‘Omics’ techniques and their use to identify how soybean responds to flooding

Komatsu, Setsuko; Sakata, Katsumi; Nanjo, Yohei

doi:10.1186/s40543-015-0052-7

Cited by 24 publications

(13 citation statements)

References 49 publications

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“…Study of proteome response of major crop plants to environmental stress is of high interest due to elucidation of biological mechanisms and identification of crucial proteome components underlying an enhanced crop stress tolerance. Results of proteomic studies dealing with proteome response to major abiotic stress factors in temperate crops were already reviewed in several papers including large-scale comprehensive reviews on proteomics of abiotic stresses in crop plants [ 5 , 6 ] as well as more specialized reviews dedicated to specific stress factors, crops or cellular fractions such as reviews on salinity proteomics [ 7 , 8 , 9 ], subcellular proteomics of crop plants exposed to stress [ 10 ], proteomics of heavy metal stress [ 11 ], proteomics of abiotic stresses in wheat and barley [ 12 , 13 ], soybean proteomics [ 14 ], proteomics of flooding stress in soybean [ 15 ], and others. The aim of the present review paper is to summarize recent results of proteomic studies obtained in major crop plants grown in temperate climate regions and subjected to major abiotic stresses—drought, salinity, cold, frost, waterlogging, and heavy metal stress.…”

Section: Introductionmentioning

confidence: 99%

Biological Networks Underlying Abiotic Stress Tolerance in Temperate Crops—A Proteomic Perspective

Kosová

Vítámvás

Urban

et al. 2015

IJMS

129

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Abiotic stress factors, especially low temperatures, drought, and salinity, represent the major constraints limiting agricultural production in temperate climate. Under the conditions of global climate change, the risk of damaging effects of abiotic stresses on crop production increases. Plant stress response represents an active process aimed at an establishment of novel homeostasis under altered environmental conditions. Proteins play a crucial role in plant stress response since they are directly involved in shaping the final phenotype. In the review, results of proteomic studies focused on stress response of major crops grown in temperate climate including cereals: common wheat (Triticum aestivum), durum wheat (Triticum durum), barley (Hordeum vulgare), maize (Zea mays); leguminous plants: alfalfa (Medicago sativa), soybean (Glycine max), common bean (Phaseolus vulgaris), pea (Pisum sativum); oilseed rape (Brassica napus); potato (Solanum tuberosum); tobacco (Nicotiana tabaccum); tomato (Lycopersicon esculentum); and others, to a wide range of abiotic stresses (cold, drought, salinity, heat, imbalances in mineral nutrition and heavy metals) are summarized. The dynamics of changes in various protein functional groups including signaling and regulatory proteins, transcription factors, proteins involved in protein metabolism, amino acid metabolism, metabolism of several stress-related compounds, proteins with chaperone and protective functions as well as structural proteins (cell wall components, cytoskeleton) are briefly overviewed. Attention is paid to the differences found between differentially tolerant genotypes. In addition, proteomic studies aimed at proteomic investigation of multiple stress factors are discussed. In conclusion, contribution of proteomic studies to understanding the complexity of crop response to abiotic stresses as well as possibilities to identify and utilize protein markers in crop breeding processes are discussed.

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Section: Introductionmentioning

confidence: 99%

Biological Networks Underlying Abiotic Stress Tolerance in Temperate Crops—A Proteomic Perspective

Kosová

Vítámvás

Urban

et al. 2015

IJMS

129

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“…changes in the soybean proteome during water stress lead to different defence mechanisms. Several studies evidently revealed that some proteins regulating sucrose accumulation, glucose degradation, cell wall relaxing, signal transduction and alcohol fermentation were altered under flooding stress [192,193]. Flooding stress reduced the differential regulation of proteins involved in maintaining the structure of cell and protein folding [99].…”

