Dissecting regulatory pathways of G1/S control in Arabidopsis: common and distinct targets of CYCD3;1, E2Fa and E2Fc (original) (raw)
Beemster GTS, De Vusser K, De Tavernier E, De Bock K, Inzé D (2002) Variation in growth rate between Arabidopsis ecotypes is correlated with cell division and A-type cyclin-dependent kinase activity. Plant Physiol 129:854–864 ArticleCASPubMed Google Scholar
Böhner S, Gatz C (2001) Characterisation of novel target promoters for the dexamethasone-inducible/tetracycline-repressible regulator TGV using luciferase and isopentenyl transferase as sensitive reporter genes. Mol Gen Genet 264:860–870 ArticlePubMed Google Scholar
Botz J, Zerfass-Thome K, Spitkovsky D, Delius H, Vogt B, Eilers M, Hatzigeorgiou A, Jansen-Dürr P (1996) Cell cycle regulation of murine cyclin E gene depends on an E2F binding site in the promoter. Mol Cell Biol 16:3401–3409 CASPubMed Google Scholar
Bracken AP, Ciro M, Cocito A, Helin K (2004) E2F target genes: unraveling the biology. Trends Biochem Sci 29:409–417 ArticleCASPubMed Google Scholar
Clough SJ, Bent AF (1998) Floral dip: a simplified method for _Agrobacterium_-mediated transformation of Arabidopsis thaliana. Plant J 16:735–743 ArticleCASPubMed Google Scholar
de Jager SM, Menges M, Bauer U-M, Murray JAH (2001) Arabidopsis E2F1 binds a sequence present in the promoter of S-phase-regulated gene AtCDC6 and is a member of a multigene family with differential activities. Plant Mol Biol 47:555–568 ArticlePubMed Google Scholar
de Jager SM, Maughan S, Dewitte W, Scofield S, Murray JAH (2005) The developmental context of cell-cycle control in plants. Semin Cell Dev Biol 16:385–396 ArticlePubMed Google Scholar
de Veylder L, Beeckman T, Beemster GTS, de Almeida Engler J, Ormenese S, Maes S, Naudts M, Van Der Schueren E, Jacqmard A, Engler G, Inzé D (2002) Control of proliferation, endoreduplication and differentiation by the Arabidopsis E2Fa-DPa transcription factor. EMBO J 21:1360–1368 ArticlePubMed Google Scholar
DeGregori J, Kowalik T, Nevins JR (1995) Cellular targets for activation by the E2F1 transcription factor include DNA synthesis- and G1/S-regulatory genes. Mol Cell Biol 15:4215–4224 CASPubMed Google Scholar
del Pozo JC, Boniotti MB, Gutierrez C (2002) Arabidopsis E2Fc functions in cell division and is degraded by the ubiquitin-SCFAtSKP2 pathway in response to light. Plant Cell 14:3057–3071 ArticleCASPubMed Google Scholar
del Pozo JC, Diaz-Trivino S, Cisneros N, Gutierrez C (2006) The balance between cell division and endoreduplication depends on E2FC-DPB, transcription factors regulated by the ubiquitin-SCFSKP2A pathway in Arabidopsis. Plant Cell 18:2224–2235 ArticleCASPubMed Google Scholar
Dewitte W, Riou-Khamlichi C, Scofield S, Healy JMS, Jacqmard A, Kilby NJ, Murray JAH (2003) Altered cell cycle distribution, hyperplasia, and inhibited differentiation in Arabidopsis caused by the D-type cyclin CycD3. Plant Cell 15:79–92 ArticleCASPubMed Google Scholar
Dewitte W, Scofield S, Alcasabas AA, Maughan SC, Menges M, Braun N, Collins C, Nieuwland J, Prinsen E, Sundaresan V, Murray JAH (2007) Arabidopsis CYCD3 D-type cyclins link cell proliferation and endocycles and are rate-limiting for cytokinin responses. Proc Natl Acad Sci USA 104:14537–14542 ArticleCASPubMed Google Scholar
