Abstract
Glycosylation is a very frequent post-translational modification in proteins, and the initiation of O-N-acetylgalactosamine (O-GalNAc) glycosylation has been recently described on relevant nuclear proteins. Here we evaluated the nuclear incorporation of a second sugar residue in the biosynthesis pathway of O-GalNAc glycans to yield the terminal core 1 glycan (C1G, Galβ3GalNAcαSer/Thr). Using confocal microscopy, enzymatic assay, affinity chromatography, and mass spectrometry, we analyzed intact cells, purified nuclei and soluble nucleoplasms to identify the essential factors for C1G biosynthesis in the cell nucleus. The enzyme C1GalT1 responsible for C1G synthesis was detected inside the nucleus, while catalytic activity of C1Gal-transferase was present in nucleoplasm and purified nuclei. In addition, C1G were detected in the nucleus inside of intact cells, and nuclear proteins exposing C1G were also identified. These evidences represent the first demonstration of core 1 O-GalNAc glycosylation of proteins in the human cell nucleus. These findings reveal a novel post-translational modification on nuclear proteins, with relevant repercussion in epigenetic and chemical biology areas.
Funding source: CONICET
Award Identifier / Grant number: PIP 11220150100226
Funding source: ANPCyT
Funding source: FONCyT
Award Identifier / Grant number: PICT 2018-03228
Funding source: MinCyT
Funding source: SeCyT, UNC
Funding source: Mizutani Foundation for Glycoscience
Award Identifier / Grant number: 200062
Acknowledgments
This study was supported by funding (to F.J.I.) from CONICET (PIP 11220150100226); ANPCyT, FONCyT (PICT 2018-03228), MinCyT, Pcia Cba (PID 48 Res. 144/18); and SeCyT, UNC in Argentina; and Mizutani Foundation for Glycoscience (No. 200062), Japan. The authors are grateful to S. Deza and G. Schachner for cell culture assistance, and Drs. C. Mas and C. Sampedro for confocal microscopy assistance. Y.C.G. has fellowship assistance from CONICET. R.D.L. and F.J.I. are Career Investigators of CONICET.
Conflict of interest statement: The authors declare no conflict of interest.
References
Andrews, F.H., Strahl, B.D., and Kutateladze, T.G. (2016). Insights into newly discovered marks and readers of epigenetic information. Nat. Chem. Biol. 12: 662–668, https://doi.org/10.1038/nchembio.2149.Search in Google Scholar PubMed PubMed Central
Baltz, A.G., Munschauer, M., Schwanhäusser, B., Vasile, A., Murakawa, Y., Schueler, M., Youngs, N., Penfold-Brown, D., and Drew, K., Milek, M., et al. (2012). The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Mol. Cell 46: 674–690, https://doi.org/10.1016/j.molcel.2012.05.021.Search in Google Scholar PubMed
Baßler, J. and Hurt, E. (2019). Eukaryotic ribosome assembly. Annu. Rev. Biochem. 88: 281–306, https://doi.org/10.1146/annurev-biochem-013118-110817.Search in Google Scholar PubMed
Bennett, E.P., Mandel, U., Clausen, H., Gerken, T.A., Fritz, T.A., and Tabak, L.A. (2012). Control of mucin-type O-glycosylation: a classification of the polypeptide GalNAc-transferase gene family. Glycobiology 22: 736–756, https://doi.org/10.1093/glycob/cwr182.Search in Google Scholar PubMed PubMed Central
Bond, M.R. and Hanover, J.A. (2015). A little sugar goes a long way: the cell biology of O-GlcNAc. J. Cell Biol. 208: 869–880, https://doi.org/10.1083/jcb.201501101.Search in Google Scholar PubMed PubMed Central
Brockhausen, I. (2006). Mucin-type O-glycans in human colon and breast cancer: glycodynamics and functions. EMBO Rep. 7: 599–604, https://doi.org/10.1038/sj.embor.7400705.Search in Google Scholar PubMed PubMed Central
Brockhausen, I. and Stanley, P. (2017). O-GalNAc glycans. In: Essentials of glycobiology. Cold Spring Harbor, New York, pp. 1–9.Search in Google Scholar
Castello, A., Fischer, B., Eichelbaum, K., Horos, R., Beckmann, B.M., Strein, C., Davey, N.E., Humphreys, D.T., and Preiss, T., Steinmetz, L.M., et al. (2012). Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Cell 149: 1393–1406, https://doi.org/10.1016/j.cell.2012.04.031.Search in Google Scholar PubMed
