NUCLEAR FACTOR Y, Subunit C (NF-YC) Transcription Factors Are Positive Regulators of Photomorphogenesis in Arabidopsis Thaliana

Overview

Journal PLoS Genet

Specialty Genetics

Date 2016 Sep 30

PMID 27685091

Citations 31

Authors

Zachary A Myers

Roderick W Kumimoto

Chamindika L Siriwardana

Krystal K Gayler

Jan R Risinger

Daniela Pezzetta

Ben F Holt Iii

Affiliations

Soon will be listed here.

Abstract

Recent reports suggest that NF-Y transcription factors are positive regulators of skotomorphogenesis in Arabidopsis thaliana. Three NF-YC genes (NF-YC3, NF-YC4, and NF-YC9) are known to have overlapping functions in photoperiod dependent flowering and previous studies demonstrated that they interact with basic leucine zipper (bZIP) transcription factors. This included ELONGATED HYPOCOTYL 5 (HY5), which has well-demonstrated roles in photomorphogenesis. Similar to hy5 mutants, we report that nf-yc3 nf-yc4 nf-yc9 triple mutants failed to inhibit hypocotyl elongation in all tested light wavelengths. Surprisingly, nf-yc3 nf-yc4 nf-yc9 hy5 mutants had synergistic defects in light perception, suggesting that NF-Ys represent a parallel light signaling pathway. As with other photomorphogenic transcription factors, nf-yc3 nf-yc4 nf-yc9 triple mutants also partially suppressed the short hypocotyl and dwarf rosette phenotypes of CONSTITUTIVE PHOTOMORPHOGENIC 1 (cop1) mutants. Thus, our data strongly suggest that NF-Y transcription factors have important roles as positive regulators of photomorphogenesis, and in conjunction with other recent reports, implies that the NF-Y are multifaceted regulators of early seedling development.

Citing Articles

Plant Nuclear Factor Y (NF-Y) Transcription Factors: Evolving Insights into Biological Functions and Gene Expansion.

Siriwardana C Int J Mol Sci. 2025; 26(1.

PMID: 39795894 PMC: 11719662. DOI: 10.3390/ijms26010038.

Identification of transcription factor co-binding patterns with non-negative matrix factorization.

Rauluseviciute I, Launay T, Barzaghi G, Nikumbh S, Lenhard B, Krebs A Nucleic Acids Res. 2024; 52(18):e85.

PMID: 39217462 PMC: 11472169. DOI: 10.1093/nar/gkae743.

Overexpression of Ribosomal Protein Leads to Transcriptional and Metabolic Changes That Affect Plant Development and Responses to Stress.

Finkelshtein A, Khamesa-Israelov H, Chamovitz D Biomolecules. 2024; 14(3).

PMID: 38540739 PMC: 10968494. DOI: 10.3390/biom14030319.

Transcriptomic analysis reveals the molecular basis of photoperiod-regulated sex differentiation in tropical pumpkins (Cucurbita moschata Duch.).

Xue S, Huang H, Xu Y, Liu L, Meng Q, Zhu J BMC Plant Biol. 2024; 24(1):90.

PMID: 38317069 PMC: 10845594. DOI: 10.1186/s12870-024-04777-3.

Genome-Wide Analysis of Genes in the Tea Plant () and Functional Identification of .

Chen S, Wei X, Hu X, Zhang P, Chang K, Zhang D Int J Mol Sci. 2024; 25(2).

PMID: 38255910 PMC: 10815638. DOI: 10.3390/ijms25020836.

References

Stacey M, Hicks S, Von Arnim A . Discrete domains mediate the light-responsive nuclear and cytoplasmic localization of Arabidopsis COP1. Plant Cell. 1999; 11(3):349-64. PMC: 144184. DOI: 10.1105/tpc.11.3.349. View

Bastiaens P, Squire A . Fluorescence lifetime imaging microscopy: spatial resolution of biochemical processes in the cell. Trends Cell Biol. 1999; 9(2):48-52. DOI: 10.1016/s0962-8924(98)01410-x. View

Wouters F, Bastiaens P . Fluorescence lifetime imaging of receptor tyrosine kinase activity in cells. Curr Biol. 1999; 9(19):1127-30. DOI: 10.1016/s0960-9822(99)80484-9. View

Kusnetsov V, Landsberger M, Meurer J, Oelmuller R . The assembly of the CAAT-box binding complex at a photosynthesis gene promoter is regulated by light, cytokinin, and the stage of the plastids. J Biol Chem. 1999; 274(50):36009-14. DOI: 10.1074/jbc.274.50.36009. View

