Pre-messenger RNA processing factors in the Drosophila genome

Journal of Cell Biology

Volumn 150, Issue 2, 2000, Pages

  Mount, Stephen M ^a   Salz, Helen K ^b  

^a UNIVERSITY OF MARYLAND   (United States)

^b CASE WESTERN RESERVE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA PRECURSOR; SMALL NUCLEAR RNA;

AMINO ACID SEQUENCE; ARTICLE; DROSOPHILA; GENOME; NONHUMAN; PRIORITY JOURNAL; RNA PROCESSING; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS;

DROSOPHILA;

EID: 0034710240     PISSN: 00219525     EISSN: None     Source Type: Journal    
DOI: 10.1083/jcb.150.2.f37     Document Type: Article

References (48)

1. Abovich, N., and M. Roshash. 1997. Crass-intron bridging interactions in the yeast commitment complex are conserved in mammals. Cell. 89:403-412.
2. Adams, M.D., S.E. Celniker, R.A. Holt, C.A. Evans, J.D. Gocayne, P.G. Amanatides, and J.C. Venter. 2000. The genomic sequence of Drosophila melanogaster. Science. 287:2185-2195.
3. Alonso, A., E. Beck, J.L. Jorcano, and B. Hovemann. 1984. Divergence of U2 snRNA sequences in the genome of D. melanogaster. Nucleic Acids Res. 12: 9543-9550.
4. Altschul, S.F., T.L. Madden, A.A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D.J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
5. Bedford, M.T., D.C. Chan, and P. Leder. 1997. FBP WW domains and the Ab1 SH3 domain bind to a specific class of proline-rich ligands. EMBO (Eur. Mol. Biol. Organ.) J. 16:2376-2383.
6. Bedford, M.T., R. Reed, and P. Leder. 1998. WW domain-mediated interactions reveal a spliceosome-associated protein that binds a third class of proline-rich motif: The proline glycine and methionine-rich motif. Proc. Natl. Acad. Sci. USA 95:10602-10607.
7. Bouveret, E., G. Rigaut, A. Shevchenko, M. Wilm, and B. Seraphin. 2000. A Sm-like protein complex that participates in mRNA degradation. EMBO (Eur. Mol. Biol. Organ.) J. 19:1661-1671.
8. Burge, C.B., T. Tuschl, and P.A. Sharp. 1999. Splicing of precursors to mRNAs by the spliceosome. In The RNA World. R.F. Gesteland and J.F. Atkins, editors. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY. 525-560.
9. Burnette J., A.R. Hatton, and A.J. Lopez. 1999. Trans-acting factors required for inclusion of regulated exons in the ultrabithorax mRNAs of Drosophila melanogaster. Genetics 151:1517-1529.
10. 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.
11. Chung, S., M.R. McLean, and B.C. Rymond. 1999. Yeast ortholog of the Drosophila crooked neck protein promotes spliceosome assembly through stable U4/U6.U5 snRNP addition. RNA 5:1042-1054.
12. Crispino, J., B.J. Blencowe, and P.A. Sharp. 1994. Complementation by SR proteins of pre-mRNA splicing reactions depleted of U1 snRNP. Science. 2:664-673.
13. Das, B., D. Henning, and R. Reddy. 1987. Structure, organization, and transcription of Drosophila U6 small nuclear RNA genes. J. Biol. Chem. 262: 1187-1193.
14. Du, C., M.E. McGuffin, B. Dauwalder, L. Rabinow, and W. Mattox. 1998. Protein phosphorylation plays an essential role in the regulation of alternative splicing and sex determination in Drosophila. Mol. Cell. 2:741-750.
15. Fortes, P., D. Bilbao-Cortes, M. Fornerod, G. Rigaut, W. Raymond, B. Seraphin, and I.W. Mattaj, 1999. Luc7p, a novel yeast U1 snRNP protein with a role in 5′ splice site recognition. Genes Dev. 13:2425-2438.
16. Gottschalk, A., J. Tang, O. Puig, J. Salgado, G. Neubauer, H.V. Colot, M. Mann, B. Seraphin, M. Rosbash, R. Luhrmann, and P. Fabrizio. 1998. A comprehensive biochemical and genetic analysis of the yeast U1 snRNP reveals five novel proteins. RNA. 4:374-393.
17. Graveley, B.R., K.J. Hertel, and T. Maniatis. 1999. SR proteins are locators of the RNA splicing machinery. Curr. Biol. 9:R6-R7.
18. Hall, S.L., and R.A. Padgett. 1994. Conserved sequences in a class of rare eukaryotic nuclear introns with non-consensus splice sites. J. Mol. Biol. 239: 357-365.
19. Huang, X., and W. Miller. 1991. A time-efficient, linear-space local similarity algorithm. Adv. Appl. Math. 12:373-381.
20. Jensen, R.C., Y. Wang, S.B. Hardin, and W.E. Stumph. 1998. The proximal sequence element (PSE) plays a major role in establishing the RNA polymerase specificity of Drosophila U-snRNA genes. Nucleic Acids Res. 26: 616-622.
21. Kambach, C., S. Walke, and K. Nagai. 1999. Structure and assembly of the spliceosomal small nuclear ribonucleoprotein particles. Curr. Opin. Struct. Biol. 9:222-230.
