Abstract
The nuclear factor Y (NF-Y) is one of the largest transcription factor families in plants consisting of NF-YA, NF-YB, and NF-YC subunits. It could play important roles in various processes such as flowering time, seed development, and response to drought. In this study, 6 NF-YA, 13 NF-YB, and 8 NF-YC proteins were identified and characterized in Prunus mume. Analyses of a conserved domain indicated that the PmNF-Y subunits shared an elevated degree of homology with the corresponding Arabidopsis NF-Y ones. Phylogenetic analysis showed that each NF-Y subunit family from Prunus mume and Arabidopsis could be divided into 4 or 2 clades based on their full-length proteins. The gene expression patterns of all 27 PmNF-Y genes were examined under abscisic acid (ABA), osmotic, salt, and H2O2 treatments using real-time quantitative PCR analyses. PmNF-YA1/2/4/5/6, PmNF-YB3/4/8/10/11/13, and PmNF-YC1/2/4/5/6/8 were found to be up-regulated under the ABA and osmotic treatments. PmNF-YA1/2/3/4/5/6, PmNF-YB1/3/8/10/11/13, and PmNF-YC1/2/5/6/8 were obviously induced by the H2O2. In addition, only PmNF-YA2 and PmNF-YB3 expressions were enhanced under the salt stress. These findings could provide an entry point to investigating the roles of PmNF-Y genes during abiotic stress responses.
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Abbreviations
- ABA:
-
abscisic acid
- CBF:
-
CCAAT-binding factor
- CDS:
-
coding sequence
- HAP:
-
heme activator protein
- NF-Y:
-
nuclear factor Y
- ORF:
-
open reading frame
- qPCR:
-
quantitative PCR
References
Bucher, P.: Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences. — J. mol. Biol. 212: 563–578, 1990.
Cai, X., Ballif, J., Endo, S., Davis, E., Liang, M., Chen, D., DeWald, D., Kreps, J., Zhu, T., Wu, Y.: A putative CCAAT-binding transcription factor is a regulator of flowering timing in Arabidopsis. — Plant. Physiol. 145: 98–105, 2007.
Chen, M., Zhao, Y., Zhuo, C., Lu, S., Guo, Z.: Overexpression of a NF-YC transcription factor from bermudagrass confers tolerance to drought and salinity in transgenic rice. — Plant. Biotechnol. J. 13: 482–491, 2015.
Guo, C., Zhang, J., Peng, T., Bao, M., Zhang, J.: Structural and expression analyses of three PmCBFs from Prunus mume. — Biol. Plant. 58: 247–255, 2014.
Hackenberg, D., Keetman, U., Grimm, B.: Homologous NF-YC2 subunit from Arabidopsis and tobacco is activated by photooxidative stress and induces flowering. — Int. J. mol. Sci. 13: 3458–3477, 2012.
Han, X., Tang, S., An, Y., Zheng, D.C., Xia, X.L., Yin, W.L.: Overexpression of the poplar NF-YB7 transcription factor confers drought tolerance and improves water-use efficiency in Arabidopsis. — J. exp. Bot. 64: 4589–4601, 2013.
Kumimoto, R.W., Adam, L., Hymus, G.J., Repetti, P.P., Reuber, T.L., Marion, C.M., Hempel, F.D., Ratcliffe, O.J.: The nuclear factor Y subunits NF-YB2 and NF-YB3 play additive roles in the promotion of flowering by inductive long-day photoperiods in Arabidopsis. — Planta 228: 709–723, 2008.
Kumimoto, R.W., Zhang, Y., Siefers, N., Holt, B.F.: NF-YC3, NF-YC4 and NF-YC9 are required for CONSTANS-mediated, photoperiod-dependent flowering in Arabidopsis thaliana. — Plant. J. 63: 379–391, 2010.
Kwong, R.W., Bui, A.Q., Lee, H., Kwong, L.W., Fischer, R.L., Goldberg, R.B., Harada, J.J.: LEAFY COTYLEDON1-LIKE defines a class of regulators essential for embryo development. — Plant. Cell 15: 5–18, 2003.