Section: Rootsmentioning

confidence: 99%

Adaptation to Water Stress in Soybean: Morphology to Genetics

Zhao¹,

Aleem²,

Sharmin³

2018

Plant, Abiotic Stress and Responses to Climate Change

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Soybean (Glycine max L.) is the most important legume and oilseed crop. As a leguminous crop, it plays an irreplaceable role towards the sustainable agricultural system with biological nitrogen fixation. However, its production can be dramatically decreased by the occurrence of water stress. Water stress including drought and flooding induces the morpho-physiological and biochemical changes at different growth stages, which negatively affects the adaptability and yield of soybean. Genetic diversity that ensures productivity in challenging environment exists within germplasm, their wild relatives and species that are adapted to the water stress. The discovery of gene mapping, QTLs associated with root traits, slow canopy wilting, nitrogen fixation and flooding tolerance have accomplished significant progress in breeding programs. Identification of drought-responsive genes and transcription factors such as WRKY, DREBs, ERFs, ZIP, ZFP, MYB and NAC are valuable to ameliorate the water stress in soybean. Understanding the genetic mechanism using transcriptomic and proteomic approaches would be the ultimate choice for mitigating the water stress. Integration of well-designed soybean breeding program coupled with omic techniques would pave the way for developing drought and flooding resilient soybean cultivars.Due to the rapid rise in the commercial value of soybean in an international market, the total area under soybean cultivation has been increasing from last three decades. Soybean is an important cash crop with a total production of over 313.05 million metric tons in 2015-2016 (USDA data). During this year, the USA has been the world's leading producer of soybean representing 35% of the world production, followed by Brazil with 31%, Argentina with 17%, China with 4%, India with 3%, Paraguay with 3% and Canada with 2% (USDA data).Water stress including drought and flooding is considered as a major threat, limiting growth and yield of plants [5,6]. Drought is caused by insufficient rainfall or irrigation which results in soil drying, whereas, in flooding, water exists in soil solution causing water logging and submergence. In response to drought and flooding stress, 40-60% yield losses have been reported in soybean [7,8]. High temperature, low humidity in atmosphere and water deficiency are the main causes of drought [9,10]. Drought stress affects germination rate and early seedling growth of the plant [11,12]. Under water deficit conditions, a significant reduction in germination, hypocotyl length, root and shoot fresh and dry weight were observed whereas the root length is increased [13]. It also affects the carbon assimilation and phenology of the plant [10]. Prolonged drought stress at different growth stages has profound effect on soybean growth and yield [14].To counteract the adverse effects of drought, the soybean plant adopts three mechanisms i.e. escape, tolerance, and avoidance [15]. In the escape mechanism, the plant completes its life cycle before the onset of drought. Normally, the plants complete their...

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“…Furthermore, flooding stress impaired plant growth by inhibiting root elongation and reducing hypocotyl pigmentation [11]. Under flooding, soybean seedlings showed differential regulation of proteins involved in signal transduction, hormonal signaling, transcriptional control, glucose degradation/sucrose accumulation, alcohol fermentation, gamma-aminobutyric acid shunt, suppression of reactive-oxygen species scavenging, mitochondrial impairment, ubiquitin/proteasome-mediated proteolysis, and cell-wall loosening [12][13][14][15]. Although flooding-response mechanisms in soybean were reported, characterization of the mechanism of flooding tolerance is needed regarding to agricultural usage.…”

Section: Introductionmentioning

confidence: 99%

Proteomic and Biochemical Analyses of the Mechanism of Tolerance in Mutant Soybean Responding to Flooding Stress

Komatsu

Yamaguchi

Hitachi

et al. 2021

IJMS

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To investigate the mechanism of flooding tolerance of soybean, flooding-tolerant mutants derived from gamma-ray irradiated soybean were crossed with parent cultivar Enrei for removal of other factors besides the genes related to flooding tolerance in primary generated mutant soybean. Although the growth of the wild type was significantly suppressed by flooding compared with the non-flooding condition, that of the mutant lines was better than that of the wild type even if it was treated with flooding. A two-day-old mutant line was subjected to flooding for 2 days and proteins were analyzed using a gel-free/label-free proteomic technique. Oppositely changed proteins in abundance between the wild type and mutant line under flooding stress were associated in endoplasmic reticulum according to gene-ontology categorization. Immunoblot analysis confirmed that calnexin accumulation increased in both the wild type and mutant line; however, calreticulin accumulated in only the mutant line under flooding stress. Furthermore, although glycoproteins in the wild type decreased by flooding compared with the non-flooding condition, those in the mutant line increased even if it was under flooding stress. Alcohol dehydrogenase accumulated in the wild type and mutant line; however, this enzyme activity significantly increased and mildly increased in the wild type and mutant line, respectively, under flooding stress compared with the non-flooding condition. Cell death increased and decreased in the wild type and mutant line, respectively, by flooding stress. These results suggest that the regulation of cell death through the fermentation system and glycoprotein folding might be an important factor for the acquisition of flooding tolerance in mutant soybean.

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‘Omics’ techniques and their use to identify how soybean responds to flooding

Cited by 24 publications

References 49 publications

Biological Networks Underlying Abiotic Stress Tolerance in Temperate Crops—A Proteomic Perspective

Biological Networks Underlying Abiotic Stress Tolerance in Temperate Crops—A Proteomic Perspective

Adaptation to Water Stress in Soybean: Morphology to Genetics

Proteomic and Biochemical Analyses of the Mechanism of Tolerance in Mutant Soybean Responding to Flooding Stress

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