LEAF RUST RESPONSIVE EXPRESSION PROFILING OF GRAS TRANSCRIPTION FACTOR FAMILY IN WHEAT (TRITICUM AESTIVUM L)
Abstract
Objective: Rusts are among the most important fungal diseases of wheat all over the world responsible for losses in yield ranging from 25% to 90%. Bread wheat (Triticum aestivum L.) is one of the major staple food crops all over the world but is greatly affected by leaf rust. GRAS is a plant-specific stress responsive transcription factor gene family. The objective of the present study is to carry out expression profiling of GRAS TFs during leaf rust pathogenesis.
Methods: SOLiD SAGE library preparation. GRAS TFs were mapped to the four libraries using the CLC genomics workbench to study their expression profiles. A Co-expression network of these TFs has been constructed using WGCNA (weighted gene co-expression network analysis).
Results: The four libraries have been prepared: S-M, S-PI, R-M R-PI. GRAS TFs were mapped to these libraries, giving different expression profiles of the 63 GRAS TFs. Pearson correlation coefficients were 0.56, 0.34 and 0.24 for R-M vs. R-PI, S-M vs. S-PI and S-PI vs. R-PI respectively. Highest difference in expression of TaGRAS genes was between two libraries S-PI vs. R-PI. TaGRAS genes have been clustered into seven (blue, turquoise, red, green, black, maroon and yellow) different modules in signed correlation.
Conclusion: TaGRAS genes which are upregulated during leaf rust might be plays important roles to provide resistance to the plants. The difference in Pearson correlation coefficient indicates that susceptible and resistant-NILs utilize a different set of TaGRAS genes to counter leaf rust pathogenesis. The genes which are clustered together in coexpression network might be expressed together during leaf rust pathogenesis to provide resistance to the plant.
Keywords: Leaf rust, Wheat. GRAS, Transcription Factors, SAGE, WGCNA
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References
Kolmer JA, Ordonez ME, Groth JV. The rust fungi. In Encyclopedia of Life Sciences; John Wiley and Sons, Ltd: Chichester UK; 2009. p. 1–8.
Chen XM. Epidemiology of barley stripe rust and races of Puccinia striiformis f. sp. hordei: the first decade in the United States. In Proceedings of the 11th International Cereal Rusts and Powdery Mildews Conference. John Innes Centre, Norwich UK. European and Mediterranean Cereal Rust Foundation, Wageningen, Netherlands; 2004.
Mendgen K, Hahn M. Plant Infection and the establishment of biotrophy. Trends Plant Sci 2002;7:352–6.
Rosegrant MW, Agcaoili M. Global food demand, supply and price prospects to 2010. International Food Policy Research Institute, Washington DC; 2010
Braun HJ, Atlin G, Payne T. Multi-location testing as a tool to identify plant response to global climate change. In: Reynolds CRP. Ed. Climate change and crop production. CABI, London UK; 2010
MacIntosh RA, Pretorius ZA. Borlaug global rust initiative provides momentum for wheat rust research. Euphytica 2011;179:1–2.
Eversmeyer MG, Kramer CL. Epidemiology of wheat leaf and stem rust in the central great plains of the USA. Annu Rev Phytopathol 2000;38:491–513.
Dean R, Van Kan JAL, Pretorius ZA, Hammond-Kosack KE, Di Pietro A. The top 10 fungal pathogens in molecular plant pathology. Mol Plant Pathol 2012;13:414–30.
Udvardi M, Czechowski T, Scheible WR. Eleven golden rules of quantitative RT-PCR. Plant Cell 2008;20:1736–7.
Bolle C. The role of GRAS proteins in plant signal transduction and development. Planta 2004;218:683-92
Gupta SK, Charpe A, Koul S. Development and validation of molecular markers linked to an Aegilops umbellulata-derived leaf rust resistance gene. Genome 2005;48:823–30.
Bipinraj A, Honrao B, Prashar M, Bhardwaj S, Rao S. Validation and identification of molecular markers linked to the leaf rust resistance gene Lr28 in wheat. J Appl Genetics 2005;52:171–5.
Bansal UK, Bossolini E, Miah H, Keller B, Park RF, Bariana HS. Genetic mapping of seedling and adult plant stem rust resistance in two European winter wheat cultivars. Euphytica 2008;164:821–82.
Kaur J, Bansal U, Khanna R, Saini RG, Bariana H. Molecular mapping of stem rust resistance in HD2009/WL711 recombinant inbred line population. Int J Plant Breed 2009;3:28–33.
Hu G, Rijkenberg FHJ. Scanning electron microscopy of early infection structure formation by Puccinia recondita f. sp. tritici on and in susceptible and resistant wheat lines. Mycol Res 1998;102:391-9.
Coram TE, Settles MI, Chen X. Transcriptome analysis of high-temperature adult-plant resistance conditioned by Yr39 during the wheat-Puccinia striiformisf. sp. tritici interaction. Mol Plant Pathol 2008;9:479–93.
Singh D, Bhaganagare G, Bandopadhyay R, Prabhu KV, Gupta PK, Mukhopadhyay K. Targeted spatiotemporal expression based characterization of the state of infection and time-point of maximum defense in wheat NILs during leaf rust infection. Mol Biol Rep 2012;39:9373–82.
Zhang H, Jin J, Tang L, Zhao Y, Gu X. Plant TFDB 2.0: update and improvement of the comprehensive plant transcription factor database. Nucleic Acids Res 2011;39:D1114–D1117.
Mochida K, Yoshida T, Sakurai T, Yamaguchi-Shinozaki K, Shinozaki K, Tran LS. In silico analysis of transcription factor repertoires and prediction of stress-responsive transcription factors from six major Gramineae plants. DNA Res 2011;18:321–32.
Xiaoming S, Gaofeng L, Weike D, Tongkun L, Zhinan H. Genome-wide identification, classification and expression analysis of the heat shock transcription factor family in Chinese cabbage. Mol Genet Genom 2014;289:541-51.
Langfelder P, Horvath S. Eigengene networks for studying the relationships between co-expression modules. BMC Syst Biol 2007;1:54.
Xu K, Chen S, Li T, Ma X, Liang X. OsGRAS23, a rice GRAS transcription factor gene, is involved in drought stress response through regulating expression of stress-responsive genes. BMC Plant Biol 2015;15:141.