Proteomic Analysis of the Effect of Inorganic and Organic Chemicals on Silver Nanoparticles in Wheat
Abstract
:1. Introduction
2. Results
2.1. Growth Response of Wheat to Ag NPs Mixed with Organic and Inorganic Chemicals
2.2. Proteomic Analysis
2.3. Effect of Chemo-Blended Ag NPs on Antioxidant Enzyme Activity Analysis of Wheat
2.4. Effect of Chemo-Blended Ag NPs on Yield and Lifecycle of Wheat
3. Discussion
3.1. Effect of Chemo-Blended Ag NPs on Morphological Attributes of Wheat
3.2. Chemo-Blended Ag NPs Affect Protein Metabolism of Wheat
3.3. Chemo-Blended Ag NPs Affect Glycolysis of Wheat
3.4. Impact of Chemo-Blended Ag NPs on Scavenging Activity of SOD, CAT, and POD
3.5. Effect of Chemo-Blended Ag NPs on Yield and Growth of Next Generation
4. Materials and Methods
4.1. Preparation of Chemo-Blended Nanoparticles
4.2. Plant Material and Treatment
4.3. Protein Extraction
4.4. Protein Enrichment, Reduction, Alkylation and Digestion
4.5. Measurement of Protein and Peptide Concentrations
4.6. Protein Identification Using Nano LC-MS/MS
4.7. MS Data Analysis
4.8. Differential Analysis of Proteins Using MS Data
4.9. Functional Categorization
4.10. Analysis of Superoxide Dismutase, Catalase Activity, and Peroxidase in Response to Chemo-Blended Ag NPs
4.11. Statistical Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
Abbreviations
NPs | Nanoparticles |
LC | Liquid Chromatography |
ROS | Reactive oxygen species |
MS | Mass Spectrometry |
SOD | Superoxide dismutase |
POD | Peroxidase |
CAT | Catalase |
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No | Accession | Description | Difference | Functional Category | Biological Process | Cellular Component | Molecular Function |
---|---|---|---|---|---|---|---|
1 | W5AYF4 | Putative SNAP receptor protein | 3.56 | Transport | Cell organization and biogenesis | membrane | protein binding |
2 | A0A1D5WZM5 | ER membrane protein complex | 3.2 | Protein | Transport | membrane | metal ion binding |
3 | A0A1D6B0Y2 | At4g14100-like | 2.91 | Transport | Not assigned | membrane | catalytic activity |
4 | W5DZQ3 | Ribosomal protein S1 | 2.85 | Protein | Response to stimulus | chloroplast | RNA binding |
5 | Q5G1T9 | Gamma-glutamylcysteinesynthetase | 2.57 | Protein | Metabolic process | Chloroplast, cytosol | catalytic activity |
6 | W5EA17 | D-ribose 5-phosphate | 2.41 | secondary metabolism | Metabolic process | cytosol | catalytic activity |
7 | A0A1D5UQX6 | Unknown | 2.27 | not assigned | Not assigned | not assigned | not assigned |
8 | W5DL10 | Glutamate--tRNA ligase | 1.96 | Protein | Metabolic process | cytoplasm | catalytic activity |
9 | A0A1D5YQ15 | Ferritin | 1.86 | photosynthesis | Cellular homeostasis | cytosol | catalytic activity |
10 | W5APX0 | GrpE protein homolog | 1.81 | Transport | Metabolic process | mitochondrion | enzyme regulator activity |
11 | A0A1D6AQL7 | PPIasecyclophilin-type | 1.77 | Stress | Metabolic process | cytosol | catalytic activity; protein binding |
12 | A0A1D5Y2E6 | Reverse transcriptase | 1.77 | Protein | Metabolic process | Cytoplasm | catalytic activity |
13 | A0A1D5SUT9 | Peptidase A1 | 1.76 | Protein | Metabolic process | Membrane | catalytic activity |
14 | O21432 | Ribosomal protein S2 | 1.65 | Protein | Metabolic process | mitochondrion | structural molecule activity |
15 | A0A1D6AKZ2 | ATP-dependent Clp protease proteolytic subunit | 1.16 | photosynthesis | Metabolic process | chloroplast | catalytic activity |
16 | A0A1D5V5A5 | Bifunctional inhibitor/plant lipid transfer | 1.12 | secondary metabolism | Transport | Membrane | catalytic activity; metal ion binding |
17 | A0A1D5YXC6 | Plant lipid transfer protein | 1.01 | secondary metabolism | Metabolic process | Membrane | catalytic activity |
18 | W5DX10 | Allene oxide synthase-lipoxygenase | 0.89 | Stress | Metabolic process | chloroplast | catalytic activity; metal ion binding |
19 | A0A1D5YZ95 | Synaptotagmin-like mitochondrial lipid-binding proteins | 0.88 | Transport | Metabolic process | Membrane | metal ion binding |
20 | A0A1D6DJK9 | Tyrosine--tRNA ligase | 0.86 | Protein | Metabolic process | Cytoplasm | catalytic activity |
21 | A0A1D6RMY5 | Short-chain dehydrogenase/reductase2 | 0.74 | Stress | Metabolic process | cytosol | catalytic activity |
22 | W5QKZ0 | Chalcone-flavonone isomerase | 0.7 | secondary Metabolism | Metabolic process | not assigned | catalytic activity |
