Determination of Metabolic pathways and PPI network of Sarigol in Response to Osmotic stress: An in silico study

Reza Shokri Gharelo

Abstract


The complexity of plants response to abiotic stress make difficult to manage and target special genes/proteins to be used in improving crop performance. Therefore, understanding and insight into molecular mechanisms recruited by plants under stressful conditions is essence. In this aim, Sarigol, a salt-sensitive cultivar of canola, based on their differentially expressed proteins was studied in silico. The results indicated that the majority of proteins had molecular function of catalytic activity and involvement of these proteins in response to stress underrepresented by Sarigol, whereas proteins involved in cellular and metabolic process were overrepresented. Phylogenetic analysis divided the proteins into 4 groups and protein-protein interaction network prediction illustrated two sets of interacted proteins, while most of proteins did not show any interactions. The results suggested that in the molecular level, Sarigol is unable to respond appropriate actions as are observed in tolerant plants. 

Keywords


Biological process, Metabolic pathway, Molecular function, PPI network

Full Text:

PDF

References


Hsieh T-H, Lee J-T, Yang P-T, Chiu L-H, Charng Y-y, Wang Y-C, et al. Heterology expression of the ArabidopsisC-repeat/dehydration response element binding Factor 1 gene confers elevated tolerance to chilling and oxidative stresses in transgenic tomato. PLANT PHYSIOL. 2002;129(3):1086-94.

Wang W, Vinocur B, Altman A. Plant responses to drought, salinity and extreme temperatures: towards genetic engineering for stress tolerance. PLANTA. 2003;218(1):1-14.

Wang W, Vinocur B, Shoseyov O, Altman A, editors. Biotechnology of plant osmotic stress tolerance physiological and molecular considerations. IV International Symposium on In Vitro Culture and Horticultural Breeding 560; 2000.

Kreps JA, Wu Y, Chang H-S, Zhu T, Wang X, Harper JF. Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress. PLANT PHYSIOL. 2002;130(4):2129-41.

Rizhsky L, Liang H, Shuman J, Shulaev V, Davletova S, Mittler R. When defense pathways collide. The response of Arabidopsis to a combination of drought and heat stress. PLANT PHYSIOL. 2004;134(4):1683-96.

Hajheidari M, Eivazi A, Buchanan BB, Wong JH, Majidi I, Salekdeh GH. Proteomics Uncovers a Role for Redox in Drought Tolerance in Wheat §. J PROTEOME RES. 2007;6(4):1451-60.

Rabbani M, editor Monitoring expression profiles of rice (Oryza sativa L.) genes under abiotic stresses using cDNA Microarray Analysis. International Conference on Biotechnology for Salinity and Drought Tolerance in Plants; 2005.

Shinozaki K, Yamaguchi-Shinozaki K, Seki M. Regulatory network of gene expression in the drought and cold stress responses. Current opinion in plant biology. 2003;6(5):410-7.

Umezawa T, Fujita M, Fujita Y, Yamaguchi-Shinozaki K, Shinozaki K. Engineering drought tolerance in plants: discovering and tailoring genes to unlock the future. Current opinion in biotechnology. 2006;17(2):113-22.

Zhang JZ, Creelman RA, Zhu J-K. From laboratory to field. Using information from Arabidopsis to engineer salt, cold, and drought tolerance in crops. Plant physiology. 2004;135(2):615-21.

Abreu IA, Farinha AP, Negrão S, Gonçalves N, Fonseca C, Rodrigues M, et al. Coping with abiotic stress: proteome changes for crop improvement. J PROTEOMICS. 2013;93:145-68.

Gong F, Hu X, Wang W. Proteomic analysis of crop plants under abiotic stress conditions: where to focus our research? Frontiers in plant science. 2015;6.

Gharelo Shokri R, Farajzadeh D, Bandehagh A, Tourchi M. Canola 2-dimensional proteom profile under osmotic stress and inoculation with Pseudomonas fluorescens FY32. Plant Cell Biotechnology and Molecular Biology 2016;17(5&6):257-66.

