Identification of New Proteins and Potential Mitochondrial F1F0-ATPase Inhibitor Factor 1-Associated Mechanisms in Arabidopsis thaliana Using iTRAQ-Based Quantitative Proteomic Analysis
Abstract
:1. Introduction
2. Materials and Methods
2.1. Plant Materials and Growth Conditions
2.2. Extraction, Quantification, and Digestion of Cellular Proteins
2.3. iTRAQ Labeling and Strong Cation Exchange Fractionation
2.4. Liquid Chromatography–Tandem Mass Spectrometry Analysis
2.5. Data and Bioinformatics Analysis
2.6. RNA Extraction and Real-Time Quantitative PCR
3. Results
3.1. Analysis of A. thaliana Protein Profiles Using iTRAQ
3.2. Identification of Proteins Differentially Expressed between A. thaliana Wild-Type and the if1 Mutant Lines
3.3. Functional Annotation of Identified Proteins with Differential Accumulation in A. thaliana Wild-Type and if1 Mutant Plants
3.4. KEGG Pathway Analysis of the DEPs
3.5. Analysis of the Transcriptional Expression of the DEPs
4. Discussion
4.1. Proteomic Changes between A. thaliana Wild-Type and if1 Mutant Seedlings
4.2. Identification of AtIF1-Regulated Proteins That Involved in Energy Metabolism
4.3. Identification of AtIF1-Regulated Proteins Involved in Reproductive Development
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
Abbreviations
References
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Accession | Protein Description | Gene Name | Fold Change (if1/WT) |
---|---|---|---|
Up-regulated DEPs | |||
A0A178W6T5_ARATH | HIP1.3 | At1g09240 | 1.21 |
A0A0U5CLC7_9BRAS | Photosystem II D2 protein | psbD | 1.29 |
A0A178V4M1_ARATH | RBP31 | At4g28660 | 1.29 |
JAL28_ARATH | Nitrile-specifier protein 1 | NSP1 | 1.21 |
BGL37_ARATH | Myrosinase 2 | TGG2 | 1.34 |
A0A178W5I1_ARATH | L-ascorbate peroxidase | At1g07590 | 1.24 |
D7KHW7_ARALL | L-ascorbate peroxidase | ARALYDRAFT_470824 | 1.24 |
A0A178V395_ARATH | PAP_fibrillin domain-containing protein | At4g25850 | 1.22 |
D7L023_ARALL | Alanine--glyoxylate aminotransferase | ARALYDRAFT_480305 | 1.23 |
D7M155_ARALL | Plastid lipid-associated protein 1, chloroplast | ARALYDRAFT_911682 | 1.22 |
LOX2_ARATH | Lipoxygenase 2, chloroplastic | LOX2 | 1.25 |
JAL30_ARATH | PYK10-binding protein 1 | PBP1 | 1.2 |
A0A178VSK5_ARATH | Uncharacterized protein | At2g41150 | 1.25 |
A0A178VBA5_ARATH | Glutaredoxin-dependent peroxiredoxin | At3g05750 | 1.21 |
RL61_ARATH | 60S ribosomal protein L6-1 | RPL6A | 1.26 |
A0A178V6D3_ARATH | Phenylalanyl-tRNA synthetase | At3g52700 | 1.21 |
A0A178WET2_ARATH | - | - | 1.22 |
A0A178VVV5_ARATH | THF1 | At2g16340 | 1.21 |
D7MSA7_ARALL | Uncharacterized protein | ARALYDRAFT_918349 | 1.47 |
A0A178V4T2_ARATH | HMA domain-containing protein | At4g33520 | 2.02 |
A0A178UEX5_ARATH | CDF1 | At5g22550 | 1.25 |
D7M1M2_ARALL | Uncharacterized protein | GN=ARALYDRAFT_489157 | 1.25 |
Q1H5F7_ARATH | Histone H2B | - | 1.24 |
A0A178WJ12_ARATH | TLL1 | At1g40860 | 1.26 |
A0A178UTL8_ARATH | XYL4 | At5g64200 | 1.21 |
A0A178VST0_ARATH | JAL22 | At2g36220 | 1.26 |
A0A178UDT2_ARATH | SAG15 | At5g49860 | 1.28 |
BGL18_ARATH | Beta-D-glucopyranosyl abscisate beta-glucosidase | BGLU18 | 1.24 |
FAX2_ARATH | Protein FATTY ACID EXPORT 2, chloroplastic | FAX2 | 1.21 |
A0A178WJL7_ARATH | Phenylalanyl-tRNA synthetase beta subunit | At1g66730 | 1.2 |