Leyva-González, M.A., Ibarra-Laclette, E., Cruz-Ramírez, A., Herrera-Estrella, L.: Functional and transcriptome analysis reveals an acclimatization strategy for abiotic stress tolerance mediated by Arabidopsis NF-YA family members. — PloS ONE 7: e48138, 2012.
Li, L., Yu, Y., Wei, J., Huang, G., Zhang, D., Liu, Y., Zhang, L.: Homologous HAP5 subunit from Picea wilsonii improved tolerance to salt and decreased sensitivity to ABA in transformed Arabidopsis. — Planta 238: 345–356, 2013a.
Li, W.X., Oono, Y., Zhu, J., He, X.J., Wu, J.M., Iida, K., Lu, X.Y., Cui, X., Jin, H., Zhu, J.K.: The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance. — Plant. Cell 20: 2238–2251, 2008.
Li, Y.J., Fang, Y., Fu, Y.R., Huang, J.G., Wu, C.A., Zheng, C.C.: NFYA1 is involved in regulation of postgermination growth arrest under salt stress in Arabidopsis. — PloS ONE 8: e61289, 2013b.
Liang, M., Hole, D., Wu, J., Blake, T., Wu, Y.: Expression and functional analysis of NUCLEAR FACTOR-Y, subunit B genes in barley. — Planta 235: 779–791, 2012.
Livak, K.J., Schmittgen, T.D.: Analysis of relative gene expression data using real-time quantitative PCR and the 2−ΔΔCT method. — Methods 25: 402–408, 2001.
Lotan, T., Ohto, M.A., Yee, K.M., West, M.A., Lo, R., Kwong, R.W., Yamagishi, K., Fischer, R.L., Goldberg, R.B., Harada, J.J.: Arabidopsis LEAFY COTYLEDON1 is sufficient to induce embryo development in vegetative cells. — Cell 93: 1195–1205, 1998.
Ma, X., Zhu, X., Li, C., Song, Y., Zhang, W., Xia, G., Wang, M.: Overexpression of wheat NF-YA10 gene regulates the salinity stress response in Arabidopsis thaliana. — Plant. Physiol. Biochem. 86: 34–43, 2015.
Maity, S.N., De Crombrugghe, B.: Biochemical analysis of the B subunit of the heteromeric CCAAT-binding factor. A DNA-binding domain and a subunit interaction domain are specified by two separate segments. — J. biol. Chem. 267: 8286–8292, 1992.
Mantovani, R.: The molecular biology of the CCAAT-binding factor NF-Y. — Gene 239: 15–27, 1999.
Miyoshi, K., Ito, Y., Serizawa, A., Kurata, N.: OsHAP3 genes regulate chloroplast biogenesis in rice. — Plant. J. 36: 532–540, 2003.
Mu, J., Tan, H., Hong, S., Liang, Y., Zuo, J.: Arabidopsis transcription factor genes NF-YA1, 5, 6, and 9 play redundant roles in male gametogenesis, embryogenesis, and seed development. — Mol. Plant. 6: 188–201, 2013.
Nelson, D.E., Repetti, P.P., Adams, T.R., Creelman, R.A., Wu, J., Warner, D.C., Anstrom, D.C., Bensen, R.J., Castiglioni, P.P., Donnarummo, M.G.: Plant nuclear factor Y (NF-Y) B subunits confer drought tolerance and lead to improved corn yields on water-limited acres. — Proc. nat. Acad. Sci. USA 104: 16450–16455, 2007.
Ni, Z., Hu, Z., Jiang, Q., Zhang, H.: GmNFYA3, a target gene of miR169, is a positive regulator of plant tolerance to drought stress. — Plant. mol. Biol. 82: 113–129, 2013.
Olesen, J.T., Guarente, L.: The HAP2 subunit of yeast CCAAT transcriptional activator contains adjacent domains for subunit association and DNA recognition: model for the HAP2/3/4 complex. — Genes Dev. 4: 1714–1729, 1990.
Petroni, K., Kumimoto, R.W., Gnesutta, N., Calvenzani, V., Fornari, M., Tonelli, C., Holt, B.F., Mantovani, R.: The promiscuous life of plant NUCLEAR FACTOR Y transcription factors. — Plant Cell 24: 4777–4792, 2012.