23 | A0A1D5SIK2 | NAD(P)H-quinone oxidoreductase subunit I, | 0.7 | ETC | metabolic process | membrane | catalytic activity; metal ion binding |
24 | A0A1D5S4W8 | glyeraldehyde dehydrogenase | 0.69 | Glycolysis | metabolic process | membrane | catalytic activity |
25 | W5AV30 | Acetyl-CoA synthetase | 0.66 | Glycolysis | not assigned | membrane | protein binding |
26 | Q06I94 | Fasciclin-like protein FLA12 | 0.59 | Cell wall | response to stimulus | membrane | not assigned |
27 | A0A1D5UQL1 | Glucose-6-phosphate 1-epimerase | 0.57 | Glycolysis | metabolic process | chloroplast | catalytic activity |
28 | A0A1D6A8Y7]\ | 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase | 0.53 | Primary metabolism | metabolic process | cytoplasm | catalytic activity |
29 | A0A1D6RZJ3 | N-acetyltransferase | 0.4 | Signaling | metabolic process | not assigned | catalytic activity |
No | Accession | Description | Difference | Functional Category | Biological Process | Cellular Component | Molecular Function |
---|---|---|---|---|---|---|---|
1 | A0A1D6C3J5 | Copper transport protein | −0.65 | Redox | Transport | membrane | metal ion binding |
2 | A0A1D6S991 | Isocitrate dehydrogenase | −0.66 | TCA | Metabolic process | Mitochondrion | catalytic activity |
3 | A0A1D5UMA5 | 3-Oxoacyl- synthase III | −0.71 | lipid metabolism | Metabolic process | Chloroplast | catalytic activity |
4 | W5BFA5 | glyceraldehyde-3-phosphate dehydrogenase | −0.72 | Glycolysis | Metabolic process | Cytosol; Golgi | catalytic activity |
5 | A0A1D5V012 | NADH dehydrogenase ubiquinone Fe-S protein 4 | −0.74 | Redox | Metabolic process | mitochondrion | catalytic activity |
6 | A0A1D5U7K0 | F-box associated interaction domain | −0.89 | Signaling | Regulation of biological process | cytoplasm | protein binding |
7 | A0A1D5VAF5 | glycine-tyrosine-phenylalanine | −0.94 | Stress | Metabolic process | mitochondrion | protein binding |
8 | A0A1D5XH81 | carboxy peptidase | −0.97 | Glycolysis | Metabolic process | chloroplast | catalytic activity |
9 | A0A1D6AAU8 | acetyltransferase-superfamily | −1.11 | Signaling | Metabolic process | not assigned | catalytic activity |
10 | A0A1D6AVB7 | Ubiquitin-associated domain | −1.17 | Protein | Response to stimulus | cytosol | protein binding |
11 | A0A1D6D1I9 | Glutaredoxin | −1.18 | ETC | Cellular homeostasis | mitochondrion | catalytic activity |
12 | A0A1D6AQL9 | Rho termination factor, N-terminal domain superfamily | −1.26 | primary metabolism | Metabolic process | mitochondrion | catalytic activity |
13 | A0A1D5ZVW9 | La-type RNA-binding | −1.63 | RNA | Metabolic process | cytosol | RNA binding |
14 | A0A096ULK3 | Small GTPase superfamily | −1.76 | Signaling | Regulation of biological process | cytosol | catalytic activity |
15 | A0A1D6RV75 | peptidyl-prolyl cis-trans isomerase | −1.92 | Protein | Metabolic process | mitochondrion; | catalytic activity |
16 | W5E0G5 | Proteasome component | −2.34 | Protein | Metabolic process | cytosol | protein binding |
17 | A0A1D6AAV9 | Carbon-nitrogen hydrolase | −2.52 | Signaling | Metabolic process | not assigned | catalytic activity |
18 | A0A1D5TDD8 | Plant invertase/pectin methylesterase inhibitor | −2.9 | cell wall | Regulation of biological process | membrane | enzyme regulator activity |
19 | W5E5N6 | LysM Domain (Peptidoglycan binding) | −2.9 | cell wall | Response to stimulus | membrane | protein binding |
20 | A0A1D6DBZ9 | Polygalacturonase | −3.58 | cell wall | Cell organization and biogenesis | extracellular | catalytic activity |
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Jhanzab, H.M.; Razzaq, A.; Bibi, Y.; Yasmeen, F.; Yamaguchi, H.; Hitachi, K.; Tsuchida, K.; Komatsu, S. Proteomic Analysis of the Effect of Inorganic and Organic Chemicals on Silver Nanoparticles in Wheat. Int. J. Mol. Sci. 2019, 20, 825. https://doi.org/10.3390/ijms20040825
Jhanzab HM, Razzaq A, Bibi Y, Yasmeen F, Yamaguchi H, Hitachi K, Tsuchida K, Komatsu S. Proteomic Analysis of the Effect of Inorganic and Organic Chemicals on Silver Nanoparticles in Wheat. International Journal of Molecular Sciences. 2019; 20(4):825. https://doi.org/10.3390/ijms20040825
Chicago/Turabian StyleJhanzab, Hafiz Muhammad, Abdul Razzaq, Yamin Bibi, Farhat Yasmeen, Hisateru Yamaguchi, Keisuke Hitachi, Kunihiro Tsuchida, and Setsuko Komatsu. 2019. "Proteomic Analysis of the Effect of Inorganic and Organic Chemicals on Silver Nanoparticles in Wheat" International Journal of Molecular Sciences 20, no. 4: 825. https://doi.org/10.3390/ijms20040825