Label-free quantitative proteomic analysis of abscisic acid effect in early-stage soybean under flooding.

Flooding is a serious problem for soybean cultivation because it markedly reduces growth. To investigate the role of phytohormones in soybean under flooding stress, gel-free proteomic technique was used. When 2-day-old soybeans were flooded, the content of abscisic acid (ABA) did not decrease in the root, though its content decreased in untreated plant. When ABA was added during flooding treatment, survival ratio was improved compared with that of soybeans flooded without ABA. When 2-day-old soybeans were flooded with ABA, the abundance of proteins related to cell organization, vesicle transport and glycolysis decreased compared with those in root of soybeans flooded without ABA. Furthermore, the nuclear proteins were analyzed to identify the transcriptional regulation. The abundance of 34 nuclear proteins such as histone deacetylase and U2 small nuclear ribonucleoprotein increased by ABA supplementation under flooding; however, 35 nuclear proteins such as importin alpha, chromatin remodeling factor, zinc finger protein, transducin, and cell division 5 protein decreased. Of them, the mRNA expression levels of cell division cycle 5 protein, C2H2 zinc finger protein SERRATE, CCCH type zinc finger family protein, and transducin were significantly down-regulated under the ABA treatment. These results suggest that ABA might be involved in the enhancement of flooding tolerance of soybean through the control of energy conservation via glycolytic system and the regulation on zinc finger proteins, cell division cycle 5 protein and transducin.

[1]  She Chen,et al.  Two Prp19-Like U-Box Proteins in the MOS4-Associated Complex Play Redundant Roles in Plant Innate Immunity , 2009, PLoS pathogens.

[2]  S. Komatsu,et al.  Proteome analysis of early-stage soybean seedlings under flooding stress. , 2009, Journal of proteome research.

[3]  Zhang-liang Chen,et al.  AtCDC5 regulates the G2 to M transition of the cell cycle and is critical for the function of Arabidopsis shoot apical meristem , 2007, Cell Research.

[4]  S. Komatsu,et al.  Proteomic analysis of the flooding tolerance mechanism in mutant soybean. , 2013, Journal of proteomics.

[5]  J. E. Lee,et al.  Proteomic Identification of Annexins, Calcium-Dependent Membrane Binding Proteins That Mediate Osmotic Stress and Abscisic Acid Signal Transduction in Arabidopsis , 2004, The Plant Cell Online.

[6]  Xian-Jun Song,et al.  The ethylene response factors SNORKEL1 and SNORKEL2 allow rice to adapt to deep water , 2009, Nature.

[7]  K. Shinozaki,et al.  OsTZF1, a CCCH-Tandem Zinc Finger Protein, Confers Delayed Senescence and Stress Tolerance in Rice by Regulating Stress-Related Genes1[W][OA] , 2013, Plant Physiology.

[8]  T. Setter,et al.  Review of prospects for germplasm improvement for waterlogging tolerance in wheat, barley and oats , 2003, Plant and Soil.

[9]  K. Shinozaki,et al.  Transcriptional responses to flooding stress in roots including hypocotyl of soybean seedlings , 2011, Plant Molecular Biology.

[10]  D. R. Wagner,et al.  The Arabidopsis SERRATE Gene Encodes a Zinc-Finger Protein Required for Normal Shoot Development , 2001, The Plant Cell Online.

[11]  T. Fukao,et al.  SUB1A-dependent and -independent mechanisms are involved in the flooding tolerance of wild rice species. , 2012, The Plant journal : for cell and molecular biology.

[12]  M. Ashikari,et al.  Stunt or elongate? Two opposite strategies by which rice adapts to floods , 2010, Journal of Plant Research.

[13]  Cho,et al.  Deepwater rice: A model plant to study stem elongation , 1998, Plant physiology.

[14]  S. Komatsu,et al.  Proteomics techniques for the development of flood tolerant crops. , 2012, Journal of proteome research.

[15]  J. Bailey-Serres,et al.  Sub1A is an ethylene-response-factor-like gene that confers submergence tolerance to rice , 2006, Nature.

[16]  J. Bailey-Serres,et al.  Ethylene—A key regulator of submergence responses in rice , 2008 .

[17]  F. Chang,et al.  Transformation of tomato with the BADH gene from Atriplex improves salt tolerance , 2002, Plant Cell Reports.

[18]  Bifeng Yuan,et al.  Highly sensitive and quantitative profiling of acidic phytohormones using derivatization approach coupled with nano-LC-ESI-Q-TOF-MS analysis. , 2012, Journal of chromatography. B, Analytical technologies in the biomedical and life sciences.

[19]  Paul Horton,et al.  Nucleic Acids Research Advance Access published May 21, 2007 WoLF PSORT: protein localization predictor , 2007 .

