A genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signaling pathway

Nature Genetics

Volumn 37, Issue 12, 2005, Pages 1323-1332

  Nybakken, Kent ^a   Vokes, Steven A ^b   Lin, Ting Yi ^b   McMahon, Andrew P ^b   Perrimon, Norbert ^a,c  

^a HARVARD MEDICAL SCHOOL   (United States)

^b HARVARD UNIVERSITY   (United States)

^c HOWARD HUGHES MEDICAL INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COAT PROTEIN COMPLEX I; CYCLIN DEPENDENT KINASE 9; MESSENGER RNA; NUCLEOPORIN; PHOSPHOPROTEIN PHOSPHATASE 2A; PHOSPHOTRANSFERASE; PROTEASOME; RNA; SONIC HEDGEHOG PROTEIN;

ALTERNATIVE RNA SPLICING; ARTICLE; CONTROLLED STUDY; DROSOPHILA MELANOGASTER; GENE FUNCTION; GENETIC SCREENING; GENOME ANALYSIS; MOLECULAR RECOGNITION; NONHUMAN; PLEIOTROPY; PRIORITY JOURNAL; PROTEIN SYNTHESIS REGULATION; RIBOSOME; RNA INTERFERENCE; RNA SPLICING; RNA TRANSPORT; SCREENING TEST; SIGNAL TRANSDUCTION;

ANIMALS; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; GENE EXPRESSION REGULATION; GENES, INSECT; GENOME, INSECT; GENOMICS; INSECT PROTEINS; PHOSPHOPROTEIN PHOSPHATASE; PHOSPHOTRANSFERASES; RNA INTERFERENCE; RNA SPLICING; RNA, MESSENGER; SIGNAL TRANSDUCTION;

DROSOPHILA MELANOGASTER; ERINACEIDAE; MAMMALIA; VERTEBRATA;

EID: 28444451148     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng1682     Document Type: Article

References (49)

