PTB regulates the processing of a 3′-terminal exon by repressing both splicing and polyadenylation

Molecular and Cellular Biology

Volumn 25, Issue 21, 2005, Pages 9595-9607

  Le Sommer, Caroline ^a   Lesimple, Michelle ^a   Mereau, Agnès ^a   Menoret, Severine ^a   Allo, Marie Rose ^a   Hardy, Serge ^a  

^a CNRS   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHA TROPOMYOSIN; MESSENGER RNA PRECURSOR; POLYPYRIMIDINE TRACT BINDING PROTEIN; TROPOMYOSIN; UNCLASSIFIED DRUG;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; EMBRYO; ENDODERM; EXON; NONHUMAN; POLYADENYLATION; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN FUNCTION; RNA PROCESSING; RNA SPLICING; SKIN; SOMITE; TRANSGENIC ANIMAL; XENOPUS LAEVIS;

ACTININ; ANIMALS; ANIMALS, GENETICALLY MODIFIED; BODY PATTERNING; CELL DIFFERENTIATION; EMBRYO, NONMAMMALIAN; ENDODERM; EXONS; POLYADENYLATION; POLYPYRIMIDINE TRACT-BINDING PROTEIN; PROTEIN ISOFORMS; RNA 3' END PROCESSING; RNA PRECURSORS; RNA SPLICING; SKIN; SOMITES; TROPOMYOSIN; XENOPUS LAEVIS;

ANIMALIA; XENOPUS LAEVIS;

EID: 27144431638     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.25.21.9595-9607.2005     Document Type: Article

References (47)

