Table II. Early cold-regulated proteins in wild-type and pldα1 mutant seedlings identified by mass spectrometry. The cold-regulated abundance changes were observed in at least four biological repeats. For MS/MS identification, number of unique peptides, sequence coverage of the identified proteins, and the best matched scores from wild type are listed. Refs indicate same protein was identified from previous cold stress proteomic studies in rice. Proteins with abundance changes that are significantly different between wild type and the pldα1 mutant are underlined.
| Spot | Gene locus | Protein name | Unique peptides | Coverage (%) | Score | Fold changes |
p value | Ref. | |
|---|---|---|---|---|---|---|---|---|---|
| WT | pldα1 | ||||||||
| Metabolism | |||||||||
| U3 | Os02g53860 | Putative subtilisin 22 | 8 | 16.50 | 80.25 | 3.23 ± 0.31 | 1.51 ± 0.33 | 1.2E-02 | |
| U4 | Os02g07870 | V-type ATPase alpha subunit | 12 | 20.61 | 130.27 | 1.91 ± 0.29 | 1.87 ± 0.23 | 1.1E-01 | 52, 54 |
| U5 | Os02g07870 | V-type ATPase alpha subunit | 5 | 9.50 | 40.23 | 1.53 ± 0.24 | 1.44 ± 0.11 | 3.2E-01 | 52, 54 |
| U6 | Os02g07870 | V-type ATPase alpha subunit | 8 | 22.22 | 110.28 | 1.63 ± 0.14 | 1.24 ± 0.19 | 4.2E-02 | 52, 54 |
| U8 | Os02g52700 | Alpha-amylase precursor | 4 | 9.81 | 40.21 | 2.73 ± 0.22 | 1.10 ± 0.04 | 4.3E-02 | |
| U10 | Os08g41990 | Aminotransferase | 5 | 17.36 | 50.23 | 1.82 ± 0.43 | 1.11 ± 0.10 | 1.1E-01 | |
| U11 | Os03g28330 | Sucrose synthase | 26 | 33.44 | 270.28 | 1.52 ± 0.08 | 1.35 ± 0.07 | 2.4E-01 | |
| D5 | Os02g46520 | Hydrolase | 3 | 9.93 | 30.19 | –1.79 ± 0.07 | 1.07 ± 0.10 | 3.5E-02 | |
| D7 | Os03g28330 | Sucrose synthase | 16 | 19.61 | 150.22 | –3.38 ± 0.08 | –3.03 ± 0.17 | 9.5E-02 | 52 |
| D8 | Os03g28330 | Sucrose synthase | 20 | 27.08 | 230.26 | –2.19 ± 0.08 | –2.39 ± 0.06 | 4.7E-01 | 52 |
| D9 | Os03g28330 | Sucrose synthase | 24 | 31.25 | 240.23 | –2.12 ± 0.14 | –2.33 ± 0.02 | 3.0E-01 | 52 |
| D10 | Os03g28330 | Sucrose synthase | 28 | 32.48 | 260.22 | –3.11 ± 0.22 | –2.83 ± 0.02 | 3.7E-01 | 52 |
| D11 | Os01g71830 | Glycosyl hydrolases 17 | 5 | 25.16 | 60.28 | –1.59 ± 0.10 | –1.03 ± 0.76 | 5.5E-02 | |
| Protein folding | |||||||||
| U12 | Os03g04970 | HSP60 BETA | 30 | 46.27 | 290.31 | 1.59 ± 0.25 | 1.40 ± 0.31 | 3.7E-01 | 51, 52 |
| U13 | Os04g32560 | ATP-dependent Clp protease | 16 | 19.50 | 170.25 | 3.74 ± 1.62 | 1.23 ± 0.15 | 5.6E-02 | 52 |
| D1 | Os03g60620 | DnaK family protein | 21 | 31.90 | 220.27 | –2.00 ± 0.11 | –1.86 ± 0.04 | 1.8E-01 | |
| D2 | Os03g64210 | HSP60 ALPHA | 14 | 26.54 | 130.28 | –1.62 ± 0.11 | –1.60 ± 0.07 | 4.8E-01 | 52 |
| D4 | Os05g01310 | Ankyrin repeat family protein | 10 | 32.39 | 90.26 | –2.27 ± 0.03 | –1.45 ± 0.02 | 5.1E-03 | |
| Cytoskeleton | |||||||||
| U7 | Os03g24220 | Villin protein | 22 | 33.96 | 180.29 | 1.63 ± 0.21 | 1.06 ± 0.14 | 1.7E-02 | |
| U9 | Os03g61970 | Actin-3 | 3 | 9.81 | 30.21 | 1.69 ± 0.28 | 1.14 ± 0.32 | 5.5E-02 | |
| D6 | Os05g01600 | Actin-7 | 7 | 19.10 | 70.23 | –1.57 ± 0.18 | 1.16 ± 0.11 | 8.7E-03 | |
| Other | |||||||||
| U1 | Os07g46370 | WD domain family protein | 21 | 18.19 | 100.21 | 2.16 ± 0.09 | 1.33 ± 0.12 | 3.1E-02 | |
| U2 | Os07g46370 | WD domain family protein | 17 | 19.50 | 170.27 | 2.46 ± 0.06 | 1.25 ± 0.15 | 4.4E-04 | |
| U14 | Os04g01540 | Uncharacterized protein | 5 | 21.51 | 50.22 | 1.53 ± 0.69 | 1.23 ± 0.12 | 6.6E-02 | |
| D3 | Os04g35570 | Regulator of chromosome condensation family protein | 16 | 44.37 | 160.25 | –1.95 ± 0.12 | –1.76 ± 0.04 | 2.2E-01 | |