22. Kennedy, C.F., A. Kramer, 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.
23. Komatsu, M., E. Kominami, K. Arahata, and T. Tsukahara. 1999. Cloning and characterization of two neural-salient serine/arginine-rich (NSSR) proteins involved in the regulation of alternative splicing in neurones. Genes Cells. 4:593-606.
24. Lasko, P. 2000. The Drosophila genome: translation factors and RNA binding proteins J. Cell Biol. 150:F51-F56.
25. Lo, P.C.H., and S.M. Mount. 1990. Drosophila melanogaster genes for U1 snRNA variants and their expression during development. Nucleic Acids Res. 18:6971-6979.
26. Lopez, J.A. 1998. Alternative Splicing of Pre-mRNA: Developmental consequences and mechanisms of regulation. Annu. Rev. Genet. 32:279-305.
27. Matunis, E.L., M.J. Matunis, and G. Dreyfuss. 1992. Characterization of the major hnRNP proteins from Drosophila melanogaster. J. Cell Biol. 116:257-269.
28. McLean, M.R., and B.C. Rymond. 1998. Yeast pre-mRNA splicing requires a pair of U1 snRNP-associaled tetratricopeptide repeat proteins. Mol. Cell. Biol. 18:353-360.
29. Minvielle-Sebastia, L., and W. Keller. 1999. mRNA polyadenylation and its coupling to other RNA processing reactions and to transcription. Curr. Opin. Cell Biol. 11:352-357.
30. Mount, S.M. 1997. Genetic depletion reveals an essential role for an SR protein splicing factor in vertebrate cells. Bioessays. 19:189-192.
31. Polycarpou-Schwarz, M., S.I. Gunderson, S. Kandels-Lewis, B. Seraphin, and I.W. Mattaj. 1996. Drosophila SNF/D25 combines the functions of the two snRNP proteins U1A and U2B″ that are encoded separately in human, potato and yeast. RNA. 2:11-23.
32. Puig, O., A. Gottschalk, P. Fabrizio, and B. Seraphin. 1999. Interaction of the U1 snRNP with nonconserved intronic sequences affects 5′ splice site selection. Genes Dev. 13:564-580.
33. Rigaut, G., A. Schevchenko, B. Rutz, M. Wilm, M. Mann, and B. Seraphin. 1999. A generic protein purification method for protein complex characterization and proteome exploration. Nat. Biotechnol. 17:1030-1032.
34. Saba, J.A., H. Busch, D. Wright, and R. Reddy. 1986. Isolation and characterisation of two putative full-length Drosophila U4 small nuclear RNA genes. J. Biol. Chem. 261:8750-8753.
35. Saluz, H., R. Dudler, T. Schmidt, and E. Kubli. 1988. The localization and estimated copy number of Drosophila melanogaster U1, U4, U5 and U6 snRNA genes. Nucleic Acids Res. 16:3582.
36. Staley, J.P., and C. Guthrie. 1998. Mechanical devices of the spliceosome: motors, clocks, springs, and things. Cell. 92:315-326.
37. Stitzinger, S.M., T.R. Conrad, A.M. Zachlin, and H.K. Salz. 1999. Functional analysis of SNF, the Drosophila U1A/U2B″ homolog: identification of dispensable and indispensable motifs for both snRNP assembly and function in vivo. RNA. 5:1440-1450.
38. Stojdl, D.F., and J.C. Bell. 1999. SR protein kinases: the splice of life. Biochem. Cell Biol. 77:293-298.
39. Tacke, R., and J.L. Manley. 1999. Determinants of SR protein specificity. Curr. Opin. Cell Biol. 11:358-362.
40. Tarn, W.Y., and J.A. Steitz. 1994. SR proteins can compensate for the loss of U1 snRNP functions in vitro. Genes Dev. 8:2704-2717.
41. Tarn, W.Y., and J.A. Steitz. 1996. A novel spliceosome containing U11, U12 and U5 snRNPs excises a minor class (AT-AC) intron in vitro. Cell 84:801-811.
42. Tatusova, T.A., and T.L. Madden. 1999. BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences. FEMS (Fed. Eur. Microbiol. Soc.) Microbiol. Lett. 174:247-250.
43. Tharun, S., W. He, A.E. Mayes, P. Lennertz, J.D. Beggs, R. Parker. 2000. Yeast Sm-like proteins function in mRNA decapping and decay. Nature. 404:515-518.
44. Vorbruggen, G., S. Onel, and H. Jackle. 2000. Localized expression of the Drosophila gene Dx16. a novel member of the serine/arginine rich (SR) family of splicing factors. Mech. Dev. 90:309-312.
45. Will, C.L., C. Schneider, R. Reed, and R. Luhrmann. 1999. Identification of both shared and distinct proteins in the major and minor spliceosomes. Science. 284:2003-2005.
46. Yeakley, J.M, H. Tronchere, J. Olesen, J.A. Dyck, H.Y. Wang, and X.D. Fu. 1999. J. Cell Biol. 145:447-455.
47. Zahler, A.M., W.S. Lane, J.A. Stolk, and M.B. Roth. 1992. SR proteins: a conserved family of pre-mRNA splicing factors. Genes Dev. 6:837-847.
48. Zhang, D., and M. Rosbash. 1999. Identification of eight proteins that cross-link to pre-mRNA in the yeast commitment complex. Genes Dev. 13:581-592.