Roles for SR Proteins and hnRNP A1 in the Regulation of c-src Exon N1

REFERENCES

• Black, D. L. 1992. Activation of c-src neuron-specific splicing by an unusual RNA element in vivo and in vitro. Cell 69: 795–807.
   PubMedGoogle Scholar
• Black, D. L. 1991. Does steric interference between splice sites block the splicing of a short c-src neuron-specific exon in non-neuronal cells? Genes Dev. 5: 389–402.
   PubMedGoogle Scholar
• Blanchette, M., and B. Chabot. 1999. Modulation of exon skipping by high-affinity hnRNP A1-binding sites and by intron elements that repress splice site utilization. EMBO J. 18: 1939–1952.
   PubMed Web of Science ®Google Scholar
• Blencowe, B. J. 2000. Exonic splicing enhancers: mechanism of action, diversity and role in human genetic diseases. Trends Biochem. Sci. 25: 106–110.
   PubMed Web of Science ®Google Scholar
• Burd, C. G., and G. Dreyfuss. 1994. RNA binding specificity of hnRNP A1: significance of hnRNP A1 high-affinity binding sites in pre-mRNA splicing. EMBO J. 13: 1197–1204.
   PubMed Web of Science ®Google Scholar
• Buvoli, M., F. Cobianchi, M. G. Bestagno, A. Mangiarotti, M. T. Bassi, G. Biamonti, and S. Riva. 1990. Alternative splicing in the human gene for the core protein A1 generates another hnRNP protein. EMBO J. 9: 1229–1235.
   PubMedGoogle Scholar
• Caceres, J. F., and A. R. Kornblihtt. 2002. Alternative splicing: multiple control mechanisms and involvement in human disease. Trends Genet. 18: 186–193.
   PubMed Web of Science ®Google Scholar
• Caceres, 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: 1706–1709.
   PubMed Web of Science ®Google Scholar
• Caputi, M., and A. M. Zahler. 2001. Determination of the RNA binding specificity of the heterogeneous nuclear ribonucleoprotein (hnRNP) H/H′/F/2H9 family. J. Biol. Chem. 276: 43850–43859.
   PubMed Web of Science ®Google Scholar
• Caputi, M., and A. M. Zahler. 2002. SR proteins and hnRNP H regulate the splicing of the HIV-1 tev-specific exon 6D. EMBO J. 21: 845–855.
   PubMed Web of Science ®Google Scholar
• Cartegni, L., S. L. Chew, and A. R. Krainer. 2002. Listening to silence and understanding nonsense: exonic mutations that affect splicing. Nat. Rev. Genet. 3: 285–298.
   PubMed Web of Science ®Google Scholar
• Chabot, B. 1996. Directing alternative splicing: cast and scenarios. Trends Genet. 12: 472–478.
   PubMedGoogle Scholar
• Chan, R. C., and D. L. Black. 1995. Conserved intron elements repress splicing of a neuron-specific c-src exon in vitro. Mol. Cell. Biol. 15: 6377–6385.
   PubMed Web of Science ®Google Scholar
• Chan, R. C., and D. L. Black. 1997. The polypyrimidine tract binding protein binds upstream of neural cell-specific c-src exon N1 to repress the splicing of the intron downstream. Mol. Cell. Biol. 17: 4667–4676.
   PubMedGoogle Scholar
• Charlet-B, N., P. Logan, G. Singh, and T. A. Cooper. 2002. Dynamic antagonism between ETR-3 and PTB regulates cell type-specific alternative splicing. Mol. Cell 9: 649–658.
   PubMedGoogle Scholar
• Chen, C. D., R. Kobayashi, and D. M. Helfman. 1999. Binding of hnRNP H to an exonic splicing silencer is involved in the regulation of alternative splicing of the rat beta-tropomyosin gene. Genes Dev. 13: 593–606.
   PubMed Web of Science ®Google Scholar
• Chou, M. Y., N. Rooke, C. W. Turck, and D. L. Black. 1999. hnRNP H is a component of a splicing enhancer complex that activates a c-src alternative exon in neuronal cells. Mol. Cell. Biol. 19: 69–77.
   PubMed Web of Science ®Google Scholar
• Chou, M. Y., J. G. Underwood, J. Nikolic, M. H. Luu, and D. L. Black. 2000. Multisite RNA binding and release of polypyrimidine tract binding protein during the regulation of c-src neural-specific splicing. Mol. Cell 5: 949–957.
   PubMed Web of Science ®Google Scholar
• Del Gatto-Konczak, F., M. Olive, M. C. Gesnel, and R. Breathnach. 1999. hnRNP A1 recruited to an exon in vivo can function as an exon splicing silencer. Mol. Cell. Biol. 19: 251–260.