Cejas, R.B., Lorenz, V., Garay, Y.C., and Irazoqui, F.J. (2019). Biosynthesis of O-N-acetylgalactosamine glycans in the human cell nucleus. J. Biol. Chem. 294: 2997–3011, https://doi.org/10.1074/jbc.ra118.005524.Search in Google Scholar PubMed PubMed Central
Collas, P., Lund, E.G., and Oldenburg, A.R. (2014). Closing the (nuclear) envelope on the genome: How nuclear lamins interact with promoters and modulate gene expression. BioEssays 36: 75–83, https://doi.org/10.1002/bies.201300138.Search in Google Scholar PubMed
Freeze, H.H., Hart, G.W., and Schnaar, R.L. (2017). Glycosylation precursors. In: Essentials of glycobiology. Cold Spring Harbor, New York.Search in Google Scholar
Gaudet, P., Livstone, M.S., Lewis, S.E., and Thomas, P.D. (2011). Phylogenetic-based propagation of functional annotations within the gene ontology consortium. Brief. Bioinform. 12: 449–462, https://doi.org/10.1093/bib/bbr042.Search in Google Scholar PubMed PubMed Central
Gong, F., Chiu, L.Y., and Miller, K.M. (2016). Acetylation reader proteins: linking acetylation signaling to genome maintenance and cancer. PLoS Genet. 12: e1006272, https://doi.org/10.1371/journal.pgen.1006272.Search in Google Scholar PubMed PubMed Central
Hart, G.W. (2019). Nutrient regulation of signaling and transcription. J. Biol. Chem. 294: 2211–2231, https://doi.org/10.1074/jbc.aw119.003226.Search in Google Scholar PubMed PubMed Central
Hart, G.W., Housley, M.P., and Slawson, C. (2007). Cycling of O-linked β-N-acetylglucosamine on nucleocytoplasmic proteins. Nature 446: 1017–1022, https://doi.org/10.1038/nature05815.Search in Google Scholar PubMed
Hoja-Łukowicz, D., Szwed, S., Laidler, P., and Lityńska, A. (2018). Proteomic analysis of Tn-bearing glycoproteins from different stages of melanoma cells reveals new biomarkers. Biochimie 151: 14–26, https://doi.org/10.1016/j.biochi.2018.05.010.Search in Google Scholar PubMed
Irazoqui, F.J., Vides, M.A., and Nores, G.A. (1999). Structural requirements of carbohydrates to bind Agaricus bisporus lectin. Glycobiology 9: 59–64, https://doi.org/10.1093/glycob/9.1.59.Search in Google Scholar PubMed
Irazoqui, F.J., Vozari-Hampe, M.M., Lardone, R.D., Villarreal, M.A., Sendra, V.G., Montich, G.G., Trindade, V.M., Clausen, H., and Nores, G.A. (2005). Fine carbohydrate recognition of Euphorbia milii lectin. Biochem. Biophys. Res. Commun. 336: 14–21, https://doi.org/10.1016/j.bbrc.2005.08.028.Search in Google Scholar PubMed
Ishihama, Y., Oda, Y., Tabata, T., Sato, T., Nagasu, T., Rappsilber, J., and Mann, M. (2005). Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol. Cell. Proteomics 4: 1265–1272, https://doi.org/10.1074/mcp.M500061-MCP200.Search in Google Scholar PubMed
Ju, T., Brewer, K., D’Souza, A., Cummings, R.D., and Canfield, W.M. (2002). Cloning and expression of human core 1 β1,3-galactosyltransferase. J. Biol. Chem. 277: 178–186, https://doi.org/10.1074/jbc.m109060200.Search in Google Scholar PubMed
Ju, T. and Cummings, R.D. (2002). A unique molecular chaperone Cosmc required for activity of the mammalian core 1 3-galactosyltransferase. Proc. Natl. Acad. Sci. USA 99: 16613–16618, https://doi.org/10.1073/pnas.262438199.Search in Google Scholar PubMed PubMed Central
Kitazume-Kawaguchi, S., Inoue, S., Inoue, Y., and Lennarz, W.J. (1997). Identification of sulfated oligosialic acid units in the O-linked glycan of the sea urchin egg receptor for sperm. Proc. Natl. Acad. Sci. USA 94: 3650–3655, https://doi.org/10.1073/pnas.94.8.3650.Search in Google Scholar PubMed PubMed Central
Lorenz, V., Ditamo, Y., Cejas, R.B., Carrizo, M.E., Bennett, E.P., Clausen, H., Nores, G.A., and Irazoqui, F.J. (2016). Extrinsic functions of lectin domains in O-N-acetylgalactosamine glycan biosynthesis. J. Biol. Chem. 291: 25339–25350, https://doi.org/10.1074/jbc.m116.740795.Search in Google Scholar
Munkley, J. (2019). The glycosylation landscape of pancreatic cancer. Oncol. Lett. 17: 2569–2575, https://doi.org/10.3892/ol.2019.9885.Search in Google Scholar
Piller, V., Piller, F., and Fukuda, M. (1990). Biosynthesis of truncated O-glycans in the T cell line Jurkat: localization of O-glycan initiation. J. Biol. Chem. 265: 9264–9271, Available at: https://www.jbc.org/.10.1016/S0021-9258(19)38842-8Search in Google Scholar
Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., Preibisch, S., Rueden, C., and Saalfeld, S., Schmid, B., et al. (2012). Fiji: An open-source platform for biological-image analysis. Nat. Methods 9: 676–682, https://doi.org/10.1038/nmeth.2019.Search in Google Scholar PubMed PubMed Central
Shechter, D., Dormann, H.L., Allis, C.D., and Hake, S.B. (2007). Extraction, purification and analysis of histones. Nat. Protoc. 2: 1445–1457, https://doi.org/10.1038/nprot.2007.202.Search in Google Scholar PubMed
Sindrewicz, P., Lian, L.Y., and Yu, L.G. (2016). Interaction of the oncofetal Thomsen–Friedenreich antigen with galectins in cancer progression and metastasis. Front. Oncol. 6: 79, https://doi.org/10.3389/fonc.2016.00079.Search in Google Scholar PubMed PubMed Central
Srivastava, S., and Foltz, D.R. (2018). Posttranslational modifications of CENP-A: marks of distinction. Chromosoma 127: 279–290, https://doi.org/10.1007/s00412-018-0665-x.Search in Google Scholar PubMed PubMed Central
Steentoft, C., Vakhrushev, S.Y., Joshi, H.J., Kong, Y., Vester-Christensen, M.B., Katrine, T., Schjoldager, B.G., Lavrsen, K., and Dabelsteen, S., Pedersen, N.B., et al. (2013). Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology. EMBO J. 32: 1478–1488, https://doi.org/10.1038/emboj.2013.79.Search in Google Scholar PubMed PubMed Central
Steentoft, C., Vakhrushev, S.Y., Vester-Christensen, M.B., Schjoldager, K.T., Kong, Y., Bennett, E.P., Mandel, U., Wandall, H., Levery, S.B., and Clausen, H. (2011). Mining the O-glycoproteome using zinc-finger nuclease-glycoengineered SimpleCell lines. Nat. Methods 8: 977–982, https://doi.org/10.1038/nmeth.1731.Search in Google Scholar PubMed
Tessarz, P., Santos-Rosa, H., Robson, S.C., Sylvestersen, K.B., Nelson, C.J., Nielsen, M.L., and Kouzarides, T. (2014). Glutamine methylation in histone H2A is an RNA-polymerase-I-dedicated modification. Nature 505: 564–568, https://doi.org/10.1038/nature12819.Search in Google Scholar PubMed PubMed Central
Th’ng, J.P.H., Sung, R., Ye, M., and Hendzel, M.J. (2005). H1 family histones in the nucleus: control of binding and localization by the C-terminal domain. J. Biol. Chem. 280: 27809–27814, https://doi.org/10.1074/jbc.M501627200.Search in Google Scholar
Uhlén, M., Fagerberg, L., Hallström, B.M., Lindskog, C., Oksvold, P., Mardinoglu, A., Sivertsson, Å., Kampf, C., and Sjöstedt, E., Asplund, A., et al. (2015). Tissue-based map of the human proteome. Science 347: 1260419, https://doi.org/10.1126/science.1260419.Search in Google Scholar
Wang, Y., Guo, Y.R., Liu, K., Yin, Z., Liu, R., Xia, Y., Tan, L., Yang, P., and Lee, J.H., Li, X.J., et al. (2017). KAT2A coupled with the α-KGDH complex acts as a histone H3 succinyltransferase. Nature 552: 273–277, https://doi.org/10.1038/nature25003.Search in Google Scholar
Xia, L. and McEver, R.P. (2006). Targeted disruption of the gene encoding core 1 β1-3-galactosyltransferase (T-Synthase) causes embryonic lethality and defective angiogenesis in mice. Methods Enzymol. 416: 314–331, https://doi.org/10.1016/S0076-6879(06)16021-8.Search in Google Scholar
Xie, W. and Burke, B. (2016). Lamins. Curr. Biol. 26: R348–R350. https://doi.org/10.1016/j.cub.2016.01.055.Search in Google Scholar PubMed
Yang, Z., Halim, A., Narimatsu, Y., Joshi, H.J., Steentoft, C., Schjoldager, K.T.B.G., Schulz, M.A., Natalie, R., and Sealover, N.R., Kayser, K.J., et al. (2014). The GalNAc-type O-Glycoproteome of CHO cells characterized by the SimpleCell strategy. Mol. Cell. Proteomics 13: 3224–3235, https://doi.org/10.1074/mcp.m114.041541.Search in Google Scholar PubMed PubMed Central
Yu, L.G. (2007). The oncofetal Thomsen-Friedenreich carbohydrate antigen in cancer progression. Glycoconj. J. 24: 411–420, https://doi.org/10.1007/s10719-007-9034-3.Search in Google Scholar PubMed
Supplementary Material
The online version of this article offers supplementary material (https://doi.org/10.1515/hsz-2019-0448).
© 2020 Walter de Gruyter GmbH, Berlin/Boston