Skip to main content
Log in

Identification of three FLOWERING LOCUS C genes responsible for vernalization response in radish (Raphanus sativus L.)

  • Research Report
  • Published:
Horticulture, Environment, and Biotechnology Aims and scope Submit manuscript

Abstract

Raphanus sativus L. is grown worldwide and used as fresh vegetables. In the Brassicaceae family, the FLOWERING LOCUS C (FLC) gene is a key regulator of flowering time and explains a large part of natural flowering time variation and the vernalization response. Here we report three FLC orthologous genes RsFLC1, RsFLC2, and RsFLC3 in R. sativus identified from the de novo assembled transcriptome. The sequences of three RsFLC genes have a high similarity to Arabidopsis FLC. Overexpression of each RsFLC gene in Arabidopsis induced late flowering, suggesting that every RsFLC gene functions as a floral repressor. All RsFLC genes were highly expressed in non-vernalized plants, whereas their expression levels significantly decreased by the vernalization treatment. Furthermore, the rate of decrease in their expression was proportional to the length of cold exposure. A significant level of sequence variation exists among RsFLC alleles derived from a variety of Raphanus cultivars, suggesting that RsFLC genes have diverged considerably but still retain essential functions.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Bailey, C.D., M.A. Koch, M. Mayer, K. Mummenhoff, S.L. O’Kane, Jr., S.I. Warwick, M.D. Windham, and I.A. Al-Shehbaz. 2006. Toward a global phylogeny of the Brassicaceae. Mol. Biol. Evol. 23:2142–2160.

    Article  CAS  PubMed  Google Scholar 

  • Chalhoub, B., F. Denoeud, S. Liu, I.A. Parkin, H. Tang, X. Wang, J. Chiquet, H. Belcram, C. Tong, B. Samans, M. Correa, C. Da Silva, J. Just, C. Falentin, C.S. Koh, I. Le Clainche, M. Bernard, P. Bento, B. Noel, K. Labadie, A. Alberti, M. Charles, D. Arnaud, H. Guo, C. Daviaud, S. Alamery, K. Jabbari, M. Zhao, P.P. Edger, H. Chelaifa, D. Tack, G. Lassalle, I. Mestiri, N. Schnel, M.C. Le Paslier, G. Fan, V. Renault, P.E. Bayer, A.A. Golicz, S. Manoli, T.H. Lee, V.H. Thi, S. Chalabi, Q. Hu, C. Fan, R. Tollenaere, Y. Lu, C. Battail, J. Shen, C.H. Sidebottom, X. Wang, A. Canaguier, A. Chauveau, A. Berard, G. Deniot, M. Guan, Z. Liu, F. Sun, Y.P. Lim, E. Lyons, C.D. Town, I. Bancroft, X. Wang, J. Meng, J. Ma, J.C. Pires, G.J. King, D. Brunel, R. Delourme, M. Renard, J.M. Aury, K.L. Adams, J. Batley, R.J. Snowdon, J. Tost, D. Edwards, Y. Zhou, W. Hua, A.G. Sharpe, A.H. Paterson, C. Guan, and P. Wincker. 2014. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science 345:950–953.

    Article  CAS  PubMed  Google Scholar 

  • Clough, S.J. and A.F. Bent. 1998. Floral dip: A simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16:735–743.

    Article  CAS  PubMed  Google Scholar 

  • Helliwell, C.A., C.C. Wood, M. Robertson, W. James Peacock, and E.S. Dennis. 2006. The Arabidopsis FLC protein interacts directly in vivo with SOC1 and FT chromatin and is part of a high-molecularweight protein complex. Plant J. 46:183–192.

    Article  CAS  PubMed  Google Scholar 

  • Johnston, J.S., A.E. Pepper, A.E. Hall, Z.J. Chen, G. Hodnett, J. Drabek, R. Lopez, and H.J. Price. 2005. Evolution of genome size in Brassicaceae. Ann. Bot. 95:229–235.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Kim, D.H., M.R. Doyle, S. Sung, and R.M. Amasino. 2009. Vernalization: Winter and the timing of flowering in plants. Annu. Rev. Cell. Dev. Biol. 25:277–299.

    Article  CAS  PubMed  Google Scholar 

  • Kitashiba, H., F. Li, H. Hirakawa, T. Kawanabe, Z. Zou, Y. Hasegawa, K. Tonosaki, S. Shirasawa, A. Fukushima, S. Yokoi, Y. Takahata, T. Kakizaki, M. Ishida, S. Okamoto, K. Sakamoto, K. Shirasawa, S. Tabata, and T. Nishio. 2014. Draft sequences of the radish (Raphanus sativus L.) genome. DNA Res. doi: 10.1093/dnares/dsu014.