A0A178VZH7_ARATH | Histone H2B | At2g24830 | 1.27 |
A0A178U9K8_ARATH | OPT4 | At5g64020 | 1.26 |
A0A178UG56_ARATH | Uncharacterized protein | At5g46060 | 1.31 |
A0A178W4H7_ARATH | Uncharacterized protein | At1g74710 | 1.22 |
A0A178UH43_ARATH | - | - | 1.21 |
A0A178WIZ0_ARATH | Lipase_GDSL domain-containing protein | At1g48430 | 1.21 |
A0A178WEL1_ARATH | ATP-dependent Clp protease proteolytic subunit | At1g12090 | 1.25 |
A0A178WD65_ARATH | ATARP4 | At1g19350 | 1.23 |
D7KGE2_ARALL | Uncharacterized protein | ARALYDRAFT_472063 | 1.23 |
A0A178V8P6_ARATH | Methionine aminopeptidase 2 | At3g54390 | 1.2 |
D7KBN6_ARALL | Uncharacterized protein | ARALYDRAFT_472926 | 1.21 |
A0A178W3R8_ARATH | Uncharacterized protein | At1g27300 | 1.21 |
A0A178W7M1_ARATH | Uncharacterized protein | At1g29860 | 1.24 |
A0A178UX37_ARATH | SGT1B | At4g12690 | 1.25 |
D7LBM5_ARALL | tRNA pseudouridine synthase family protein | ARALYDRAFT_481943 | 1.83 |
A0A178VSZ1_ARATH | JAL23 | At2g36240 | 1.27 |
A0A178UZA3_ARATH | SSR16 | At4g39620 | 1.23 |
A0A178UP34_ARATH | Epimerase domain-containing protein | At5g58490 | 1.25 |
A0A178W827_ARATH | KTI1 | At1g67490 | 1.39 |
A0A178WIQ3_ARATH | RZ-1b | At1g53730 | 1.23 |
Q6NPL0_ARATH | At4g09040 | At4g09040 | 1.22 |
A0A178VFH3_ARATH | Uncharacterized protein | At3g12290 | 1.24 |
A0A178V9V7_ARATH | FTM4 | At3g12170 | 1.35 |
A0A178WN71_ARATH | Plastocyanin | At1g70550 | 1.25 |
D7MQE2_ARALL | Cinnamoyl-CoA reductase family | ARALYDRAFT_495968 | 1.29 |
A0A178WC08_ARATH | SRZ21 | AXX17_At1g25030 | 1.33 |
Y4554_ARATH | Uncharacterized protein At4g15545 | At4g15545 | 1.24 |
D7KZQ1_ARALL | Leucine-rich repeat protein FLR1 | ARALYDRAFT_897426 | 1.26 |
A0A178V6Y8_ARATH | BSD domain-containing protein | AXX17_At3g43960 | 1.22 |
Down-regulated DEPs | |||
A0A178WA55_ARATH | Uncharacterized protein | At1g50990 | 0.8 |
A0A068CL28_ARALY | At4g21450p-like protein | - | 0.8 |
A0A178V1L3_ARATH | PDE332 | At4g10860 | 0.82 |
A0A178V0A8_ARATH | Nodulin-like domain-containing protein | At4g39930 | 0.68 |
A0A178UJR2_ARATH | DegP10 | At5g33920 | 0.79 |
A0A178VP21_ARATH | ANK_REP_REGION domain-containing protein | At3g03550 | 0.25 |
D7MFW8_ARALL | Xyloglucan endotransglucosylase/hydrolase | ARALYDRAFT_354208 | 0.73 |
A0A178WAG2_ARATH | Uncharacterized protein | AXX17_At1g08440 | 0.77 |
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Chen, C.; Meng, Y.; Hu, Z.; Yang, J.; Zhang, M. Identification of New Proteins and Potential Mitochondrial F1F0-ATPase Inhibitor Factor 1-Associated Mechanisms in Arabidopsis thaliana Using iTRAQ-Based Quantitative Proteomic Analysis. Plants 2021, 10, 2385. https://doi.org/10.3390/plants10112385
Chen C, Meng Y, Hu Z, Yang J, Zhang M. Identification of New Proteins and Potential Mitochondrial F1F0-ATPase Inhibitor Factor 1-Associated Mechanisms in Arabidopsis thaliana Using iTRAQ-Based Quantitative Proteomic Analysis. Plants. 2021; 10(11):2385. https://doi.org/10.3390/plants10112385
Chicago/Turabian StyleChen, Cuiting, Yiqing Meng, Zhongyuan Hu, Jinghua Yang, and Mingfang Zhang. 2021. "Identification of New Proteins and Potential Mitochondrial F1F0-ATPase Inhibitor Factor 1-Associated Mechanisms in Arabidopsis thaliana Using iTRAQ-Based Quantitative Proteomic Analysis" Plants 10, no. 11: 2385. https://doi.org/10.3390/plants10112385