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Table 1 Differentially expressed protein spots between X. citri and hrpB strains statically cultured in XVM2 with a change abundance of minimum 1.5 fold and p value of < 0.05 (ANOVA)

From: The type III protein secretion system contributes to Xanthomonas citri subsp. citri biofilm formation

X. citri gene no. Protein name MOWSE score Accession no. Predicted MW/pI Observed MW/pI Peptide match/coverage Fold change compared to WT
01 Metabolism
01.01 Amino acid metabolism
XAC0125 Aspartate/tyrosine/aromatic aminotransferase 350 Q8PR41_XANAC 43.3/5.72 49.0/4.8 19/38% 1.9
XAC4034 Shikimate 5-dehydrogenase 297 AROE_XANAC 29.9/4.93 30.0/5.9 19/17% 2.4
XAC2717 Tryptophan synthase subunit b 31 TRPB_XANAC 43.3/5.88 53.0/4.6 2/4% 7.5
XAC3709 Tryptophan repressor binding protein 48 Q8PGA8_XANAC 20.0/6.40 10.0/4.4 3/17% −1.6
01.02 Nitrogen, sulfur and selenium metabolism
XAC0554 NAD(PH) nitroreductase 208 Y554_XANAC 21.0/5.83 18.0/4.7 14/38% 4.6
01.03 Nucleotide/nucleoside/nucleobase metabolism
XAC1716 CTP-synthase 125 PYRG_XANAC 61.7/5.91 67.0/4.5 14/21% 3.5
01.05 C-compounds and carbohydrate metabolism
XAC2077 Succinate dehydrogenase flavoprotein subunit 192 Q8PKT5_XANAC 65.8/5.89 66.0/4.6 20/25% 2.2
XAC1006 Malate dehydrogenase 1054 MDH_XANAC 34.9/5.37 45.0/5.4 55/50% −1.8
XAC3579 Phosphohexose mutases (XanA) 98 Q8PGN7_XANAC 49.1/5.29 54.0/5.6 7/10% 1.7
XAC3585 DTP-glucose 4,6-dehydratase 235 Q8PGN1_XANAC 38.6/5.86 48.0/4.7 12/17% 2.1
XAC0612 Cellulase 245 Q8PPS3_XANAC 51.6/5.76 57.0/4.9 23/32% 2.6
XAC3225 Transglycosylase 178 Q8PHM6_XANAC 46.2/5.89 53.0/4.8 14/22% −1.6
01.06 Lipid, fatty acid and isoprenoid metabolism
XAC3300 Putative esterase precursor (EstA) 96 Q8PHF7_XANAC 35.9/6.03 62.0/6.2 3/4% −3.1
XAC1484 Short chain dehydrogenase precursor 104 Q8PME5_XANAC 26.0/5.97 30.0/4.4 5/9% 2.2
01.06.02 Membrane lipid metabolism
XAC0019 Outer membrane protein (FadL) 167 Q8PRE4_XANAC 47.3/5.18 46.0/6.1 8/10% −10.0
XAC0019 Outer membrane protein (FadL) 79 Q8PRE4_XANAC 47.3/5.18 35.0/6.0 7/13% −6.2
01.20 Secondary metabolism
XAC4109 Coproporphyrinogen III oxidase 46 HEM6_XANAC 34.6/5.81 37.0/4.9 8/19% 1.5
02 Energy
02.01 Glycolysis and gluconeogenesis
XAC1719 Enolase 90 ENO_XANAC 46.0/4.93 55.0/5.9 7/13% 1.7
XAC3352 Glyceraldehyde-3-phosphate dehydrogenase 267 Q8PHA7_XANAC 36.2/6.03 46.0/4.4 24/28% 2.6
XAC2292 UTP-glucose-1-phosphate uridylyltransferase (GalU) 92 Q8PK83_XANAC 32.3/5.45 38.0/5.3 13/30% 4.2
02.07 Pentose phosphate pathway
XAC3372 Transketolase 1 85 Q8PH87_XANAC 72.7/5.64 69.0/4.9 5/7% 5.0
02.11 Electron transport and membrane-associated energy conservation
XAC3587 Electron transfer flavoprotein a subunit 50 Q8PGM9_XANAC 31.8/4.90 34.0/5.5 6/14% 2.3
10 Cell cycle and DNA processing
10.03 Cell cycle   
XAC1224 Cell division topological specificity factor (MinE) 33 MINE_XANAC 9.6/5.37 12.0/4.9 1/14% 2.7
10.03.03 Cytokinesis/septum formation and hydrolysis
