The Paf1 complex has functions independent of actively transcribing RNA polymerase II

Molecular Cell

Volumn 14, Issue 4, 2004, Pages 447-456

  Mueller, Cherie L ^a   Porter, Stephanie E ^a   Hoffman, Matthew G ^a   Jaehning, Judith A ^a  

^a UNIVERSITY OF COLORADO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

POLYADENYLATION FACTOR 1; RNA POLYMERASE II; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR CDC73; TRANSCRIPTION FACTOR CTR9; TRANSCRIPTION FACTOR LEO1; TRANSCRIPTION FACTOR RTF1; UNCLASSIFIED DRUG;

ARTICLE; CHROMATIN; CONTROLLED STUDY; NONHUMAN; PROMOTER REGION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN PHOSPHORYLATION; RNA TRANSCRIPTION; TRANSCRIPTION REGULATION;

ADENOSINE TRIPHOSPHATASES; CELL CYCLE PROTEINS; CELLS, CULTURED; CHROMOSOMAL PROTEINS, NON-HISTONE; DOWN-REGULATION; GENES, REGULATOR; MACROMOLECULAR SUBSTANCES; MEMBRANE GLYCOPROTEINS; NUCLEAR PROTEINS; PHENOTYPE; PHOSPHORYLATION; RNA POLYMERASE II; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SERINE; TRANSCRIPTION FACTORS; TRANSCRIPTIONAL ELONGATION FACTORS;

EID: 2442568473     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1097-2765(04)00257-6     Document Type: Article

References (50)

