of cells maintained in these media is no different from growth in normal media as evidenced by cell morphology, doubling time, and ability to differentiate. Complete incorporation of Leu-d3 occurred after five doublings in the cell lines and proteins studied. Protein populations from experimental and control samples are mixed directly after harvesting, and mass spectrometric identification is straightforward as every leucine-containing peptide incorporates either all normal leucine or all Leu-d3. We have applied this technique to the relative quantitation of changes in protein expression during the process of muscle cell differentiation. Proteins that were found to be up-regulated during this process include glyceraldehyde-3-phosphate dehydrogenase, fibronectin, and pyruvate kinase M2. SILAC is a simple, inexpensive, and accurate procedure that can be used as a quantitative proteomic approach in any cell culture system.
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“In order to accurately compare the TTR values between individual brain samples and across cohorts of animals, we developed standard curves for both apoE and Aβ using the stable isotope labeling of amino acids in cell culture (SILAC) method [35].”
From Measurement of apolipoprotein E and amyloid β clearance rates in the mouse brain using bolus stable isotope labeling (2012) · cites this paper as [35]
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“Metabolic labeling methods such as SILAC1 (38) excel because of their unparalleled accuracy and robustness, which are mainly due to stability with regard to variability in sample processing and analysis steps.”
From Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ (2014) · cites this paper as [38]
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Citations
Cites
High resolution two-dimensional electrophoresis of proteins.
O’Farrell, P. H. (1975) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)41496-8 · Cited by 19,248
Mass Spectrometric Sequencing of Proteins from Silver-Stained Polyacrylamide Gels
Shevchenko, A., Wilm, M. S., Vorm, O., & Mann, M. (1996) · Analytical Chemistry · doi:10.1021/ac950914h · Cited by 8,996
Self-citationQuantitative analysis of complex protein mixtures using isotope-coded affinity tags
Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F., Gelb, M. H., & Aebersold, R. (1999) · Nature Biotechnology · doi:10.1038/13690 · Cited by 4,683
Femtomole sequencing of proteins from polyacrylamide gels by nano-electrospray mass spectrometry
Wilm, M., Shevchenko, A., Houthaeve, T., Breit, S., Schweigerer, L., Fotsis, T., & Mann, M. (1996) · Nature · doi:10.1038/379466a0 · Cited by 1,674
Self-citationError-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence Tags
Mann, M., & Wilm, M. S. (1994) · Analytical Chemistry · doi:10.1021/ac00096a002 · Cited by 1,473
Self-citationAccurate quantitation of protein expression and site-specific phosphorylation.
Oda, Y., Huang, K., Cross, F., Cowburn, D., & Chait, B. (1999) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.96.12.6591 · Cited by 1,011
Han, D. K. M., Eng, J. K., Zhou, H., & Aebersold, R. H. (2001) · Nature Biotechnology · doi:10.1038/nbt1001-946 · Cited by 868
Serini, G., Bochaton-Piallat, M.-L., Ropraz, P., Geinoz, A., Borsi, L., Zardi, L., & Gabbiani, G. (1998) · The Journal of Cell Biology · doi:10.1083/jcb.142.3.873 · Cited by 847
Proteolytic 18O labeling for comparative proteomics: model studies with two serotypes of adenovirus.
Yao, X.-D., Freas, A., Ramirez, J., Demirev, P., & Fenselau, C. (2001) · Analytical Chemistry · doi:10.1021/ac001404c · Cited by 787
Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome
Oda, Y., Nagasu, T., & Chait, B. T. (2001) · Nature Biotechnology · doi:10.1038/86783 · Cited by 777
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Self-citationCox, J., Hein, M. Y., Luber, C. A., Paron, I., Nagaraj, N., & Mann, M. (2014) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m113.031591 · Cited by 5,180
Self-citationRoss, P. L., Huang, Y. N., Marchese, J. N., Williamson, B., Parker, K., Hattan, S., Khainovski, N., Pillai, S., Dey, S., Daniels, S., et al. (2004) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m400129-mcp200 · Cited by 4,401
Insights into the regulation of protein abundance from proteomic and transcriptomic analyses
