Functional Consequences of Subunit Diversity in RNA Polymerases II and V

Cell Reports

Volumn 1, Issue 3, 2012, Pages 208-214

  Tan, Ek Han ^a,c   Blevins, Todd ^a   Ream, Thomas S ^c,d   Pikaard, Craig S ^a,b  

^a INDIANA UNIVERSITY   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c WASHINGTON UNIVERSITY   (United States)

^d UNIVERSITY OF WISCONSIN MADISON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

RNA POLYMERASE; RNA POLYMERASE II; RNA POLYMERASE V; UNCLASSIFIED DRUG;

ARABIDOPSIS; ARTICLE; CONTROLLED STUDY; DNA METHYLATION; ENZYME ACTIVITY; GENE SILENCING; NONHUMAN; NUCLEAR RNA POLYMERASE B9A GENE; NUCLEAR RNA POLYMERASE B9B GENE; NUCLEAR RNA POLYMERASE D9A GENE; NUCLEAR RNA POLYMERASE D9B GENE; NUCLEAR RNA POLYMERASE E9A GENE; NUCLEAR RNA POLYMERASE E9B GENE; NUCLEOTIDE SEQUENCE; PHENOTYPE; PLANT GENE; STRUCTURE ANALYSIS; TRANSCRIPTION TERMINATION; TRANSGENE;

AMINO ACID SEQUENCE; ARABIDOPSIS; ARABIDOPSIS PROTEINS; CROSSES, GENETIC; DNA METHYLATION; DNA, BACTERIAL; DNA-DIRECTED RNA POLYMERASES; GENE EXPRESSION REGULATION, PLANT; GENE SILENCING; MOLECULAR SEQUENCE DATA; MUTATION; PHYLOGENY; PLANTS, GENETICALLY MODIFIED; PROTEIN SUBUNITS; RNA POLYMERASE II; RNA, MESSENGER; SEQUENCE ALIGNMENT; TRANSGENES;

ARABIDOPSIS THALIANA;

EID: 84861176807     PISSN: None     EISSN: 22111247     Source Type: Journal    
DOI: 10.1016/j.celrep.2012.01.004     Document Type: Article

References (31)

