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      Proteomic Analysis of Irradiation with Millimeter Waves on Soybean Growth under Flooding Conditions

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          Abstract

          Improving soybean growth and tolerance under environmental stress is crucial for sustainable development. Millimeter waves are a radio-frequency band with a wavelength range of 1–10 mm that has dynamic effects on organisms. To investigate the potential effects of millimeter-waves irradiation on soybean seedlings, morphological and proteomic analyses were performed. Millimeter-waves irradiation improved the growth of roots/hypocotyl and the tolerance of soybean to flooding stress. Proteomic analysis indicated that the irradiated soybean seedlings recovered under oxidative stress during growth, whereas proteins related to glycolysis and ascorbate/glutathione metabolism were not affected. Immunoblot analysis confirmed the promotive effect of millimeter waves to glycolysis- and redox-related pathways under flooding conditions. Sugar metabolism was suppressed under flooding in unirradiated soybean seedlings, whereas it was activated in the irradiated ones, especially trehalose synthesis. These results suggest that millimeter-waves irradiation on soybean seeds promotes the recovery of soybean seedlings under oxidative stress, which positively regulates soybean growth through the regulation of glycolysis and redox related pathways.

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          Most cited references66

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          The Proteomics Identifications (PRIDE) database and associated tools: status in 2013

          The PRoteomics IDEntifications (PRIDE, http://www.ebi.ac.uk/pride) database at the European Bioinformatics Institute is one of the most prominent data repositories of mass spectrometry (MS)-based proteomics data. Here, we summarize recent developments in the PRIDE database and related tools. First, we provide up-to-date statistics in data content, splitting the figures by groups of organisms and species, including peptide and protein identifications, and post-translational modifications. We then describe the tools that are part of the PRIDE submission pipeline, especially the recently developed PRIDE Converter 2 (new submission tool) and PRIDE Inspector (visualization and analysis tool). We also give an update about the integration of PRIDE with other MS proteomics resources in the context of the ProteomeXchange consortium. Finally, we briefly review the quality control efforts that are ongoing at present and outline our future plans.
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            Role of plant heat-shock proteins and molecular chaperones in the abiotic stress response.

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              A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize.

              MapMan is a software tool that supports the visualization of profiling data sets in the context of existing knowledge. Scavenger modules generate hierarchical and essentially non-redundant gene ontologies ('mapping files'). An ImageAnnotator module visualizes the data on a gene-by-gene basis on schematic diagrams ('maps') of biological processes. The PageMan module uses the same ontologies to statistically evaluate responses at the pathway or processes level. The generic structure of MapMan also allows it to be used for transcripts, proteins, enzymes and metabolites. MapMan was developed for use with Arabidopsis, but has already been extended for use with several other species. These tools are available as downloadable and web-based versions. After providing an introduction to the scope and use of MapMan, we present a case study where MapMan is used to analyse the transcriptional response of the crop plant maize to diurnal changes and an extension of the night. We then explain how MapMan can be customized to visually and systematically compare responses in maize and Arabidopsis. These analyses illustrate how MapMan can be used to analyse and compare global transcriptional responses between phylogenetically distant species, and show that analyses at the level of functional categories are especially useful in cross-species comparisons.
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                Author and article information

                Journal
                Int J Mol Sci
                Int J Mol Sci
                ijms
                International Journal of Molecular Sciences
                MDPI
                1422-0067
                12 January 2020
                January 2020
                : 21
                : 2
                : 486
                Affiliations
                [1 ]Faculty of Environment and Information Sciences, Fukui University of Technology, Fukui 910-8505, Japan; zhongzhh@ 123456zju.edu.cn (Z.Z.); shizouliu@ 123456gmail.com (K.U.)
                [2 ]College of Biomedical Engineering & Instrument Science, Zhejiang University, Hangzhou 310027, China; tjk@ 123456zju.edu.cn
                [3 ]Research Center for Development of Far-Infrared Region, University of Fukui, Fukui 910-8507, Japan; furuya@ 123456fir.u-fukui.ac.jp (T.F.); tani@ 123456fir.u-fukui.ac.jp (M.T.)
                [4 ]Institute for Comprehensive Medical Science, Fujita Health University, Toyoake 470-1192, Japan; hyama@ 123456fujita-hu.ac.jp (H.Y.); hkeisuke@ 123456fujita-hu.ac.jp (K.H.); tsuchida@ 123456fujita-hu.ac.jp (K.T.)
                Author notes
                [* ]Correspondence: skomatsu@ 123456fukui-ut.ac.jp ; Tel.: +81-776-29-2466
                Author information
                https://orcid.org/0000-0002-7300-5238
                https://orcid.org/0000-0002-3983-5756
                https://orcid.org/0000-0002-4514-357X
                Article
                ijms-21-00486
                10.3390/ijms21020486
                7013696
                31940953
                b4c07855-87a3-43fc-a58a-17657fbae753
                © 2020 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 25 November 2019
                : 08 January 2020
                Categories
                Article

                Molecular biology
                early-stage soybean,seed irradiation,crop productivity,glycolysis,redox
                Molecular biology
                early-stage soybean, seed irradiation, crop productivity, glycolysis, redox

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