Dimova DK, Dyson NJ (2005) The E2F transcriptional network: old acquaintances with new faces. Oncogene 24:2810–2826 ArticleCASPubMed Google Scholar
Dimova DK, Stevaux O, Frolov MV, Dyson NJ (2003) Cell cycle-dependent and cell cycle-independent control of transcription by the Drosophila E2F/RB pathway. Genes Dev 17:2308–2320 ArticleCASPubMed Google Scholar
Giangrande PH, Hallstrom TC, Tunyaplin C, Calame K, Nevins JR (2003) Identification of E-box factor TFE3 as a functional partner for the E2F3 transcription factor. Mol Cell Biol 23:3707–3720 ArticleCASPubMed Google Scholar
Haseloff J, Siemering KR, Prasher DC, Hodge S (1997) Removal of a cryptic intron and subcellular localization of green fluorescent protein are required to mark transgenic Arabidopsis plants brightly. Proc Natl Acad Sci USA 94:2122–2127 ArticleCASPubMed Google Scholar
He SS, Liu J, Xie Z, O’Neill D, Dotson S (2004) Arabidopsis E2Fa plays a bimodal role in regulating cell division and cell growth. Plant Mol Biol 56:171–184 ArticleCASPubMed Google Scholar
Ishida S, Huang E, Zuzan H, Spang R, Leone G, West M, Nevins JR (2001) Role for E2F in control of both DNA replication and mitotic function as revealed from DNA microarray analysis. Mol Cell Biol 21:4684–4699 ArticleCASPubMed Google Scholar
Kosugi S, Ohashi Y (2002a) E2Ls, E2F-like repressors of Arabidopsis that bind to E2F sites in a monomeric form. J Biol Chem 277:16553–16558 ArticleCASPubMed Google Scholar
Kosugi S, Ohashi Y (2002b) Interaction of the Arabidopsis E2F and DP proteins confers their concomitant nuclear translocation and transactivation. Plant Physiol 128:833–843 ArticleCASPubMed Google Scholar
Kosugi S, Ohashi Y (2003) Constitutive E2F expression in tobacco plants exhibits altered cell cycle control and morphological change in a cell type-specific manner. Plant Physiol 132:2012–2022 ArticleCASPubMed Google Scholar
Lammens T, Boudolf V, Kheibarshekan L, Panagiotis Zalmas L, Gaamouche T, Maes S, Vanstraelen M, Kondorosi E, La Thangue NB, Govaerts W, Inzé D, de Veylder L (2008) Atypical E2F activity restrains APC/CCCS52A2 function obligatory for endocycle onset. Proc Natl Acad Sci USA 10:14721–14726 Article Google Scholar
Leone G, DeGregori J, Yan Z, Jakoi L, Ishida S, Williams RS, Nevins JR (1998) E2F3 activity is regulated during the cell cycle and is required for the induction of S phase. Genes Dev 12:2120–2130 ArticleCASPubMed Google Scholar
Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2−∆∆CT method. Methods 25:402–408 ArticleCASPubMed Google Scholar
Luo RX, Postigo AA, Dean DC (1998) Rb interacts with histone deacetylase to repress transcription. Cell 92:463–473 ArticleCASPubMed Google Scholar
Magyar Z, Atanassova A, De Veylder L, Rombauts S, Inze D (2000) Characterization of two distinct DP-related genes from Arabidopsis thaliana. FEBS Lett 486:79–87 ArticleCASPubMed Google Scholar
Magyar Z, De Veylder L, Atanassova A, Bakó L, Inzé D, Bögre L (2005) The role of the Arabidopsis E2FB transcription factor in regulating auxin-dependent cell division. Plant Cell 17:2527–2541 ArticleCASPubMed Google Scholar