    Google Scholar 

  • Langmead, B. and S.L. Salzberg. 2012. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9:357–359.

    CAS  Google Scholar 

  • Lin, S.I., J.G. Wang, S.Y. Poon, C.L. Su, S.S. Wang, and T.J. Chiou. 2005. Differential regulation of FLOWERING LOCUS C expression by vernalization in cabbage and Arabidopsis. Plant Physiol. 137: 1037–1048.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Liu, S., Y. Liu, X. Yang, C. Tong, D. Edwards, I.A. Parkin, M. Zhao, J. Ma, J. Yu, S. Huang, X. Wang, J. Wang, K. Lu, Z. Fang, I. Bancroft, T.J. Yang, Q. Hu, X. Wang, Z. Yue, H. Li, L. Yang, J. Wu, Q. Zhou, W. Wang, G.J. King, J.C. Pires, C. Lu, Z. Wu, P. Sampath, Z. Wang, H. Guo, S. Pan, L. Yang, J. Min, D. Zhang, D. Jin, W. Li, H. Belcram, J. Tu, M. Guan, C. Qi, D. Du, J. Li, L. Jiang, J. Batley, A.G. Sharpe, B.S. Park, P. Ruperao, F. Cheng, N.E. Waminal, Y. Huang, C. Dong, L. Wang, J. Li, Z. Hu, M. Zhuang, Y. Huang, J. Huang, J. Shi, D. Mei, J. Liu, T.H. Lee, J. Wang, H. Jin, Z. Li, X. Li, J. Zhang, L. Xiao, Y. Zhou, Z. Liu, X. Liu, R. Qin, X. Tang, W. Liu, Y. Wang, Y. Zhang, J. Lee, H.H. Kim, F. Denoeud, X. Xu, X. Liang, W. Hua, X. Wang, J. Wang, B. Chalhoub, and A.H. Paterson. 2014. The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes. Nat. Commun. 5:3930.

    PubMed  Google Scholar 

  • Michaels, S.D. and R.M. Amasino. 1999. FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering. Plant Cell 11:949–956.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Michaels, S.D., Y. He, K.C. Scortecci, and R.M. Amasino. 2003. Attenuation of FLOWERING LOCUS C activity as a mechanism for the evolution of summer-annual flowering behavior in Arabidopsis. Proc. Natl. Acad. Sci. USA 100:10102–10107.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Okazaki, K., K. Sakamoto, R. Kikuchi, A. Saito, E. Togashi, Y. Kuginuki, S. Matsumoto, and M. Hirai. 2007. Mapping and characterization of FLC homologs and QTL analysis of flowering time in Brassica oleracea. Theor. Appl. Genet. 114:595–608.

    Article  CAS  PubMed  Google Scholar 

  • Osborn, T.C., C. Kole, I.A. Parkin, A.G. Sharpe, M. Kuiper, D.J. Lydiate, and M. Trick. 1997. Comparison of flowering time genes in Brassica rapa, B. napus and Arabidopsis thaliana. Genetics 146:1123–1129.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Roberts, A. and L. Pachter. 2013. Streaming fragment assignment for real-time analysis of sequencing experiments. Nat. Methods 10:71–73.

    Article  CAS  PubMed  Google Scholar 

  • Schranz, M.E., P. Quijada, S.B. Sung, L. Lukens, R. Amasino, and T.C. Osborn. 2002. Characterization and effects of the replicated flowering time gene FLC in Brassica rapa. Genetics 162:1457–1468.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Schulz, M.H., D.R. Zerbino, M. Vingron, and E. Birney. 2012. Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics 28:1086–1092.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Searle, I., Y. He, F. Turck, C. Vincent, F. Fornara, S. Krober, R.A. Amasino, and G. Coupland. 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.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Sheldon, C.C., D.T. Rouse, E.J. Finnegan, W.J. Peacock, and E.S. Dennis. 2000. The molecular basis of vernalization: The central role of FLOWERING LOCUS C (FLC). Proc. Natl. Acad. Sci. USA 97:3753–3758.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Shindo, C., M.J. Aranzana, C. Lister, C. Baxter, C. Nicholls, M. Nordborg, and C. Dean. 2005. Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis. Plant Physiol. 138:1163–1173.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Tadege, M., C.C. Sheldon, C.A. Helliwell, P. Stoutjesdijk, E.S. Dennis, and W.J. Peacock. 2001. Control of flowering time by FLC orthologues in Brassica napus. Plant J. 28:545–553.