   PubMedGoogle Scholar
• Dreyfuss, G., V. N. Kim, and N. Kataoka. 2002. Messenger-RNA-binding proteins and the messages they carry. Nat. Rev. Mol. Cell. Biol. 3: 195–205.
   PubMed Web of Science ®Google Scholar
• Fogel, B. L., and M. T. McNally. 2000. A cellular protein, hnRNP H, binds to the negative regulator of splicing element from Rous sarcoma virus. J. Biol. Chem. 275: 32371–32378.
   PubMedGoogle Scholar
• Gamberi, C., E. Izaurralde, C. Beisel, and I. W. Mattaj. 1997. Interaction between the human nuclear cap-binding protein complex and hnRNP F. Mol. Cell. Biol. 17: 2587–2597.
   PubMed Web of Science ®Google Scholar
• Grabowski, P. J., and D. L. Black. 2001. Alternative RNA splicing in the nervous system. Prog. Neurobiol. 65: 289–308.
   PubMed Web of Science ®Google Scholar
• Graveley, B. R. 2001. Alternative splicing: increasing diversity in the proteomic world. Trends Genet. 17: 100–107.
   PubMed Web of Science ®Google Scholar
• Graveley, B. R. 2000. Sorting out the complexity of SR protein functions. RNA 6: 1197–1211.
   PubMed Web of Science ®Google Scholar
• Hanamura, A., J. F. Caceres, A. Mayeda, B. R. Franza, Jr., and A. R. Krainer. 1998. Regulated tissue specific expression of antagonistic pre-mRNA splicing factors. RNA 4: 430–444.
   PubMed Web of Science ®Google Scholar
• Hastings, M. L., C. M. Wilson, and S. H. Munroe. 2001. A purine-rich intronic element enhances alternative splicing of thyroid hormone receptor mRNA. RNA 7: 859–874.
   PubMedGoogle Scholar
• Jacquenet, S., A. Mereau, P. S. Bilodeau, L. Damier, C. M. Stoltzfus, and C. Branlant. 2001. A second exon splicing silencer within human immunodeficiency virus type 1 tat exon 2 represses splicing of Tat mRNA and binds protein hnRNP H. J. Biol. Chem. 276: 40464–40475.
   PubMedGoogle Scholar
• Kamma, H., D. S. Portman, and G. Dreyfuss. 1995. Cell type-specific expression of hnRNP proteins. Exp. Cell Res. 221: 187–196.
   PubMedGoogle Scholar
• Krainer, A. R., G. C. Conway, and D. Kozak. 1990. Purification and characterization of pre-mRNA splicing factor SF2 from HeLa cells. Genes Dev. 4: 1158–1171.
   PubMed Web of Science ®Google Scholar
• Krecic, A. M., and M. S. Swanson. 1999. hnRNP complexes: composition, structure, and function. Curr. Opin. Cell Biol. 11: 363–371.
   PubMed Web of Science ®Google Scholar
• Levy, J. B., T. Dorai, L. H. Wang, and J. S. Brugge. 1987. The structurally distinct form of pp60c-src detected in neuronal cells is encoded by a unique c-src mRNA. Mol. Cell. Biol. 7: 4142–4145.
   PubMedGoogle Scholar
• Liu, H. X., S. L. Chew, L. Cartegni, M. Q. Zhang, and A. R. Krainer. 2000. Exonic splicing enhancer motif recognized by human SC35 under splicing conditions. Mol. Cell. Biol. 20: 1063–1071.
   PubMed Web of Science ®Google Scholar
• Liu, H. X., M. Zhang, and A. R. Krainer. 1998. Identification of functional exonic splicing enhancer motifs recognized by individual SR proteins. Genes Dev. 12: 1998–2012.
   PubMed Web of Science ®Google Scholar
• Lopez, A. J. 1998. Alternative splicing of pre-mRNA: developmental consequences and mechanisms of regulation. Annu. Rev. Genet. 32: 279–305.
   PubMed Web of Science ®Google Scholar
• Markovtsov, V., J. M. Nikolic, J. A. Goldman, C. W. Turck, M. Y. Chou, and D. L. Black. 2000. Cooperative assembly of an hnRNP complex induced by a tissue-specific homolog of polypyrimidine tract binding protein. Mol. Cell. Biol. 20: 7463–7479.
   PubMed Web of Science ®Google Scholar
• Martinez, R., B. Mathey-Prevot, A. Bernards, and D. Baltimore. 1987. Neuronal pp60c-src contains a six-amino acid insertion relative to its non-neuronal counterpart. Science 237: 411–415.
   PubMedGoogle Scholar
• Mayeda, A., D. M. Helfman, and A. R. Krainer. 1993. Modulation of exon skipping and inclusion by heterogeneous nuclear ribonucleoprotein A1 and pre-mRNA splicing factor SF2/ASF. Mol. Cell. Biol. 13: 2993–3001.
