Table 1.
Identities of proteins in proteomic analysis spots showing statistically significant differences in expression levels in P. chlororaphis O6 rpoS mutanta
| Spot number | Observed migration | Identified proteinb | Fold change | ||||||
|---|---|---|---|---|---|---|---|---|---|
| Mr (kDa) | pI | Protein | Matching sequence | Mr (kDa) | pI | Meanc | SE(±)c | p-valued | |
| 2015R | 8 | 4.86 | No match | NCA-DWPPLMAASG | −69 | 3 | 0.006 | ||
| 3110R | 24 | 5.16 | No match | QNVVYLEEEGVLQRK | −75 | 30 | 0.048 | ||
| 5402R | 54 | 5.56 | Type I secretion outer membrane protein, TolC (P. fluorescens Pf0-1 ABA73205) | R.TIEVYLEVLK. R.VGVVMNYNLFR.G R.AAYQDQFGLGQR.T |
51 | 5.49 | −19.8 | 2.7 | 0.037 |
| 6606R | 72 | 6.35 | Putative Serine protein kinase, PrkA (P. fluorescens Pf-5 YP262712) | R.LLSEWYLR.V R.LSEFGGDISQFR.V R.ANQGLMEFVEMFK.A R.QEEFSLQEYLELCK.K K.MFSNTEDLLPVISFNAK.A R.LLLAIGEPELLDTSTNSR.L |
74 | 5.66 | −25.5 | 7.0 | 0.006 |
| 9114R | 24 | 8.24 | Peroxidase, AhpC (P. fluorescens Pf-5 AAY95129) | TPVCGTTELGYDSR | 24 | 5.87 | −16 | 4.6 | 0.040 |
| 8330R | 41 | 7.15 | S-adenosyl-methyltransferase, MraW (P. fluorescens YP350409) | R.GISAAEFVNTAPVEEIAR.V | 34 | 6.06 | −5.2 | 1.3 | 0.047 |
| 8121R | 18 | 8.06 | Hypothetical protein (Ralstonia pickettii 12D ZP02008061) | YAVSTTPYLNR | > −100 | 0.004 | |||
| 3601R | 69 | 5.01 | Tryptophan monooxygenase (amine oxidase, IaaM (P. syringae pv. syringae AAR06971) | QLVGAGVSGLVA | 62 | 6.51 | −14 | 4.3 | 0.007 |
| 8423R | 48 | 7.59 | Polyamine ABC transporter, PotA (P. fluorescens Pf-5 AAY94832) | R.NTFVANFIGENNR.L R.LGVTVVYVTHDQGEALTMSDR.V |
41 | 6.15 | −25 | 4.5 | 0.003 |
| 4118R | 16 | 5.37 | Glutathione peroxidase, Gpx (P. fluorescens Pf-5 YP258072) | K.ALDGQELPLAPFK.G K.CGLTPQYAALENLYQQYK.A |
18 | 5.35 | −5 | 1.6 | 0.002 |
| 8019R | 12 | 7.93 | No match | NDPVEYLTLTLK DLLVSSLGTG |
> −100 | 0.004 | |||
| 8018R | 8 | 7.29 | No match | LYSAVELFHDWR LAYLDELPH |
> −100 | 0.003 | |||
| 3103R | 25 | 5.07 | Heme oxygenase, HemeO (P. fluorescens Pf-5 AAY93875) | ALGWLFVSEGSK | 22 | 5.16 | 12 | 2.6 | 0.013 |
| 7701R | 88 | 6.69 | TonB-dependent outer membrane heme receptor, CirA (P. syringae pv. tomato T1 EEB60559) | PSTLENYFPFTR TPGYGVLDLT |
94 | 5.98 | 17 | 8.71 | 0.001 |
The Mr and pI values were estimated on 2-dimentional gels of three independent experiments. Ions score is −10*Log(P), where P is the probability that the observed match is a random event. Individual ions scores > 49 indicate identity or extensive homology (p < 0.05). Protein scores are derived from ions scores as a non-probabilistic basis for ranking protein hits. Amino acid sequences without ion scores were determined by Q-TOF analysis.
Annotation from NCBI databases using the MASCOT search program (www.matrixscience.com).
The mean and standard error (SE) of fold change of the selected spot was calculated by comparing spot intensities between wild type and rpoS mutant of three independent gels using quantitative image analysis (PDQest 2-D analysis Software).
Student’s t-test.