Siefers, N., Dang, K.K., Kumimoto, R.W., Bynum, W.E., Tayrose, G., Holt, B.F.: Tissue-specific expression patterns of Arabidopsis NF-Y transcription factors suggest potential for extensive combinatorial complexity. — Plant. Physiol. 149: 625–641, 2009.
Stephenson, T.J., McIntyre, C.L., Collet, C., Xue, G.P.: Genome-wide identification and expression analysis of the NF-Y family of transcription factors in Triticum aestivum. — Plant. mol. Biol. 65: 77–92, 2007.
Stephenson, T.J., McIntyre, C.L., Collet, C., Xue, G.P.: TaNF-YB3 is involved in the regulation of photosynthesis genes in Triticum aestivum. — Funct. Integr. Genomics 11: 327–340, 2011.
Thirumurugan, T., Ito, Y., Kubo, T., Serizawa, A., Kurata, N.: Identification, characterization and interaction of HAP family genes in rice. — Mol. Genet. Genomics 279: 279–289, 2008.
Toumi, I., Moschou, P.N., Paschalidis, K.A., Bouamama, B., Salem-Fnayou, A.B., Ghorbel, A.W., Mliki, A., Roubelakis-Angelakis, K.A.: Abscisic acid signals reorientation of polyamine metabolism to orchestrate stress responses via the polyamine exodus pathway in grapevine. — J. Plant. Physiol. 167: 519–525, 2010.
Warpeha, K.M., Upadhyay, S., Yeh, J., Adamiak, J., Hawkins, S.I., Lapik, Y.R., Anderson, M.B, Kaufman, L.S.: The GCR1, GPA1, PRN1, NF-Y signal chain mediates both blue light and abscisic acid responses in Arabidopsis. — Plant. Physiol. 143: 1590–1600, 2007.
Xing, Y., Fikes, J.D., Guarente, L.: Mutations in yeast HAP2/HAP3 define a hybrid CCAAT box binding domain. — EMBO J. 12: 4647–4655, 1993.
Xing, Y., Zhang, S., Olesen, J.T., Rich, A., Guarente, L.: Subunit interaction in the CCAAT-binding heteromeric complex is mediated by a very short alpha-helix in HAP2. — Proc. nat. Acad. Sci. USA 91: 3009–3013, 1994.
Yan, D.H., Xia, X., Yin, W.: NF-YB family genes identified in a poplar genome-wide analysis and expressed in Populus euphratica are responsive to drought stress. — Plant. mol. Biol. Rep. 31: 363–370, 2013.
Yang, J., Xie, Z., Glover, B.J.: Asymmetric evolution of duplicate genes encoding the CCAAT-binding factor NF-Y in plant genomes. — New. Phytol. 165: 623–632, 2005.
Zhang, Q.X., Chen, W.B., Sun, L.D., Zhao, F.Y., Huang, B.Q., Yang, W.R., Tao, Y., Wang, J., Yuan, Z.Q., Fan, G.Y., Xing, Z., Han, C.L., Pan, H.T., Zhong, X., Shi, W.F., Liang, X.M., Du, D.L., Sun, F.M., Xu, Z.D., Hao, R.J., Lv, T., Lv, Y.M., Zheng, Z.Q., Sun, M., Luo, L., Cai, M., Gao, Y.K., Wang, J.Y., Yin, Y., Xu, X., Cheng, T.R., Wang, J.: The genome of Prunus mume. — Nat. Commun. 3: 1318, 2012.
Zhao, M., Ding, H., Zhu, J.K., Zhang, F., Li, W.X.: Involvement of miR169 in the nitrogen-starvation responses in Arabidopsis. — New. Phytol. 190: 906–915, 2011.
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This research was financially supported by the National Natural Science Foundation of China (grant No. 31270739) and the National 863 Project of China (No. 2011AA100207).
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Yang, J., Wan, X.L., Guo, C. et al. Identification and expression analysis of nuclear factor Y families in Prunus mume under different abiotic stresses. Biol Plant 60, 419–426 (2016). https://doi.org/10.1007/s10535-016-0624-4
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DOI: https://doi.org/10.1007/s10535-016-0624-4