Mariconti L, Pellegrini B, Cantoni R, Stevens R, Bergounioux C, Cella R, Albani D (2002) The E2F family of transcription factors from Arabidopsis thaliana. J Biol Chem 277:9911–9919 ArticleCASPubMed Google Scholar
Menges M, Hennig L, Gruissem W, Murray JAH (2002) Cell cycle-regulated gene expression in Arabidopsis. J Biol Chem 277:41987–42002 ArticleCASPubMed Google Scholar
Menges M, de Jager SM, Gruissem W, Murray JAH (2005) Global analysis of the core cell cycle regulators of Arabidopsis identifies novel genes, reveals multiple and highly specific profiles of expression and provides a coherent model for plant cell cycle control. Plant J 41:546–566 ArticleCASPubMed Google Scholar
Menges M, Samland AK, Planchais S, Murray JAH (2006) The D-type cyclin CYCD3;1 is limiting for the G1-to-S-phase transition in Arabidopsis. Plant Cell 18:893–906 ArticleCASPubMed Google Scholar
Miele A, Braastad CD, Holmes WF, Mitra P, Medina R, Xie R, Zaidi SK, Ye X, Wei Y, Harper JW, van Wijnen AJ, Stein JL, Stein GS (2005) HiNF-P directly links the cyclin E/CDK2/p220NPAT pathway to histone H4 gene regulation at the G1/S phase cell cycle transition. Mol Cell Biol 25:6140–6153 ArticleCASPubMed Google Scholar
Müller H, Bracken AP, Vernell R, Moroni MC, Christians F, Grassilli E, Prosperini E, Vigo E, Oliner JD, Helin K (2001) E2Fs regulate the expression of the genes involved in differentiation, development, proliferation, and apoptosis. Genes Dev 15:267–285 ArticlePubMed Google Scholar
Naouar N, Vandepoele K, Lammens T, Casneuf T, Zeller G, van Hummelen P, Weigel D, Ratsch G, Inze D, Kuiper M, De Veylder L, Vuylsteke M (2009) Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes. Plant J 57:184–194 ArticleCASPubMed Google Scholar
Ohtani K, DeGregori J, Leone G, Herendeen DR, Kelly TJ, Nevins JR (1996) Expression of HsOrc1 gene, a human ORC1 homolog, is regulated by cell proliferation via the E2F transcription factor. Mol Cell Biol 16:6977–6984 CASPubMed Google Scholar
Ramirez-Parra E, Fründt C, Gutierrez C (2003) A genome-wide identification of E2F-regulated genes in Arabidopsis. Plant J 33:801–811 ArticleCASPubMed Google Scholar
Ramirez-Parra E, López-Matas MA, Fründt C, Gutierrez C (2004) Role of an atypical E2F transcription factor in the control of Arabidopsis cell growth and differentiation. Plant Cell 16:2350–2363 ArticleCASPubMed Google Scholar
Ren B, Cam H, Takahashi Y, Volkert T, Terragni J, Young R, Aand Dynlacht BD (2002) E2F integrates cell cycle progression with DNA repair, replication, and G2/M checkpoints. Genes Dev 16:245–256 ArticleCASPubMed Google Scholar
Rossignol P, Stevens R, Perennes C, Jasinski S, Cella R, Tremousaygue D, Bergounioux C (2002) AtE2F-a and AtDP-a, members of the E2F family of transcription factors, induce Arabidopsis leaf cells to re-enter S phase. Mol Genet Genomics 266:995–1003 ArticleCASPubMed Google Scholar
Schlisio S, Halperin T, Vidal M, Nevins JR (2002) Interaction of YY1 with E2Fs, mediated by RYBP, provides a mechanism for specificity of E2F function. EMBO J 21:5775–5786 ArticleCASPubMed Google Scholar