1. Ogden, S.K., Ascano, M. Jr., Stegman, M.A. & Robbins, D.J. Regulation of Hedgehog signaling: a complex story. Biochem. Pharmacol. 67, 805-814 (2004).
2. Nybakken, K. & Perrimon, N. Hedgehog signal transduction: recent findings. Curr. Opin. Genet. Dev. 12, 503-511 (2002).
3. Lum, L. & Beachy, P.A. The Hedgehog response network: sensors, switches, and routers. Science 304, 1755-1759 (2004).
4. Mello, C.C. & Conte, D., Jr. Revealing the world of RNA interference. Nature 431, 338-342 (2004).
5. Boutros, M. et al. Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science 303, 832-835 (2004).
6. Cherry, S. et al. Genome-wide RNAi screen reveals a specific sensitivity of IRES-containing RNA viruses to host translation inhibition. Genes Dev. 19, 445-452 (2005).
7. Foley, E. & O'Farrell, P.H. Functional dissection of an innate immune response by a genome-wide RNAi screen. PLoS Biol. 2, E203 (2004).
8. Kiger, A.A. et al. A functional genomic analysis of cell morphology using RNA interference. J. Biol. 2, 27 (2003).
9. Lum, L. et al. Identification of Hedgehog pathway components by RNAi in Drosophila cultured cells. Science 299, 2039-2045 (2003).
10. Chen, C.H. et al. Nuclear trafficking of Cubitus interruptus in the transcriptional regulation of Hedgehog target gene expression. Cell 98, 305-316 (1999).
11. DasGupta, R., Kaykas, A., Moon, R.T. & Perrimon, N. Functional genomic analysis of the Wnt-wingless signaling pathway. Science 308, 826-833 (2005).
12. Lejeune, F. & Maquat, L.E. Mechanistic links between nonsense-mediated mRNA decay and pre-mRNA splicing in mammalian cells. Curr. Opin. Cell Biol. 17, 309-315 (2005).
13. Pyronnet, S., Pradayrol, L. & Sonenberg, N. Alternative splicing facilitates internal ribosome entry on the ornithine decarboxylase mRNA. Cell. Mol. Life Sci. 62, 1267-1274 (2005).
14. Noureddine, M.A., Donaldson, T.D., Thacker, S.A. & Duronio, R.J. Drosophila Roc1a encodes a RING-H2 protein with a unique function in processing the Hh signal transducer Ci by the SCF E3 ubiquitin ligase. Dev. Cell 2, 757-770 (2002).
15. Ou, C.Y., Lin, Y.F., Chen, Y.J. & Chien, C.T. Distinct protein degradation mechanisms mediated by Cul1 and Cul3 controlling Ci stability in Drosophila eye development. Genes Dev. 16, 2403-2414 (2002).
16. Jiang, J. & Struhl, G. Regulation of the Hedgehog and Wingless signalling pathways by the F-box/WD40-repeat protein Slimb. Nature 391, 493-496 (1998).
17. Deshaies, R.J. SCF and Cullin/Ring H2-based ubiquitin ligases. Annu. Rev. Cell Dev. Biol. 15, 435-467 (1999).
18. de Falco, G. & Giordano, A. CDK9 (PITALRE): a multifunctional cdc2-related kinase. J. Cell. Physiol. 177, 501-506 (1998).
19. De Luca, A., De Falco, M., Baldi, A. & Paggi, M.G. Cyclin T: three forms for different roles in physiological and pathological functions. J. Cell. Physiol. 194, 101-107 (2003).
20. Garriga, J. & Grana, X. Cellular control of gene expression by T-type cyclin/CDK9 complexes. Gene 337, 15-23 (2004).
21. Hu, D., Mayeda, A., Trembley, J.H., Lahti, J.M. & Kidd, V.J. CDK11 complexes promote pre-mRNA splicing. J. Biol. Chem. 278, 8623-8629 (2003).
22. Lahti, J.M., Xiang, J. & Kidd, V.J. The PITSLRE protein kinase family. Prog. Cell Cycle Res. 1, 329-338 (1995).
23. Trembley, J.H. et al. PITSLRE p110 protein kinases associate with transcription complexes and affect their activity. J. Biol. Chem. 277, 2589-2596 (2002).
24. Zhang, K., Smouse, D. & Perrimon, N. The crooked neck gene of Drosophila contains a motif found in a family of yeast cell cycle genes. Genes Dev. 5, 1080-1091 (1991).
25. Raisin-Tani, S. & Leopold, P. Drosophila crooked-neck protein co-fractionates in a multiprotein complex with splicing factors. Biochem. Biophys. Res. Commun. 296, 288-292 (2002).
26. Chung, S., McLean, M.R. & Rymond, B.C. Yeast ortholog of the Drosophila crooked neck protein promotes spliceosome assembly through stable U4/U6.U5 snRNP addition. RNA 5, 1042-1054 (1999).