1. Ahn S.H., Kim M., Buratowski S. Phosphorylation of serine 2 within the RNA polymerase II C-terminal domain couples transcription and 3′ end processing. Mol. Cell. 13:2004;67-76
2. Amrani N., Minet M., Wyers F., Dufour M.E., Aggerbeck L.P., Lacroute F. PCF11 encodes a third protein component of yeast cleavage and polyadenylation factor I. Mol. Cell. Biol. 17:1997;1102-1109
3. Angleson J.K., Cochilla A.J., Kilic G., Nussinovitch I., Betz W.J. Regulation of dense core release from neuroendocrine cells revealed by imaging single exocytic events. Nat. Neurosci. 2:1999;440-446
4. Ausubel F.M., Brent R., Kingston R.E., Moore D.D., Seidman J.G., Smith J.A., Struhl K. Current Protocols in Molecular Biology. 1994;John Wiley & Sons, New York, NY
5. Betz J.L., Chang M., Washburn T.M., Porter S.E., Mueller C.L., Jaehning J.A. Phenotypic analysis of Paf1/RNA polymerase II complex mutations reveals connections to cell cycle regulation, protein synthesis, and lipid and nucleic acid metabolism. Mol. Genet. Genomics. 268:2002;272-285
6. Bloch J.C., Perrin F., Lacroute F. Yeast temperature-sensitive mutants specifically impaired in processing of poly(A)-containing RNAs. Mol. Gen. Genet. 165:1978;123-127
7. Borggrefe T., Davis R., Bareket-Samish A., Kornberg R.D. Quantitation of the RNA polymerase II transcription machinery in yeast. J. Biol. Chem. 276:2001;47150-47153
8. Buratowski S. The CTD code. Nat. Struct. Biol. 10:2003;679-680
9. Chang M., French-Cornay D., Fan H.Y., Klein H., Denis C.L., Jaehning J.A. A complex containing RNA polymerase II, Paf1p, Cdc73p, Hpr1p, and Ccr4p plays a role in protein kinase C signaling. Mol. Cell. Biol. 19:1999;1056-1067
10. Chavez S., Aguilera A. The yeast HPR1 gene has a functional role in transcriptional elongation that uncovers a novel source of genome instability. Genes Dev. 11:1997;3459-3470
11. Conaway R.C., Conaway J.W. General initiation factors for RNA polymerase II. Annu. Rev. Biochem. 62:1993;161-190
12. Costa P.J., Arndt K.M. Synthetic lethal interactions suggest a role for the S. cerevisiae Rtf1 protein in transcription elongation. Genetics. 156:2000;535-547
13. Foreman P.K., Davis R.W. CDP1, a novel S. cerevisiae gene required for proper nuclear division and chromosome segregation. Genetics. 144:1996;1387-1397
14. Formosa T., Eriksson P., Wittmeyer J., Ginn J., Yu Y., Stillman D.J. Spt16-Pob3 and the HMG protein Nhp6 combine to form the nucleosome-binding factor SPN. EMBO J. 20:2001;3506-3517
15. Gerber M., Shilatifard A. Transcriptional elongation by RNA polymerase II and histone methylation. J. Biol. Chem. 278:2003;26303-26306
16. Guthrie C., Fink G.R. Guide to yeast genetics and molecular biology. Methods Enzymol. 194:1991;1-931
17. Hartzog G.A., Wada T., Handa H., Winston F. Evidence that Spt4, Spt5, and Spt6 control transcription elongation by RNA polymerase II in S. cerevisiae. Genes Dev. 12:1998;357-369
18. Jensen T.H., Boulay J., Rosbash M., Libri D. The DECD box putative ATPase Sub2p is an early mRNA export factor. Curr. Biol. 11:2001;1711-1715
19. Jensen T.H., Dower K., Libri D., Rosbash M. Early formation of mRNP. license for export or quality control? Mol. Cell. 11:2003;1129-1138
20. Kim M., Ahn S.-H., Krogan N.J., Greenblatt J.F., Buratowski S. Transitions in RNA polymerase II elongation complexes at the 3′ ends of genes. EMBO J. 23:2004;354-364
21. Knop M., Siegers K., Pereira G., Zachariae W., Winsor B., Nasmyth K., Schiebel E. Epitope tagging of yeast genes using a PCR-based strategy. more tags and improved practical routines Yeast. 15:1999;963-972
22. Koch C., Wollmann P., Dahl M., Lottspeich F. A role for Ctr9p and Paf1p in the regulation G1 cyclin expression in yeast. Nucleic Acids Res. 27:1999;2126-2134
23. Krogan N.J., Kim M., Ahn S.H., Zhong G., Kobor M.S., Cagney G., Emili A., Shilatifard A., Buratowski S., Greenblatt J.F. RNA polymerase II elongation factors of S. cerevisiae. a targeted proteomics approach Mol. Cell. Biol. 22:2002;6979-6992
24. Libri D., Dower K., Boulay J., Thomsen R., Rosbash M., Jensen T.H. Interactions between mRNA export commitment, 3′-end quality control, and nuclear degradation. Mol. Cell. Biol. 22:2002;8254-8266
25. Licatalosi D.D., Geiger G., Minet M., Schroeder S., Cilli K., McNeil J.B., Bentley D.L. Functional interaction of yeast pre-mRNA 3′ end processing factors with RNA polymerase II. Mol. Cell. 9:2002;1101-1111
26. Lindstrom D.L., Hartzog G.A. Genetic interactions of Spt4-Spt5 and TFIIS with the RNA polymerase II CTD and CTD modifying enzymes in S. cerevisiae. Genetics. 159:2001;487-497
