20
Views
32
CrossRef citations to date
0
Altmetric
Gene Expression

Regulation of Alternative Splicing by SRrp86 and Its Interacting Proteins

, , , , &
Pages 7437-7447 | Received 29 Apr 2003, Accepted 29 Jul 2003, Published online: 27 Mar 2023

REFERENCES

  • Abovich, N., and M. Rosbash. 1997. Cross-intron bridging interactions in the yeast commitment complex are conserved in mammals. Cell 89: 403–412.
  • Ayane, M., U. Preuss, G. Kohler, and P. J. Nielsen. 1991. A differentially expressed murine RNA encoding a protein with similarities to two types of nucleic acid binding motifs. Nucleic Acids Res. 19: 1273–1278.
  • Barnard, D., J. Li, R. Peng, and J. G. Patton. 2002. Regulation of alternative splicing by SRrp86 through co-activation and repression of specific SR proteins. RNA 8: 526–533.
  • Barnard, D. C., and J. G. Patton. 2000. Identification and characterization of a novel serine-arginine-rich splicing regulatory protein. Mol. Cell. Biol. 20: 3049–3057.
  • Blencowe, B. J. 2000. Exonic splicing enhancers: mechanism of action, diversity and role in human genetic disease. Trends Biochem. Sci. 25: 106–110.
  • Brett, D., H. Pospisil, J. Valcárcel, and P. Bork. 2001. Alternative splicing and genome complexity. Nature Genetics 30: 29–30.
  • Burge, C. B., T. Tuschl, and P. A. Sharp. 1999. Splicing of precursors to mRNAs by spliceosomes, p. 525–560. In R. F. Gesteland, T. R. Cech, and J. F. Atkins (ed.), The RNA world, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
  • Cáceres, J. F., T. Misteli, G. R. Screaton, D. L. Spector, and A. R. Krainer. 1997. Role of the modular domains of SR proteins in subnuclear localization and alternative splicing specificity. J. Cell Biol. 138: 225–238.
  • Cáceres, J. F., G. Screaton, and A. R. Krainer. 1998. A specific subset of SR proteins shuttles continuously between the nucleus and cytoplasm. Genes Dev. 12: 55–66.
  • Cáceres, J. F., S. Stamm, D. M. Helfman, and A. R. Krainer. 1994. Regulation of Alternative splicing in vivo by overexpression of antagonistic splicing factors. Science 265: 1706–1708.
  • Cavaloc, Y., C. F. Bourgeois, L. Kister, and J. Stevenin. 1999. The splicing factors 9G8 and SRp20 transactivate splicing through different and specific enhancers. RNA 5: 468–483.
  • Consortium, International Human Genome Sequencing. 2001. Initial sequencing and analysis of the human genome. Nature 409: 860–921.
  • Cowper, A. E., J. F. Cáceres, A. Mayeda, and G. R. Screaton. 2001. SR protein-like factors that antagonize authentic SR proteins and regulate alternative splicing. J. Biol. Chem. 276: 48908–48914.
  • Dye, B. T., and J. G. Patton. 2001. An RNA recognition motif (RRM) is required for the localization of PTB-associated splicing factor (PSF) to subnuclear speckles. Exp. Cell. Res. 263: 131–144.
  • Elliott, D. J., J. P. Venables, C. S. Newton, D. Lawson, S. Boyle, I. C. Eperon, and H. J. Cooke. 2000. An evolutionarily conserved germ cell-specific hnRNP is encoded by a retrotransposed gene. Hum. Mol. Genet. 9: 2117–2124.
  • Eperon, I. C., D. C. Ireland, R. A. Smith, A. Mayeda, and A. R. Krainer. 1993. Pathways for selection of 5′ splice sites by U1 snRNP and SF2/ASF. EMBO J. 12: 3607–3617.
  • Evdokimova, V., P. Ruzanov, H. Imataka, B. Raught, Y. Svitkin, L. P. Ovchinnikov, and N. Sonenberg. 2001. The major mRNA-associated protein YB-1 is a potent 5′ cap-dependent mRNA stabilizer. EMBO J. 20: 5491–5502.
  • Evdokimova, V. M., and L. P. Ovchinnikov. 1999. Translational regulation by Y-box transcription factor: involvement of the major mRNA-associated protein, p50. Int. J. Biochem. Cell Biol. 31: 139–149.
