Comparative Proteomic Analysis of Soybean Leaves and Roots by iTRAQ Provides Insights into Response Mechanisms to Short-Term Salt Stress.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27200046", "kind": "science-record", "revision": 8, "content_hash": "sha256:408c713eae347beec3f2e643e7fdfbef93ba6b7e1c1c60056e0541d94c665a4b", "created_at": "2026-11-01T15:40:18Z", "updated_at": "2026-11-01T22:42:40Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Comparative Proteomic Analysis of Soybean Leaves and Roots by iTRAQ Provides Insights into Response Mechanisms to Short-Term Salt Stress.", "doi": "10.3389/fpls.2016.00573", "pmid": "27200046", "authors": ["Wei Ji", "Ru Cong", "Sheng Li", "Rui Li", "Zhiwei Qin", "Yanjun Li", "Xiaolin Zhou", "Sixue Chen", "Jing Li"], "journal": "Frontiers in plant science", "year": 2016, "abstract": "Salinity severely threatens land use capability and crop yields worldwide. Understanding the mechanisms that protect soybeans from salt stress will help in the development of salt-stress tolerant leguminous plants. Here we initially analyzed the changes in malondialdehyde levels, the activities of superoxide dismutase and peroxidases, chlorophyll content, and Na(+)/K(+) ratios in leaves and roots from soybean seedlings treated with 200 mM NaCl at different time points. We found that the 200 mM NaCl treated for 12 h was optimal for undertaking a proteomic analysis on soybean seedlings. An iTRAQ-based proteomic approach was used to investigate the proteomes of soybean leaves and roots under salt treatment. These data are available via ProteomeXchange with the identifier PXD002851. In total, 278 and 440 proteins with significantly altered abundances were identified in leaves and roots of soybean, respectively. From these data, a total of 50 proteins were identified in the both tissues. These differentially expressed proteins (DEPs) were from 13 biological processes. Moreover, protein-protein interaction analysis revealed that proteins involved in metabolism, carbohydrate and energy metabolism, protein synthesis and redox homeostasis could be assigned to four high salt stress response networks. Furthermore, semi-quantitative RT-PCR analysis revealed that some of the proteins, such as a 14-3-3, MMK2, PP1, TRX-h, were also regulated by salt stress at the level of transcription. These results indicated that effective regulatory protein expression related to signaling, membrane and transport, stress defense and metabolism all played important roles in the short-term salt response of soybean seedlings.", "claims": [{"id": "claim-method", "statement": "The different letters above columns indicated significant differences among different treatment time of soybean plants based on one-way ANOVA (p < 0.05).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27200046", "locator": "sections[12] \"Physiological changes of soybean plants under salt treatment\" paragraph 5", "quote": "The different letters above columns indicated significant differences among different treatment time of soybean plants based on one-way ANOVA (p < 0.05)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The MS proteomics data have been deposited in the ProteomeXchange Consortium via the PRIDE partner repository (Vizcaino et al., 2013) with the data set identifier PXD002851.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27200046", "locator": "sections[9] \"Data analysis and interpretation\" paragraph 2", "quote": "The MS proteomics data have been deposited in the ProteomeXchange Consortium via the PRIDE partner repository (Vizcaino et al., 2013) with the data set identifier PXD002851."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:27200046"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD002851"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD002851"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:27200046", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fpls.2016.00573", "sha256": 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"UniRef100_I1JST7", "Calcium ion binding", "8.91"], ["", "UniRef100_I1K181", "Calcium sensing chloroplastic-like", "3.27", "UniRef100_K7L8B5", "Calcium ion binding", "4.36"], ["", "UniRef100_I1JRM7", "Calcium-binding ef hand family protein", "0.42", "", "", ""], ["", "UniRef100_A0A762", "Calreticulin", "0.28", "", "", ""], ["(2) 14-3-3", "UniRef100_E9KNA6", "14-3-3 Protein", "1.55", "UniRef100_I1K9V8", "14-3-3 Protein", "2.47"], ["", "UniRef100_C6TCD3", "14-3-3 Protein", "1.45", "UniRef100_E9KNA6", "14-3-3 Protein", "2.44"], ["", "UniRef100_C6TGW2", "14-3-3-like Protein", "1.41", "UniRef100_C6TGW2", "14-3-3-like Protein", "2.31"], ["", "UniRef100_C6TBV3", "14-3-3-like Protein d-like", "0.69", "", "", ""], ["(3) Kinases/phosphatases", "UniRef100_I1KIV5", "Serine threonine-protein phosphatase 2a 65 kda regulatory subunit a beta isoform-like", "2.83", "UniRef100_K7LNY2", "Serine threonine-protein kinase sepa-like", "4.97"], ["", "UniRef100_K7MVS5", "Protein kinase", "1.32", "UniRef100_C6TB76", "Serine threonine protein phosphatase pp1", "3.46"], ["", "", "", "", "UniRef100_C6T7X3", "Mitogen-activated protein kinase homolog mmk2-like", "15.79"], ["(4) Probable receptor", "", "", "", "UniRef100_I1LV96", "Probable leucine-rich repeat receptor-like serine threonine-protein kinase at3g14840-like", "3.55"], ["", "", "", "", "UniRef100_K7N5H4", "G-type lectin s-receptor-like serine threonine-protein kinase rlk1-like", "0.07"], ["(5) Small G protein related", "UniRef100_I1KSQ0", "RAB GDP Dissociation inhibitor alpha-like", "5.28", "UniRef100_I1M057", "Guanylate-binding family protein isoform 1", "6.69"], ["", "UniRef100_C6THN1", "RAB GDP Dissociation inhibitor alpha-like", "5.21", "UniRef100_I1L0T1", "GTP-Binding protein sar1a", "4.61"], ["", "UniRef100_C6TJD3", "Guanine nucleotide-binding protein subunit beta-like", "1.69", "UniRef100_K7MNY8", "GTPase obg-like", "4.10"], ["", "UniRef100_I1K5E6", "Guanine nucleotide-binding protein subunit beta-like", "1.64", "UniRef100_I1KX26", "Probable ADP-ribosylation factor GTPase-activating protein agd8-like", "2.68"], ["", "", "", "", "UniRef100_I1K5E6", "Guanine nucleotide-binding protein subunit beta-like", "2.12"], ["", "", "", "", "UniRef100_C6TJD3", "Guanine nucleotide-binding protein subunit beta-like", "2.11"], ["", "", "", "", "UniRef100_K7MYR4", "Ras GTPase-activating protein-binding protein", "1.30"], ["", "", "", "", "UniRef100_C6SY78", "Rab6-interacting golgin-like isoform x2", "1.35"], ["", "", "", "", "UniRef100_C6TB49", "Rab6-interacting golgin-like isoform x2", "1.31"], ["(6) Phospholipase", "UniRef100_I1JI90", "Phospholipase c", "2.31", "UniRef100_I1K784", "Phosphatidylinositol 4-kinase alpha", "0.08"], ["(7) Other", "UniRef100_K7KLE6", "Auxilin-like protein", "4.61", "UniRef100_I1J8S5", "Auxilin-related protein 2-like", "4.09"], ["", "UniRef100_K7K6L6", "Auxilin-related protein 2-like", "2.13", "UniRef100_I1L847", "ATP binding", "3.34"], ["", "", "", "", "UniRef100_K7L5V1", "Signal 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