U2 snRNP is required for expression of the 3′ end of genes

PLoS ONE

Volumn 9, Issue 5, 2014, Pages

  Koga, Mitsunori ^a   Satoh, Takayuki ^a   Takasaki, Ichiro ^a   Kawamura, Yumi ^b   Yoshida, Minoru ^c,d   Kaida, Daisuke ^a  

^a UNIVERSITY OF TOYAMA   (Japan)

^b Elements Chemistry Laboratory   (Japan)

^c RIKEN   (Japan)

^d JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CYCLIN DEPENDENT KINASE 6; RNA POLYMERASE II; SMALL NUCLEAR RIBONUCLEOPROTEIN; SMALL NUCLEAR RIBONUCLEOPROTEIN U2; UNCLASSIFIED DRUG; VASCULOTROPIN RECEPTOR; 3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; EXOSC2 PROTEIN, HUMAN; EXOSOME MULTIENZYME RIBONUCLEASE COMPLEX; MESSENGER RNA; PYRAN DERIVATIVE; RNA BINDING PROTEIN; RNA PRECURSOR; SPIRO COMPOUND; SPLICEOSTATIN A;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ARTICLE; CDK6 GENE; CELL CYCLE CHECKPOINT; CONTROLLED STUDY; DOWN REGULATION; EGFR GENE; GENE; GENE EXPRESSION REGULATION; GENE SILENCING; HELA CELL LINE; POLYADENYLATION; PROTEIN SYNTHESIS; RNA SPLICING; RNA TRANSLATION; SMEK2 GENE; TRANSCRIPTION ELONGATION; TRANSCRIPTION REGULATION; CELL LINE; DRUG EFFECTS; GENETIC TRANSCRIPTION; GENETICS; HUMAN; METABOLISM;

3' UNTRANSLATED REGIONS; 5' UNTRANSLATED REGIONS; CELL LINE; EXOSOME MULTIENZYME RIBONUCLEASE COMPLEX; GENE EXPRESSION REGULATION; GENE KNOCKDOWN TECHNIQUES; HELA CELLS; HUMANS; PYRANS; RIBONUCLEOPROTEIN, U2 SMALL NUCLEAR; RNA POLYMERASE II; RNA PRECURSORS; RNA SPLICING; RNA, MESSENGER; RNA-BINDING PROTEINS; SPIRO COMPOUNDS; TRANSCRIPTION, GENETIC;

EID: 84901325812     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0098015     Document Type: Article

References (40)