Schnittger A, Schöbinger U, Bouyer D, Weinl C, Stierhof Y-D, Hulskamp M (2002) Ectopic D-type cyclin expression induces not only DNA replication but also cell division in Arabidopsis trichomes. Proc Natl Acad Sci USA 99:6410–6415 ArticleCASPubMed Google Scholar
Scofield S, Dewitte W, Murray JAH (2007) The KNOX gene SHOOT MERISTEMLESS is required for the development of reproductive meristematic tissues in Arabidopsis. Plant J 50:767–781 ArticleCASPubMed Google Scholar
Sozzani R, Maggio C, Varotto S, Canova S, Bergounioux C, Albani D, Cella R (2006) Interplay between Arabidopsis activating factors E2Fb and E2Fa in cell cycle progression and development. Plant Physiol 140:1355–1366 ArticleCASPubMed Google Scholar
Tao Y, Kassatly RF, Cress D, Horowitz JM (1997) Subunit composition determines E2F DNA-binding site specificity. Mol Cell Biol 17:6994–7007 CASPubMed Google Scholar
Tommasi S, Pfeifer GP (1997) Constitutive protection of E2F recognition sequences in the human thymidine kinase promoter during cell cycle progression. J Biol Chem 272:30483–30490 ArticleCASPubMed Google Scholar
Vandepoele K, Vlieghe K, Florquin K, Hennig L, Beemster GTS, Gruissem W, Van de Peer Y, Inzé D, De Veylder L (2005) Genome-wide identification of potential plant E2F target genes. Plant Physiol 139:316–328 ArticleCASPubMed Google Scholar
Vlieghe K, Vuylsteke M, Florquin K, Rombauts S, Maes S, Ormenese S, Van Hummelen P, Van de Peer Y, Inzé D, De Veylder L (2003) Microarray analysis of E2Fa-DPa-overexpressing plants uncovers a cross-talking genetic network between DNA replication and nitrogen assimilation. J Cell Sci 116:4249–4259 ArticleCASPubMed Google Scholar
Vlieghe K, Booudolf V, Beemster GTS, Maes S, Magyar Z, Atanassova A, de Almeida Engler J, De Groodt R, Inzé D, De Veylder L (2005) The DP-E2F-like gene DEL1 controls the endocycle in Arabidopsis thaliana. Curr Biol 15:59–63 ArticleCASPubMed Google Scholar
Weinmann AS, Yan PS, Oberley MJ, Huang TH-M, Farnham PJ (2002) Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis. Genes Dev 16:235–244 ArticleCASPubMed Google Scholar
Weintraub SJ, Prater CA, Dean DC (1992) Retinoblastoma protein switches the E2F site from positive to negative element. Nature 358:259–261 ArticleCASPubMed Google Scholar
Wells J, Boyd KE, Fry CJ, Bartley SM, Farnham PJ (2000) Target gene specificity of E2F and pocket protein family members in living cells. Mol Cell Biol 20:5797–5807 ArticleCASPubMed Google Scholar
Wen H, Andrejka L, Ashton J, Karess R, Lipsick JS (2008) Epigenetic regulation of gene expression by Drosophila Myb and E2F2-RBF via the Myb-MuvB/dREAM complex. Genes Dev 22:601–614 ArticleCASPubMed Google Scholar
Wu F, Lee AS (2002) CDP and AP-2 mediated repression mechanism of the replication-dependent hamster histoneH3.2 promoter. J Cell Biochem 84:699–707 ArticlePubMed Google Scholar
Yan T, Yoo D, Berardini TZ, Mueller LA, Weems DC, Weng S, Cherry JM, Rhee SY (2005) PatMatch: a program for finding patterns in peptide and nucleotide sequences. Nucleic Acids Res 33:W262–W266 ArticleCASPubMed Google Scholar
Zheng N, Fraenkel E, Pabo CO, Pavletich NP (1999) Structural basis of DNA recognition by the heterodimeric cell cycle transcription factor E2F-DP. Genes Dev 13:666–674 ArticleCASPubMed Google Scholar