  • Fu, X.-D. 1995. The superfamily of arginine/serine-rich splicing factors. RNA 1: 663–680.
  • Gravely, B. R. 2001. Alternative splicing: increasing diversity in the proteomic world. Trends Genet. 17: 100–107.
  • Gravely, B. R. 2000. Sorting out the complexity of SR protein functions. RNA 6: 1197–1211.
  • Hartmann, A. M., O. Nayler, F. W. Schwaiger, A. Obermeier, and S. Stamm. 1999. The interaction and colocalization of Sam68 with the splicing-associated factor YT521-B in nuclear dots is regulated by the Src family kinase p59fyn. Mol. Biol. Cell 10: 3909–3926.
  • Hastings, M. L., and A. R. Krainer. 2001. Pre-mRNA splicing in the new millennium. Curr. Opin. Cell Biol. 13: 302–309.
  • Honig, A., D. Auboeuf, M. M. Parker, B. W. O'Malley, and S. M. Berget. 2002. Regulation of alternative splicing by the ATP-dependent DEAD-box RNA helicase p72. Mol. Cell. Biol. 22: 5698–5707.
  • Jumaa, H., J. L. Guenet, and P. J. Nielsen. 1997. Regulated expression and RNA processing of transcripts from the SRp20 splicing factor gene during the cell cycle. Mol. Cell. Biol. 17: 3116–3124.
  • Jumaa, H., and P. J. Nielsen. 1997. The splicing factor SRp20 modifies splicing of its own mRNA and ASF/SF2 antagonizes this regulation. EMBO J. 16: 5077–5085.
  • Jurica, M. S., L. J. Licklider, S. P. Gygi, N. Grigorieff, and M. J. Moore. 2002. Purification and characterization of native spliceosomes suitable for three-dimensional analysis. RNA. 8: 426–439.
  • Kanopka, A., O. Muhlemann, S. Petersen-Mahrt, C. Estmer, C. ührmalm, and G. Akusjärvi. 1998. Regulation of adenovirus alternative RNA splicing by dephosphorylation of SR proteins. Nature 393: 185–187.
  • Kennedy, C. F., A. Krämer, and S. M. Berget. 1998. A role for SRp54 during intron bridging of small introns with pyrimidine tracts upstream of the branch point. Mol. Cell. Biol. 18: 5425–5434.
  • Kohtz, J. D., S. F. Jamison, C. L. Will, P. Zuo, R. Lührmann, M. A. Garcia-Blanco, and J. Manley. 1994. Protein-protein interactions and 5′ splice site recognition in mammalian mRNA precursors. Nature 368: 119–124.
  • Koizumi, J., Y. Okamoto, H. Onogi, A. Mayeda, A. Krainer, and M. Hagiwara. 1999. The subcellular localization of ASF/SF2 is regulated by direct interaction with SR protein kinases (SRPKs). J. Biol. Chem. 274: 11125–11131.
  • Künig, H., H. Ponta, and P. Herrlich. 1998. Coupling of signal transduction to alternative pre-mRNA splicing by a composite splice regulator. EMBO J. 17: 2904–2913.
  • Labourier, E., H.-M. Bourbon, I.-E. Gallouzi, M. Fostier, E. Allemand, and J. Tazi. 1999. Antagonism between RSF1 and SR proteins for both splice-site recognition in vitro and Drosophila development. Genes Dev. 13: 740–753.
  • Li, J., D. C. Barnard, and J. G. Patton. 2002. A unique glutamic acid-lysine (EK) domain acts as a splicing inhibitor. J. Biol. Chem. 277: 39485–39492.
  • Link, A. J., J. Eng, D. M. Schieltz, E. Carmack, G. J. Mize, D. R. Morris, B. M. Garvik, and J. R. Yates. 1999. Direct analysis of protein complexes using mass spectrometry. Nature Biotech. 17: 676–682.
  • Longman, D., I. L. Johnstone, and J. F. Cáceres. 2000. Functional characterization of SR and SR-related genes in Caenorhabditis elegans. EMBO J. 19: 1625–1637.
  • Maniatis, T., and R. Reed. 2002. An extensive network of coupling among gene expression machines. Science. 416: 499–506.
