Table I. Summary of proteomic and phosphproteomic analyses. NF = Nodulation Factor.
Experiment | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | Overall |
---|---|---|---|---|---|---|---|---|---|---|---|---|
Treatment | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | ±NF | |
Growth | Aeroponic | Hydroponic | Hydroponic | Hydroponic | Plate | Plate | Plate | Plate | Plate | Plate | Plate | – |
Cellular Fraction | Whole Cell | Whole Cell | Whole Cell | Whole Cell | Upper Membrane | Lower Membrane | Microsome | Whole Cell | Whole Cell | Upper Membrane | Lower Membrane | – |
Genotype | WT, dmi3 | WT, dmi3 | WT, nfp | WT, nfp | nfp | nfp | WT, nfp, dmi3 | WT | WT | WT | WT | – |
Biological Replicates | 1 | 1 | 1 | 1 | 3 | 3 | 1 | 3 | 3 | 3 | 3 | – |
Time Points | N/A | N/A | N/A | N/A | N/A | N/A | N/A | N/A | 10/30 min | N/A | N/A | – |
Unique Peptidesa | 34195 | 37436 | 28976 | 27723 | 11129 | 9152 | 13073 | 12218 | 8581 | 7430 | 10309 | 63290 |
Unique Phosphopeptidesb | 5975 | 9694 | 8231 | 5471 | 2976 | 4069 | 2055 | 4129 | 2782 | 1032 | 1898 | 15335 |
Proteins | 6315 | 6983 | 6290 | 6521 | 3996 | 4071 | 3956 | 4256 | 3603 | 2865 | 3604 | 7739 |
Phosphoproteins | 2392 | 3076 | 2800 | 2382 | 1351 | 1706 | 1000 | 1807 | 1320 | 565 | 977 | 3926 |
Localized Phosphosites | 5588 | 7988 | 6982 | 4936 | 2656 | 3643 | 1242 | 2627 | 1879 | 829 | 1582 | 13506 |
a Unique based on amino acid sequence, does not include phosphopeptides.
b Unique based on amino acid sequence and number of phosphosites.