Banaei-Asl F, Bandehagh A, Uliaei ED, Farajzadeh D, Sakata K, Mustafa G, et al. Proteomic analysis of canola root inoculated with bacteria under salt stress. Journal of proteomics. 2015;124:88-111.

Bandehagh A, Salekdeh GH, Toorchi M, Mohammadi A, Komatsu S. Comparative proteomic analysis of canola leaves under salinity stress. Proteomics. 2011;11(10):1965-75.

Mittler R. Oxidative stress, antioxidants and stress tolerance. TRENDS PLANT SCI. 2002;7(9):405-10.

Banaei-Asl F, Farajzadeh D, Bandehagh A, Komatsu S. Comprehensive proteomic analysis of canola leaf inoculated with a plant growth-promoting bacterium, Pseudomonas fluorescens, under salt stress. Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics. 2016.

Chinnusamy V, Jagendorf A, Zhu J-K. Understanding and improving salt tolerance in plants. CROP SCI. 2005;45(2):437-48.

Ford KL, Cassin A, Bacic AF. Quantitative proteomic analysis of wheat cultivars with differing drought stress tolerance. Frontiers in plant science. 2011;2:44.

Jiang Y, Yang B, Harris NS, Deyholos MK. Comparative proteomic analysis of NaCl stress-responsive proteins in Arabidopsis roots. J EXP BOT. 2007;58(13):3591-607.

Mohammadi PP, Moieni A, Komatsu S. Comparative proteome analysis of drought-sensitive and drought-tolerant rapeseed roots and their hybrid F1 line under drought stress. AMINO ACIDS. 2012;43(5):2137-52.

Salekdeh GH, Siopongco J, Wade L, Ghareyazie B, Bennett J. A proteomic approach to analyzing drought-and salt-responsiveness in rice. FIELD CROP RES. 2002;76(2):199-219.

Sors T, Ellis D, Salt D. Selenium uptake, translocation, assimilation and metabolic fate in plants. PHOTOSYNTH RES. 2005;86(3):373-89.

Zagorchev L, Seal CE, Kranner I, Odjakova M. A central role for thiols in plant tolerance to abiotic stress. INT J MOL SCI. 2013;14(4):7405-32.

Cabreiro F, Picot CR, Friguet B, Petropoulos I. Methionine sulfoxide reductases. ANN NY ACAD SCI. 2006;1067(1):37-44.

Harms K, Von Ballmoos P, Brunold C, Höfgen R, Hesse H. Expression of a bacterial serine acetyltransferase in transgenic potato plants leads to increased levels of cysteine and glutathione. The Plant Journal. 2000;22(4):335-43.

Tabe L, Wirtz M, Molvig L, Droux M, Hell R. Overexpression of serine acetlytransferase produced large increases in O-acetylserine and free cysteine in developing seeds of a grain legume. J EXP BOT. 2010;61(3):721-33.

Wirtz M, Hell R. Functional analysis of the cysteine synthase protein complex from plants: structural, biochemical and regulatory properties. J PLANT PHYSIOL. 2006;163(3):273-86.

Gill SS, Tuteja N. Reactive oxygen species and antioxidant machinery in abiotic stress tolerance in crop plants. Plant physiology and biochemistry. 2010;48(12):909-30.

Meyer AJ, Hell R. Glutathione homeostasis and redox-regulation by sulfhydryl groups. PHOTOSYNTH RES. 2005;86(3):435-57.

Ashraf M, Harris P. Photosynthesis under stressful environments: an overview. PHOTOSYNTHETICA. 2013;51(2):163-90.

Foyer CH, Shigeoka S. Understanding oxidative stress and antioxidant functions to enhance photosynthesis. PLANT PHYSIOL. 2011;155(1):93-100.




Bookmark and Share