Table 3 Vesicular trafficking-related proteins identified by dMS and SC.
| Â | Â | Â | Â | Stage II (55 mm) vs. early stage II (35 mm) | Stage III (80 mm) vs. Stage II (55 mm) | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | dMS | SC | dMS | SC | ||||||
Gene Family | Annotation | iCitrus ID | Blast Hit TAIR ID | Peptides | Ratio | Bayes Factor | Fold Change | Direction* | Peptides | Ratio | Bayes Factor | Fold Change | Direction* |
Rab | RABA1a/ARA2 | 5282 | AT1G06400 | 3 | 0.03 | -- | -- | -- | 2 | 2.85 | -- | -- | -- |
| Â | RABA1d/Rab11B | 50939 | AT4G18800 | 7 | 0.025 | 1.34 | 1.52 | 0 | -- | -- | 0.95 | 1.53 | 0 |
| Â | RABA1f | 23943 | AT5G60860 | 5 | 0.11 | 465 | 31.9 | -1 | -- | -- | 0.8 | 1.2 | 0 |
| Â | RABA2a/Rab11C | 33548 | AT1G09630 | 6 | 0.72 | 63362 | 23 | -1 | 2 | 7.43 | 31.8 | 4.5 | 1 |
| Â | RABA2b | 27900 | AT1G07410 | 3 | 0.026 | 3302 | 28 | -1 | -- | -- | -- | -- | -- |
| Â | RABB1b/Rab2C | 28361 | AT4G35860 | -- | -- | -- | -- | -- | 3 | 33.41 | -- | -- | -- |
| Â | RABB1c | 57271 | AT4G17170 | 5 | 0.11 | 72 | 3.2 | -1 | 4 | 28.6 | 1555 | 5.02 | 1 |
| Â | RABD1/FP8 | 44137 | AT3G11730 | 3 | 0.33 | 395 | 17.8 | -1 | -- | Â | 0.9 | 1.45 | 0 |
| Â | RABD2a/Rab1b | 22194 | AT1G02130 | 3 | 0.07 | 1472 | 24 | -1 | 2 | 31.24 | 62.5 | 5.00 | 1 |
| Â | RABD2b/Rab1A | 21238 | AT5G47200 | 2 | 0.04 | -- | -- | -- | -- | -- | -- | -- | -- |
| Â | RABE1a/Rab8 | 55887 | AT3G53610 | 3 | 0.03 | 54.9 | 3.6 | -1 | -- | -- | 1.04 | 1.5 | 0 |
| Â | RABE1e/Rab8E | 58806 | AT3G09900 | 2 | 0.04 | -- | -- | -- | -- | -- | -- | -- | -- |
| Â | RABE1c/Rab8/ARA-3 | 21701 | AT3G46060 | 4 | 1.06 | 8.8 | 1.8 | 0 | 2 | 3.48 | 0.82 | 1.2 | 0 |
| Â | RABG3d | 44916 | AT1G52280 | 2 | 0.01 | -- | -- | -- | -- | -- | -- | -- | -- |
| Â | RABG3f/Rab7B | 30351 | AT3G18820 | 3 | 0.006 | 0.8 | 1.3 | 0 | 2 | 6.94 | 2.16 | 1.79 | 0 |
| Â | RABH1b/Rab6A | 53105 | AT2G44610 | 5 | 0.07 | 478 | 18.3 | -1 | -- | -- | 0.75 | 1.2 | 0 |
| Â | RABH1e | 30604 | AT5G10260 | 2 | 0.05 | -- | -- | -- | -- | -- | -- | -- | -- |
Arf | ARLA1c | 26509 | AT3G49870 | 3 | 0.79 | 0.58 | 1.13 | 0 | 2 | 4.49 | 1.07 | 1.67 | 0 |
| Â | ARFA1e | 422 | AT3G62290 | 3 | 0.13 | -- | -- | -- | 3 | 26.62 | -- | -- | -- |
| Â | ARFA1f | 22081 | AT1G10630 | 5 | 0.15 | -- | -- | -- | 6 | 19.71 | -- | -- | -- |
| Â | SAR1c | 34375 | AT4G02080 | -- | -- | -- | -- | -- | 3 | 4.91 | -- | -- | -- |
Ran | STL2P/SEC12P-Like | 54385 | AT2G01470 | -- | -- | 2319 | 5.37 | 1 | -- | -- | 0.67 | 1.04 | 0 |
| Â | RANBP1 | 42600 | AT5G58590 | 5 | 0.5 | 3.4 | 2.8 | 0 | 7 | 129.80 | 0.6 | 1.98 | 0 |
| Â | RANBP1b | 2905 | AT2G30060 | -- | -- | 1.3 | 4.2 | 0 | 5 | 130.08 | 280 | 22.3 | 1 |
| Â | RAN3 | 57970 | AT5G55190 | 2 | 0.87 | 0.64 | 1.82 | 0 | 7 | 20.25 | 3.7 | 1.67 | 0 |
Rho | GP3/ROP4 | 29311 | AT1G75840 | 2 | 0.28 | -- | -- | 0 | -- | -- | -- | -- | -- |
