[en] Many plants require prolonged cold exposure to acquire the competence to flower. The process by which cold exposure results in competence is known as vernalization. In Arabidopsis thaliana, vernalization leads to the stable repression of the floral repressor FLOWERING LOCUS C via chromatin modification including an increase of trimethylation on lysine 27 of histone H3 (H3K27me3) by Polycomb Repressive Complex 2 (PRC2). Vernalization in pooids is associated with the stable induction of a floral promoter, VERNALIZATION 1. From a screen for mutants with a reduced vernalization requirement in the model grass Brachypodium distachyon, we identified two recessive alleles of ENHANCER OF ZESTE-LIKE 1 (EZL1). EZL1 is orthologous to Arabidopsis CURLY LEAF 1, a gene that encodes the catalytic subunit of PRC2. B. distachyon ezl1 mutants flower rapidly without vernalization in long-day (LD) photoperiods; thus, EZL1 is required for proper maintenance of the vegetative state prior to vernalization. Transcriptomic studies in ezl1 revealed mis-regulation of thousands of genes including ectopic expression of several floral homeotic genes in leaves. Loss of EZL1 results in the global reduction of H3K27me3 and H3K27me2, consistent with this gene making a major contribution to PRC2 activity in B. distachyon. Furthermore, in ezl1 mutants, the flowering genes VRN1 and AGAMOUS (AG) are ectopically expressed and have reduced H3K27me3. Artificial microRNA knockdown of either VRN1 or AG in ezl1-1 mutants partially restores wild-type flowering behavior in non-vernalized plants suggesting that ectopic expression in ezl1 mutants may contribute to the rapid-flowering phenotype.
This work was funded in part by the National Science Foundation (grant no. IOS-1258126) and by the DOE Great Lakes Bioenergy Research Center (DOE Office of Science BER DE-FC02-07ER64494). Work in Xuehua Zhong’s laboratory was supported by Alexander von Humboldt Foundation (Alfred Toepfer Faculty Fellow), NSF CAREER award (MCB-1552455), and USDA & National Institute of Food and Agriculture grant (Hatch 1002874). Aaron Lomax, Daniel Woods, and Kevin Mayer were supported in part by a National Institutes of Health sponsored pre-doctoral training fellowship to the University of Wisconsin Genetics Training Program. Frédéric Bouché was supported by Wallonie-Bruxelles international fellowship.
Abe, M., Kobayashi, Y., Yamamoto, S., Daimon, Y., Yamaguchi, A., Ikeda, Y., Ichinoki, H., Notaguchi, M., Goto, K. and Araki, T. (2005) FD, a bZIP protein mediating signals from the floral pathway integrator FT at the shoot apex. Science, 309, 1052–1056.
Amasino, R. (2004) Vernalization, competence, and the epigenetic memory of winter. Plant Cell, 16, 2553–2559.
Amasino, R. (2010) Seasonal and developmental timing of flowering. Plant J. 61, 1001–1013.
Bastow, R., Mylne, J.S., Lister, C., Lippman, Z., Martienssen, R.A. and Dean, C. (2004) Vernalization requires epigenetic silencing of FLC by histone methylation. Nature, 427, 164–167.
Berry, S. and Dean, C. (2015) Environmental perception and epigenetic memory: mechanistic insight through FLC. Plant J. 83, 133–148.
Bettgenhaeuser, J., Corke, F.M.K., Opanowicz, M., Green, P., Hernández-Pinzón, I., Doonan, J.H. and Moscou, M.J. (2017) Natural Variation in Brachypodium links Vernalization and flowering time loci as major flowering determinants. Plant Physiol. 173, 256–268.
Chanvivattana, Y., Bishopp, A., Schubert, D., Stock, C., Moon, Y.H., Sung, Z.R. and Goodrich, J. (2004) Interaction of Polycomb-group proteins controlling flowering in Arabidopsis. Development, 131, 5263–5276.
Chen, A. and Dubcovsky, J. (2012) Wheat TILLING mutants show that the vernalization gene VRN1 down-regulates the flowering repressor VRN2 in leaves but is not essential for flowering. PLoS Genet. 8, e1003134–13.