[20]  S. Komatsu,et al.  Cytosolic ascorbate peroxidase 2 (cAPX 2) is involved in the soybean response to flooding. , 2008, Phytochemistry.

[21]  Sandra L McLellan,et al.  Climate change and waterborne disease risk in the Great Lakes region of the U.S. , 2008, American journal of preventive medicine.

[22]  S. Hoffmann-Benning,et al.  On the role of abscisic Acid and gibberellin in the regulation of growth in rice. , 1992, Plant physiology.

[23]  Wenhua Zhang,et al.  Cytosolic Glyceraldehyde-3-Phosphate Dehydrogenases Interact with Phospholipase Dδ to Transduce Hydrogen Peroxide Signals in the Arabidopsis Response to Stress[C][W] , 2012, Plant Cell.

[24]  J. Benschop,et al.  Long-Term Submergence-Induced Elongation in Rumex palustris Requires Abscisic Acid-Dependent Biosynthesis of Gibberellin11 , 2006, Plant Physiology.

[25]  T. Sakurai,et al.  Genome sequence of the palaeopolyploid soybean , 2010, Nature.

[26]  S. Chakraborty,et al.  Dehydration-responsive Nuclear Proteome of Rice (Oryza sativa L.) Illustrates Protein Network, Novel Regulators of Cellular Adaptation, and Evolutionary Perspective* , 2009, Molecular & Cellular Proteomics.

[27]  M. Sauter,et al.  Epidermal Cell Death in Rice Is Regulated by Ethylene, Gibberellin, and Abscisic Acid , 2005, Plant Physiology.

[28]  M. N. Khan,et al.  Effect of salt stress on growth attributes and endogenous growth hormones of soybean cultivar Hwangkeumkong. , 2010 .

[29]  Markus Brosch,et al.  Accurate and sensitive peptide identification with Mascot Percolator. , 2009, Journal of proteome research.

[30]  K. Harada,et al.  QTL analysis of flooding tolerance in soybean at an early vegetative growth stage , 2006 .

[31]  M. Mann,et al.  Parts per Million Mass Accuracy on an Orbitrap Mass Spectrometer via Lock Mass Injection into a C-trap*S , 2005, Molecular & Cellular Proteomics.

[32]  S. Komatsu,et al.  Quantitative proteomic analyses of crop seedlings subjected to stress conditions; a commentary. , 2011, Phytochemistry.

[33]  Xin Li,et al.  Two Putative RNA-Binding Proteins Function with Unequal Genetic Redundancy in the MOS4-Associated Complex1[C][W][OA] , 2010, Plant Physiology.

[34]  L. Voesenek,et al.  Flooding stress: acclimations and genetic diversity. , 2008, Annual review of plant biology.

[35]  De-yue Yu,et al.  Proteomic analysis of seed germination under salt stress in soybeans , 2011, Journal of Zhejiang University SCIENCE B.

[36]  M. Jackson,et al.  Response and adaptation by plants to flooding stress. , 2005, Annals of botany.

[37]  T. Umezawa,et al.  Effects of Non-stomatal Components on Photosynthesis in Soybean under Salt Stress , 2001 .

[38]  J. Bailey-Serres,et al.  A Variable Cluster of Ethylene Response Factor–Like Genes Regulates Metabolic and Developmental Acclimation Responses to Submergence in Rice[W] , 2006, The Plant Cell Online.

[39]  J. Bailey-Serres,et al.  Submergence Tolerant Rice: SUB1’s Journey from Landrace to Modern Cultivar , 2010, Rice.

[40]  Joachim Selbig,et al.  Extension of the Visualization Tool MapMan to Allow Statistical Analysis of Arrays, Display of Coresponding Genes, and Comparison with Known Responses1 , 2005, Plant Physiology.

[41]  R. Pierik,et al.  How plants cope with complete submergence. , 2006, The New phytologist.

[42]  Ying Zhang,et al.  Effect of dynamic exclusion duration on spectral count based quantitative proteomics. , 2009, Analytical chemistry.

[43]  M. Hajduch,et al.  Mass spectrometry-based analysis of proteomic changes in the root tips of flooded soybean seedlings. , 2012, Journal of proteome research.

[44]  A. Webb,et al.  Arabidopsis Annexin1 Mediates the Radical-Activated Plasma Membrane Ca2+- and K+-Permeable Conductance in Root Cells[W] , 2012, Plant Cell.

[45]  J. Bailey-Serres,et al.  Submergence tolerance conferred by Sub1A is mediated by SLR1 and SLRL1 restriction of gibberellin responses in rice , 2008, Proceedings of the National Academy of Sciences.

[46]  Heiko Schoof,et al.  Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome , 2004, BMC Genomics.

[47]  H. Bohnert,et al.  Involvement of Arabidopsis HOS15 in histone deacetylation and cold tolerance , 2008, Proceedings of the National Academy of Sciences.