27. Meluh P.B., Koshland D. Budding yeast centromere composition and assembly as revealed by in vivo cross-linking. Genes Dev. 11:1997;3401-3412
28. Minvielle-Sebastia L., Winsor B., Bonneaud N., Lacroute F. Mutations in the yeast RNA14 and RNA15 genes result in an abnormal mRNA decay rate; sequence analysis reveals an RNA-binding domain in the RNA15 protein. Mol. Cell. Biol. 11:1991;3075-3087
29. Mueller, C.L. (2003), Composition, localization and function of the Paf1/RNA polymerase II complex. Ph.D. thesis, University of Colorado Health Sciences Center, Denver, Colorado.
30. Mueller C.L., Jaehning J.A. Ctr9, Rtf1, and Leo1 are components of the Paf1/RNA polymerase II complex. Mol. Cell. Biol. 22:2002;1971-1980
31. Musso M., Bianchi-Scarra G., Van Dyke M.W. The yeast CDP1 gene encodes a triple-helical DNA-binding protein. Nucleic Acids Res. 28:2000;4090-4096
32. Myer V.E., Young R.A. RNA polymerase II holoenzymes and subcomplexes. J. Biol. Chem. 273:1998;27757-27760
33. Myers L.C., Kornberg R.D. Mediator of transcriptional regulation. Annu. Rev. Biochem. 69:2000;729-749
34. Palancade B., Bensaude O. Investigating RNA polymerase II carboxyl-terminal domain (CTD) phosphorylation. Eur. J. Biochem. 270:2003;3859-3870
35. Pokholok D.K., Hannett N.M., Young R.A. Exchange of RNA polymerase II initiation and elongation factors during gene expression in vivo. Mol. Cell. 9:2002;799-809
36. Porter S.E., Washburn T.M., Chang M., Jaehning J.A. The yeast Paf1-RNA polymerase II complex is required for full expression of a subset of cell cycle-regulated genes. Eukaryot. Cell. 1:2002;830-842
37. Pringle J.R., Adams A.E., Drubin D.G., Haarer B.K. Immunofluorescence methods for yeast. Methods Enzymol. 194:1991;565-602
38. Saunders A., Werner J., Andrulis E.D., Nakayama T., Hirose S., Reinberg D., Lis J.T. Tracking FACT and the RNA polymerase II elongation complex through chromatin in vivo. Science. 301:2003;1094-1096
39. Schneiter R., Guerra C.E., Lampl M., Gogg G., Kohlwein S.D., Klein H.L. The S. cerevisiae hyperrecombination mutant hpr1Δ is synthetically lethal with two conditional alleles of the acetyl coenzyme A carboxylase gene and causes a defect in nuclear export of polyadenylated RNA. Mol. Cell. Biol. 19:1999;3415-3422
40. Schroeder S.C., Schwer B., Shuman S., Bentley D. Dynamic association of capping enzymes with transcribing RNA polymerase II. Genes Dev. 14:2000;2435-2440
41. Shaw R.J., Reines D. S. cerevisiae transcription elongation mutants are defective in PUR5 induction in response to nucleotide depletion. Mol. Cell. Biol. 20:2000;7427-7437
42. Shi X., Finkelstein A., Wolf A.J., Wade P.A., Burton Z.F., Jaehning J.A. Paf1p, an RNA polymerase II-associated factor in S. cerevisiae, may have both positive and negative roles in transcription. Mol. Cell. Biol. 16:1996;669-676
43. Shi X., Chang M., Wolf A.J., Chang C.H., Frazer-Abel A.A., Wade P.A., Burton Z.F., Jaehning J.A. Cdc73p and Paf1p are found in a novel RNA polymerase II-containing complex distinct from the Srbp-containing holoenzyme. Mol. Cell. Biol. 17:1997;1160-1169
44. Simic R., Lindstrom D.L., Tran H.G., Roinick K.L., Costa P.J., Johnson A.D., Hartzog G.A., Arndt K.M. Chromatin remodeling protein Chd1 interacts with transcription elongation factors and localizes to transcribed genes. EMBO J. 22:2003;1846-1856
45. Squazzo S.L., Costa P.J., Lindstrom D.L., Kumer K.E., Simic R., Jennings J.L., Link A.J., Arndt K.M., Hartzog G.A. The Paf1 complex physically and functionally associates with transcription elongation factors in vivo. EMBO J. 21:2002;1764-1774
46. Stolinski L.A., Eisenmann D.M., Arndt K.M. Identification of RTF1, a novel gene important for TATA site selection by TATA box-binding protein in S. cerevisiae. Mol. Cell. Biol. 17:1997;4490-4500
47. Strasser K., Masuda S., Mason P., Pfannstiel J., Oppizzi M., Rodriguez-Navarro S., Rondon A.G., Aguilera A., Struhl K., Reed R., et al. TREX is a conserved complex coupling transcription with messenger RNA export. Nature. 417:2002;304-308
48. Tucker M., Valencia-Sanchez M.A., Staples R.R., Chen J., Denis C.L., Parker R. The transcription factor associated Ccr4 and Caf1 proteins are components of the major cytoplasmic mRNA deadenylase in S. cerevisiae. Cell. 104:2001;377-386
49. Wade P.A., Werel W., Fentzke R.C., Thompson N.E., Leykam J.F., Burgess R.R., Jaehning J.A., Burton Z.F. A novel collection of accessory factors associated with yeast RNA polymerase II. Protein Expr. Purif. 8:1996;85-90
50. Zenklusen D., Vinciguerra P., Wyss J.C., Stutz F. Stable mRNP formation and export require cotranscriptional recruitment of the mRNA export factors Yra1p and Sub2p by Hpr1p. Mol. Cell. Biol. 22:2002;8241-8253