Chouard, P. (1960) Vernaliazation and its relations to dormancy. Annu. Rev. Plant Physiol. 11, 191–238.
Conrad, L.J., Khanday, I., Johnson, C., Guiderdoni, E., An, G., Vijayraghavan, U. and Sundaresan, V. (2014) The polycomb group gene EMF2B is essential for maintenance of floral meristem determinacy in rice. Plant J. 80, 883–894.
Dai, X., Sinharoy, S., Udvardi, M. and Zhao, P.X. (2013) PlantTFcat: an online plant transcription factor and transcriptional regulator categorization and analysis tool. BMC Bioinformatics, 14, 321–326.
Danyluk, J., Kane, N.A., Breton, G., Limin, A.E., Fowler, D.B. and Sarhan, F. (2003) TaVRT-1, a putative transcription factor associated with vegetative to reproductive transition in cereals. Plant Physiol. 132, 1849–1860.
De Lucia, F., Crevillen, P., Jones, A.M.E., Greb, T. and Dean, C. (2008) A PHD-polycomb repressive complex 2 triggers the epigenetic silencing of FLC during vernalization. Proc. Natl Acad. Sci. USA, 105, 16831–16836.
Ferrari, K.J., Scelfo, A., Jammula, S., Cuomo, A., Barozzi, I., Stützer, A., Fischle, W., Bonaldi, T. and Pasini, D. (2014) Polycomb-dependent H3K27me1 and H3K27me2 regulate active transcription and enhancer fidelity. Mol. Cell, 53, 49–62.
Gendall, A.R., Levy, Y.Y., Wilson, A. and Dean, C. (2001) The VERNALIZATION 2 gene mediates the epigenetic regulation of vernalization in Arabidopsis. Cell, 107, 525–535.
Goodrich, J., Puangsomiee, P., Martin, M., Meyerowitz, E.M. and Coupland, G. (1997) A Polycomb-group gene regulates homeotic gene expression in Arabidopsis. Nature, 386, 44–51.
Guitton, A.E. and Berger, F. (2005) Control of reproduction by Polycomb Group complexes in animals and plants. Int. J. Dev. Biol. 49, 707–716.
Haun, W.J., Laoueillé-Duprat, S., O'Connell, M.J., Spillane, C., Grossniklaus, U., Phillips, A.R., Kaeppler, S.M. and Springer, N.M. (2007) Genomic imprinting, methylation and molecular evolution of maize Enhancer of zeste (Mez) homologs. Plant J. 49, 325–337.
Hemming, M.N., Peacock, W.J., Dennis, E.S. and Trevaskis, B. (2008) Low-temperature and daylength cues are integrated to regulate FLOWERING LOCUS T in barley. Plant Physiol. 147, 355–366.
Hsieh, T., Hakim, O., Ohad, N. and Fischer, R.L. (2003) From flour to flower: how Polycomb group proteins influence multiple aspects of plant development. Trends Plant Sci. 8, 439–445.
Huang, X., Lu, Z., Wang, X., et al. (2016) Imprinted gene OsFIE1 modulates rice seed development by influencing nutrient metabolism and modifying genome H3K27me3. Plant J. 87, 305–317.
Jiang, D., Wang, Y., Wang, Y. and He, Y. (2008) Repression of FLOWERING LOCUS C and FLOWERING LOCUS T by the Arabidopsis polycomb repressive complex 2 components. PLoS ONE, 3, e3404–e3412.
Jung, H.R., Pasini, D., Helin, K. and Jensen, O.N. (2010) Quantitative mass spectrometry of histones H3.2 and H3.3 in Suz12-deficient mouse embryonic stem cells reveals distinct, dynamic post-translational modifications at Lys-27 and Lys-36. Mol. Cell Proteomics, 9, 838–850.
Kim, D.-H., Doyle, M.R., Sung, S. and Amasino, R.M. (2009) Vernalization: winter and the timing of flowering in plants. Annu. Rev. Cell Dev. Biol. 25, 277–299.