XAC1225 Septum site-determining protein (MinD) 143 Q8PN48_XANAC 28.9/5.32 34.0/5.6 19/26% 2.3
11 Transcription
XAC0996 DNA-directed RNA polymerase subunit a 104 RPOA_XANAC 36.3/5.58 33.0/5.0 5/7% −4.3
XAC0966 DNA-directed RNA polymerase subunit b 150 RPOC_XANAC 155.7/7.82 35.0/4.6 16/8% −3.3
14 Protein fate (folding, modification and destination)
14.01 Protein folding and stabilization
XAC0542 60 kDa chaperonin (GroEL) 199 CH60_XANAC 57.1/5.05 41.0/5.5 15/27% −11.2
16 Protein with binding function or cofactor requirement
XAC2726 Adenine-specific methylase (Dam methylase) 84 Q8PJ19_XANAC 33.9/4.70 41.0/6.2 10/12% −1.9
XAC1362 GTN reductase 44 Q8PMR4_XANAC 39.4/5.37 50.0/5.3 7/10% 2.3
XAC3664 OmpW family outer membrane protein precursor 226 Q8PN48_XANAC 23.8/4.97 28.0/6.2 12/13% 2.3
30 Cellular communication/Signal transduction mechanism
XAC0291 Oar protein ( TonB-dependent transporter) 50 Q8PQN2_XANAC 107.9/5.29 108.0/5.7 2/1% 4.3
XAC2672 Oar protein ( TonB-dependent transporter) 280 Q8PJ70_XANAC 117.4/5.10 90.0/5.9 19/18% 2.4
XAC4273 TonB-dependent transporter 100 Q8PJL0_XANAC 109.2/5.14 90.0/5.6 3/3% 2.8
XAC1143 TonB-dependent transporter 576 Q8PND0_XANAC 87.7/5.21 70.0/6.1 30/33% 1.7
XAC3050 TonB-dependent transporter 596 Q8PI48_XANAC 105.8/4.76 64.0/6.2 30/16% −3.0
XAC3444 TonB-dependent transporter 1280 Q8PH16_XANAC 103.2/4.79 90.0/6.3 84/37% 3.9
XAC3168* TonB-dependent transporter 98 Q8PHT1_XANAC 87.3/5.20 59.0/6.0 3/3% −3.1
XAC3166* TonB-dependent transporter 410 Q8PHT3_XANAC 84.5/4.95 69.0/6.1 22/18% −2.9
XAC3489 TonB-dependent transporter 685 Q8PGX3_XANAC 88.9/4.93 69.0/5.9 40/24% −1.7
XAC1413 Outer membrane protein assembly factor BamA 135 Q8PML3_XANAC 87.6/5.53 88.0/5.4 13/15% 2.8
32 Cell rescue, defense and virulence
XAC2504* Regulator of pathogenicity factors (RpfN) 271 Q8PJM6_XANAC 41.3/5.98 49.0/4.4 21/16% −4.8
XAC0907 Alkyl hydroperoxide reductase subunit C 240 O06464_XANAC 20.6/6.15 20.0/4.2 28/61% 1.3
32.07 Cellular detoxification
XAC1474 Glutathione transferase 39 Q8PMF5_XANAC 23.9/6.06 22.0/4.7 4/8% 1.7
34 Interaction with the environment       
34.01 Homeostasis       
XAC1149 Bacterioferritin 100 Q8PNC4_XANAC 21.2/4.71 20.0/6.3 6/20% 2.1
XAC0493 Bacterioferritin 152 Q8PQ38_XANAC 18.3/4.80 12.0/6.5 19/43% 2.5
XAC1533 Dihydrolipoamide dehydrogenase 336 Q8PM99_XANAC 50.5/5.80 59.0/4.6 34/47% 4.0
42 Biogenesis of cellular components       
XAC1230 Putative membrane protein 71 Q8PN43_XANAC 43.1/6.88 24.0/4.4 4/11% −3.5
99 Unclassified proteins       
XAC1262 Protein of unknown function (Aminopeptidase) 121 Q8PN12_XANAC 63.4/5.85 68.0/4.6 13/15% 5.3
XAC1344 Protein of unknown function (CcmA) 67 Q8PMT2_XANAC 18.7/5.45 23.0/5.7 4/18% −1.7
  1. *Protein spots 240 and 398 were previously named “ferric enterobactin receptor” are now classified as TonB-dependent transporter, while protein spot 31 previously identified as “carbohydrate selective porin” and is now classified as Regulator of pathogenicity factors.