Vogel, C., & Marcotte, E. M. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3185 · Cited by 4,195
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Choudhary, C., Kumar, C., Gnad, F., Nielsen, M. L., Rehman, M., Walther, T. C., Olsen, J. V., & Mann, M. (2009) · Science · doi:10.1126/science.1175371 · Cited by 4,040
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Baek, D., Villén, J., Shin, C., Camargo, F. D., Gygi, S. P., & Bartel, D. P. (2008) · Nature · doi:10.1038/nature07242 · Cited by 3,592
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Uhlen, M., Oksvold, P., Fagerberg, L., Lundberg, E., Jonasson, K., Forsberg, M., Zwahlen, M., Kampf, C., Wester, K., Hober, S., et al. (2010) · Nature Biotechnology · doi:10.1038/nbt1210-1248 · Cited by 2,440
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McAlister, G. C., Nusinow, D. P., Jedrychowski, M. P., Wühr, M., Huttlin, E. L., Erickson, B. K., Rad, R., Haas, W., & Gygi, S. P. (2014) · Analytical Chemistry · doi:10.1021/ac502040v · Cited by 1,263
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Lu, P., Vogel, C., Wang, R., Yao, X., & Marcotte, E. M. (2007) · Nature Biotechnology · doi:10.1038/nbt1270 · Cited by 1,139
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Haeusler, A. R., Donnelly, C. J., Periz, G., Simko, E. A. J., Shaw, P. G., Kim, M.-S., Maragakis, N. J., Troncoso, J. C., Pandey, A., Sattler, R., et al. (2014) · Nature · doi:10.1038/nature13124 · Cited by 978
Self-citationDieterich, D. C., Link, A. J., Graumann, J., Tirrell, D. A., & Schuman, E. M. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601637103 · Cited by 874
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de Godoy, L. M. F., Olsen, J. V., Cox, J., Nielsen, M. L., Hubner, N. C., Fröhlich, F., Walther, T. C., & Mann, M. (2008) · Nature · doi:10.1038/nature07341 · Cited by 873
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Krönke, J., Fink, E. C., Hollenbach, P. W., MacBeth, K. J., Hurst, S. N., Udeshi, N. D., Chamberlain, P. P., Mani, D. R., Man, H. W., Gandhi, A. K., et al. (2015) · Nature · doi:10.1038/nature14610 · Cited by 863
Vermeulen, M., Eberl, H. C., Matarese, F., Marks, H., Denissov, S., Butter, F., Lee, K. K., Olsen, J. V., Hyman, A. A., Stunnenberg, H. G., et al. (2010) · Cell · doi:10.1016/j.cell.2010.08.020 · Cited by 806
Self-citationQuantitative mass spectrometry in proteomics: critical review update from 2007 to the present
Bantscheff, M., Lemeer, S., Savitski, M. M., & Kuster, B. (2012) · Analytical and Bioanalytical Chemistry · doi:10.1007/s00216-012-6203-4 · Cited by 801
Martinez, J., Malireddi, R. K. S., Lu, Q., Cunha, L. D., Pelletier, S., Gingras, S., Orchard, R., Guan, J.-L., Tan, H., Peng, J., et al. (2015) · Nature Cell Biology · doi:10.1038/ncb3192 · Cited by 758
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Hung, V., Zou, P., Rhee, H.-W., Udeshi, N. D., Cracan, V., Svinkina, T., Carr, S. A., Mootha, V. K., & Ting, A. Y. (2014) · Molecular Cell · doi:10.1016/j.molcel.2014.06.003 · Cited by 517
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Schaffer, L. V., Millikin, R. J., Miller, R. M., Anderson, L. C., Fellers, R. T., Ge, Y., Kelleher, N. L., LeDuc, R. D., Liu, X., Payne, S. H., et al. (2019) · PROTEOMICS · doi:10.1002/pmic.201800361 · Cited by 209
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Alvarez-Castelao, B., Schanzenbächer, C. T., Hanus, C., Glock, C., tom Dieck, S., Dörrbaum, A. R., Bartnik, I., Nassim-Assir, B., Ciirdaeva, E., Mueller, A., et al. (2017) · Nature Biotechnology · doi:10.1038/nbt.4016 · Cited by 219
Boersema, P. J., Aye, T. T., van Veen, T. A. B., Heck, A. J. R., & Mohammed, S. (2008) · PROTEOMICS · doi:10.1002/pmic.200800297 · Cited by 220
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Franks, A., Airoldi, E., & Slavov, N. (2017) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1005535 · Cited by 219
Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics
Kirkpatrick, D. S., Denison, C., & Gygi, S. P. (2005) · Nature Cell Biology · doi:10.1038/ncb0805-750 · Cited by 209
Metabolic Labeling of Proteins for Proteomics
Beynon, R. J., & Pratt, J. M. (2005) · Molecular & Cellular Proteomics · doi:10.1074/mcp.r400010-mcp200 · Cited by 205
The physiological role of reversible methionine oxidation
Drazic, A., & Winter, J. (2014) · Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics · doi:10.1016/j.bbapap.2014.01.001 · Cited by 198