Neff M, Fankhauser C, Chory J . Light: an indicator of time and place. Genes Dev. 2000; 14(3):257-71. View

Ashburner M, Ball C, Blake J, Botstein D, Butler H, Cherry J . Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet. 2000; 25(1):25-9. PMC: 3037419. DOI: 10.1038/75556. View

Fankhauser C, Chory J . RSF1, an Arabidopsis locus implicated in phytochrome A signaling. Plant Physiol. 2000; 124(1):39-45. PMC: 59120. DOI: 10.1104/pp.124.1.39. View

Fairchild C, Schumaker M, Quail P . HFR1 encodes an atypical bHLH protein that acts in phytochrome A signal transduction. Genes Dev. 2000; 14(18):2377-91. PMC: 316929. View

Soh M, Kim Y, Han S, Song P . REP1, a basic helix-loop-helix protein, is required for a branch pathway of phytochrome A signaling in arabidopsis. Plant Cell. 2000; 12(11):2061-74. PMC: 150158. DOI: 10.1105/tpc.12.11.2061. View

10.

Osterlund M, Wei N, Deng X . The roles of photoreceptor systems and the COP1-targeted destabilization of HY5 in light control of Arabidopsis seedling development. Plant Physiol. 2000; 124(4):1520-4. PMC: 1539307. DOI: 10.1104/pp.124.4.1520. View

11.

Yoshida H, Okada T, Haze K, Yanagi H, Yura T, Negishi M . Endoplasmic reticulum stress-induced formation of transcription factor complex ERSF including NF-Y (CBF) and activating transcription factors 6alpha and 6beta that activates the mammalian unfolded protein response. Mol Cell Biol. 2001; 21(4):1239-48. PMC: 99577. DOI: 10.1128/MCB.21.4.1239-1248.2001. View

12.

Ballesteros M, Bolle C, Lois L, Moore J, Grossniklaus U, Chua N . LAF1, a MYB transcription activator for phytochrome A signaling. Genes Dev. 2001; 15(19):2613-25. PMC: 312796. DOI: 10.1101/gad.915001. View

13.

Ma L, Li J, Qu L, Hager J, Chen Z, Zhao H . Light control of Arabidopsis development entails coordinated regulation of genome expression and cellular pathways. Plant Cell. 2001; 13(12):2589-607. PMC: 139475. DOI: 10.1105/tpc.010229. View

14.

Nagai T, Ibata K, Park E, Kubota M, Mikoshiba K, Miyawaki A . A variant of yellow fluorescent protein with fast and efficient maturation for cell-biological applications. Nat Biotechnol. 2001; 20(1):87-90. DOI: 10.1038/nbt0102-87. View

15.

Robson F, Costa M, Hepworth S, Vizir I, Pineiro M, Reeves P . Functional importance of conserved domains in the flowering-time gene CONSTANS demonstrated by analysis of mutant alleles and transgenic plants. Plant J. 2002; 28(6):619-31. DOI: 10.1046/j.1365-313x.2001.01163.x. View

16.

Holm M, Ma L, Qu L, Deng X . Two interacting bZIP proteins are direct targets of COP1-mediated control of light-dependent gene expression in Arabidopsis. Genes Dev. 2002; 16(10):1247-59. PMC: 186273. DOI: 10.1101/gad.969702. View

17.

Kim Y, Woo J, Song P, Soh M . HFR1, a phytochrome A-signalling component, acts in a separate pathway from HY5, downstream of COP1 in Arabidopsis thaliana. Plant J. 2002; 30(6):711-9. DOI: 10.1046/j.1365-313x.2002.01326.x. View

18.

Kliebenstein D, Lim J, Landry L, Last R . Arabidopsis UVR8 regulates ultraviolet-B signal transduction and tolerance and contains sequence similarity to human regulator of chromatin condensation 1. Plant Physiol. 2002; 130(1):234-43. PMC: 166556. DOI: 10.1104/pp.005041. View

19.

West M, Yee K, Danao J, Zimmerman J, Fischer R, Goldberg R . LEAFY COTYLEDON1 Is an Essential Regulator of Late Embryogenesis and Cotyledon Identity in Arabidopsis. Plant Cell. 1994; 6(12):1731-1745. PMC: 160558. DOI: 10.1105/tpc.6.12.1731. View

20.

Meinke D, Franzmann L, Nickle T, Yeung E . Leafy Cotyledon Mutants of Arabidopsis. Plant Cell. 1994; 6(8):1049-1064. PMC: 160500. DOI: 10.1105/tpc.6.8.1049. View