Mechanisms of Drosophila Dscam mutually exclusive splicing regulation

Biochemical Society Transactions

Volumn 40, Issue 4, 2012, Pages 804-809

  Hemani, Yash ^a   Soller, Matthias ^a  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

Author keywords

Alternative splicing; Dscam; RNA secondary structure; RNA binding protein

Indexed keywords

DOWN'S SYNDROME CELL ADHESION MOLECULE; DROSOPHILA PROTEIN; RNA BINDING PROTEIN; SMALL NUCLEAR RIBONUCLEOPROTEIN; UNCLASSIFIED DRUG;

ALTERNATIVE RNA SPLICING; CELL DIFFERENTIATION; CONFERENCE PAPER; DROSOPHILA; EXON; NERVE CELL; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; RNA INTERFERENCE; RNA STRUCTURE; TRANSLATION REGULATION;

ALTERNATIVE SPLICING; ANIMALS; CELL ADHESION MOLECULES; DROSOPHILA; DROSOPHILA PROTEINS; NUCLEIC ACID CONFORMATION; RNA-BINDING PROTEINS;

EUKARYOTA;

EID: 84864381556     PISSN: 03005127     EISSN: 14708752     Source Type: Journal    
DOI: 10.1042/BST20120060     Document Type: Conference Paper

References (31)