Lee, H., Suh, S.S., Park, E., Cho, E., Ahn, J.H., Kim, S.G., Lee, J.S., Kwon, Y.M. and Lee, I. (2000) The AGAMOUS-LIKE 20 MADS domain protein integrates floral inductive pathways in Arabidopsis. Genes Dev. 14, 2366–2376.
Lee, H.-G., Kahn, T.G., Simcox, A., Schwartz, Y.B. and Pirrotta, V. (2015) Genome-wide activities of Polycomb complexes control pervasive transcription. Genome Res. 25, 1170–1181.
Liu, X., Zhou, C., Zhao, Y., Zhou, S., Wang, W. and Zhou, D.-X. (2014) The rice enhancer of zeste [E(z)] genes SDG711 and SDG718 are respectively involved in long day and short day signaling to mediate the accurate photoperiod control of flowering time. Front Plant Sci. 5, 591.
Lopez-Vernaza, M., Yang, S., Mller, R., Thorpe, F., de Leau, E. and Goodrich, J. (2012) Antagonistic roles of SEPALLATA3, FT and FLC genes as targets of the polycomb group gene CURLY LEAF. PLoS ONE, 7, e30715–10.
Luo, M., Bilodeau, P., Dennis, E.S., Peacock, W.J. and Chaudhury, A. (2000) Expression and parent-of-origin effects for FIS2, MEA, and FIE in the endosperm and embryo of developing Arabidopsis seeds. Proc. Natl Acad. Sci. USA, 97, 10637–10642.
Luo, M., Damien, P., Abed, C., Peacock, W.J. and Dennis, E.S. (2009) Expression, imprinting, and evolution of rice homologs of the polycomb group genes. Molecular Plant, 2, 711–723.
Maddison, W.P. and Maddison, D.R. (2017) Mesquite: a modular system for evolutionary analysis. Version 3.31. Available at: http://mesquiteproject.org (accessed January 2017).
Michaels, S.D. and Amasino, R.M. (1999) FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering. Plant Cell, 11, 949–956.
Mizukami, Y. and Ma, H. (1992) Ectopic expression of the floral homeotic gene AGAMOUS in transgenic Arabidopsis plants alters floral organ identity. Cell, 71, 119–131.
Mozgova, I., Köhler, C. and Hennig, L. (2015) Keeping the gate closed: functions of the polycomb repressive complex PRC2 in development. Plant J. 83, 121–132.
Murai, K., Miyamae, M., Kato, H., Takumi, S. and Ogihara, Y. (2003) WAP1, a wheat APETALA1 homolog, plays a central role in the phase transition from vegetative to reproductive growth. Plant Cell Physiol. 44, 1255–1265.
Nallamilli, B.R.R., Zhang, J., Mujahid, H., Malone, B.M., Bridges, S.M. and Peng, Z. (2013) Polycomb group gene OsFIE2 regulates rice (Oryza sativa) seed development and grain filling via a mechanism distinct from arabidopsis. PLoS Genet. 9, e1003322–15.
Ng, M. and Yanofsky, M.F. (2001) Function and evolution of the plant MADS-box gene family. Nat. Rev. Genet. 2, 186–195.
Oliver, S.N., Finnegan, E.J., Dennis, E.S., Peacock, W.J. and Trevaskis, B. (2009) Vernalization-induced flowering in cereals is associated with changes in histone methylation at the VERNALIZATION1 gene. Proc. Natl Acad. Sci. USA, 106, 8386–8391.
Onouchi, H., Igeño, M.I., Périlleux, C., Graves, K. and Coupland, G. (2000) Mutagenesis of plants overexpressing CONSTANS demonstrates novel interactions among Arabidopsis flowering-time genes. Plant Cell, 12, 885–900.
Preston, J.C. and Kellogg, E.A. (2006) Reconstructing the evolutionary history of paralogous APETALA1/FRUITFULL-like genes in grasses (Poaceae). Genetics, 174, 421–437.