  • Manley, J. L., and R. Tacke. 1996. SR proteins and splicing control. Genes Dev. 10: 1569–1579.
  • Mayeda, A., and A. R. Krainer. 1992. Regulation of alternative pre-mRNA splicing by hnRNP A1 and splicing factor SF2. Cell 68: 365–375.
  • Mermoud, J. E., P. T. W. Cohen, and A. I. Lamond. 1994. Regulation of mammalian spliceosome assembly by a protein phosphorylation mechanism. EMBO J. 13: 5679–5688.
  • Nayler, O., W. Stratling, J.-P. Bourquin, I. Stagljar, L. Lindemann, H. Jasper, A. M. Hartmann, F. O. Fackelmayer, A. Ullrich, and S. Stamm. 1998. SAF-B protein couples transcription and pre-mRNA splicing to SAR/MAR elements. Nucleic Acids Res. 26: 3542–3549.
  • Norman, J. T., G. E. Lindahl, K. Shakib, A. En-Nia, E. Yilmaz, and P. R. Mertens. 2001. The Y-box binding protein YB-1 suppresses collagen alpha 1(I) gene transcription via an evolutionarily conserved regulatory element in the proximal promoter. J. Biol. Chem. 276: 29880–29890.
  • Patton, J. G., and C. W. J. Smith. 2001. Alternative pre-mRNA splicing: prevalence, mechanisms, and disease. John Wiley, New York, N.Y.
  • Petersen-Mahrt, S. K., C. Estmer, C. ührmalm, D. A. Matthews, W. C. Russel, and G. Akusjärvi. 1999. The splicing factor-associated protein, p32, regulates RNA splicing by inhibiting ASF/SF2 RNA binding and phosphorylation. EMBO J. 18: 1014–1024.
  • Rappsilber, J., U. Ryder, A. I. Lamond, and M. Mann. 2002. Large scale proteomic analysis of the human spliceosome. Genome Res. 12: 1231–1245.
  • Renz, A., and F. O. Fackelmayer. 1996. Purification and molecular cloning of the scaffold attachment factor B (SAF-B), a novel human nuclear protein that specifically binds to S/MAR-DNA. Nucleic Acids Res. 24: 843–849.
  • Rigaut, G., A. Shevchenko, B. Rutz, M. Wilm, M. Mann, and B. Seraphin. 1999. A general protein purification method for protein complex characterization and proteome exploration. Nat. Biotechnol. 17: 1030–1032.
  • Ring, H. Z., and J. T. Lis. 1994. The SR protein B52/SRp55 is essential for Drosophila development. Mol. Cell. Biol. 14: 7499–7506.
  • Robberson, B. L., G. J. Cote, and S. M. Berget. 1990. Exon definition may facilitate splice site selection in RNAs with multiple exons. Mol. Cell. Biol. 10: 84–94.
  • Roscigno, R. F., and M. A. Garcia-Blanco. 1995. SR proteins escort the U4/U6 tri-snRNP to the spliceosome. RNA 1: 692–706.
  • Sanders, S. L., J. Jennings, A. Canutescu, A. J. Link, and P. A. Weil. 2002. Proteomics of the eukaryotic transcription machinery: identification of proteins associated with components of yeast TFIID by multidimensional mass spectrometry. Mol. Cell. Biol. 22: 4723–4738.
  • Screaton, G. R., J. F. Cáceres, A. Mayeda, M. V. Bell, M. Plebanski, D. G. Jackson, J. I. Bell, and A. R. Krainer. 1995. Identification and characterization of three members of the human SR family of pre-mRNA splicing factors. EMBO J. 14: 4336–4349.
  • Shin, C., and J. L. Manley. 2002. The SR protein SRp38 represses splicing in M phase cells. Cell 111: 407–417.
  • Smith, C. W. J., and J. Valcárcel. 2000. Alternative pre-mRNA splicing: the logic of combinatorial control. Trends Biochem. Sci. 25: 381–388.
  • Spritz, R. A., K. Strunk, C. S. Surowy, S. O. Hoch, D. E. Barton, and U. Francke. 1987. The human U1-70K snRNP protein: cDNA cloning, chromosomal localization, expression, alternative splicing, and RNA binding. Nucleic Acids Res. 15: 10272–10391.