1. Danckwardt S, Hentze MW, Kulozik AE (2008) 3′ end mRNA processing: molecular mechanisms and implications for health and disease. The EMBO journal 27: 482-498. (Pubitemid 351225676)
2. Gu M, Lima CD (2005) Processing the message: structural insights into capping and decapping mRNA. Current opinion in structural biology 15: 99-106. (Pubitemid 40249516)
3. Moore MJ, Proudfoot NJ (2009) Pre-mRNA processing reaches back to transcription and ahead to translation. Cell 136: 688-700.
4. Kaida D, Motoyoshi H, Tashiro E, Nojima T, Hagiwara M, et al. (2007) Spliceostatin A targets SF3b and inhibits both splicing and nuclear retention of pre-mRNA. Nature chemical biology 3: 576-583. (Pubitemid 47294395)
5. Bentley DL (2005) Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Current opinion in cell biology 17: 251-256.
6. Hagiwara M, Nojima T (2007) Cross-talks between transcription and posttranscriptional events within a 'mRNA factory'. Journal of biochemistry 142: 11-15. (Pubitemid 351455376)
7. Bhuvanagiri M, Schlitter AM, Hentze MW, Kulozik AE (2010) NMD: RNA biology meets human genetic medicine. The Biochemical journal 430: 365-377.
8. Dziembowski A, Ventura AP, Rutz B, Caspary F, Faux C, et al. (2004) Proteomic analysis identifies a new complex required for nuclear pre-mRNA retention and splicing. The EMBO journal 23: 4847-4856. (Pubitemid 40069714)
9. Galy V, Gadal O, Fromont-Racine M, Romano A, Jacquier A, et al. (2004) Nuclear retention of unspliced mRNAs in yeast is mediated by perinuclear Mlp1. Cell 116: 63-73. (Pubitemid 38156184)
10. Rutz B, Seraphin B (2000) A dual role for BBP/ScSF1 in nuclear pre-mRNA retention and splicing. The EMBO journal 19: 1873-1886. (Pubitemid 30204398)
11. Takemura R, Takeiwa T, Taniguchi I, McCloskey A, Ohno M (2011) Multiple factors in the early splicing complex are involved in the nuclear retention of premRNAs in mammalian cells. Genes to cells: devoted to molecular & cellular mechanisms 16: 1035-1049.
12. Bousquet-Antonelli C, Presutti C, Tollervey D (2000) Identification of a regulated pathway for nuclear pre-mRNA turnover. Cell 102: 765-775.
13. Wahl MC, Will CL, Luhrmann R (2009) The spliceosome: design principles of a dynamic RNP machine. Cell 136: 701-718.
14. Kaida D, Berg MG, Younis I, Kasim M, Singh LN, et al. (2010) U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation. Nature 468: 664-668.
15. Matter N, Konig H (2005) Targeted 'knockdown' of spliceosome function in mammalian cells. Nucleic acids research 33: e41.
16. Nakajima H, Sato B, Fujita T, Takase S, Terano H, et al. (1996) New antitumor substances, FR901463, FR901464 and FR901465. I. Taxonomy, fermentation, isolation, physico-chemical properties and biological activities. The Journal of antibiotics 49: 1196-1203.
17. Nakajima H, Hori Y, Terano H, Okuhara M, Manda T, et al. (1996) New antitumor substances, FR901463, FR901464 and FR901465. II. Activities against experimental tumors in mice and mechanism of action. The Journal of antibiotics 49: 1204-1211.
18. Gozani O, Potashkin J, Reed R (1998) A potential role for U2AF-SAP 155 interactions in recruiting U2 snRNP to the branch site. Molecular and cellular biology 18: 4752-4760. (Pubitemid 28343060)
19. Corrionero A, Minana B, Valcarcel J (2011) Reduced fidelity of branch point recognition and alternative splicing induced by the anti-tumor drug spliceostatin A. Genes & development 25: 445-459.
20. Berg MG, Singh LN, Younis I, Liu Q, Pinto AM, et al. (2012) U1 snRNP determines mRNA length and regulates isoform expression. Cell 150: 53-64.
21. Tomecki R, Drazkowska K, Dziembowski A (2010) Mechanisms of RNA degradation by the eukaryotic exosome. Chembiochem: a European journal of chemical biology 11: 938-945.
22. Anderson JS, Parker RP (1998) The 3′ to 5′ degradation of yeast mRNAs is a general mechanism for mRNA turnover that requires the SKI2 DEVH box protein and 3′ to 5′ exonucleases of the exosome complex. The EMBO journal 17: 1497-1506. (Pubitemid 28105528)
23. Gudipati RK, Xu Z, Lebreton A, Seraphin B, Steinmetz LM, et al. (2012) Extensive degradation of RNA precursors by the exosome in wild-type cells. Molecular cell 48: 409-421.
24. Kim S, Kim H, Fong N, Erickson B, Bentley DL (2011) Pre-mRNA splicing is a determinant of histone H3K36 methylation. Proceedings of the National Academy of Sciences of the United States of America 108: 13564-13569.
25. Martins SB, Rino J, Carvalho T, Carvalho C, Yoshida M, et al. (2011) Spliceosome assembly is coupled to RNA polymerase II dynamics at the 3′ end of human genes. Nature structural & molecular biology 18: 1115-1123.
26. Lin S, Coutinho-Mansfield G, Wang D, Pandit S, Fu XD (2008) The splicing factor SC35 has an active role in transcriptional elongation. Nature structural & molecular biology 15: 819-826.
27. Ji X, Zhou Y, Pandit S, Huang J, Li H, et al. (2013) SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell 153: 855-868.
28. Chathoth KT, Barrass JD, Webb S, Beggs JD (2014) A splicing-dependent transcriptional checkpoint associated with prespliceosome formation. Molecular cell 53: 779-790.
29. Brody Y, Neufeld N, Bieberstein N, Causse SZ, Bohnlein EM, et al. (2011) The in vivo kinetics of RNA polymerase II elongation during co-transcriptional splicing. PLoS biology 9: e1000573.
30. Bondarenko VA, Steele LM, Ujvari A, Gaykalova DA, Kulaeva OI, et al. (2006) Nucleosomes can form a polar barrier to transcript elongation by RNA polymerase II. Molecular cell 24: 469-479. (Pubitemid 44647902)
31. Kireeva ML, Hancock B, Cremona GH, Walter W, Studitsky VM, et al. (2005) Nature of the nucleosomal barrier to RNA polymerase II. Molecular cell 18: 97-108. (Pubitemid 40444651)
32. Li B, Carey M, Workman JL (2007) The role of chromatin during transcription. Cell 128: 707-719. (Pubitemid 46273570)
33. Gowher H, Brick K, Camerini-Otero RD, Felsenfeld G (2012) Vezf1 protein binding sites genome-wide are associated with pausing of elongating RNA polymerase II. Proceedings of the National Academy of Sciences of the United States of America 109: 2370-2375.
34. Gromak N, West S, Proudfoot NJ (2006) Pause sites promote transcriptional termination of mammalian RNA polymerase II. Molecular and cellular biology 26: 3986-3996. (Pubitemid 43726413)
35. Robson-Dixon ND, Garcia-Blanco MA (2004) MAZ elements alter transcription elongation and silencing of the fibroblast growth factor receptor 2 exon IIIb. The Journal of biological chemistry 279: 29075-29084. (Pubitemid 38915778)
36. Cheung AC, Cramer P (2012) A movie of RNA polymerase II transcription. Cell 149: 1431-1437.
37. Nudler E (2012) RNA polymerase backtracking in gene regulation and genome instability. Cell 149: 1438-1445.
38. Sims RJ 3rd, Belotserkovskaya R, Reinberg D (2004) Elongation by RNA polymerase II: the short and long of it. Genes & development 18: 2437-2468. (Pubitemid 39362887)
39. Zhou Q, Li T, Price DH (2012) RNA polymerase II elongation control. Annual review of biochemistry 81: 119-143.
40. Furumai R, Uchida K, Komi Y, Yoneyama M, Ishigami K, et al. (2010) Spliceostatin A blocks angiogenesis by inhibiting global gene expression including VEGF. Cancer science 101: 2483-2489.