27. Park, J.W., Parisky, K., Celotto, A.M., Reenan, R.A. & Graveley, B.R. Identification of alternative splicing regulators by RNA interference in Drosophila. Proc. Natl. Acad. Sci. USA 101, 15974-15979 (2004).
28. Burnette, J.M., Hatton, A.R. & Lopez, A.J. Trans-acting factors required for inclusion of regulated exons in the Ultrabithorax mRNAs of Drosophila melanogaster. Genetics 151, 1517-1529 (1999).
29. Black, D.L. Mechanisms of alternative pre-messenger RNA splicing. Annu. Rev. Biochem. 72, 291-336 (2003).
30. Hastings, M.L. & Krainer, A.R. Pre-mRNA splicing in the new millennium. Curr. Opin. Cell biol. 13, 302-309 (2001).
31. Kelley, R.L. Initial organization of the Drosophila dorsoventral axis depends on an RNA-binding protein encoded by the squid gene. Genes Dev. 7, 948-960 (1993).
32. Lall, S. et al. Squid hnRNP protein promotes apical cytoplasmic transport and localization of Drosophila pair-rule transcripts. Cell 98, 171-180 (1999).
33. Barnard, D.C., Ryan, K., Manley, J.L. & Richter, J.D. Symplekin and xGLD-2 are required for CPEB-mediated cytoplasmic polyadenylation. Cell 119, 641-651 (2004).
34. Bastos, R., Lin, A., Enarson, M. & Burke, B. Targeting and function in mRNA export of nuclear pore complex protein Nup153. J. Cell Biol. 134, 1141-1156 (1996).
35. Powers, M.A., Forbes, D.J., Dahlberg, J.E. & Lund, E. The vertebrate GLFG nucleoporin, Nup98, is an essential component of multiple RNA export pathways. J. Cell Biol. 136, 241-250 (1997).
36. Ullman, K.S., Shah, S., Powers, M.A. & Forbes, D.J. The nucleoporin nup153 plays a critical role in multiple types of nuclear export. Mol. Biol. Cell 10, 649-664 (1999).
37. Therond, P.P., Knight, J.D., Kornberg, T.B. & Bishop, J.M. Phosphorylation of the fused protein kinase in response to signaling from hedgehog. Proc. Natl. Acad. Sci. USA 93, 4224-4228 (1996).
38. Robbins, D.J. et al. Hedgehog elicits signal transduction by means of a large complex containing the kinesin-related protein costal2. Cell 90, 225-234 (1997).
39. Wang, Q.T. & Holmgren, R.A. The subcellular localization and activity of Drosophila cubitus interruptus are regulated at multiple levels. Development 126, 5097-5106 (1999).
40. Nybakken, K.E., Turck, C.W., Robbins, D.J. & Bishop, J.M. Hedgehog-stimulated phosphorylation of the kinesin-related protein Costal2 is mediated by the serine/threonine kinase fused. J. Biol. Chem. 277, 24638-24647 (2002).
41. Price, M.A. & Kalderon, D. Proteolysis of the Hedgehog signaling effector Cubitus interruptus requires phosphorylation by Glycogen Synthase Kinase 3 and Casein Kinase 1. Cell 108, 823-835 (2002).
42. Denef, N., Neubuser, D., Perez, L. & Cohen, S.M. Hedgehog induces opposite changes in turnover and subcellular localization of patched and smoothened. Cell 102, 521-531 (2000).
43. Jia, J. et al. Shaggy/GSK3 antagonizes Hedgehog signalling by regulating Cubitus interruptus. Nature 416, 548-552 (2002).
44. Janssens, V. & Goris, J. Protein phosphatase 2A: a highly regulated family of serine/threonine phosphatases implicated in cell growth and signalling. Biochem. J. 353, 417-439 (2001).
45. Randsholt, N.B., Maschat, F. & Santamaria, P. Polyhomeotic controls engrailed expression and the hedgehog signaling pathway in imaginal discs. Mech. Dev. 95, 89-99 (2000).
46. Collins, R.T. & Cohen, S.M. A genetic screen in Drosophila for identifying novel components of the hedgehog signaling pathway. Genetics 170, 173-184 (2005).
47. Bond, B.J. & Davidson, N. The Drosophila melanogaster actin 5C gene uses two transcription initiation sites and three polyadenylation sites to express multiple mRNA species. Mol. Cell. Biol. 6, 2080-2088 (1986).
48. Taylor, F.R. et al. Enhanced potency of human Sonic hedgehog by hydrophobic modification. Biochemistry 40, 4359-4371 (2001).
49. Ascano, M. Jr., Nybakken, K.E., Sosinski, J., Stegman, M.A. & Robbins, D.J. The carboxyl-terminal domain of the protein kinase fused can function as a dominant inhibitor of hedgehog signaling. Mol. Cell. Biol. 22, 1555-1566 (2002).