1. Awrey D.E., Weilbaecher R.G., Hemming S.A., Orlicky S.M., Kane C.M., Edwards A.M. Transcription elongation through DNA arrest sites. A multistep process involving both RNA polymerase II subunit RPB9 and TFIIS. J. Biol. Chem. 1997, 272:14747-14754.
2. Blevins T., Pontes O., Pikaard C.S., Meins F. Heterochromatic siRNAs and DDM1 independently silence aberrant 5S rDNA transcripts in Arabidopsis. PLoS ONE 2009, 4:e5932.
3. Clough S.J., Bent A.F. Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 1998, 16:735-743.
4. Cramer P., Armache K.J., Baumli S., Benkert S., Brueckner F., Buchen C., Damsma G.E., Dengl S., Geiger S.R., Jasiak A.J., et al. Structure of eukaryotic RNA polymerases. Annu. Rev. Biophys. 2008, 37:337-352.
5. Earley K.W., Haag J.R., Pontes O., Opper K., Juehne T., Song K., Pikaard C.S. Gateway-compatible vectors for plant functional genomics and proteomics. Plant J. 2006, 45:616-629.
6. El-Shami M., Pontier D., Lahmy S., Braun L., Picart C., Vega D., Hakimi M.A., Jacobsen S.E., Cooke R., Lagrange T. Reiterated WG/GW motifs form functionally and evolutionarily conserved ARGONAUTE-binding platforms in RNAi-related components. Genes Dev. 2007, 21:2539-2544.
7. Haag J.R., Pikaard C.S. Multisubunit RNA polymerases IV and V: purveyors of non-coding RNA for plant gene silencing. Nat. Rev. Mol. Cell Biol. 2011, 12:483-492.
8. Hemming S.A., Jansma D.B., Macgregor P.F., Goryachev A., Friesen J.D., Edwards A.M. RNA polymerase II subunit Rpb9 regulates transcription elongation in vivo. J. Biol. Chem. 2000, 275:35506-35511.
9. Herr A.J., Jensen M.B., Dalmay T., Baulcombe D.C. RNA polymerase IV directs silencing of endogenous DNA. Science 2005, 308:118-120.
10. Hull M.W., McKune K., Woychik N.A. RNA polymerase II subunit RPB9 is required for accurate start site selection. Genes Dev. 1995, 9:481-490.
11. Kanno T., Huettel B., Mette M.F., Aufsatz W., Jaligot E., Daxinger L., Kreil D.P., Matzke M., Matzke A.J. Atypical RNA polymerase subunits required for RNA-directed DNA methylation. Nat. Genet. 2005, 37:761-765.
12. Kettenberger H., Armache K.J., Cramer P. Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS. Mol. Cell 2004, 16:955-965.
13. Koyama H., Ito T., Nakanishi T., Sekimizu K. Stimulation of RNA polymerase II transcript cleavage activity contributes to maintain transcriptional fidelity in yeast. Genes Cells 2007, 12:547-559.
14. Law J.A., Ausin I., Johnson L.M., Vashisht A.A., Zhu J.K., Wohlschlegel J.A., Jacobsen S.E. A protein complex required for polymerase V transcripts and RNA- directed DNA methylation in Arabidopsis. Curr. Biol. 2010, 20:951-956.
15. Law J.A., Jacobsen S.E. Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat. Rev. Genet. 2010, 11:204-220.
16. Law J.A., Vashisht A.A., Wohlschlegel J.A., Jacobsen S.E. SHH1, a homeodomain protein required for DNA methylation, as well as RDR2, RDM4, and chromatin remodeling factors, associate with RNA polymerase IV. PLoS Genet. 2011, 7:e1002195.
17. Li S., Ding B., Chen R., Ruggiero C., Chen X. Evidence that the transcription elongation function of Rpb9 is involved in transcription-coupled DNA repair in Saccharomyces cerevisiae. Mol. Cell. Biol. 2006, 26:9430-9441.
18. Mosher R.A., Schwach F., Studholme D., Baulcombe D.C. PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesis. Proc. Natl. Acad. Sci. USA 2008, 105:3145-3150.
19. Nesser N.K., Peterson D.O., Hawley D.K. RNA polymerase II subunit Rpb9 is important for transcriptional fidelity in vivo. Proc. Natl. Acad. Sci. USA 2006, 103:3268-3273.
20. Onodera Y., Haag J.R., Ream T., Costa Nunes P., Pontes O., Pikaard C.S. Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation. Cell 2005, 120:613-622.
21. Onodera Y., Nakagawa K., Haag J.R., Pikaard D., Mikami T., Ream T., Ito Y., Pikaard C.S. Sex-biased lethality or transmission of defective transcription machinery in Arabidopsis. Genetics 2008, 180:207-218.
22. Pontier D., Yahubyan G., Vega D., Bulski A., Saez-Vasquez J., Hakimi M.A., Lerbs-Mache S., Colot V., Lagrange T. Reinforcement of silencing at transposons and highly repeated sequences requires the concerted action of two distinct RNA polymerases IV in Arabidopsis. Genes Dev. 2005, 19:2030-2040.
23. Ream T.S., Haag J.R., Wierzbicki A.T., Nicora C.D., Norbeck A.D., Zhu J.K., Hagen G., Guilfoyle T.J., Pasa-Tolić L., Pikaard C.S. Subunit compositions of the RNA-silencing enzymes Pol IV and Pol V reveal their origins as specialized forms of RNA polymerase II. Mol. Cell 2009, 33:192-203.
24. Ruan W., Lehmann E., Thomm M., Kostrewa D., Cramer P. Evolution of two modes of intrinsic RNA polymerase transcript cleavage. J. Biol. Chem. 2011, 286:18701-18707.
25. Sun Z.W., Tessmer A., Hampsey M. Functional interaction between TFIIB and the Rpb9 (Ssu73) subunit of RNA polymerase II in Saccharomyces cerevisiae. Nucleic Acids Res. 1996, 24:2560-2566.
26. Walmacq C., Kireeva M.L., Irvin J., Nedialkov Y., Lubkowska L., Malagon F., Strathern J.N., Kashlev M. Rpb9 subunit controls transcription fidelity by delaying NTP sequestration in RNA polymerase II. J. Biol. Chem. 2009, 284:19601-19612.
27. Werner F., Grohmann D. Evolution of multisubunit RNA polymerases in the three domains of life. Nat. Rev. Microbiol. 2011, 9:85-98.
28. Wierzbicki A.T., Haag J.R., Pikaard C.S. Noncoding transcription by RNA polymerase Pol IVb/Pol V mediates transcriptional silencing of overlapping and adjacent genes. Cell 2008, 135:635-648.
29. Wierzbicki A.T., Ream T.S., Haag J.R., Pikaard C.S. RNA polymerase V transcription guides ARGONAUTE4 to chromatin. Nat. Genet. 2009, 41:630-634.
30. Woychik N.A., Lane W.S., Young R.A. Yeast RNA polymerase II subunit RPB9 is essential for growth at temperature extremes. J. Biol. Chem. 1991, 266:19053-19055.
31. Zhang X., Henderson I.R., Lu C., Green P.J., Jacobsen S.E. Role of RNA polymerase IV in plant small RNA metabolism. Proc. Natl. Acad. Sci. USA 2007, 104:4536-4541.