Boisvert, F.-M., Lam, Y. W., Lamont, D., & Lamond, A. I. (2010) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m900429-mcp200 · Cited by 185
Eberl, H. C., Spruijt, C. G., Kelstrup, C. D., Vermeulen, M., & Mann, M. (2013) · Molecular Cell · doi:10.1016/j.molcel.2012.10.026 · Cited by 189
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Chevrier, N., Mertins, P., Artyomov, M. N., Shalek, A. K., Iannacone, M., Ciaccio, M. F., Gat-Viks, I., Tonti, E., DeGrace, M. M., Clauser, K. R., et al. (2011) · Cell · doi:10.1016/j.cell.2011.10.022 · Cited by 179
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An, J., Ponthier, C. M., Sack, R., Seebacher, J., Stadler, M. B., Donovan, K. A., & Fischer, E. S. (2017) · Nature Communications · doi:10.1038/ncomms15398 · Cited by 176
Zona, L., Lupberger, J., Sidahmed-Adrar, N., Thumann, C., Harris, H. J., Barnes, A., Florentin, J., Tawar, R. G., Xiao, F., Turek, M., et al. (2013) · Cell Host & Microbe · doi:10.1016/j.chom.2013.02.006 · Cited by 182
Kellie, J. F., Higgs, R. E., Ryder, J. W., Major, A., Beach, T. G., Adler, C. H., Merchant, K., & Knierman, M. D. (2014) · Scientific Reports · doi:10.1038/srep05797 · Cited by 182
Recommendations for Validation of LC-MS/MS Bioanalytical Methods for Protein Biotherapeutics
Jenkins, R., Duggan, J. X., Aubry, A.-F., Zeng, J., Lee, J. W., Cojocaru, L., Dufield, D., Garofolo, F., Kaur, S., Schultz, G. A., et al. (2015) · The AAPS Journal · doi:10.1208/s12248-014-9685-5 · Cited by 181
Expedited mapping of the ligandable proteome using fully functionalized enantiomeric probe pairs
Wang, Y., Dix, M. M., Bianco, G., Remsberg, J. R., Lee, H.-Y., Kalocsay, M., Gygi, S. P., Forli, S., Vite, G., Lawrence, R. M., et al. (2019) · Nature Chemistry · doi:10.1038/s41557-019-0351-5 · Cited by 179
Zeiler, M., Straube, W. L., Lundberg, E., Uhlen, M., & Mann, M. (2012) · Molecular & Cellular Proteomics · doi:10.1074/mcp.o111.009613 · Cited by 168
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Baeza, J., Dowell, J. A., Smallegan, M. J., Fan, J., Amador-Noguez, D., Khan, Z., & Denu, J. M. (2014) · Journal of Biological Chemistry · doi:10.1074/jbc.m114.581843 · Cited by 154
Xie, M., Liu, Y. U., Zhao, S., Zhang, L., Bosco, D. B., Pang, Y.-P., Zhong, J., Sheth, U., Martens, Y. A., Zhao, N., et al. (2022) · Nature Neuroscience · doi:10.1038/s41593-021-00975-6 · Cited by 157
Dephoure, N., & Gygi, S. P. (2012) · Science Signaling · doi:10.1126/scisignal.2002548 · Cited by 153
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Soroka, J., Wandinger, S. K., Mäusbacher, N., Schreiber, T., Richter, K., Daub, H., & Buchner, J. (2012) · Molecular Cell · doi:10.1016/j.molcel.2011.12.031 · Cited by 139
Metadata
- Authors
- Ong, S.-E., Blagoev, B., Kratchmarova, I., Kristensen, D. B., Steen, H., Pandey, A., & Mann, M.
- Affiliations
- University of Southern Denmark (DK)
- Corresponding author
- Mann, Matthias
- ORCID
- Venue
- Molecular & Cellular Proteomics
- Publisher
- Elsevier BV
- Published
- 2002-05
- Volume
- 1
- Issue
- 5
- Pages
- 376-386
- ISSN
- 1535-9476 (ISSN-L)
- OpenAlex
- W2140946052
- Cited by
- 5,574
- References
- 41
- Citations by year
- 2026: 69 · 2025: 89 · 2024: 117 · 2023: 142 · 2022: 172 · 2021: 241 · 2020: 192 · 2019: 266 · 2018: 233 · 2017: 300 · 2016: 299 · 2015: 349 · 2014: 397 · 2013: 440 · 2012: 430
- FWCI
- 34.74
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Molecular & Cellular Proteomics (publishedVersion, cc-by)
- PubMed (publishedVersion)
- University of Southern Denmark Research Portal (University of Southern Denmark) (submittedVersion)
- Topics
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Physical Sciences › Chemistry › Spectroscopy › Mass Spectrometry Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Metabolomics and Mass Spectrometry Studies
- Keywords
- SILAC, in vivo protein labeling, quantitative proteomics, protein expression profiling, muscle cell differentiation, fibronectin, PKM2, glyceraldehyde-3-phosphate dehydrogenase
- MeSH terms
- Amino Acids, Animals, Cell Differentiation, Cell Line, Deuterium, Genetic Techniques, Hydrogen-Ion Concentration, Leucine, Muscles, Peptides, Time Factors, Up-Regulation, 3T3 Cells, Cell Culture Techniques, Proteomics, Mice
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