Ream, T.S., Woods, D.P., Schwartz, C.J., Sanabria, C.P., Mahoy, J.A., Walters, E.M., Kaeppler, H.F. and Amasino, R.M. (2014) Interaction of photoperiod and vernalization determines flowering time of Brachypodium distachyon. Plant Physiol. 164, 694–709.
Ruelens, P., deMaagd, R.A., Proost, S., Theißen, G., Geuten, K. and Kaufmann, K. (2013) FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes. Nat. Commun. 4, 1–8.
Samach, A., Onouchi, H., Gold, S.E., Ditta, G.S., Schwarz-Sommer, Z., Yanofsky, M.F. and Coupland, G. (2000) Distinct roles of CONSTANS target genes in reproductive development of Arabidopsis. Science, 288, 1613–1616.
Sasani, S., Hemming, M.N., Oliver, S.N., et al. (2009) The influence of vernalization and daylength on expression of flowering-time genes in the shoot apex and leaves of barley (Hordeum vulgare). J. Exp. Bot. 60, 2169–2178.
Schönrock, N., Bouveret, R., Leroy, O., Borghi, L., Köhler, C., Gruissem, W. and Hennig, L. (2006) Polycomb-group proteins repress the floral activator AGL19 in the FLC-independent vernalization pathway. Genes Dev. 20, 1667–1678.
Schubert, D., Primavesi, L., Bishopp, A., Roberts, G., Doonan, J., Jenuwein, T. and Goodrich, J. (2006) Silencing by plant Polycomb-group genes requires dispersed trimethylation of histone H3 at lysine 27. EMBO J. 25, 4638–4649.
Searle, I., He, Y., Turck, F., Vincent, C., Fornara, F., Kröber, S., Amasino, R.A. and Coupland, G. (2006) The transcription factor FLC confers a flowering response to vernalization by repressing meristem competence and systemic signaling in Arabidopsis. Genes Dev. 20, 898–912.
Sharma, N., Ruelens, P., D'hauw, M., Maggen, T., Dochy, N., Torfs, S., Kaufmann, K., Rohde, A. and Geuten, K. (2017) A FLOWERING LOCUS C homolog is a vernalization-regulated repressor in Brachypodium and is cold regulated in Wheat. Plant Physiol. 173, 1301–1315.
Sheldon, C.C., Burn, J.E., Perez, P.P., Metzger, J., Edwards, J.A., Peacock, W.J. and Dennis, E.S. (1999) The FLF MADS box gene: a repressor of flowering in Arabidopsis regulated by vernalization and methylation. Plant Cell, 11, 445–458.
Shimada, S., Ogawa, T., Kitagawa, S., et al. (2009) A genetic network of flowering-time genes in wheat leaves, in which an APETALA1/ FRUITFULL-like gene, VRN1, is upstream of FLOWERING LOCUS T. Plant J. 58, 668–681.
Shitsukawa, N., Ikari, C., Shimada, S., et al. (2007) The einkorn wheat (Triticum monococcum) mutant, maintained vegetative phase, is caused by a deletion in the VRN1 gene. Genes Genet. Syst. 82, 167–170.
Sung, S. and Amasino, R.M. (2004) Vernalization in Arabidopsis thaliana is mediated by the PHD finger protein VIN3. Nature, 427, 159–164.
Supek, F., Bošnjak, M., Škunca, N. and Šmuc, T. (2011) REVIGO summarizes and visualizes long lists of gene ontology terms. PLoS ONE, 6, e21800–e21809.
Trevaskis, B., Bagnall, D.J., Ellis, M.H., Peacock, W.J. and Dennis, E.S. (2003) MADS box genes control vernalization-induced flowering in cereals. Proc. Natl Acad. Sci. USA, 100, 13099–13104.
Trevaskis, B., Hemming, M.N., Dennis, E.S. and Peacock, W.J. (2007) The molecular basis of vernalization-induced flowering in cereals. Trends Plant Sci. 12, 352–357.
Vogel, J. and Hill, T. (2008) High-efficiency Agrobacterium-mediated transformation of Brachypodium distachyon inbred line Bd21-3. Plant Cell Rep. 27, 471–478.
