Induction of DREB2A pathway with repression of E2F, jasmonic acid biosynthetic and photosynthesis pathways in cold acclimation-specific freeze-resistant wheat crown
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Winter wheat lines can achieve cold acclimation (development of tolerance to freezing temperatures) and vernalization (delay in transition from vegetative to reproductive phase) in response to low non-freezing temperatures. To describe cold-acclimation-specific processes and pathways, we utilized cold acclimation transcriptomic data from two lines varying in freeze survival but not vernalization. These lines, designated freeze-resistant (FR) and freeze-susceptible (FS), were the source of crown tissue RNA. Well-annotated differentially expressed genes (p ≤ 0.005 and fold change ≥ 2 in response to 4 weeks cold acclimation) were used for gene ontology and pathway analysis. “Abiotic stimuli” was identified as the most enriched and unique for FR. Unique to FS was “cytoplasmic components.” Pathway analysis revealed the “triacylglycerol degradation” pathway as significantly downregulated and common to both FR and FS. The most enriched of FR pathways was “neighbors of DREB2A,” with the highest positive median fold change. The “13-LOX and 13-HPL” and the “E2F” pathways were enriched in FR only with a negative median fold change. The “jasmonic acid biosynthesis” pathway and four “photosynthetic-associated” pathways were enriched in both FR and FS but with a more negative median fold change in FR than in FS. A pathway unique to FS was “binding partners of LHCA1,” which was enriched only in FS with a significant negative median fold change. We propose that the DREB2A, E2F, jasmonic acid biosynthesis, and photosynthetic pathways are critical for discrimination between cold-acclimated lines varying in freeze survival.
KeywordsGene ontology (GO) Pathway Cold acclimation Vernalization Freeze survival Winter wheat DREB2A Jasmonic acid E2F.
This work was part of the Ph.D. training program of A.K and was made possible by support from the Sutton Laboratory, the SDSU Plant Science Dept., the Mathematics and Statistics Dept., the SDSU Experiment Station, and the Horvath Laboratory at USDA, Fargo, ND.
- Han K (1997) Partial cDNA of freeze resistance-related gene in wheat isolated by differential display. In Master of Science Thesis South Dakota State. University, Plant ScienceGoogle Scholar
- Liu Q, Sakuma Y, Abe H, Kasuga M, Abe H, Miura S, Yamaguchi-Shinozaki K, Shinozaki K (1998) Two transcription factors, DREB1 and DREB2, with an ERF/AP2 DNA binding domain, separate two cellular signal transduction pathways in drought-and low temperature-responsive gene expression, respectively, in Arabidopsis. Plant Cell 10(8):1391–1406PubMedGoogle Scholar
- Mi H, Lazareva-Ulitsky B, Loo R, Kejariwal A, Vandergriff J, Rabkin S, Guo N, Muruganujan A, Doremieux O, Campbell MJ, Kitano H, Thomas PD (2005) The PANTHER database of protein families, subfamilies, functions and pathways. Nucleic Acids Res., 33 (dtabase issue): D284–D288Google Scholar
- Mi H, Dong Q, Muruganujan A, Gaudet P, Lewis S, Thomas PD (2010) PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium. Nucleic Acids Research 38 (Database issue): D204-D210.Google Scholar
- Monroy AF, Dryanova A, Malette B, Oren DH, Ridha Farajalla M, Liu W, Danyluk J, Ubayasena LW, Kane K, Scoles GJ, Sarhan F, Gulick PJ (2007) Regulatory gene candidates and gene expression analysis of cold acclimation in winter and spring wheat. Plant Mol Biol 64(4):409–423PubMedCrossRefGoogle Scholar
- Olien CR, Clark JL (1993) Changes in soluble carbohydrate composition of barley, wheat, and rye during winter. Crop Sci 85(1):21–29Google Scholar
- Pearce RS, Houlston CE, Atherton KM, Rixon JE, Harrison P, Hughes MA, Dunn MA (1998) Localization of expression of three cold-induced genes, blt101, blt4.9, and blt14, in different tissues of the crown and developing leaves of cold-acclimated cultivated barley. Plant Physiol 117(3):787–795PubMedCrossRefGoogle Scholar
- Seki M, Narusaka M, Ishida J, Nanjo T, Fujita M, Oono Y, Kamiya A, Nakajima M, Enju A, Sakurai T, Satou M, Akiyama K, Taji T, Yamaguchi-Shinozaki K, Carninci P, Kawai J, Hayashizaki Y, Shinozaki K (2002) Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray. The Plant Journal 31(3):279–292PubMedCrossRefGoogle Scholar
- Wisniewski M, Bassett C, Gusta LV (2003) An overview of cold hardiness in woody plants: seeing the forest through the trees. Hort Science 38(5):952–959Google Scholar