1. Soller, M. (2006) Pre-messenger RNA processing and its regulation: a genomic perspective. Cell. Mol. Life Sci. 63, 796-819
2. Pan, Q., Shai, O., Lee, L.J., Frey, B.J. and Blencowe, B.J. (2008) Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat. Genet. 40, 1413-1415
3. Wang, E.T., Sandberg, R., Luo, S., Khrebtukova, I., Zhang, L., Mayr, C., Kingsmore, S.F., Schroth, G.P. and Burge, C.B. (2008) Alternative isoform regulation in human tissue transcriptomes. Nature 456, 470-476 (Pubitemid 352759009)
4. Graveley, B.R. (2001) Alternative splicing: increasing diversity in the proteomic world. Trends Genet. 17, 100-107
5. Black, D.L. (2003) Mechanisms of alternative pre-messenger RNA splicing. Annu. Rev. Biochem. 72, 291-336
6. Keren, H., Lev-Maor, G. and Ast, G. (2010) Alternative splicing and evolution: diversification, exon definition and function. Nat. Rev. Genet. 11, 345-355
7. Smith, C.W. and Nadal-Ginard, B. (1989) Mutually exclusive splicing of α-tropomyosin exons enforced by an unusual lariat branch point location: implications for constitutive splicing. Cell 56, 749-758 (Pubitemid 19082509)
8. Smith, C.W. (2005) Alternative splicing - when two's a crowd. Cell 123, 1-3
9. Chang, W.C., Chen, Y.C., Lee, K.M. and Tarn, W.Y. (2007) Alternative splicing and bioinformatic analysis of human U12-type introns. Nucleic Acids Res. 35, 1833-1841
10. Gromak, N., Matlin, A.J., Cooper, T.A. and Smith, C.W. (2003) Antagonistic regulation of α-actinin alternative splicing by CELF proteins and polypyrimidine tract binding protein. RNA 9, 443-456 (Pubitemid 36356731)
11. Jones, R.B., Wang, F., Luo, Y., Yu, C., Jin, C., Suzuki, T., Kan, M. and McKeehan, W.L. (2001) The nonsense-mediated decay pathway and mutually exclusive expression of alternatively spliced FGFR2IIIb and -IIIc mRNAs. J. Biol. Chem. 276, 4158-4167
12. Lee, C., Kim, N., Roy, M. and Graveley, B.R. (2010) Massive expansions of Dscam splicing diversity via staggered homologous recombination during arthropod evolution. RNA 16, 91-105
13. Schmucker, D., Clemens, J.C., Shu, H., Worby, C.A., Xiao, J., Muda, M., Dixon, J.E. and Zipursky, S.L. (2000) Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity. Cell 101, 671-684
14. Hattori, D., Demir, E., Kim, H.W., Viragh, E., Zipursky, S.L. and Dickson, B.J. (2007) Dscam diversity is essential for neuronal wiring and self-recognition. Nature 449, 223-227 (Pubitemid 47402366)
15. Watson, F.L., Puttmann-Holgado, R., Thomas, F., Lamar, D.L., Hughes, M., Kondo, M., Rebel, V.I. and Schmucker, D. (2005) Extensive diversity of Ig-superfamily proteins in the immune system of insects. Science 309, 1874-1878 (Pubitemid 41325101)
16. Wojtowicz, W.M., Flanagan, J.J., Millard, S.S., Zipursky, S.L. and Clemens, J.C. (2004) Alternative splicing of Drosophila Dscam generates axon guidance receptors that exhibit isoform-specific homophilic binding. Cell 118, 619-633 (Pubitemid 39179714)
17. Matthews, B.J., Kim, M.E., Flanagan, J.J., Hattori, D., Clemens, J.C., Zipursky, S.L. and Grueber, W.B. (2007) Dendrite self-avoidance is controlled by Dscam. Cell 129, 593-604 (Pubitemid 46660975)
18. Zhan, X.L., Clemens, J.C., Neves, G., Hattori, D., Flanagan, J.J., Hummel, T., Vasconcelos, M.L., Chess, A. and Zipursky, S.L. (2004) Analysis of Dscam diversity in regulating axon guidance in Drosophila mushroom bodies. Neuron 43, 673-686 (Pubitemid 39179727)
19. Dong, Y., Taylor, H.E. and Dimopoulos, G. (2006) AgDscam, a hypervariable immunoglobulin domain-containing receptor of the Anopheles gambiae innate immune system. PLoS Biol. 4, e229
20. Chen, B.E., Kondo, M., Garnier, A., Watson, F.L., Puettmann-Holgado, R., Lamar, D.R. and Schmucker, D. (2006) The molecular diversity of Dscam is functionally required for neuronal wiring specificity in Drosophila. Cell 125, 607-620
21. Neves, G., Zucker, J., Daly, M. and Chess, A. (2004) Stochastic yet biased expression of multiple Dscam splice variants by individual cells. Nat. Genet. 36, 240-246 (Pubitemid 38282748)
22. Graveley, B.R. (2005) Mutually exclusive splicing of the insect Dscam pre-mRNA directed by competing intronic RNA secondary structures. Cell 123, 65-73
23. Olson, S., Blanchette, M., Park, J., Savva, Y., Yeo, G.W., Yeakley, J.M., Rio, D.C. and Graveley, B.R. (2007) A regulator of Dscam mutually exclusive splicing fidelity. Nat. Struct. Mol. Biol. 14, 1134-1140 (Pubitemid 350223337)
24. Kreahling, J.M. and Graveley, B.R. (2005) The iStem, a long-range RNA secondary structure element required for efficient exon inclusion in the Drosophila Dscam pre-mRNA. Mol. Cell. Biol. 25, 10251-10260 (Pubitemid 41681952)
25. May, G.E., Olson, S., McManus, C.J. and Graveley, B.R. (2011) Competing RNA secondary structures are required for mutually exclusive splicing of the Dscam exon 6 cluster. RNA 17, 222-229
26. Yang, Y., Zhan, L., Zhang, W., Sun, F., Wang, W., Tian, N., Bi, J., Wang, H., Shi, D., Jiang, Y. et al. (2011) RNA secondary structure in mutually exclusive splicing. Nat. Struct. Mol. Biol. 18, 159-168
27. Khodor, Y.L., Rodriguez, J., Abruzzi, K.C., Tang, C.H., Marr, II, M.T. and Rosbash, M. (2011) Nascent-seq indicates widespread cotranscriptional pre-mRNA splicing in Drosophila. Genes Dev. 25, 2502-2512
28. Anastassiou, D., Liu, H. and Varadan, V. (2006) Variable window binding for mutually exclusive alternative splicing. Genome Biol. 7, R2
29. McManus, C.J. and Graveley, B.R. (2011) RNA structure and the mechanisms of alternative splicing. Curr. Opin. Genet. Dev. 21, 373-379
30. Wang, J., Ma, X., Yang, J.S., Zheng, X., Zugates, C.T., Lee, C.H. and Lee, T. (2004) Transmembrane/juxtamembrane domain-dependent Dscam distribution and function during mushroom body neuronal morphogenesis. Neuron 43, 663-672 (Pubitemid 39179726)
31. Park, J.W., Parisky, K., Celotto, A.M., Reenan, R.A. and Graveley, B.R. (2004) Identification of alternative splicing regulators by RNA interference in Drosophila. Proc. Natl. Acad. Sci. U.S.A. 101, 15974-15979 (Pubitemid 39507912)