   PubMed Web of Science ®Google Scholar
• Mayeda, A., and A. R. Krainer. 1992. Regulation of alternative pre-mRNA splicing by hnRNP A1 and splicing factor SF2. Cell 68: 365–375.
   PubMed Web of Science ®Google Scholar
• Mayeda, A., S. H. Munroe, J. F. Caceres, and A. R. Krainer. 1994. Function of conserved domains of hnRNP A1 and other hnRNP A/B proteins. EMBO J. 13: 5483–5495.
   PubMed Web of Science ®Google Scholar
• Min, H., R. C. Chan, and D. L. Black. 1995. The generally expressed hnRNP F is involved in a neural-specific pre-mRNA splicing event. Genes Dev. 9: 2659–2671.
   PubMedGoogle Scholar
• Min, H., C. W. Turck, J. M. Nikolic, and D. L. Black. 1997. A new regulatory protein, KSRP, mediates exon inclusion through an intronic splicing enhancer. Genes Dev. 11: 1023–1036.
   PubMedGoogle Scholar
• Modafferi, E. F., and D. L. Black. 1999. Combinatorial control of a neuron-specific exon. RNA 5: 687–706.
   PubMed Web of Science ®Google Scholar
• Modafferi, E. F., and D. L. Black. 1997. A complex intronic splicing enhancer from the c-src pre-mRNA activates inclusion of a heterologous exon. Mol. Cell. Biol. 17: 6537–6545.
   PubMedGoogle Scholar
• Moore, M. J., and P. A. Sharp. 1992. Site-specific modification of pre-mRNA: the 2′-hydroxyl groups at the splice sites. Science 256: 992–997.
   PubMed Web of Science ®Google Scholar
• Roth, M. B., A. M. Zahler, and J. A. Stolk. 1991. A conserved family of nuclear phosphoproteins localized to sites of polymerase II transcription. J. Cell Biol. 115: 587–596.
   PubMed Web of Science ®Google Scholar
• Smith, C. W., and J. Valcarcel. 2000. Alternative pre-mRNA splicing: the logic of combinatorial control. Trends Biochem. Sci. 25: 381–388.
   PubMed Web of Science ®Google Scholar
• Sun, Q., A. Mayeda, R. K. Hampson, A. R. Krainer, and F. M. Rottman. 1993. General splicing factor SF2/ASF promotes alternative splicing by binding to an exonic splicing enhancer. Genes Dev. 7: 2598–2608.
   PubMed Web of Science ®Google Scholar
• Tacke, R., and J. L. Manley. 1999. Determinants of SR protein specificity. Curr. Opin. Cell Biol. 11: 358–362.
   PubMedGoogle Scholar
• Tacke, R., and J. L. Manley. 1995. The human splicing factors ASF/SF2 and SC35 possess distinct, functionally significant RNA binding specificities. EMBO J. 14: 3540–3551.
   PubMed Web of Science ®Google Scholar
• Tange, T. O., and J. Kjems. 2001. SF2/ASF binds to a splicing enhancer in the third HIV-1 tat exon and stimulates U2AF binding independently of the RS domain. J. Mol. Biol. 312: 649–662.
   PubMed Web of Science ®Google Scholar
• Veraldi, K. L., G. K. Arhin, K. Martincic, L.-H. Chung-Ganster, J. Wilusz, and C. Milcarek. 2001. hnRNP F influences binding of a 64-kilodalton subunit of cleavage stimulation factor to mRNA precursors in mouse B cells. Mol. Cell. Biol. 21: 1228–1238.
   PubMedGoogle Scholar
• Wagner, E. J., and M. A. Garcia-Blanco. 2001. Polypyrimidine tract binding protein antagonizes exon definition. Mol. Cell. Biol. 21: 3281–3288.
   PubMed Web of Science ®Google Scholar
• 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.
   PubMedGoogle Scholar
• Yoshida, T., K. Kokura, Y. Makino, V. Ossipow, and T. Tamura. 1999. Heterogeneous nuclear RNA-ribonucleoprotein F binds to DNA via an oligo(dG)-motif and is associated with RNA polymerase II. Genes Cells 4: 707–719.
   PubMedGoogle Scholar
• Zahler, A. M. 1999. Purification of SR protein splicing factors. Methods Mol. Biol. 118: 419–432.
   PubMedGoogle Scholar
• Zahler, A. M., K. M. Neugebauer, W. S. Lane, and M. B. Roth. 1993. Distinct functions of SR proteins in alternative pre-mRNA splicing. Science 260: 219–222.
   PubMed Web of Science ®Google Scholar
• Zhu, J., A. Mayeda, and A. R. Krainer. 2001. Exon identity established through differential antagonism between exonic splicing silencer-bound hnRNP A1 and enhancer-bound SR proteins. Mol. Cell 8: 1351–1361.
   PubMedGoogle Scholar