    Article  CAS  PubMed  Google Scholar 

  • Tamura, K., G. Stecher, D. Peterson, A. Filipski, and S. Kumar. 2013. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 30:2725–2729.

    Article  CAS  Google Scholar 

  • Wang, X., H. Wang, J. Wang, R. Sun, J. Wu, S. Liu, Y. Bai, J.H. Mun, I. Bancroft, F. Cheng, S. Huang, X. Li, W. Hua, J. Wang, X. Wang, M. Freeling, J.C. Pires, A.H. Paterson, B. Chalhoub, B. Wang, A. Hayward, A.G. Sharpe, B.S. Park, B. Weisshaar, B. Liu, B. Li, B. Liu, C. Tong, C. Song, C. Duran, C. Peng, C. Geng, C. Koh, C. Lin, D. Edwards, D. Mu, D. Shen, E. Soumpourou, F. Li, F. Fraser, G. Conant, G. Lassalle, G.J. King, G. Bonnema, H. Tang, H. Wang, H. Belcram, H. Zhou, H. Hirakawa, H. Abe, H. Guo, H. Wang, H. Jin, I.A. Parkin, J. Batley, J.S. Kim, J. Just, J. Li, J. Xu, J. Deng, J.A. Kim, J. Li, J. Yu, J. Meng, J. Wang, J. Min, J. Poulain, J. Wang, K. Hatakeyama, K. Wu, L. Wang, L. Fang, M. Trick, M.G. Links, M. Zhao, M. Jin, N. Ramchiary, N. Drou, P.J. Berkman, Q. Cai, Q. Huang, R. Li, S. Tabata, S. Cheng, S. Zhang, S. Zhang, S. Huang, S. Sato, S. Sun, S.J. Kwon, S.R. Choi, T.H. Lee, W. Fan, X. Zhao, X. Tan, X. Xu, Y. Wang, Y. Qiu, Y. Yin, Y. Li, Y. Du, Y. Liao, Y. Lim, Y. Narusaka, Y. Wang, Z. Wang, Z. Li, Z. Wang, Z. Xiong, Z. Zhang, and C. Brassica rapa Genome Sequencing Project. 2011. The genome of the mesopolyploid crop species Brassica rapa. Nat. Genet. 43:1035–1039.

    Article  CAS  PubMed  Google Scholar 

  • Xiao, D., J.J. Zhao, X.L. Hou, R.K. Basnet, D.P. Carpio, N.W. Zhang, J. Bucher, K. Lin, F. Cheng, X.W. Wang, and G. Bonnema. 2013. The Brassica rapa FLC homologue FLC2 is a key regulator of flowering time, identified through transcriptional co-expression networks. J. Exp. Bot. 64:4503–4516.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Yang, T.J., J.S. Kim, S.J. Kwon, K.B. Lim, B.S. Choi, J.A. Kim, M. Jin, J.Y. Park, M.H. Lim, H.I. Kim, Y.P. Lim, J.J. Kang, J.H. Hong, C.B. Kim, J. Bhak, I. Bancroft, and B.S. Park. 2006. Sequence-level analysis of the diploidization process in the triplicated FLOWERING LOCUS C region of Brassica rapa. Plant Cell 18:1339–1347.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Zerbino, D.R. and E. Birney. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18:821–829.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Zhao, J., V. Kulkarni, N. Liu, D.P. Del Carpio, J. Bucher, and G. Bonnema. 2010. BrFLC2 (FLOWERING LOCUS C) as a candidate gene for a vernalization response QTL in Brassica rapa. J. Exp. Bot. 61:1817–1825.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Zhong, S., J.G. Joung, Y. Zheng, Y.R. Chen, B. Liu, Y. Shao, J.Z. Xiang, Z. Fei, and J.J. Giovannoni. 2011. High-throughput illumina strand-specific RNA sequencing library preparation. Cold Spring Harb. Protoc. 2011:940–949.

    Article  PubMed  Google Scholar 

  • Zou, X., I. Suppanz, H. Raman, J. Hou, J. Wang, Y. Long, C. Jung, and J. Meng. 2012. Comparative analysis of FLC homologues in Brassicaceae provides insight into their role in the evolution of oilseed rape. PLoS One 7:e45751.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Jin Hoe Huh.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Yi, G., Park, H., Kim, JS. et al. Identification of three FLOWERING LOCUS C genes responsible for vernalization response in radish (Raphanus sativus L.). Hortic. Environ. Biotechnol. 55, 548–556 (2014). https://doi.org/10.1007/s13580-014-1151-x

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s13580-014-1151-x

Additional key words

Navigation