  • Stickeler, M., S. D. Fraser, A. Honig, A. L. Chen, S. M. Berget, and T. A. Cooper. 2001. The RNA binding protein YB-1 binds A/C rich exon enhancers and stimulates splicing of the CD44 alternative exon v4. EMBO J. 20: 3821–3830.
  • Stoss, O., M. Olbrich, A. M. Hartmann, H. Konig, J. Memmott, A. Andreadis, and S. Stamm. 2001. The STAR/GSG family protein rSLM-2 regulates the selection of alternative splice sites. J. Biol. Chem. 276: 8665–8673.
  • Sukegawa, J., and G. Blobel. 1995. A putative mammalian RNA helicase with an arginine-serine-rich domain colocalizes with a splicing factor. J. Biol. Chem. 270: 15702–15706.
  • Sureau, A., R. Gattoni, Y. Dooghe, J. Stevenin, and J. Soret. 2001. SC35 autoregulates its expression by promoting splicing events that destabilize its mRNAs. EMBO J. 20: 1785–1796.
  • Tacke, R., Y. Chen, and J. L. Manley. 1997. Sequence-specific RNA binding by an SR protein requires RS domain phosphorylation: creation of an SRp40-specific splicing enhancer. Proc. Natl. Acad. Sci. USA 94: 1148–1153.
  • Tacke, R., and J. L. Manley. 1999. Determinants of SR protein specificity. Curr. Opin. Cell Biol. 11: 358–362.
  • van der Houven van Oordt, W., M. T. Diaz-Meco, J. Lozano, A. R. Krainer, J. Moscat, and J. F. Cáceres. 2000. The MKK3/6-p38-signaling cascade alters the subcellular distribution of hnRNP A1 and modulates alternative splicing regulation. J. Cell Biol. 149: 307–316.
  • Venables, J. P., D. J. Elliott, O. V. Makarova, E. M. Makarov, H. J. Cooke, and I. C. Eperon. 2000. RBMY, a probable human spermatogenesis factor, and other hnRNP G proteins interact with Tra2β and affect splicing. Hum. Mol. Gen. 9: 685–694.
  • Wang, J., Y. Takagaki, and J. L. Manley. 1996. Targeted disruption of an essential vertebrate gene: ASF/SF2 is required for cell viability. Genes Dev. 10: 2588–2599.
  • Wang, P., P. J. Lou, S. Leu, and P. Ouyang. 2002. Modulation of alternative pre-mRNA splicing in vivo by pinin. Biochem. Biophys. Res. Commun. 294: 448–455.
  • Wu, J. Y., and T. Maniatis. 1993. Specific interactions between proteins implicated in splice site selection and regulated alternative splicing. Cell 75: 1061–1070.
  • Xiao, S.-H., and J. L. Manley. 1998. Phosphorylation-dephosphorylation differentially affects activities of splicing factor ASF/SF2. EMBO J. 17: 6359–6367.
  • Xiao, S. H., and J. L. Manley. 1997. Phosphorylation of the ASF/SF2 RS domain affects both protein-protein and protein-RNA interactions and is necessary for splicing. Genes Dev. 11: 334–344.
  • Yang, X., M.-R. Bani, S.-J. Lu, S. Rowan, Y. Ben-David, and B. Chabot. 1994. The A1 and A1B proteins of heterogeneous nuclear ribonucleoparticles modulate 5′ splice site selection in vivo. Proc. Natl. Acad. Sci. USA 91: 6924–6928.
  • Yeakley, J. M., H. Tronchere, J. Olesen, J. A. Dyck, H.-Y. Wang, and X.-D. Fu. 1999. Phosphorylation regulates in vivo interaction and molecular targeting of serine/arginine-rich pre-mRNA splicing factors. J. Cell Biol. 145: 447–455.
  • Zerler, B., B. Moran, K. Maruyama, J. Moomaw, T. Grodzicker, and E. H. Ruley. 1986. Adenovirus E1A coding sequences that enable ras and pmt oncogenes to transform cultured primary cells. Mol. Cell. Biol. 6: 887–899.
  • Zhou, Z., L. J. Licklider, S. P. Gygi, and R. Reed. 2002. Comprehensive proteomic analysis of the human spliceosome. Nature 419: 182–185.
  • Zuo, P., and J. L. Manley. 1993. Functional domains of the human splicing factor ASF/SF2. EMBO J. 12: 4727–4737.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.