1. Ashiya, M., and P. J. Grabowski. 1997. A neuron-specific splicing switch mediated by an array of pre-mRNA represser sites: evidence of a regulatory role for the polypyrimidine tract binding protein and a brain-specific PTB counterpart. RNA 3:996-1015.
2. Black, D. L. 2003. Mechanisms of alternative pre-mRNA splicing. Annu. Rev. Biochem. 72:291-336.
3. Brett, D., J. Hanke, G. Lehmann, S. Haase, S. Delbruck, S. Krueger, J. Reich, and P. Bork. 2000. EST comparison indicates 38% of human mRNAs contain possible alternative splice forms. FEBS Lett. 474:83-86.
4. Carstens, R. P., E. J. Wagner, and M. A. Garcia-Blanco. 2000. An intronic splicing silencer causes skipping of the IIIb exon of fibroblast growth factor receptor 2 through involvement of polypyrimidine tract binding protein. Mol. Cell. Biol. 20:7388-7400.
5. Castelo-Branco, P., A. Furger, M. Wollerton, C. Smith, A. Moreira, and N. Proudfoot. 2004. Polypyrimidine tract binding protein modulates efficiency of polyadenylation. Mol. Cell. Biol. 24:4174-4183.
6. 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.
7. Cote, C. A., D. Gautreau, J. M. Denegre, T. L. Kress, N. A. Terry, and K. L. Mowry. 1999. A Xenopus protein related to hnRNP I has a role in cytoplasmic RNA localization. Mol. Cell 4:431-437.
8. Cote, J., S. Dupuis, and J. Y. Wu. 2001. Polypyrimidine track-binding protein binding downstream of caspase-2 alternative exon 9 represses its inclusion. J. Biol. Chem. 276:8535-8543.
9. Croft, L., S. Schandorff, F. Clark, K. Burrage, P. Arctander, and J. S. Mattick. 2000. ISIS, the intron information system, reveals the high frequency of alternative splicing in the human genome. Nat. Genet. 24:340-341.
10. Dansereau, D. A., M. D. Lunke, A. Finkielsztein, M. A. Russel, and W. J. Brook. 2002. Hephaestus encodes a polypyrimidine tract binding protein that regulates Notch signalling during wing development in Drosophila melanogaster. Development 129:5553-5566.
11. Gooding, C., G. C. Roberts, and C. W. Smith. 1998. Role of an inhibitory pyrimidine element and polypyrimidine tract binding protein in repression of a regulated α-tropomyosin exon. RNA 4:85-100.
12. Hamilton, B. J., A. Genin, R. Q. Cron, and W. F. Rigby. 2003. Delineation of a novel pathway that regulates CD154 (CD40 ligand) expression. Mol. Cell. Biol. 23:510-525.
13. Hamon, S., C. Le Sommer, A. Mereau, M. R. Allo, and S. Hardy. 2004. Polypyrimidine tract-binding protein is involved in vivo in repression of a composite internal/3′terrninal exon of the Xenopus α-tropomyosin premRNA. J. Biol. Chem. 279:22166-22175.
14. Hardy, S., M. Y. Fiszman, H. B. Osborne, and P. Thiebaud. 1991. Characterization of muscle and non muscle Xenopus laevis tropomyosin transcribed from the same gene. Eur. J. Biochem. 202:431-440.
15. Hardy, S., S. Hamon, B. Cooper, T. Mohun, and P. Thiébaud. 1999. Two skeletal alpha-tropomyosin transcripts with distinct 3́UTR have different temporal and spatial patterns of expression in the striated muscle lineages of Xenopus laevis. Mech. Dev. 87:199-202.
16. Hellen, C. U., G. W. Witherell, M. Schmid, S. H. Shin, T. V. Pestova, A. Gil, and E. Wimmer. 1993. A cytoplasmic 57-kDa protein that is required for translation of picornavirus RNA by internal ribosomal entry is identical to the nuclear pyrimidine tract-binding protein. Proc. Natl. Acad. Sci. USA 90:7642-7646.
17. Kan, Z., E. C. Rouchka, W. R. Gish, and D. J. States. 2001. Gene structure prediction and alternative splicing analysis using genomically aligned ESTs. Genome Res. 11:889-900.
18. Knoch, K. P., H. Bergert, B. Borgonovo, H. D. Saeger, A. Altkruger, P. Verkade, and M. Solimena. 2004. Polypyrimidine tract-binding protein promotes insulin secretory granule biogenesis. Nat. Cell Biol. 6:207-214.
19. Kroll, K. L., and E. Amaya. 1996. Transgenic Xenopus embryos from sperm nuclear transplantations reveal FGF signaling requirements during gastrulation. Development 122:3173-3183.
20. Le Guiner, C., A. Plet, D. Galiana, M. C. Gesnel, F. Del Gatto-Konczak, and R. Breathnach. 2001. Polypyrimidine tract-binding protein represses splicing of a fibroblast growth factor receptor-2 gene alternative exon through exon sequences. J. Biol. Chem. 276:43677-43687.
21. 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.
22. Lewis, B. P., R. E. Green, and S. E. Brenner. 2003. Evidence for the wide-spread coupling of alternative splicing and nonsense-mediated mRNA decay in humans. Proc. Natl. Acad. Sci. USA 100:189-192.
23. Longman, D., I. L. Johnstone, and J. F. Caceres. 2000. Functional characterization of SR and SR-related genes in Caenorhabditis elegans. EMBO J. 19:1625-1637.