GDI | GDI1 | 34016 | AT2G44100 | -- | -- | 1.58 | 2.18 | 0 | 3 | 5.00 | 0.73 | 1.13 | 0 |
| Â | GDI2-like | 876 | AT5G09550 | -- | -- | -- | -- | -- | 2 | 3.11 | -- | -- | -- |
VAMP/R-SNAREs | SEC22 | 58654 | AT1G11890 | 2 | 0.20 | 26.9 | 13.6 | -1 | -- | -- | 1.06 | 1.46 | 0 |
| Â | VAP27-1 | 54676 | AT3G60600 | 2 | 0.77 | -- | -- | -- | -- | -- | -- | -- | -- |
| Â | VAMP713 | 23669 | AT5G11150 | 2 | 1.41 | -- | -- | -- | -- | -- | -- | -- | -- |
Qa-SNAREs | SYP132 (syntaxin 132) | 12539 | AT5G08080 | -- | -- | 3 | 6.2 | 0 | 2 | 3.21 | 1.25 | 1.65 | 0 |
| Â | VAM3 (syntaxin 22) | 37248 | AT5G46860 | -- | -- | 1.35 | 1.86 | 0 | -- | -- | 4.5 | 2.3 | 0 |
Qb-SNAREs | VTI11 | 24253 | AT5G39510 | 2 | 0.05 | 0.65 | 1.37 | 0 | -- | -- | 0.5 | 1.2 | 0 |
Qc-SNAREs | SYP71 (SYNTAXIN) | 27696 | AT3G09740 | -- | -- | 2.17 | 4.34 | 0 | -- | -- | -- | -- | -- |
| Â | ALPHA-SNAP2 | 2375 | AT3G56190 | -- | -- | 1.00 | 1.00 | 0 | -- | -- | 6.41 | 7.6 | 0 |
ESCRT III | SNF7.1 | 35782 | AT4G29160 | 4 | 1.31 | 4.88 | 2.99 | 0 | 7 | 597.36 | 106 | 5.5 | 1 |
Dynamin | ADL6 (dynamin-like protein 6) | 36589 | AT1G10290 | -- | -- | -- | -- | -- | 2 | 6.63 | -- | -- | -- |
others | SEC61 | 35474 | AT1G29310 | 3 | 0.10 | 171.70 | 17.65 | -1 | -- | -- | 1.00 | 1.4 | 0 |
| Â | SEC14 | 30056 | AT1G72160 | 5 | 3.42 | 37.17 | 13.65 | 1 | 16 | 12.92 | 4.8 | 1.5 | 0 |
| Â | PATL2 | 35474 | AT1G22530 | 3 | 0.104 | 170.5 | 17.65 | -1 | 3 | 6.83 | 1.04 | 1.43 | 0 |
| Â | SCAMP | 34675 | AT1G32050 | 3 | 1.70 | 1.50 | 1.55 | 0 | 2 | 4.11 | 0.74 | 1.18 | 0 |
| Â | SC3 (secretory carrier 3) | 30772 | AT1G61250 | 2 | 0.98 | 2.9 | 6.12 | 0 | -- | -- | 1.00 | 1.02 | 0 |
| Â | SYT1 | 45523 | AT2G20990 | 4 | 8.7 | 0.3 | 1.5 | 0 | 4 | 2.64 | 1.2 | 1.6 | 0 |
|  | COP-I coatomer, B-COPα | 29871 | AT2G21390 | 2 | 0.4 | 0.6 | 1.22 | 0 | 3 | 11.47 | 1.31 | 1.73 | 0 |
| Â | RTNLB3 reticulon | 42672 | AT1G64090 | 2 | 0.53 | 2.1 | 3.7 | 0 | 2 | 2.31 | 0.72 | 1.48 | 0 |
| Â | RTNLB5 reticulon | 13580 | AT2G46170 | -- | -- | 0.97 | 1.02 | 0 | -- | -- | 4.35 | 2.97 | 0 |
| Â | RTNLB6 reticulon | 22293 | AT3G10260 | -- | -- | 1.24 | 1.4 | 0 | 2 | 36.56 | 187.81 | 5.76 | 1 |
| Â | clathrin heavy chain | 57153 | AT3G08530 | -- | -- | 83.92 | 13.36 | -1 | -- | -- | 0.76 | 1.17 | 0 |
| Â | clathrin heavy chain | 60690 | AT3G08530 | 2 | 0.05 | 63.7 | 13.65 | -1 | -- | -- | 46.45 | 10.98 | -1 |
| Â | Clathrin light chain | 51128 | AT2G20760 | 2 | 119 | 2300591 | 11.55 | 1 | 2 | 1.8 | 0.8 | 1.2 | 0 |
| Â | Clathrin light chain | 21278 | AT3G51890 | 2 | 118 | 1511 | 6.2 | 1 | -- | -- | 1.63 | 1.57 | 0 |
| Â | myosin heavy chain | 38388 | AT4G31340 | -- | -- | 0.6 | 1.00 | 0 | -- | -- | 0.75 | 1.3 | 0 |
| Â | myosin heavy chain | 37311 | AT1G06530 | 3 | 0.02 | 156 | 16 | -1 | -- | -- | 1.1 | 1.4 | 0 |