Wang, J., Hu, J., Qian, Q. and Xue, H.-W. (2013) LC2 and OsVIL2 promote rice flowering by photoperoid-induced epigenetic silencing of OsLF. Molecular Plant, 6, 514–527.
Wheeler, T.J. (2009) Large-scale neighbor-joining with NINJA. In Proceedings of the 9th Workshop on Algorithms in Bioinformatics. (Salzberg, S.L. and Warnow, T. eds). WABI 2009, Berlin: Springer, pp. 375–389.
Wigge, P.A., Kim, M.C., Jaeger, K.E., Busch, W., Schmid, M., Lohmann, J. and Weigel, D. (2005) Integration of spatial and temporal information during floral induction in Arabidopsis. Science, 309, 1056–1059.
Wood, C.C., Robertson, M., Tanner, G., Peacock, W.J., Dennis, E.S. and Helliwell, C.A. (2006) The Arabidopsis thaliana vernalization response requires a polycomb-like protein complex that also includes VERNALIZATION INSENSITIVE 3. Proc. Natl Acad. Sci. USA, 103, 14631–14636.
Woods, D.P., Ream, T.S. and Amasino, R.M. (2014a) Memory of the vernalized state in plants including the model grass Brachypodium distachyon. Front Plant Sci. 5, 99.
Woods, D.P., Ream, T.S., Minevich, G., Hobert, O. and Amasino, R.M. (2014b) PHYTOCHROME C is an essential light receptor for photoperiodic flowering in the temperate grass, Brachypodium distachyon. Genetics, 198, 397–408.
Woods, D.P., McKeown, M.A., Dong, Y., Preston, J.C. and Amasino, R.M. (2016) Evolution of VRN2/Ghd7-Like genes in vernalization-mediated repression of grass flowering. Plant Physiol. 170, 2124–2135.
Woods, D.P., Bednarek, R., Bouch, F.D.R., Gordon, S.P., Vogel, J.P., Garvin, D.F. and Amasino, R.M. (2017a) Genetic architecture of flowering-time variation in Brachypodium distachyon. Plant Physiol. 173, 269–279.
Woods, D.P., Ream, T.S., Bouché, F., Lee, J., Thrower, N., Wilkerson, C. and Amasino, R.M. (2017b) Establishment of a vernalization requirement in Brachypodium distachyon requires REPRESSOR OF VERNALIZATION1. Proc. Natl Acad. Sci. USA, 114, 6623–6628.
Yan, L., Loukoianov, A., Tranquilli, G., Helguera, M., Fahima, T. and Dubcovsky, J. (2003) Positional cloning of the wheat vernalization gene VRN1. Proc. Natl Acad. Sci. USA, 100, 6263–6268.
Yan, L., Loukoianov, A., Blechl, A., Tranquilli, G., Ramakrishna, W., SanMiguel, P., Bennetzen, J.L., Echenique, V. and Dubcovsky, J. (2004) The wheat VRN2 gene is a flowering repressor down-regulated by vernalization. Science, 303, 1640–1644.
Yan, L., Fu, D., Li, C., et al. (2006) The wheat and barley vernalization gene VRN3 is an orthologue of FT. Proc. Natl Acad. Sci. USA, 103, 19581–19586.
Yang, J., Lee, S., Hang, R., Kim, S.-R., Lee, Y.S., Cao, X., Amasino, R. and An, G. (2012) OsVIL2 functions with PRC2 to induce flowering by repressing OsLFL1 in rice. Plant J. 73, 566–578.
Yoshida, N., Yanai, Y., Chen, L., Kato, Y., Hiratsuka, J., Miwa, T., Sung, Z.R. and Takahashi, S. (2001) EMBRYONIC FLOWER2, a novel polycomb group protein homolog, mediates shoot development and flowering in Arabidopsis. Plant Cell, 13, 2471–2481.
Zhao, S.-Q., Hu, J., Guo, L.B., Qian, Q. and Xue, H.W. (2010) Rice leaf inclination2, a VIN3-like protein, regulates leaf angle through modulating cell division of the collar. Cell Res. 20, 935–947.