24. Lopez, A. J. 1998. Alternative splicing of pre-mRNA: developmental consequences and mechanisms of regulation. Annu. Rev. Genet. 32:279-305.
25. Lou, H., D. M. Helfman, R. F. Gagel, and S. M. Berget. 1999. Polypyrimidine tract-binding protein positively regulates inclusion of an alternative 3́-terminal exon. Mol. Cell. Biol. 19:78-85.
26. 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.
27. Mironov, A. A., J. W. Fickett, and M. S. Gelfand. 1999. Frequent alternative splicing of human genes. Genome Res. 9:1288-1293.
28. Modrek, B., A. Resch, C. Grasso, and C. Lee. 2001. Genome-wide detection of alternative splicing in expressed sequences of human genes. Nucleic Acids Res. 29:2850-2859.
29. Mohun, T. J., N. Garrett, and J. B. Gurdon. 1986. Upstream sequences required for tissue-specific activation of the cardiac actin gene in Xenopus laevis embryos. EMBO J. 5:3185-3193.
30. Mulligan, G. J., W. Guo, S. Wormsley, and D. M, Helfman. 1992. Polypyrimidine tract binding protein interacts with sequences involved in alternative splicing of β-tropomyosin pre-mRNA. J. Biol. Chem. 267:25480-25487.
31. Nieuwkoop, P., and J. Faber. 1956. Normal table of Xenopus laevis. Daudin, North-Holland, Amsterdam, The Netherlands.
32. Norton, P. A. 1994. Polypyrimidine tract sequences direct selection of alternative branch sites and influence protein binding. Nucleic Acids Res. 22: 3854-3860.
33. Resch, A., Y. Xing, B. Modrek, M. Gorlick, R. Riley, and C. Lee. 2004. Assessing the impact of alternative splicing on domain interactions in the human proteome. J. Proteome Res. 3:76-83.
34. Robida, M. D., and R. Singh. 2003. Drosophila polypyrimidine-tract binding protein (PTB) functions specifically in the male germline. EMBO J. 22:2924-2933.
35. Rooke, N., V. Markovtsov, E. Cagavi, and D. L. Black. 2003. Roles for SR proteins and hnRNP Al in the regulation of c-src exon N1. Mol. Cell. Biol. 23:1874-1884.
36. Shen, H., J. L. Ran, C. Ghigna, G. Biamonti, and M. R. Green. 2004. A single polypyrimidine tract binding protein (PTB) binding site mediates splicing inhibition at mouse IgM exons M1 and M2. RNA 10:787-794.
37. Smith, C. W., and J. Valcarcel. 2000. Alternative pre-mRNA splicing: the logic of combinatorial control. Trends Biochem. Sci. 25:381-388.
38. Southby, J., C. Gooding, and C. W. Smith. 1999. Polypyrimidine tract binding protein functions as a represser to regulate alternative splicing of α-actinin mutually exclusive exons. Mol. Cell. Biol. 19:2699-2711.
39. Thézé, N., S. Hardy, R. Wilson, M. R. Allo, T. Mohun, and P. Thiebaud. 1995. The MLC1f/3f is an early marker of somitic muscle differentiation in Xenopus laevis embryo. Dev. Biol. 171:352-362.
40. Tillmar, L., C. Carlsson, and N. Welsh. 2002. Control of insulin mRNA stability in rat pancreatic islets. Regulatory role of a 3′-untranslated region pyrimidine-rich sequence. J. Biol. Chem. 277:1099-1106.
41. Wagner, E. J., and M. A. Garcia-Blanco. 2001. Polypyrimidine tract binding protein antagonizes exon definition. Mol. Cell. Biol. 21:3281-3288.
42. Wagner, E. J., and M. A. Garcia-Blanco. 2002. RNAi-mediated PTB depletion leads to enhanced exon definition. Mol. Cell 10:943-949.
43. Waites, G. T., I. R. Graham, P. Jackson, D. B. Millake, B. Patel, A. D. Blanchard, P. A. Weller, I. C. Eperon, and D. R. Critchley. 1992. Mutually exclusive splicing of calcium-binding domain exons in chick α-actinin. J. Biol. Chem. 267:6223-6271.
44. Wollerton, M. C., C. Gooding, F. Robinson, E. C. Brown, R. J. Jackson, and C. W. Smith. 2001. Differential alternative splicing activity of isoforms of polypyrimidine tract binding protein (PTB). RNA 7:819-832.
45. Wollerton, M. C., C. Gooding, E. J. Wagner, M. A. Garcia-Blanco, and C. W. Smith. 2004. Autoregulation of polypyrimidine tract binding protein by alternative splicing leading to nonsense-mediated decay. Mol. Cell 13:91-100.
46. Xu, X., D. Yang, J. H. Ding, W. Wang, P. H. Chu, N. D. Dalton, H. Y. Wang, J. R. Bermingham, Jr., Z. Ye, F. Liu, M. G. Rosenfeld, J. L. Manley, J. Ross, Jr., J. Chen, R. P. Xiao, H. Cheng, and X. D. Fu. 2005. ASF/SF2-regulated CaMKIIdelta alternative splicing temporally reprograms excitation-contraction coupling in cardiac muscle. Cell 120:59-72.
47. Zuccato, E., E. Buratti, C. Stuani, F. E. Baralle, and F. Pagani. 2004. An intronic polypyrimidine-rich element downstream of the donor site modulates cystic fibrosis transmembrane conductance regulator exon 9 alternative splicing. J. Biol. Chem. 279:16980-16988.